VMD-L Mailing List

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Starting: Thu Dec 19 1996 - 11:40:41 CST
Ending: Thu Apr 17 2025 - 01:02:05 CDT

$B:,>k(J $B6Q(J
- vizualization of modes (Tue Sep 30 2003 - 03:31:55 CDT)
- Re: ftp failed (Thu Aug 29 2002 - 03:21:12 CDT)
- Re: ftp failed (Tue Aug 27 2002 - 02:35:49 CDT)
Chavent Mathieu
- graphics: not enough parameters (Fri Jun 14 2013 - 12:56:24 CDT)
- Re: hide/display VMD graphics primitives (Sun May 12 2013 - 08:50:49 CDT)
- hide/display VMD graphics primitives (Fri May 10 2013 - 12:09:52 CDT)
Y. U. Sasidhar
- displaying hydrogen bonds when hydrogens are not available (Thu Jun 19 2008 - 07:34:23 CDT)
#ANG YUN MEI ELISA#
- HBonds Plugin - Hbonds criteria (Tue Jan 24 2017 - 18:24:49 CST)
#WONG CHEE HOW#
- Fullerene coordinates (Fri Aug 27 2004 - 03:50:03 CDT)
- Colouring (Wed Jun 18 2003 - 01:02:39 CDT)
- RE: animation question (Fri Mar 28 2003 - 00:10:24 CST)
- Maximum number of atoms/bonds (Tue Jan 14 2003 - 19:04:54 CST)
- Loading XYZ trajectory file (Mon Dec 09 2002 - 19:17:00 CST)
- Problems with color (Mon Nov 11 2002 - 09:52:17 CST)
- Beta color of atoms (Thu Nov 07 2002 - 19:57:26 CST)
- RE: VMD 1.8 alpha 29 available for testing! (Fri Nov 01 2002 - 22:48:10 CST)
- RE: VMD 1.8 alpha 29 available for testing! (Fri Nov 01 2002 - 22:47:01 CST)
- Coloring of atoms/molecules (Thu Oct 31 2002 - 23:24:13 CST)
- How to show the strain energies of each atom (Thu Sep 19 2002 - 02:36:27 CDT)
#YEO JINGJIE#
- Re: Errors in FFTK during bond opt using VMD 1.9.4a37 (Wed Sep 18 2019 - 20:23:54 CDT)
- Re: Errors in FFTK during bond opt using VMD 1.9.4a37 (Mon Sep 09 2019 - 20:08:27 CDT)
- Errors in FFTK during bond opt using VMD 1.9.4a37 (Mon Sep 09 2019 - 02:17:54 CDT)
- Re: FFTK for diazonium-modified tyrosine (Thu Jan 12 2017 - 09:47:40 CST)
- Re: FFTK for diazonium-modified tyrosine (Sun Jan 08 2017 - 11:24:40 CST)
- Re: FFTK for diazonium-modified tyrosine (Fri Jan 06 2017 - 15:47:00 CST)
- FFTK for diazonium-modified tyrosine (Fri Jan 06 2017 - 12:52:40 CST)
- Error when using orient command (Wed Aug 31 2016 - 16:46:17 CDT)
- Unable to patch RNA to obtain DNA (Wed Mar 23 2016 - 14:48:35 CDT)
.
- VMD 1.2b2 Linux & MSMS ... (Sun May 17 1998 - 08:55:16 CDT)
. Juita
- RE: self-diffusion coefficient from RMSD (Fri Jan 31 2014 - 00:55:55 CST)
- self-diffusion coefficient from RMSD (Thu Jan 30 2014 - 03:21:45 CST)
- RDF calculation (Mon Jan 13 2014 - 18:27:09 CST)
04215287d_at_polyu.edu.hk
- .pdb file from XMD (Thu Nov 02 2006 - 08:39:44 CST)
1(484)993-7152 Marty
- ! Obtain degrees from Prestigious non-accredite dUniversities (Sat Jun 23 2007 - 01:45:28 CDT)
16.zdsmith_at_gmail.com
- New Cartoon representation - Ubuntu (Wed Mar 01 2023 - 12:09:48 CST)
3D SIG
- May 18th, Late abstract submission deadline for 3Dsig Structural Bioinformatics & Computational Biophysics (Wed May 11 2011 - 16:57:22 CDT)
- 3Dsig 2011: Structural Bioinformatics & Computational Biophysics, Vienna, 15-16 July 2011 (abstract deadline May 1st) (Fri Apr 15 2011 - 14:38:03 CDT)
- 3Dsig 2011: Structural Bioinformatics & Computational Biophysics, Vienna, 15-16 July 2011 (abstract deadline May 1st). (Wed Mar 23 2011 - 06:15:19 CDT)
_at_huji.ac.il
- Re: sending arguments to tcl (Sun Feb 04 2007 - 02:21:02 CST)
- sending arguments to tcl (Thu Feb 01 2007 - 13:39:20 CST)
- Re: [Fwd: pdb from trajectory] some clarification (Wed Jan 24 2007 - 04:37:40 CST)
- [Fwd: pdb from trajectory] some clarification (Tue Jan 23 2007 - 09:41:49 CST)
- pdb from trajectory (Tue Jan 23 2007 - 09:16:29 CST)
- Re: [Fwd: Re: create new topology file for new molecule] (Wed Jan 10 2007 - 03:01:50 CST)
- create new topology file for new molecule (Tue Jan 09 2007 - 10:06:25 CST)
- recenter peptide in PBC (Tue Dec 26 2006 - 04:54:20 CST)
- vmd questions (Thu Dec 21 2006 - 05:09:59 CST)
a a
- FW: How to set VMD_Plugin_path? (Sat Mar 31 2012 - 23:25:30 CDT)
- Re: redhat linux vmd (Mon May 22 2006 - 21:18:43 CDT)
- redhat linux vmd (Mon May 22 2006 - 03:51:59 CDT)
A D
- MDFF plug-in (Fri Mar 05 2010 - 15:09:06 CST)
- VMD version 1.8.7 (LINUX OpenGL, CUDA) on UBUNTU 9.10 (Mon Jan 25 2010 - 13:50:06 CST)
- PBCTools-problem getting unitcell parameters (Thu Nov 12 2009 - 19:40:31 CST)
- How to translate my diffused protein back to COM? (Mon Oct 05 2009 - 18:20:15 CDT)
- animate read and write (Wed Apr 22 2009 - 15:36:00 CDT)
- putting a set of selections in a list or an array (Sun Jan 11 2009 - 12:14:08 CST)
- vmd shuts itself down (Thu Jun 26 2008 - 19:20:58 CDT)
A. Gomez-Sicilia
- Re: Installing VMD with PYTHON support (Thu Oct 10 2013 - 08:11:03 CDT)
- Installing VMD with PYTHON support (Thu Oct 10 2013 - 07:09:29 CDT)
A. M. Carmen Pérez
- Compatibility with Orcad (PSpice) ? (Thu Sep 16 2010 - 05:06:29 CDT)
A. M.M
- Re: Diffusion Coefficient calculation (Wed Apr 11 2018 - 11:37:52 CDT)
- Re: Diffusion Coefficient calculation (Wed Apr 11 2018 - 11:37:01 CDT)
- Re: Diffusion Coefficient calculation (Wed Apr 11 2018 - 11:27:31 CDT)
AA
- XYZ trajectory with different atom types? (Fri Jan 16 2009 - 13:21:15 CST)
Aaron Blanchard, Ph.D.
- Issue with Timeline Plugin related to "geometry manager pack" (Mon Jan 17 2022 - 23:23:51 CST)
Aaron Larsen
- Re: Forcing FFTK to treat aminos as planar (Thu Jun 18 2015 - 14:57:16 CDT)
- Re: Forcing FFTK to treat aminos as planar (Thu Jun 18 2015 - 14:27:55 CDT)
- Forcing FFTK to treat aminos as planar (Fri Jun 12 2015 - 08:03:25 CDT)
Aaron Oakley
- Shannon entropy in MultiSeq? (Tue Aug 03 2021 - 00:11:26 CDT)
- Re: Reduce Waterbox Dimensions Post Simulation (Mon Mar 01 2021 - 20:07:39 CST)
- Re: CHARMM parameters for ADP-ribosylated arginine? (Tue Dec 29 2020 - 18:03:21 CST)
- Re: Glu-Lys Isopeptide Bond Parameters? (Wed Oct 07 2020 - 20:13:58 CDT)
- MultiSeq: STAMP fails (Thu Sep 26 2019 - 20:40:31 CDT)
- Re: Unable to find bond parameters for NOH P4 (ATOMS 292 294) (Thu May 02 2013 - 18:50:39 CDT)
- measure sasa (Wed Feb 29 2012 - 17:50:08 CST)
- Implicit Ligand Sampling-molecule rotation issue (Sun Jan 08 2012 - 18:30:08 CST)
- Re: Maximum length of an extended peptide? (Tue Nov 15 2011 - 20:58:20 CST)
- Maximum length of an extended peptide? (Tue Nov 15 2011 - 17:53:14 CST)
- Xenon binding site free energies (Thu Oct 27 2011 - 01:30:23 CDT)
- RE: trajectory of water within 5 A of protein (Tue May 10 2011 - 05:47:47 CDT)
- Re: Issues with Paratools and Gaussian (Tue Jan 11 2011 - 19:57:49 CST)
- PMF vs distance plot from isosurface (Tue Dec 14 2010 - 22:17:48 CST)
- ILS tool fails (Fri Jul 09 2010 - 20:25:38 CDT)
- Script to rendering ANISOU records in VMD (Tue Jun 19 2007 - 21:22:51 CDT)
- Compute B-factor from MD run (Fri Sep 12 2003 - 03:02:42 CDT)
- protein/carbohydrate (Tue Sep 02 2003 - 03:07:53 CDT)
- protein/carbohydrate (Fri Aug 08 2003 - 22:48:54 CDT)
Aaron Taudt
- Hotkeys don't work (Wed Mar 27 2013 - 03:50:41 CDT)
- Use Movie Maker Plugin in Script (Wed Dec 05 2012 - 08:40:46 CST)
Aaron.Oakley_at_csiro.au
- RE: How to get rid of default patch for NTER and CTER (Sun Jan 18 2009 - 19:24:36 CST)
- RE: B factor calculation (Tue Nov 04 2008 - 16:27:02 CST)
- contour plots (Wed Jul 09 2008 - 22:50:54 CDT)
- problem loading trajectory in VMD under windows XP (Tue Jun 10 2008 - 18:41:24 CDT)
Aashish Bhatt
- NAMD energy plugin reference (Mon Jun 01 2020 - 06:30:56 CDT)
- Re: BOND distance (Sun Mar 31 2019 - 04:55:13 CDT)
- BOND distance (Sat Mar 30 2019 - 06:23:35 CDT)
- Vibrational spectra script (Sat Aug 04 2018 - 03:59:48 CDT)
- IR spectral density calculation (Sun Jul 22 2018 - 12:53:34 CDT)
- Z-axis data extraction (Thu Jun 21 2018 - 23:13:00 CDT)
- z-direction selection (Mon Jun 18 2018 - 00:33:50 CDT)
- Regarding RDF calculation (Fri Dec 01 2017 - 09:32:36 CST)
AB
- problem to render .cms file (Thu Aug 04 2011 - 02:11:34 CDT)
- vmd 1.9 sur doesn't work (Tue Aug 02 2011 - 13:58:43 CDT)
ABEL Stephane
- RE:MolID error using fftk with VMD 1.94a49 on windows 10 - [Solved] (Sun Jul 18 2021 - 09:25:50 CDT)
- RE:MolID error using fftk with VMD 1.94a49 on windows 10 (Tue Jul 13 2021 - 12:35:20 CDT)
- TR : MolID error using fftk with VMD 1.94a49 on windows 10 (Tue Jul 13 2021 - 08:51:45 CDT)
- RE:Building micelles (Mon Jun 14 2021 - 04:42:05 CDT)
- RE: truncated atom types with fftk v.1.93 - Resolved (Mon Aug 27 2018 - 10:45:37 CDT)
- truncated atom types with fftk v.1.93 (Mon Aug 27 2018 - 08:48:47 CDT)
- RE: 1.9.4 beta version of VMD (Sun Aug 26 2018 - 10:12:23 CDT)
- 1.9.4 beta version of VMD (Sun Aug 26 2018 - 07:43:43 CDT)
- RE: Derivation of parameters for a ligand with a Cl atom with fftk (Tue Aug 07 2018 - 05:17:10 CDT)
- Derivation of parameters for a ligand with a Cl atom with fftk (Mon Aug 06 2018 - 08:21:57 CDT)
- Optimization of torsion angles with fftk, large force constant (Thu Jan 26 2017 - 03:37:43 CST)
ABEL Stephane 175950
- Problem with NAMD, fftk and Windows 7 64bits (Wed Aug 12 2015 - 08:17:26 CDT)
- Questions about the optimization of a molecule with fftk (Fri Jul 24 2015 - 08:31:54 CDT)
- RE : use gelato render with VMD 1.8.7 for movie (Fri Dec 03 2010 - 12:18:26 CST)
- RE : Plot the value of the current frame in the Progress Bar for elapsed Time (Thu Dec 02 2010 - 12:15:22 CST)
- Plot the value of the current frame in the Progress Bar for elapsed Time (Thu Dec 02 2010 - 09:51:44 CST)
- TR : Plot a time line in the movie made with VMD (Thu Dec 02 2010 - 06:48:01 CST)
- use gelato render with VMD 1.8.7 for movie (Thu Dec 02 2010 - 06:22:36 CST)
- Plot a time line in the movie made with VMD (Wed Dec 01 2010 - 11:08:39 CST)
- Time line (Tue Nov 30 2010 - 08:55:05 CST)
- RE : plot residues without hydrogen atoms (Tue May 20 2008 - 11:11:46 CDT)
- plot residues without hydrogen atoms (Tue May 20 2008 - 07:02:41 CDT)
- problem with time line plugin in VMD (Fri Jan 18 2008 - 03:36:30 CST)
Abhijit Ghosh
- (no subject) (Thu Dec 03 2015 - 12:35:43 CST)
Abhijit Muley
- Re: How to find rmsd of energy minimized structure of protein (Wed Dec 03 2014 - 00:10:12 CST)
- Re: can we delete in command line? (Wed Aug 20 2014 - 09:09:27 CDT)
Abhik Ghosh Moulick
- Save specific atoms from multiple frame pdb (Wed Nov 07 2018 - 01:33:10 CST)
abhik.ghosh_at_bose.res.in
- RMSD for specific residue (Wed Sep 05 2018 - 09:42:29 CDT)
- Re: split multi frame pdb (Mon Jul 30 2018 - 04:14:26 CDT)
- Re: split multi frame pdb (Mon Jul 30 2018 - 01:01:47 CDT)
- split multi frame pdb (Mon Jul 30 2018 - 00:18:10 CDT)
- (no subject) (Sun Jul 22 2018 - 05:16:07 CDT)
- (no subject) (Sun Jul 22 2018 - 05:00:41 CDT)
Abhishek Bagusetty
- Writing Wrapped coordinates to a xyz file using TCL script (Sat Oct 24 2015 - 14:19:36 CDT)
- Re: Installing VMD on MACOSX 10.10.4 Yosemite (Fri Aug 07 2015 - 21:21:56 CDT)
- Installing VMD on MACOSX 10.10.4 Yosemite (Fri Aug 07 2015 - 09:36:19 CDT)
ABHISHEK GUPTA
- RE: How to draw a box in VMD and plot the coordinates of the system (Mon Mar 28 2016 - 00:50:24 CDT)
- Re: Unable to visualize my polymer chains generated using RIS theory using VMD properly (Sat Mar 19 2016 - 00:06:59 CDT)
- Visualization problem of random Polyethylene chains in VMD. (Tue Mar 15 2016 - 01:17:07 CDT)
- Unable to visualize my polymer chains generated using RIS theory using VMD properly (Fri Mar 11 2016 - 21:09:52 CST)
Abhishek TYAGI
- Re: (Mon Nov 16 2020 - 01:05:52 CST)
- Query for coarse grain system (Thu Apr 05 2018 - 09:53:36 CDT)
- Re: Graphics card requirement for VMD (Tue Mar 13 2018 - 07:13:06 CDT)
- Re: ffTK (Mon Aug 14 2017 - 06:41:21 CDT)
- Re: namd-l: Modifying the equilibrium distance for a specific region of carbon nanotube in the parameter file (Mon Dec 26 2016 - 08:59:58 CST)
- Re: vmd installation (Thu Nov 24 2016 - 09:34:11 CST)
- for surface area calculation (Fri Oct 14 2016 - 08:36:56 CDT)
- Coarse Grain model for graphene (Wed May 04 2016 - 22:20:34 CDT)
- Re: error loading dcd (Wed Mar 30 2016 - 04:14:05 CDT)
- Re: namd-l: Including two parameters for protein-ligand simulation (Wed Oct 28 2015 - 01:59:21 CDT)
Abi Ghanem josephine
- Draw a circle (Fri Mar 23 2007 - 09:47:12 CDT)
abinayar_at_imsc.res.in
- rmsf to b-factor conversion (Wed Mar 07 2012 - 04:06:29 CST)
- incorrect number of coordinates in .dcd file error (Tue Feb 21 2012 - 00:53:08 CST)
Abolfazl Bayat
- Lennard-Jones parameters of rubidium (Fri Oct 05 2012 - 10:44:19 CDT)
- Lennard-Jones parameters (Tue Oct 02 2012 - 10:28:38 CDT)
- DX potential files (Thu Jun 28 2012 - 04:10:23 CDT)
- computing potential using pmepot (Mon Jun 25 2012 - 11:16:49 CDT)
- PMEpot plugin (Tue Jun 19 2012 - 11:43:42 CDT)
Abolfazl Musavi
- Re: how to draw boxes with semi-transparent sides (Wed Jun 05 2019 - 11:46:01 CDT)
- Re: how to draw boxes with semi-transparent sides (Sun Jun 02 2019 - 18:47:26 CDT)
- how to draw boxes with semi-transparent sides (Sat Jun 01 2019 - 21:58:10 CDT)
- Re: how to change material and color of an atom selection in TkConsole (Thu Nov 08 2018 - 19:16:41 CST)
- how to change material and color of an atom selection in TkConsole (Thu Nov 08 2018 - 16:11:17 CST)
Abramyan, Tigran
- Clustering algorithm (Fri Sep 02 2016 - 12:27:59 CDT)
Abu Naser
- Building zeolite cage (Fri Nov 28 2014 - 07:08:00 CST)
- movie (Sun Nov 09 2008 - 11:06:20 CST)
- pick atom id script (Fri Jul 11 2008 - 06:07:05 CDT)
- RE: (Thu Jul 10 2008 - 11:23:19 CDT)
- (no subject) (Thu Jul 10 2008 - 10:43:17 CDT)
accomp lin
- atom name can not exceed four characters in pdb and psf? (Mon Jun 29 2009 - 21:59:36 CDT)
- Can bonds radius be controlled by tcl command? (Wed May 13 2009 - 03:54:47 CDT)
- Re: installed plugin won't show up next time (Fri Apr 24 2009 - 04:59:22 CDT)
- installed plugin won't show up next time (Thu Apr 23 2009 - 06:58:38 CDT)
- How to use " segment " in tcl script. (Wed Mar 11 2009 - 01:31:13 CDT)
accutone_at_atlsky.com
- 99 Toyotas as low as 2% over invoice (Sat Sep 05 1998 - 19:10:53 CDT)
Achar, Sid
- Steered Molecular Dynamics for Metal-organic frameworks (Mon Mar 09 2020 - 11:15:14 CDT)
achchirangeebi
- Vmd uninstallation and reinstallation (Sat Oct 03 2020 - 05:23:49 CDT)
Ackad, Edward
- Re: keeping two ligands in a box (Mon Jul 24 2023 - 08:06:19 CDT)
- Re: keeping two ligands in a box (Sun Jul 23 2023 - 07:55:48 CDT)
- keeping two ligands in a box (Sat Jul 22 2023 - 09:00:19 CDT)
- Re: Period images not appearing (Mon Sep 26 2022 - 14:38:12 CDT)
- Period images not appearing (Fri Sep 23 2022 - 13:29:45 CDT)
- Re: measure sasa and memory issue (Mon May 23 2022 - 08:47:00 CDT)
- measure sasa and memory issue (Sun May 22 2022 - 10:54:55 CDT)
- Re: Using namdEnergy from an external python script (Thu Jan 16 2020 - 10:05:10 CST)
- Using namdEnergy from an external python script (Wed Jan 15 2020 - 13:23:09 CST)
Ada Zhan
- Timeline plugin (Thu Aug 11 2011 - 19:12:01 CDT)
- RE: ParseFEP_domain error (Tue Apr 26 2011 - 15:02:24 CDT)
- RE: RE: New NAMD version 2011-03-03 uses (Fri Apr 22 2011 - 16:04:52 CDT)
- ParseFEP_domain error (Fri Apr 22 2011 - 14:50:57 CDT)
- RE: New NAMD version 2011-03-03 uses (Fri Apr 22 2011 - 13:35:30 CDT)
Adam Brenner
- Re: VMD 1.9.1 src // GCC 4.7.0 - Error compiling plugins directory (Tue Dec 18 2012 - 20:27:25 CST)
- Re: VMD 1.9.1 src // GCC 4.7.0 - Error compiling plugins directory (Tue Dec 18 2012 - 20:17:43 CST)
- VMD 1.9.1 src // GCC 4.7.0 - Error compiling plugins directory (Tue Dec 18 2012 - 19:32:00 CST)
Adam Goler
- Re: Fwd: Visualizing the displacement vector (Fri Jul 04 2014 - 11:18:10 CDT)
- manually generate PSF for small molecules (Wed Apr 09 2014 - 20:04:56 CDT)
- Re: Writing DCD from modified coordinates (Sat Mar 22 2014 - 14:08:10 CDT)
- Re: Writing DCD from modified coordinates (Fri Mar 21 2014 - 18:08:49 CDT)
- Re: Writing DCD from modified coordinates (Fri Mar 21 2014 - 12:21:16 CDT)
- Writing DCD from modified coordinates (Thu Mar 20 2014 - 23:59:33 CDT)
- Re: removing water from dcd file (Tue Mar 18 2014 - 09:09:38 CDT)
- Re: radial pair distribution function (Wed Mar 12 2014 - 13:02:04 CDT)
- Re: radial pair distribution function (Tue Mar 11 2014 - 23:55:56 CDT)
- radial pair distribution function (Tue Mar 11 2014 - 20:03:55 CDT)
Adam Gross
- Re: Problem w/ DCD Title Block When Saving - Using 'Animate Write' vs Saving Via GUI (Tue Mar 08 2022 - 13:13:32 CST)
- Problem w/ DCD Title Block When Saving - Using 'Animate Write' vs Saving Via GUI (Tue Mar 08 2022 - 11:39:05 CST)
Adam Kells
- Combining PDB/PSF of Protein and CNT (Wed Jul 02 2014 - 04:15:55 CDT)
Adam Kraut
- Render surface colored by electrostatic potential (Tue Oct 28 2008 - 13:27:52 CDT)
Adam Kubach
- docking (Wed Sep 29 2004 - 20:20:38 CDT)
- Phantom and VMD (Mon Sep 20 2004 - 15:18:18 CDT)
Adam Marcus
- Copying a selection (Mon Mar 22 2004 - 01:04:29 CST)
Adam MatÄ›j
- VMD 1.9.4 crash on MacOS (Thu Sep 05 2019 - 02:55:20 CDT)
Adelene Sim
- Plotting Number of Hbonds and % Helicity with Time (Sat Nov 11 2006 - 18:11:22 CST)
Adelman, Joshua Lev
- Re: Counting water transition through a channel (Thu Mar 19 2015 - 08:29:51 CDT)
adil mughal
- Re: run_vmd_tmp: Permission denied (Thu Apr 22 2010 - 11:38:37 CDT)
- run_vmd_tmp: Permission denied (Tue Apr 20 2010 - 10:37:09 CDT)
Adilah Hussien
- Tracking bond length changes in a simulation (Tue Jun 19 2007 - 04:33:22 CDT)
Aditi Gotkhindikar
- PBC issue (Tue Jul 16 2024 - 03:22:20 CDT)
- Fwd: pbc wrap issue (Tue Jan 25 2022 - 00:11:51 CST)
- pbc wrap issue (Sun Jan 23 2022 - 23:55:55 CST)
- Fwd: issue with protein- ligand psfgen (Mon Dec 27 2021 - 22:33:03 CST)
- issue with protein- ligand psfgen (Mon Dec 27 2021 - 05:39:04 CST)
Aditya Padhi
- Zinc ion visualization from Amber trajectory (Tue Oct 25 2016 - 19:44:12 CDT)
- Linking 4 proteins (Thu Jul 21 2016 - 22:49:35 CDT)
- Query on GPI-anchor proteins (Tue Jun 16 2015 - 14:03:15 CDT)
- Query on introducing a protein (Tue Feb 04 2014 - 23:12:10 CST)
- Hydrogen bond energy calculation (Wed May 23 2012 - 22:56:10 CDT)
- H-bond distance measurement (Tue Nov 01 2011 - 03:53:57 CDT)
- SASA calculation (Mon May 09 2011 - 05:26:36 CDT)
Adkins, Laura R
- RE: Atom ID/Color change with timesteps (Thu May 12 2011 - 16:04:26 CDT)
- Atom ID/Color change with timesteps (Wed May 11 2011 - 19:17:05 CDT)
Adrain Koh
- Apologies (Wed Nov 10 2004 - 04:12:55 CST)
- Conversion of trajectory files (Tue Nov 09 2004 - 21:43:52 CST)
- Re: Converting .txt trajectory files to VMD compatible format (Tue Nov 09 2004 - 21:40:18 CST)
- Converting .txt trajectory files to VMD compatible format (Fri Nov 05 2004 - 04:43:40 CST)
Adrian E. Roitberg
- pdb naming convention (Wed Apr 17 2002 - 07:59:32 CDT)
- Re: New version of VMD movie script/plugin available (Wed Mar 13 2002 - 07:22:32 CST)
- immersadesk (Tue Apr 16 2002 - 09:06:25 CDT)
Adrian Jasiñski
- python simple script (Fri Dec 21 2012 - 04:52:41 CST)
- paratool CHARMM style charges (Tue Dec 27 2011 - 08:24:49 CST)
Adrian Kaats
- Re: How to see the original Origin (0,0,0, coordinate) of a system (Thu Mar 27 2008 - 15:56:52 CDT)
- Re: Loading a PDB file with different atom counts in models (Tue Mar 25 2008 - 07:41:38 CDT)
- Loading a PDB file with different atom counts in models (Fri Mar 21 2008 - 09:19:35 CDT)
- atomselect protein (Thu Mar 20 2008 - 16:39:54 CDT)
- ion 'channel axis' (Wed Mar 28 2007 - 15:55:17 CDT)
- OmpF biological unit (Thu Mar 15 2007 - 18:58:17 CDT)
- Re: Displaying biological unit revisited (Thu Nov 02 2006 - 14:23:41 CST)
- Displaying biological unit revisited (Tue Oct 31 2006 - 12:22:19 CST)
Adrian Koh
- RE: Displaying Counter alongside animation (Mon Feb 11 2008 - 03:08:44 CST)
- Displaying Counter Alongside Animation (Tue Feb 05 2008 - 00:20:36 CST)
- Assigning Color Codes for stress/force in .xyz trajectory files (Fri Feb 09 2007 - 00:08:26 CST)
- Re: VMD 1.8.3 works ok for 64-bit windows, but not VMD 1.8.5 (Thu Nov 23 2006 - 23:31:49 CST)
- VMD 1.8.3 works ok for 64-bit windows, but not VMD 1.8.5 (Thu Nov 23 2006 - 22:07:27 CST)
- Installing VMD Windows version on 64-bit Windows Environment (Tue Nov 21 2006 - 21:30:01 CST)
- Re: Altering Definition of Molecular Coloring Method (Mon Jul 31 2006 - 23:18:19 CDT)
- Altering Definition of Molecular Coloring Method (Mon Jul 31 2006 - 05:08:56 CDT)
- Movie Maker in VMD (Wed Jul 05 2006 - 04:30:49 CDT)
- Re: Renaming Molecule Names in existing .xyz trajectory files (Tue Jul 04 2006 - 23:07:57 CDT)
- Renaming Molecule Names in existing .xyz trajectory files (Tue Jul 04 2006 - 01:44:28 CDT)
- Changing Graphical Representations (Wed Jan 25 2006 - 00:15:54 CST)
- Adding New Color Definitions to Color Form (Tue Jan 24 2006 - 03:08:48 CST)
- Changing Default Settings for VMD Main Window (Thu Jan 19 2006 - 05:08:23 CST)
- Error Encountered in making vmdmovie (Tue May 03 2005 - 02:42:00 CDT)
- Re: Customizing VMD Sessions (Thu Apr 14 2005 - 06:03:41 CDT)
- Customizing VMD Sessions (Thu Apr 14 2005 - 02:49:19 CDT)
- Defining Bonds in .xyz file format (Wed Feb 16 2005 - 02:29:09 CST)
Adrian Roitberg
- align axes (Wed Jun 22 2011 - 14:17:50 CDT)
- CMYK (Tue Oct 30 2007 - 16:08:37 CDT)
- RNA (Mon May 14 2007 - 14:25:03 CDT)
- vmd/gaussian cubes (Fri Mar 02 2007 - 10:11:08 CST)
- question about rotations (Fri Feb 09 2007 - 08:33:34 CST)
- Volume Slice (Wed Jan 31 2007 - 15:07:45 CST)
- Re: visualising protein dynamics (Wed Jun 22 2005 - 16:57:47 CDT)
Adrian turjanski
- Clip (Wed Sep 28 2005 - 20:49:04 CDT)
- X error (Sun Sep 04 2005 - 16:00:59 CDT)
- Problems with VMD in Federa 4 (x86_64) (Sat Aug 27 2005 - 17:22:00 CDT)
Adriano Santana Sanchez
- h-bond water molecules (Sat Aug 18 2018 - 08:54:38 CDT)
Adupa Vasista
- Re: Unable to open TkConsole, Possible bug! (Wed Oct 14 2020 - 09:27:24 CDT)
- Unable to open TkConsole, Possible bug! (Wed Oct 14 2020 - 01:51:21 CDT)
- Re: TCL force script (Thu Oct 01 2020 - 02:57:45 CDT)
- Re: high quality videos (Wed Sep 30 2020 - 11:45:08 CDT)
- Re: Fwd: N-glycosylation in AutoPSF (Sun Aug 30 2020 - 02:20:32 CDT)
- Fwd: N-glycosylation in AutoPSF (Sat Aug 29 2020 - 03:21:23 CDT)
- Re: VMD on HPC (Wed Jul 01 2020 - 04:06:33 CDT)
- VMD on HPC (Wed Jul 01 2020 - 00:00:28 CDT)
- Re: Counting the number of ligand molecules around my protein (Thu Apr 16 2020 - 09:44:21 CDT)
- Re: Counting the number of ligand molecules around my protein (Thu Apr 16 2020 - 08:24:27 CDT)
- Re: namd-l: Pair interaction calculation is not supported in CUDA version (Sun Mar 15 2020 - 23:48:52 CDT)
- Pair interaction calculation is not supported in CUDA version (Sun Mar 15 2020 - 12:10:53 CDT)
- Re: How to increase the number of core (Tue Feb 25 2020 - 23:28:13 CST)
- Re: atomselect moveby: non-numeric in vector (Tue Feb 18 2020 - 11:43:16 CST)
- Re: [EXT] Re: atomselect moveby: non-numeric in vector (Tue Feb 18 2020 - 11:29:49 CST)
- Re: atomselect moveby: non-numeric in vector (Tue Feb 18 2020 - 10:59:21 CST)
- atomselect moveby: non-numeric in vector (Tue Feb 18 2020 - 09:32:22 CST)
- Re: FFTK dihedral parametrization (Wed Jan 29 2020 - 09:34:57 CST)
- Re: FFTK dihedral parametrization (Wed Jan 29 2020 - 08:24:27 CST)
- Re: could not read file no atoms found error (Thu Jan 23 2020 - 04:51:21 CST)
- Re: Using namdEnergy from an external python script (Wed Jan 15 2020 - 23:08:49 CST)
- Re: PBC wrap deleting PBC boundaries during wrapping (Wed Jan 08 2020 - 04:41:12 CST)
- Re: Reg: RMSF (Wed Nov 13 2019 - 02:40:29 CST)
- Reg: RMSF (Tue Nov 05 2019 - 10:25:13 CST)
- Re: query on how to allow the protein to interact with the water molecules (Mon Oct 07 2019 - 02:26:32 CDT)
- Re: (Sun Jul 14 2019 - 04:31:25 CDT)
- Fwd: FATAL ERROR: DIDN'T FIND vdW PARAMETER FOR ATOM TYPE OT (Wed Jul 10 2019 - 10:32:16 CDT)
- Re: Getting the topology,PSF files (Sun Jul 07 2019 - 08:38:25 CDT)
- AutoPSF charge generation (Sat Jul 06 2019 - 04:28:55 CDT)
- Re: Getting the topology,PSF files (Fri Jul 05 2019 - 08:23:33 CDT)
- Getting the topology,PSF files (Thu Jul 04 2019 - 14:54:25 CDT)
Afnan Sultan
- Re: Unequal atoms size (Wed Jul 26 2017 - 03:08:01 CDT)
Afroditi Maria Zaki
- Graphics card suitable for VMD (Fri Oct 31 2014 - 09:46:10 CDT)
Agarwal, Silvi
- IR Spectra plugin (Wed Sep 29 2010 - 10:59:59 CDT)
Agarwal, Silvi
- RE: pbc in water count (Sat Mar 06 2010 - 11:52:55 CST)
- pbc in water count (Thu Mar 04 2010 - 12:07:37 CST)
Agnieszka Sobkiewicz
- input file (Mon Aug 09 2010 - 06:41:18 CDT)
agustina_at_cabm.rutgers.edu
- waters selection (Mon Apr 18 2011 - 15:49:09 CDT)
Ahmad Alqaisi
- Changing color scale bar location in VMD (Fri Mar 25 2022 - 20:30:06 CDT)
- Question about error while using QwikMD files (Fri Dec 24 2021 - 15:25:30 CST)
- Question about error while using QwikMD files (Mon May 10 2021 - 03:12:25 CDT)
Ahmed Nawar
- freevr tool transformation (Thu Jan 03 2008 - 00:28:31 CST)
- FreeVR wand (Tue Dec 04 2007 - 03:42:13 CST)
- Re: cave (Tue Nov 27 2007 - 01:00:42 CST)
- cave (Mon Nov 26 2007 - 06:12:41 CST)
- RE: Suspected SpamFR:RE: cave (Mon Nov 26 2007 - 00:54:23 CST)
- RE: cave (Sun Nov 25 2007 - 09:06:37 CST)
- cave (Thu Nov 22 2007 - 06:09:24 CST)
ahmed sengab
- Atom ID Change (Mon Apr 11 2016 - 12:45:41 CDT)
Ahmet Bakan
- Re: windows usage question (Wed Nov 20 2013 - 10:14:41 CST)
- Re: performing PCA in VMD (Wed May 15 2013 - 16:08:17 CDT)
- Re: performing PCA in VMD (Wed May 15 2013 - 09:24:15 CDT)
- Re: Disable display resetview (Thu Apr 04 2013 - 08:38:56 CDT)
- Re: Problem with generating psf using CGENFF (Fri Apr 27 2012 - 11:27:08 CDT)
- Bug in VMD main? (Sat Mar 03 2012 - 12:25:05 CST)
- Re: movie out of principal component analysis (Wed Nov 23 2011 - 21:27:45 CST)
- NMWiz - a new VMD plugin (Tue Apr 12 2011 - 11:51:36 CDT)
- Re: Tcl plugin development and debugging (Tue Apr 12 2011 - 11:38:57 CDT)
- Re: Representation problem (Thu Oct 15 2009 - 12:16:26 CDT)
- Re: Representation problem (Tue Sep 29 2009 - 09:42:41 CDT)
- Representation problem (Mon Sep 28 2009 - 16:22:36 CDT)
- RE: Counting number of hydrogen bonds in the representation (Wed Sep 15 2004 - 07:44:29 CDT)
- RE: Counting number of hydrogen bonds in the representation (Wed Sep 15 2004 - 03:39:56 CDT)
- Euro QSAR 2004 (Sun Sep 05 2004 - 15:42:27 CDT)
- RE: namd-l: cff91 force field in namd + A Question (Wed Aug 25 2004 - 10:53:59 CDT)
- How to enable Python on Windows XP (Fri Jul 30 2004 - 16:30:09 CDT)
- Average coordinates (Thu Jun 24 2004 - 13:51:12 CDT)
- RE: Torsional Angles (Mon May 31 2004 - 15:54:52 CDT)
- RE: Torsional Angles (Sun May 30 2004 - 19:41:49 CDT)
- Torsional Angles (Wed May 26 2004 - 13:52:53 CDT)
- RE: measuring distances in vmd tkon (Thu May 06 2004 - 17:45:21 CDT)
- RE: Selection problem on TkCon (Tue May 04 2004 - 18:57:39 CDT)
- RE: Selection problem on TkCon (Tue May 04 2004 - 06:47:55 CDT)
- RE: Selection problem on TkCon (Mon May 03 2004 - 13:42:43 CDT)
- RE: Selection problem on TkCon (Mon May 03 2004 - 05:56:25 CDT)
- Selection problem on TkCon (Sun May 02 2004 - 19:55:43 CDT)
- RE: MOE discussion (Wed Apr 28 2004 - 17:26:07 CDT)
- TCL string operation (Sat Apr 03 2004 - 07:48:40 CST)
- Sine Cosine (Sat Mar 13 2004 - 18:06:04 CST)
- RE: Rotatind a chain (some further Qs) (Fri Mar 12 2004 - 13:43:41 CST)
- Rotatind a chainn (Fri Mar 12 2004 - 08:59:09 CST)
Ahmet yýldýrým
- Re: APBS Output file missing or unreadable (Fri Nov 08 2013 - 14:31:42 CST)
- Re: APBS Output file missing or unreadable (Thu Nov 07 2013 - 07:33:26 CST)
- Re: APBS Output file missing or unreadable (Thu Nov 07 2013 - 03:11:40 CST)
- APBS Output file missing or unreadable (Wed Nov 06 2013 - 07:05:09 CST)
- APBS electrostatics: Output file missing or unreadable. (Wed Nov 06 2013 - 05:57:40 CST)
- gromacs trajectory file (Thu May 03 2012 - 01:49:13 CDT)
- removing all water molecules (Thu Jan 27 2011 - 06:51:34 CST)
ailong
- antialiasing problem (Thu Nov 20 2003 - 12:54:22 CST)
Aishwarya Smriti
- Re: Error in merging two PDB files (Mon Sep 18 2017 - 10:23:36 CDT)
- Error in merging two PDB files (Sun Sep 17 2017 - 04:05:44 CDT)
- Error in merging two PDB files (Sat Sep 16 2017 - 05:19:34 CDT)
Aiswarya
- Error while calculating rotational angle (Thu Oct 09 2014 - 13:32:55 CDT)
Aiswarya Pawar
- Re: mapping values on protein structure (Fri Apr 24 2020 - 11:23:53 CDT)
- Re: mapping values on protein structure (Fri Apr 24 2020 - 02:47:37 CDT)
- mapping values on protein structure (Fri Apr 24 2020 - 00:44:24 CDT)
- Re: Error while calculating rotational angle (Thu Oct 09 2014 - 22:51:41 CDT)
- radial pair distribution problems (Wed Sep 21 2011 - 01:27:50 CDT)
- calculate the solvent molecule within a cut off from protein (Thu Sep 15 2011 - 05:36:25 CDT)
Aitor Gonzalez
- Re: bond length definition (Wed Apr 25 2001 - 04:41:32 CDT)
- Re: animation and reps (Mon Apr 09 2001 - 08:17:52 CDT)
- python vmd interface (Thu Mar 29 2001 - 08:57:32 CST)
- Re: python loop (Fri Mar 16 2001 - 12:39:34 CST)
- python loop (Fri Mar 16 2001 - 04:40:38 CST)
- Re: switching off the location axes (Fri Mar 09 2001 - 03:10:03 CST)
- switching off the location axes (Fri Mar 09 2001 - 02:48:53 CST)
- Re: making a movie with a serie of pdb's (Fri Dec 08 2000 - 05:26:00 CST)
- making a movie with a serie of pdb's (Thu Dec 07 2000 - 06:51:07 CST)
aizoon_at_gmx.net
- Arbitrary values of isosurface (Mon Oct 19 2009 - 06:25:32 CDT)
Ajasja LjubetiÄ
- Re: Question (Tue Apr 16 2019 - 00:00:41 CDT)
- Re: namd-l: Strange Bond Behavior Question (Sat Jun 23 2018 - 04:54:04 CDT)
- Re: Unable to load molecule (Fri May 04 2018 - 03:05:11 CDT)
- Re: CellPack (Fri May 04 2018 - 03:17:20 CDT)
- Re: Unable to load molecule (Thu May 03 2018 - 08:38:53 CDT)
- Re: Unable to load molecule (Thu May 03 2018 - 06:31:23 CDT)
- Re: MultiSeq conflicting with DYLD_LYBRARY_PATH (Thu Jan 18 2018 - 06:12:12 CST)
- Re: Loading multiple dcd files crashes VMD (Thu Jan 11 2018 - 08:17:22 CST)
- Re: removing rotation in trajectories (Wed Dec 20 2017 - 10:29:56 CST)
- Re: install VMD IN parallel (Fri Sep 01 2017 - 06:34:59 CDT)
- Re: vmd smooth trajectory distorted molecule (Wed Aug 09 2017 - 14:43:31 CDT)
- Re: CG builder in script (Wed Jun 14 2017 - 04:42:40 CDT)
- Re: (Wed Apr 05 2017 - 10:06:54 CDT)
- Re: How to extract data from log file (Thu Mar 30 2017 - 02:54:05 CDT)
- Re: Using variables inside Atomselect (Tue Feb 07 2017 - 08:35:38 CST)
- Re: reading big xtc file (Fri Jan 06 2017 - 02:14:07 CST)
- Re: Fw: Draw arrows in trajectory file (Tue Dec 20 2016 - 08:50:20 CST)
- Re: Fw: Draw arrows in trajectory file (Tue Dec 20 2016 - 07:29:58 CST)
- Re: Atom selections for measure - index sorting (Thu Dec 15 2016 - 02:31:16 CST)
- Re: MD movie making of fluent movements (Fri Nov 04 2016 - 05:54:32 CDT)
- Re: Size of POPC membrane (Fri Oct 07 2016 - 04:49:36 CDT)
- Re: Script runs slow afterwards (Thu Aug 04 2016 - 03:31:05 CDT)
- Re: System requirement for MD 10ns (Tue Jun 28 2016 - 07:57:07 CDT)
- Re: GPU acceleration on tachyon rendering (Fri Jun 24 2016 - 06:52:47 CDT)
- Re: radius of gyration autocorrelation function (Tue Jun 07 2016 - 17:08:46 CDT)
- Re: Wrapping problem (Mon May 30 2016 - 03:11:25 CDT)
- Wrapping problem (Fri May 27 2016 - 11:10:05 CDT)
- Re: error loading dcd (Wed Mar 30 2016 - 02:45:46 CDT)
- Re: How to work on multiple pdbs by tcl script? (Tue Mar 22 2016 - 06:04:25 CDT)
- Re: How to work on multiple pdbs by tcl script? (Tue Mar 22 2016 - 05:26:44 CDT)
- Re: default drawing style (Tue Mar 15 2016 - 08:59:58 CDT)
- Re: Not all frames loaded (Tue Mar 01 2016 - 05:02:32 CST)
- Re: tcl command to write amber format files (Wed Jan 27 2016 - 03:28:24 CST)
- Re: Unable to access config file (Fri Dec 11 2015 - 11:24:18 CST)
- Re: Unable to access config file (Fri Dec 11 2015 - 02:31:41 CST)
- Re: fitting a line to 3D data points (Thu Nov 26 2015 - 02:41:44 CST)
- Re: gromacs to charmm conversion (Fri Oct 23 2015 - 03:28:28 CDT)
- Re: Align only translation not rotation (Tue Sep 15 2015 - 03:20:41 CDT)
- Re: Namd Plot Plugin (Thu Aug 20 2015 - 10:37:12 CDT)
- Re: .mdcrd to .trr conversion problem (Wed Aug 05 2015 - 03:35:46 CDT)
- Re: 64 bit windows VMD (Mon Jul 27 2015 - 15:22:07 CDT)
- Re: How to super impose NMR structures (Wed May 20 2015 - 02:21:42 CDT)
- Re: (Fri Mar 27 2015 - 12:38:49 CDT)
- Re: Running VMD in user folder on Windows (bug fix?) (Wed Mar 25 2015 - 05:03:52 CDT)
- Re: namd-l: velocity IO with psfgen? (Thu Feb 26 2015 - 10:37:55 CST)
- Re: making self-adjustable high resolution images (Wed Jan 28 2015 - 07:56:14 CST)
- Re: query about the force field toolkit (Tue Dec 02 2014 - 03:58:11 CST)
- Re: A box of amino acids (Mon Nov 24 2014 - 10:54:04 CST)
- Re: (Tue Nov 18 2014 - 08:24:59 CST)
- Re: Query about the NAMD user forum (Wed Nov 12 2014 - 04:12:23 CST)
- Re: removing water inside the nanotube (Wed Oct 29 2014 - 05:07:28 CDT)
- Re: removing water inside the nanotube (Tue Oct 28 2014 - 11:54:41 CDT)
- Re: Reg: Peptide dimer (Wed Oct 01 2014 - 04:45:43 CDT)
- Re: vmd in windows 8 (64bite) (Tue Sep 09 2014 - 13:36:57 CDT)
- Re: averaged structure (Tue Aug 12 2014 - 12:21:28 CDT)
- Re: export trajectory all frames coordinates to numpy array (Thu Jul 24 2014 - 14:59:45 CDT)
- Re: Combining PDB/PSF of Protein and CNT (Wed Jul 02 2014 - 07:03:26 CDT)
- Re: running a C code in VMD (Thu Jun 26 2014 - 05:25:30 CDT)
- Re: any way to rotate and translate with mouse without changing modes? (Tue Jun 24 2014 - 15:37:39 CDT)
- Re: surface charge calculations (Fri Apr 25 2014 - 15:55:48 CDT)
- Re: selection manager (Tue Apr 22 2014 - 06:38:16 CDT)
- Re: Matal binding protein prediction 3d (Tue Apr 15 2014 - 05:22:11 CDT)
- Re: selecting every nth residue in a protein (Thu Mar 27 2014 - 18:20:55 CDT)
- Re: cant find output file from tachyon render. (Thu Mar 27 2014 - 15:41:47 CDT)
- Re: SScache performance; fast secondary structure assignment (Tue Feb 04 2014 - 14:58:37 CST)
- Re: VMD crash on large DCD files. (Thu Jan 30 2014 - 03:34:27 CST)
- Re: Surface Area Calculation (Tue Jan 07 2014 - 14:04:19 CST)
- Re: loading pdb files from multiple directories (Fri Nov 29 2013 - 06:39:48 CST)
- Re: genetaring psf file for HEME ( hemoglobin) (Tue Nov 05 2013 - 04:30:53 CST)
- Re: Creating very large solvation boxes (Thu Oct 03 2013 - 09:06:37 CDT)
- Re: Center a trajectory (Tue Jul 16 2013 - 11:27:16 CDT)
- Re: Center a trajectory (Tue Jul 16 2013 - 10:57:40 CDT)
- Re: autoionization error in VMD (Fri Jul 12 2013 - 04:53:34 CDT)
- Re: auto ionise error (Tue Jul 09 2013 - 14:25:25 CDT)
- Re: center of mass (Fri Jul 05 2013 - 13:18:19 CDT)
- Re: VMD: Mutator --> ASP to ASN problems (Tue Apr 23 2013 - 16:22:47 CDT)
- Re: VMD: Mutator --> ASP to ASN problems (Tue Apr 23 2013 - 14:29:06 CDT)
- Re: Issue in Cal. Bonded and Scan Torsion in fftk (Tue Apr 09 2013 - 12:22:56 CDT)
- Re: VMD 1.9.1 for 64-bit Windows (Wed Mar 20 2013 - 08:12:34 CDT)
- Re: Problem related to the save trajectory (Mon Feb 18 2013 - 01:46:49 CST)
- Head Tracking for Desktop VR Displays using the WiiRemote and VMD (Thu Feb 07 2013 - 15:48:00 CST)
- Re: How to calculate the Hydrogen bond strengh (Tue Nov 20 2012 - 07:05:53 CST)
- Re: Solvating protein in water sucrose solution (Tue Nov 06 2012 - 13:39:07 CST)
- Re: tutorial (Tue Sep 11 2012 - 04:54:37 CDT)
- Re: Scripting API: are arguments to representation types documented somewhere? (Mon Aug 20 2012 - 07:34:55 CDT)
- Re: Getting the internal coordinates table (Tue Jun 19 2012 - 04:06:50 CDT)
- Getting the internal coordinates table (Mon Jun 18 2012 - 04:11:03 CDT)
- Re: The "gopython" is wrong on the Lunux VMD1.9.1 (Thu Jun 14 2012 - 08:29:40 CDT)
- Re: Using psfgen with long atom names (How to prepare PDB file?) (Wed Jun 13 2012 - 05:41:27 CDT)
- Using psfgen with long atom names (How to prepare PDB file?) (Wed Jun 13 2012 - 05:33:27 CDT)
- Re: cg_bonds.tcl (Sat May 19 2012 - 15:07:20 CDT)
- Re: how to calculate PBC box volume in VMD? (Thu May 17 2012 - 02:25:15 CDT)
- Re: lib/stride/README (Tue Mar 20 2012 - 02:39:29 CDT)
- Re: Memory used by VMD is much less than installed (Wed Mar 07 2012 - 07:11:22 CST)
- Re: Adsorption VMD Tcl script error (Wed Feb 29 2012 - 16:09:59 CST)
- Re: incorrect number of coordinates in .dcd file error (Tue Feb 21 2012 - 02:17:37 CST)
- Re: Stand-alone VMD ? (Fri Feb 10 2012 - 07:29:36 CST)
- Re: how to display the full molecule when use "within" option? (Fri Feb 03 2012 - 06:21:29 CST)
- Re: NewRibbons/NewCartoon problem due to missing CUDA ? (Tue Jan 31 2012 - 08:32:01 CST)
- Re: how to enlarge the menu font? (Fri Jan 27 2012 - 01:29:11 CST)
- Re: VMD 1.9.1 beta 2 to be posted tonight... (Thu Jan 26 2012 - 07:06:28 CST)
- Re: VMD 1.9.1 beta 2 to be posted tonight... (Thu Jan 26 2012 - 03:04:29 CST)
- Re: script to modify cysteines with spinlabel (Tue Jan 24 2012 - 13:35:22 CST)
- Re: is it possible to hide ONLY non-polar hydrogens? (Fri Jan 20 2012 - 04:49:36 CST)
- Re: New "surf" calculations in VMD 1.9.1 beta (Wed Jan 18 2012 - 07:17:32 CST)
- Re: Using threads in VMD's tcl (Tue Jan 17 2012 - 12:40:13 CST)
- Re: Re: vmd 1.9.1 beta - quicksurf rendering artifacts (Wed Jan 04 2012 - 13:52:28 CST)
- Re: vmd 1.9.1 beta - quicksurf rendering artifacts (Wed Jan 04 2012 - 05:28:06 CST)
- vmd 1.9.1 beta - quicksurf rendering artifacts (Wed Jan 04 2012 - 05:08:18 CST)
- Re: Tachyon render problem (Fri Dec 09 2011 - 08:22:26 CST)
- Re: Coloring particular atom with particular index (Wed Dec 07 2011 - 12:57:42 CST)
- Re: average structure script (Fri Nov 25 2011 - 11:09:59 CST)
- Re: VMD never finishes reading vis. state file, stalls and hoggs CPU (Fri Nov 25 2011 - 05:05:32 CST)
- Re: VMD slows down at multiple windows (Tue Nov 15 2011 - 03:08:28 CST)
- Re: Secondary structure elements in VMD (Sat Nov 05 2011 - 03:00:01 CDT)
- Re: find avgstruct (Fri Nov 04 2011 - 06:03:16 CDT)
- Re: radius of gyration (Wed Nov 02 2011 - 16:14:59 CDT)
- Re: Locked files in Windows 7 (Thu Sep 22 2011 - 07:17:55 CDT)
- Re: Problem with measuring dihedrals (Tue Sep 20 2011 - 04:54:54 CDT)
- Re: how to rename a representation in vmd (Wed Aug 17 2011 - 05:11:31 CDT)
- Re: a file for commands of console (Sat Jul 30 2011 - 09:40:23 CDT)
- Re: creating chiral molecules (Thu Jul 28 2011 - 05:09:29 CDT)
- Re: Understand a script (Tue Jul 26 2011 - 03:54:58 CDT)
- Re: loading saved state from command line (Tue Jul 26 2011 - 01:47:56 CDT)
- Re: Mutating a residue to a nonstandard amino acid (Wed Jul 20 2011 - 16:57:49 CDT)
- Re: script (Tue Jul 12 2011 - 13:01:26 CDT)
- Re: script (Tue Jul 12 2011 - 12:08:12 CDT)
- Does this work with VMD: Nvidia 3DVision Glasses + SyncMaster 2233RZ + GTX 580 + Win7? (Sat Jul 09 2011 - 17:06:19 CDT)
- Re: Changing representations on a per-atom per-timestep basis (Tue Jun 28 2011 - 12:48:11 CDT)
- Re: Molefacture: creating model helices (Mon Jun 27 2011 - 07:10:23 CDT)
- Re: protein-water RDF (Mon Jun 27 2011 - 03:05:03 CDT)
- Re: invisible files in windows (Thu Jun 16 2011 - 02:27:34 CDT)
- Re: VMD does not exit after running closest.tcl script in combination with bigdcd (Tue Jun 07 2011 - 09:02:10 CDT)
- Re: VMD does not exit after running closest.tcl script in combination with bigdcd (Tue Jun 07 2011 - 09:07:08 CDT)
- Re: Tachyon post-render commands under Win-XP (Mon Jun 06 2011 - 09:32:09 CDT)
- Re: use variable in atomselect (Sat May 28 2011 - 02:24:03 CDT)
- Re: use variable in atomselect (Fri May 27 2011 - 16:28:34 CDT)
- Re: trying to combine closewater.tcl with bigdcd.tcl error frame 3 out of range for molecule 0 (Wed May 25 2011 - 05:57:10 CDT)
- Re: trying to combine closewater.tcl with bigdcd.tcl error frame 3 out of range for molecule 0 (Tue May 24 2011 - 12:22:00 CDT)
- Re: trying to combine closewater.tcl with bigdcd.tcl error frame 3 out of range for molecule 0 (Tue May 24 2011 - 09:48:15 CDT)
- Re: problem in overlapping atoms (Sun May 22 2011 - 05:52:14 CDT)
- Re: Displaying protein AND ligand from an amber trajectory (Fri May 20 2011 - 09:11:24 CDT)
- Re: hi to all (Tue May 17 2011 - 12:27:50 CDT)
- Re: PhD position in Computational Structural Biology at MPI Muenster (Fri May 13 2011 - 07:04:26 CDT)
- Re: Save molecule in pdb format (Sat Apr 30 2011 - 02:29:35 CDT)
- Re: Generate a PSF file for small, simple molecules (Fri Apr 01 2011 - 02:15:51 CDT)
- Re: measure dipole (Wed Mar 30 2011 - 09:16:21 CDT)
- Re: phi-psi plot (Mon Mar 28 2011 - 08:08:32 CDT)
- Re: size of box (Mon Mar 28 2011 - 02:50:18 CDT)
- Re: Problem with using bigdcd.tcl (Mon Mar 21 2011 - 03:36:15 CDT)
- Re: script for projection of c-alpha atom cordinates on xy plane (Fri Mar 18 2011 - 15:23:12 CDT)
- Re: to block the information appearing during the run (Thu Mar 17 2011 - 08:16:14 CDT)
- Re: tcl script (Fri Mar 11 2011 - 10:17:15 CST)
- VMD beta3 windows installer (Wed Mar 09 2011 - 08:21:46 CST)
- Re: how to make default background color to white (Tue Mar 08 2011 - 10:29:54 CST)
- Re: Compiling on Windows (Fri Feb 18 2011 - 11:07:59 CST)
- Re: Compiling on Windows (Fri Feb 18 2011 - 04:03:41 CST)
- Re: PBC & Solvate Tool in VMD (Wed Feb 16 2011 - 03:20:25 CST)
- Re: bring z-axis along a new vector (Wed Feb 16 2011 - 03:00:01 CST)
- Re: Side-chain Dihedrals (Tue Feb 01 2011 - 16:13:36 CST)
- Re: Side-chain Dihedrals (Tue Feb 01 2011 - 14:46:23 CST)
- Re: Re: Trouble rendering tranparent atoms with Tachyon (Sat Jan 29 2011 - 06:42:06 CST)
- Re: removing all water molecules (Thu Jan 27 2011 - 07:37:57 CST)
- Re: Where can I download VMD alpha version (Sat Jan 15 2011 - 11:05:34 CST)
- Re: problem in extracting frame number (Thu Jan 13 2011 - 15:46:48 CST)
- Re: selection of amino acids with certain distance each others (Sun Dec 19 2010 - 14:07:03 CST)
- Re: delete water molecules (Fri Dec 17 2010 - 08:29:52 CST)
- Re: load of information on B factor as independent file (Tue Dec 14 2010 - 02:38:42 CST)
- Re: apocynin/1k4u (Tue Dec 07 2010 - 10:31:25 CST)
- Re: generating lipid membrane psf file (Sat Dec 04 2010 - 14:57:11 CST)
- Re: print numerical values in a Ramachandran plot (Wed Dec 01 2010 - 01:54:32 CST)
- Re: VASP crystal structure visualisation (Thu Nov 25 2010 - 14:57:13 CST)
- Re: VASP crystal structure visualisation (Thu Nov 25 2010 - 14:14:58 CST)
- Re: atom selection in vmd (Wed Nov 17 2010 - 10:25:55 CST)
- Re: Headtracking software (Tue Nov 16 2010 - 09:00:27 CST)
- Re: dynamic atom selection (Tue Nov 09 2010 - 08:06:58 CST)
- Re: Vega ZZ DCD trajectory crashes VMD (Tue Nov 09 2010 - 06:56:26 CST)
- Re: 3D protein visualization (Mon Nov 08 2010 - 15:10:33 CST)
- Re: vmd: Saving output (Mon Nov 01 2010 - 06:00:58 CDT)
- Re: Where to download Hbond plugin (Sun Oct 31 2010 - 05:50:10 CDT)
- Re: vmd: Tcl script help (Fri Oct 29 2010 - 15:10:54 CDT)
- Re: namd-I : Constraint failure in RATTLE algorithm for atom 268 (Fri Oct 29 2010 - 01:41:51 CDT)
- Re: Possible bug in freeing global selections (Thu Oct 28 2010 - 17:23:16 CDT)
- Re: Possible bug in freeing global selections (Thu Oct 28 2010 - 13:05:33 CDT)
- Re: Possible bug in freeing global selections (Thu Oct 28 2010 - 08:16:14 CDT)
- Possible bug in freeing global selections (Thu Oct 28 2010 - 06:56:02 CDT)
- Re: Vega ZZ DCD trajectory crashes VMD (Tue Oct 19 2010 - 11:56:26 CDT)
- Vega ZZ DCD trajectory crashes VMD (Tue Oct 19 2010 - 09:21:44 CDT)
- Re: Real-time ambient occlusion lighting (Wed Oct 13 2010 - 11:12:57 CDT)
- Re: Real-time ambient occlusion lighting (Wed Oct 13 2010 - 06:01:01 CDT)
- Real-time ambient occlusion lighting (Tue Oct 12 2010 - 15:54:00 CDT)
- Re: superimpose residues across several protein structures (Wed Sep 22 2010 - 08:57:04 CDT)
- Re: vmd can't display Pt-Cl bond (Mon Sep 20 2010 - 03:12:18 CDT)
- Re: turning on the tcl/tk console in .vmdrc (Tue Sep 14 2010 - 07:47:49 CDT)
- Re: Anaglyph rendering problem (Mon Sep 13 2010 - 08:55:39 CDT)
- Anaglyph rendering problem (Mon Sep 13 2010 - 03:50:27 CDT)
- Re: How to set the default mol style as VDW? (Fri Sep 03 2010 - 06:36:08 CDT)
- Re: Using Bigdcd with RMSD Trajectory tool in VMD (Tue Aug 31 2010 - 05:42:16 CDT)
- Re: DCD Based on a parameter (Thu Aug 26 2010 - 10:12:42 CDT)
- Re: (Sat Aug 21 2010 - 02:14:19 CDT)
- Re: Problem Material Studio/VMD (Wed Aug 11 2010 - 03:48:44 CDT)
- Re: Inserting amino acids to a protein (Fri Aug 06 2010 - 02:40:35 CDT)
- Re: Dihedrals Angle (Thu Jul 29 2010 - 02:13:30 CDT)
- Re: "can not find channel named ... (Wed Jul 28 2010 - 05:04:28 CDT)
- Re: Modifying amino acid to a non-standard amino acid using VMD (proline to hydroxyproline) (Fri Jul 09 2010 - 02:33:13 CDT)
- Re: calculate side-chain dihedral/torsion angles (Tue Jun 29 2010 - 09:14:08 CDT)
- Re: namd-l: Simulation configuration file not accesible (Fri Jun 25 2010 - 16:19:34 CDT)
- Re: Deleting/modifying specific molecule representations (Wed Jun 02 2010 - 11:53:00 CDT)
- Re: How to remove hydrogens from a pdb file? (Fri May 07 2010 - 02:45:30 CDT)
- Re: problem with "animate delete all" (Wed May 05 2010 - 02:44:02 CDT)
- Re: calculate side-chain dihedral/torsion angles (Mon Apr 12 2010 - 14:24:17 CDT)
- Re: calculate side-chain dihedral/torsion angles (Mon Apr 12 2010 - 12:36:36 CDT)
- Re: calculate side-chain dihedral/torsion angles (Mon Apr 12 2010 - 08:45:13 CDT)
- Re: calculate side-chain dihedral/torsion angles (Mon Apr 12 2010 - 06:38:16 CDT)
- calculate side-chain dihedral/torsion angles (Mon Apr 12 2010 - 03:43:25 CDT)
- Re: Turn off initial VMD animation and "menu tkcon on" problem (Fri Apr 09 2010 - 09:12:05 CDT)
- AutoHotkey script for managing VMD windows (Fri Apr 09 2010 - 07:56:42 CDT)
- Turn off initial VMD animation and "menu tkcon on" problem (Fri Apr 09 2010 - 07:18:57 CDT)
- Re: build dependency (Fri Apr 09 2010 - 03:43:19 CDT)
- Re: Visualisation of VTF trajectories using VMD under Windows ? (Wed Mar 24 2010 - 11:29:10 CDT)
- Re: implicit solvent (Tue Mar 23 2010 - 10:57:54 CDT)
- Re: Selecting AMBER ions Cl- and Na+ using VMD (Wed Mar 17 2010 - 09:31:12 CDT)
- Re: CUDA out of memory (Mon Mar 15 2010 - 04:41:14 CDT)
- CUDA out of memory (Fri Mar 12 2010 - 08:22:40 CST)
- Re: WIN64 build (Fri Mar 12 2010 - 07:46:55 CST)
Ajasja Ljubetiè
- Re: tcl script (Fri Mar 11 2011 - 14:12:52 CST)
- Re: Trouble rendering tranparent atoms with Tachyon (Fri Jan 28 2011 - 09:06:11 CST)
- Re: Visualisation of VTF trajectories using VMD under Windows ? (Mon Mar 29 2010 - 08:09:36 CDT)
Ajeeta kaushiki
- Re: script for area per lipid (Tue Mar 09 2010 - 05:04:27 CST)
- VMD 1.8.7 installation problem (Mon Jul 20 2009 - 06:55:41 CDT)
Ajith Gunaratne
- (no subject) (Sun Apr 11 2004 - 23:36:05 CDT)
Ajith Rathnaweera Rajapaksha Mudalige
- Using Measure SASA in NAMD Simulation (Mon Apr 16 2012 - 18:54:32 CDT)
Akash Banerjee
- Re: Re: Unable to fit dihedral to QM target data in FFTK (Tue Feb 02 2021 - 08:20:56 CST)
- Re: Re: Unable to fit dihedral to QM target data in FFTK (Mon Feb 01 2021 - 11:10:34 CST)
- Re: Unable to fit dihedral to QM target data in FFTK (Thu Jan 28 2021 - 16:28:57 CST)
- Unable to fit dihedral to QM target data in FFTK (Mon Jan 18 2021 - 16:31:20 CST)
- Re: FFTK Issue: Not able to visualize dihedral scan (Sun Jan 10 2021 - 08:43:12 CST)
- FFTK Issue: Not able to visualize dihedral scan (Fri Jan 08 2021 - 17:41:07 CST)
- Re: FFTK dihedral paramterization (Fri Jan 08 2021 - 07:30:11 CST)
- FFTK dihedral paramterization (Thu Jan 07 2021 - 16:06:23 CST)
Akash Mondal
- Re: patching of sucrose (Sat Sep 03 2022 - 01:37:41 CDT)
- patching of sucrose (Sat Sep 03 2022 - 01:14:51 CDT)
- Mutation of Amino Acid (Sat Aug 20 2022 - 01:11:34 CDT)
Akash Pandya
- Number of water molecules as a function of residue (Tue Nov 24 2020 - 04:07:02 CST)
- Phi and Psi angles for particular residues as a function of time (Tue Jul 14 2020 - 10:38:28 CDT)
- Re: Counting the number of ligand molecules around my protein (Thu Apr 16 2020 - 10:27:16 CDT)
- Re: Counting the number of ligand molecules around my protein (Thu Apr 16 2020 - 09:22:00 CDT)
- Counting the number of ligand molecules around my protein (Thu Apr 16 2020 - 07:17:02 CDT)
Akemi Matsuno-Yagi
- Re: bonds not created as desired (Tue Jun 09 2009 - 15:09:25 CDT)
- bonds not created as desired (Tue Jun 09 2009 - 13:01:09 CDT)
Akemi Yagi
- Main window (button bars) does not start (Tue May 14 2002 - 10:02:18 CDT)
Akif Ramzan
- Chiral indices in VMD Nanotube Builder (Wed Jun 13 2018 - 08:10:11 CDT)
Akiyama, Jotaro
- Re: Coloring by type? (Fri Nov 12 2004 - 02:45:10 CST)
- Re: Coloring by type? (Thu Nov 11 2004 - 18:56:02 CST)
- Re: LAMMPS visualization (Thu Nov 11 2004 - 18:27:15 CST)
- Coloring by type? (Mon Nov 08 2004 - 03:06:34 CST)
Akshata Rudrapatna
- vmd-I: Using the MergeMultiFramesPDB code (Sat Mar 21 2015 - 17:06:42 CDT)
- Re: Why NAMD??? a general question (Sun Feb 15 2015 - 13:01:52 CST)
- RE: vmd-I: Fatal Error: Unable to Open CHARMM Parameter File (Tue Feb 03 2015 - 08:26:31 CST)
- vmd-I: Fatal Error: Unable to Open CHARMM Parameter File (Mon Feb 02 2015 - 19:44:56 CST)
- Re: vmd-1: Creating movies in VMD (Tue Jan 20 2015 - 16:08:31 CST)
- vmd-1: Colors in Representations Tab (Tue Jan 20 2015 - 16:09:28 CST)
- Re: vmd-1: Creating movies in VMD (Tue Jan 20 2015 - 15:53:44 CST)
- vmd-1: Creating movies in VMD (Tue Jan 20 2015 - 14:57:14 CST)
Akshay Bhatnagar
- representation for multiple molecules (Sun Aug 21 2016 - 21:23:15 CDT)
- how to tackle atoms in a PDB with multiple occupancies (Sat Apr 09 2016 - 04:22:08 CDT)
- Re: psfgen on proteins with multiple chains (Sun Apr 03 2016 - 11:19:07 CDT)
- psfgen on proteins with multiple chains (Sun Apr 03 2016 - 11:17:30 CDT)
- concatenate two pdb files? (Wed Mar 30 2016 - 23:08:34 CDT)
- tcl command to write amber format files (Tue Jan 26 2016 - 22:40:18 CST)
- Re: Query for eliminating proteins with unusual amino acids (Thu Nov 05 2015 - 22:24:24 CST)
- Fwd: Query for eliminating proteins with unusual amino acids (Thu Nov 05 2015 - 18:19:18 CST)
- Re: Query for eliminating proteins with unusual amino acids (Thu Nov 05 2015 - 18:25:59 CST)
- Query for eliminating proteins with unusual amino acids (Wed Nov 04 2015 - 23:46:02 CST)
- Re: unable to view .pdb file (Tue Sep 08 2015 - 11:17:14 CDT)
- Re: Generating PSF for several proteins in one shot (Sat Aug 08 2015 - 03:35:47 CDT)
- Re: Generating PSF for several proteins in one shot (Tue Jul 28 2015 - 01:10:19 CDT)
- Re: Generating PSF for several proteins in one shot (Fri Jul 24 2015 - 02:29:08 CDT)
- Re: Generating PSF for several proteins in one shot (Thu Jul 23 2015 - 23:33:56 CDT)
- Generating PSF for several proteins in one shot (Tue Jul 21 2015 - 02:04:36 CDT)
Akshay Patny
- RE: measure XYZ dimensions of a system (Wed Jan 24 2007 - 12:47:47 CST)
- measure XYZ dimensions of a system (Wed Jan 24 2007 - 10:47:00 CST)
- cutting short a DMPC bilayer in VMD (Thu Oct 05 2006 - 21:23:43 CDT)
- VMD PDB to LEAP Readable PDB (Wed Oct 04 2006 - 20:09:14 CDT)
- Solvate Plug-In -b Boundary variable (Thu Sep 21 2006 - 10:18:10 CDT)
- which POPC Bilayer is better to start? (Wed Sep 20 2006 - 16:40:07 CDT)
- GPCR-Membrane Issue (Wed Sep 20 2006 - 12:29:49 CDT)
- RE: Centering GPCR onto Lipid Bilayer (Tue Sep 19 2006 - 16:19:59 CDT)
- Centering GPCR onto Lipid Bilayer (Mon Sep 18 2006 - 14:28:35 CDT)
- FW: Membrane PlugIn issue (Sat Sep 16 2006 - 14:20:23 CDT)
- RE: DPPC Bilayer Size (Fri Sep 15 2006 - 12:07:51 CDT)
- DPPC Bilayer Size (Thu Sep 14 2006 - 13:49:06 CDT)
- RE: protein in membrane (Tue Sep 12 2006 - 16:05:04 CDT)
- RE: protein in membrane (Tue Sep 12 2006 - 15:45:31 CDT)
Al Courey
- rendering high resolution images (Mon Apr 24 2006 - 16:19:52 CDT)
Al-Ali, Hassan
- C-terminus link to side chain amine (Tue Oct 12 2010 - 08:33:46 CDT)
- Link Patch? (Fri Oct 08 2010 - 23:39:15 CDT)
- Ubiquitin - patch? (Thu Oct 07 2010 - 22:33:23 CDT)
- K-linked Ub, ACE patch, and autoPSF (Tue Oct 05 2010 - 22:49:42 CDT)
- K-linked Ub, ACE patch, and autoPSF (Tue Oct 05 2010 - 22:49:37 CDT)
- K-linked Ub, ACE patch, and autoPSF (Tue Oct 05 2010 - 22:49:34 CDT)
- RE: Vmd on Fedora 9 (Wed Jul 30 2008 - 19:16:09 CDT)
- RE: Vmd on Fedora 9 (Wed Jul 30 2008 - 15:12:38 CDT)
- Vmd on Fedora 9 (Wed Jul 30 2008 - 11:43:28 CDT)
Al-Rawi, Ahlam
- external force (Tue Oct 24 2006 - 11:41:54 CDT)
- external force (Wed Oct 18 2006 - 19:33:51 CDT)
- RE: psf for protein (Tue Sep 19 2006 - 12:03:55 CDT)
- psf for protein (Mon Sep 18 2006 - 17:24:27 CDT)
- Water and protein (Wed May 03 2006 - 13:40:44 CDT)
alamng_at_uci.edu
- Replica Exchange (Fri Apr 15 2011 - 02:35:05 CDT)
- ParaTool (Sat Feb 19 2011 - 15:43:36 CST)
Alan
- Re: namdenergy and simulation with amber ff (Fri Aug 01 2008 - 02:05:23 CDT)
- VMD with amber rst7 and parm7 files (Thu Jul 31 2008 - 03:26:33 CDT)
Alan Wilter Sousa da Silva
- Re: secondary structure update (Mon Nov 03 2003 - 04:16:27 CST)
- nvidia driver (Tue Sep 30 2003 - 09:30:48 CDT)
- Re: Python's future in VMD (Tue Sep 30 2003 - 07:48:28 CDT)
- Re: stereo (Wed May 28 2003 - 13:02:00 CDT)
- Re: Surfaces/Cavities (Thu Jan 23 2003 - 06:21:18 CST)
- Re: Which drawing method is used in the picture? (Wed Apr 10 2002 - 10:20:05 CDT)
- Re: Plotting elect. pot. surface (Wed Mar 13 2002 - 08:05:14 CST)
- Re: New version of VMD movie script/plugin available (Wed Mar 13 2002 - 07:58:33 CST)
- Molscript (Wed Mar 13 2002 - 07:32:50 CST)
- Re: Removing perspective projection at startup (Thu Feb 28 2002 - 12:27:47 CST)
- Re: Plotting elect. pot. surface (Tue Feb 26 2002 - 14:16:22 CST)
- Re: Plotting elect. pot. surface (Mon Feb 25 2002 - 14:40:57 CST)
- Plotting elect. pot. surface (Mon Feb 25 2002 - 12:15:52 CST)
alarcon_at_lncc.br
- STL files (Thu Jul 17 2003 - 11:07:02 CDT)
- STL format file - rendering (Thu Dec 19 2002 - 13:39:20 CST)
Alba Colet Subirachs
- VMD 3D stereo hardware (Thu Mar 06 2008 - 03:16:25 CST)
- VMD languaje information (Tue Mar 04 2008 - 10:24:09 CST)
Albers, Thomas
- Re: [EXTERNAL] Re: polar hydrogens (Thu Sep 14 2017 - 10:20:12 CDT)
- polar hydrogens (Wed Sep 13 2017 - 12:07:46 CDT)
- Re: segname field in pdb files (Wed Sep 13 2017 - 11:22:25 CDT)
- RE: autoionize not neutralizing the system (Sun Aug 06 2017 - 12:26:58 CDT)
- pdb download bug (Mon Jun 26 2017 - 13:44:07 CDT)
- measure surface usage (Fri Feb 17 2017 - 14:47:07 CST)
- Colouring atoms individually (Thu Sep 29 2016 - 16:31:24 CDT)
Albert
- visualization of a normal mode analysis (Wed Feb 28 2018 - 14:44:25 CST)
- a question about force field toolkit (Tue Oct 03 2017 - 12:47:03 CDT)
- Re: bond updating in VMD (Sat Aug 19 2017 - 04:11:22 CDT)
- bond updating in VMD (Sat Aug 19 2017 - 00:20:27 CDT)
- Re: vmd smooth trajectory distorted molecule (Wed Aug 09 2017 - 14:18:32 CDT)
- Re: vmd smooth trajectory distorted molecule (Wed Aug 09 2017 - 12:25:55 CDT)
- Re: vmd smooth trajectory distorted molecule (Wed Aug 09 2017 - 09:00:59 CDT)
- vmd smooth trajectory distorted molecule (Wed Aug 09 2017 - 03:59:33 CDT)
- Amber visualization problem (Tue Jan 31 2017 - 10:09:50 CST)
- Re: pdb was not generated (Thu Jan 14 2016 - 13:48:28 CST)
- Re: pdb was not generated (Thu Jan 14 2016 - 13:59:54 CST)
- Re: pdb was not generated (Thu Jan 14 2016 - 13:48:46 CST)
- pdb was not generated (Thu Jan 14 2016 - 11:53:36 CST)
- Re: extract certain part of atoms into separate file (Thu Nov 19 2015 - 01:46:40 CST)
- extract certain part of atoms into separate file (Wed Nov 18 2015 - 09:49:53 CST)
- problem of x3d in chrome and IE (Sun Oct 18 2015 - 13:11:26 CDT)
- Re: can we export VMD scene as webGL file? (Sat Oct 17 2015 - 02:23:54 CDT)
- Re: can we export VMD scene as webGL file? (Sat Oct 17 2015 - 02:23:18 CDT)
- Re: can we export VMD scene as webGL file? (Sat Oct 17 2015 - 02:22:56 CDT)
- Re: can we export VMD scene as webGL file? (Fri Oct 16 2015 - 16:52:19 CDT)
- can we export VMD scene as webGL file? (Fri Oct 16 2015 - 16:22:59 CDT)
- Re: should commercial user pay for VMD (Mon Jul 06 2015 - 09:45:23 CDT)
- should commercial user pay for VMD (Mon Jul 06 2015 - 08:48:50 CDT)
- nvidia optimus problem for 1.9.2 (Wed Jan 21 2015 - 12:05:14 CST)
- 1.9.2 beta2 doesn't pop up window (Thu Dec 25 2014 - 05:34:25 CST)
- Molspace volume calculation failed (Tue Dec 16 2014 - 02:48:53 CST)
- Re: program errors (Wed Dec 03 2014 - 15:24:52 CST)
- program errors (Sun Nov 30 2014 - 02:32:36 CST)
- plotchart problem (Thu Nov 13 2014 - 03:11:24 CST)
- can we visualize sos file? (Sat Nov 08 2014 - 10:18:08 CST)
- can we delete in command line? (Wed Aug 20 2014 - 04:29:42 CDT)
- when will 1.9.2 be released? (Sun May 25 2014 - 12:12:31 CDT)
- Re: why tutorial cannot be played? (Fri Dec 27 2013 - 15:51:08 CST)
- why tutorial cannot be played? (Fri Dec 27 2013 - 14:32:17 CST)
- how can we improve it in VMD? (Tue Dec 10 2013 - 01:55:04 CST)
- Re: how shall we fill in clipped molecules? (Wed Oct 16 2013 - 09:57:36 CDT)
- how shall we fill in clipped molecules? (Wed Oct 16 2013 - 09:08:10 CDT)
- Re: AW: how to enable multiple core rendering? (Thu Sep 05 2013 - 04:02:10 CDT)
- how to enable multiple core rendering? (Wed Sep 04 2013 - 03:05:15 CDT)
- Re: problem of pbc command (Mon Apr 22 2013 - 02:34:36 CDT)
- problem of pbc command (Mon Apr 22 2013 - 01:39:37 CDT)
- how to write pbc option in python? (Sun Apr 21 2013 - 11:50:19 CDT)
- same problem (Tue Feb 05 2013 - 12:31:29 CST)
- Re: how to configure VMD plugin location? (Tue Jan 29 2013 - 04:43:59 CST)
- Re: how to configure VMD plugin location? (Tue Jan 29 2013 - 04:02:00 CST)
- how to configure VMD plugin location? (Tue Jan 29 2013 - 01:35:26 CST)
- Re: NameError: name 'AtomSel' is not defined (Tue Jan 29 2013 - 01:12:23 CST)
- NameError: name 'AtomSel' is not defined (Mon Jan 28 2013 - 11:38:16 CST)
- plugin path problem (Thu Jan 24 2013 - 12:33:04 CST)
- Re: compiling stopped without any obvious erros (Thu Jan 24 2013 - 10:40:55 CST)
- Re: compiling stopped without any obvious erros (Thu Jan 24 2013 - 01:16:17 CST)
- Re: tc.h problem (Wed Jan 23 2013 - 13:37:11 CST)
- compiling stopped without any obvious erros (Wed Jan 23 2013 - 13:00:41 CST)
- Re: tc.h problem (Wed Jan 23 2013 - 12:17:49 CST)
- Re: tc.h problem (Wed Jan 23 2013 - 11:37:28 CST)
- Re: another tachyon problem (Wed Jan 23 2013 - 11:41:52 CST)
- another tachyon problem (Wed Jan 23 2013 - 11:15:04 CST)
- tc.h problem (Wed Jan 23 2013 - 10:50:27 CST)
- Re: Re: tachyon configuration failed (Wed Jan 23 2013 - 10:11:17 CST)
- Re: Re: tachyon configuration failed (Wed Jan 23 2013 - 09:32:58 CST)
- Re: Re: tachyon configuration failed (Tue Jan 22 2013 - 11:28:08 CST)
- Re: tachyon configuration failed (Sat Jan 19 2013 - 11:53:19 CST)
- tachyon configuration failed (Sat Jan 19 2013 - 11:52:07 CST)
- problem of selection (Wed Dec 19 2012 - 02:52:30 CST)
- compiled failed (Mon Nov 26 2012 - 12:16:28 CST)
- python script failed (Mon Nov 26 2012 - 04:44:12 CST)
- pbc box problem (Thu Nov 15 2012 - 01:37:27 CST)
- problem of VMD-1.91 in MacOS10.8 (Sat Oct 13 2012 - 11:09:44 CDT)
- bug of VMD (Fri Jun 29 2012 - 03:40:15 CDT)
- Re: how to calculate water density in the 'hole'? (Thu Jun 28 2012 - 07:18:11 CDT)
- how to calculate water density in the 'hole'? (Wed Jun 27 2012 - 13:26:01 CDT)
- how to calculate PBC box volume in VMD? (Thu May 17 2012 - 01:26:36 CDT)
- PBC missed in Amber MD (Thu May 10 2012 - 02:53:00 CDT)
- what's the Letter in figure caption meaning of TIME-LINE 2nd structure present? (Mon May 07 2012 - 10:07:43 CDT)
- Re: an old question (Tue Apr 10 2012 - 14:23:16 CDT)
- Re: an old question (Tue Apr 10 2012 - 00:08:23 CDT)
- Re: an old question (Mon Apr 09 2012 - 23:36:16 CDT)
- an old question (Sat Apr 07 2012 - 00:28:29 CDT)
- Re: python error? (Mon Apr 02 2012 - 14:17:08 CDT)
- python error? (Mon Apr 02 2012 - 11:28:14 CDT)
- Re: load propka3.1 results error (Tue Mar 13 2012 - 00:35:36 CDT)
- Re: load propka3.1 results error (Mon Mar 12 2012 - 16:18:11 CDT)
- Re: load propka3.1 results error (Mon Mar 12 2012 - 15:40:12 CDT)
- load propka3.1 results error (Mon Mar 12 2012 - 15:24:37 CDT)
- how to configure PROPKA3 in VMD 1.91? (Mon Mar 12 2012 - 15:11:39 CDT)
- Re: how to place a membrane protein with OPM ? (Wed Feb 29 2012 - 23:54:00 CST)
- Re: how to place a membrane protein with OPM ? (Wed Feb 29 2012 - 23:54:35 CST)
- how to place a membrane protein with OPM ? (Wed Feb 29 2012 - 15:33:44 CST)
- Re: problem with catdcd (Sun Feb 12 2012 - 08:24:29 CST)
- PROPKA doesn't work in recent VMD1.9.1 (Sun Feb 12 2012 - 05:25:14 CST)
- problem with catdcd (Sun Feb 12 2012 - 02:23:40 CST)
- how to display the full molecule when use "within" option? (Fri Feb 03 2012 - 05:31:10 CST)
- how to measure residues' chi angle in VMD? (Thu Feb 02 2012 - 03:34:27 CST)
- how to merge two PDB trajectories? (Wed Feb 01 2012 - 23:34:31 CST)
- is it possible to enable GPU rendering? (Wed Feb 01 2012 - 14:04:02 CST)
- how to configure Tachyon image render size? (Mon Jan 30 2012 - 11:52:02 CST)
- problem with new plugin installation. (Sat Jan 28 2012 - 08:08:16 CST)
- problem with new plugin installation. (Sat Jan 28 2012 - 01:18:14 CST)
- Re: how to enlarge the menu font? (Fri Jan 27 2012 - 01:33:48 CST)
- how to enlarge the menu font? (Fri Jan 27 2012 - 00:18:36 CST)
- is it possible to hide ONLY non-polar hydrogens? (Fri Jan 20 2012 - 03:54:32 CST)
albert albert
- removed all proton in protein with vmd (Mon Jul 27 2009 - 01:40:34 CDT)
Albert Solernou
- Re: writing a new plugin (Wed Mar 11 2015 - 05:39:50 CDT)
- Re: writing a new plugin (Tue Mar 10 2015 - 12:12:14 CDT)
- Re: writing a new plugin (Tue Mar 10 2015 - 05:53:09 CDT)
- writing a new plugin (Mon Mar 09 2015 - 10:11:26 CDT)
Albert Sun
- Re: Picking atoms: romoving or changing the position of atoms (Mon Jul 19 2004 - 11:51:50 CDT)
- Picking atoms: romoving or changing the position of atoms (Sun Jul 18 2004 - 09:17:00 CDT)
- could not make avi file (Tue Apr 13 2004 - 10:58:49 CDT)
- subscribe and questions (Fri Nov 14 2003 - 13:06:34 CST)
alberto
- Re: cannot visualize GROMACS trajectories in VMD 1.9.4 on MacOS Big Sur (Tue Mar 16 2021 - 06:37:37 CDT)
- lammpstrj move out zoom (Fri Sep 18 2020 - 08:53:22 CDT)
- read vector lammps with VMD (Fri Mar 08 2019 - 04:14:34 CST)
- center of mass 4 rdf VMD (Thu Mar 07 2019 - 09:42:48 CST)
- Re: RDF witth center of mass as selection (Tue Feb 26 2019 - 12:04:15 CST)
- RDF witth center of mass as selection (Tue Feb 26 2019 - 10:08:03 CST)
- minimal distance between atoms in all frame (Tue Feb 05 2019 - 12:04:43 CST)
- measure distance atom from plane (Tue Feb 05 2019 - 04:54:20 CST)
alberto baldelli
- view temperature, forces and velocities (Fri Mar 04 2011 - 09:35:18 CST)
Alberto Perez
- Re: complete residues within (Thu Mar 06 2008 - 04:38:02 CST)
Alberto Sergio Garay
- tcl script causes VMD crash... (Wed Jun 25 2014 - 07:55:08 CDT)
- Problem using rotate command in a script ...(2) (Fri Jun 10 2011 - 07:10:05 CDT)
- Problem using rotate command in a script ...(2) (Thu Jun 09 2011 - 13:11:01 CDT)
- Problem using rotate command in a script .... (Thu Jun 09 2011 - 09:36:33 CDT)
- Problem using rotate in a script .... (Wed Jun 08 2011 - 10:33:49 CDT)
- Re: tcl script problem using -dispdev text .. (Fri Nov 19 2010 - 04:33:33 CST)
- tcl script problem using -dispdev text .. (Thu Nov 18 2010 - 07:12:46 CST)
- Is it possible to load a part of a big xtc file faster... (Wed Aug 18 2010 - 09:44:56 CDT)
- Question about running tcl/tk script without graphic interface (vmd option -dispdev none ...) (Fri Oct 16 2009 - 17:48:04 CDT)
- Re: Funny tcl/tk script behavior.... (Tue Jun 30 2009 - 12:08:32 CDT)
- Funny tcl/tk script behavior.... (Tue Jun 30 2009 - 08:02:57 CDT)
- Re: Problem using pbc wrap..... (Fri Jun 26 2009 - 15:01:35 CDT)
- Problem using pbc wrap..... (Fri Jun 26 2009 - 07:13:44 CDT)
- Memory Problem with tcl/tk script...(Solved!) (Thu Jun 04 2009 - 07:08:19 CDT)
- Memory Problem with tcl/tk script...(3) (Wed Jun 03 2009 - 14:17:07 CDT)
- Memory Problem with tcl/tk script...(2) (Wed Jun 03 2009 - 12:54:53 CDT)
- Memory Problem with tcl/tk script... (Tue Jun 02 2009 - 07:25:16 CDT)
- Question3 about introducing variables in "mol selection..." (Fri May 22 2009 - 16:47:25 CDT)
- Question2 about introducing variables in "mol selection..." (Fri May 22 2009 - 15:31:51 CDT)
- Question about introducing variables in "mol selection..." (Fri May 22 2009 - 10:06:54 CDT)
- VMD Animation example doesn't work... (Fri Dec 19 2008 - 06:52:05 CST)
- VMD Animation example doesn't work... (Tue Dec 16 2008 - 04:43:23 CST)
- rmsd per residue (Tue Jul 01 2008 - 05:36:46 CDT)
- Slow tcl/tk script for trajectory analysis (Fri May 16 2008 - 14:34:40 CDT)
Alberto Torres
- Color of bond betwen atoms with different colors (Fri May 16 2008 - 15:35:40 CDT)
aldo jongejan
- Babel and VMD (Tue Mar 03 1998 - 11:05:07 CST)
Ale Gomez
- Re: installation problem (Tue Dec 22 2009 - 20:54:29 CST)
- Re: vmd bug in ubuntu 9.10 (Wed Nov 11 2009 - 17:56:44 CST)
- Re: Align membrane (Fri Oct 16 2009 - 19:18:41 CDT)
- Align membrane (Fri Oct 16 2009 - 13:24:48 CDT)
- Lipid Membrane (Sun Oct 11 2009 - 22:58:08 CDT)
Alec Robertson
- Re: fglrx driver workaround? (Thu Mar 31 2005 - 10:18:45 CST)
- fglrx driver workaround? (Thu Mar 31 2005 - 09:53:21 CST)
Alec Zander
- Re: Asymmetric concentration gradient (Tue Aug 24 2021 - 13:01:21 CDT)
- Re: Defining a layer for a micelle (Wed May 15 2019 - 08:22:50 CDT)
- Re: Defining a layer for a micelle (Mon May 13 2019 - 12:12:42 CDT)
Alejandro Ortega
- Re: TXT program editor (Fri Aug 29 2008 - 13:11:13 CDT)
- TXT program editor (Thu Aug 28 2008 - 14:43:14 CDT)
- Maximum velocities (Thu Jul 03 2008 - 16:03:13 CDT)
- Writepdb with Solvation Box (Tue May 06 2008 - 12:50:23 CDT)
- Topology file (Fri Apr 04 2008 - 11:24:14 CDT)
- DCD file (Fri Mar 07 2008 - 12:07:23 CST)
Aleksander Debinski
- lags on VDW (Mon Dec 12 2005 - 03:54:33 CST)
Aleksandr Kivenson
- How to parse very large trajectories? (Wed Nov 09 2011 - 14:41:55 CST)
Aleksei
- FFTK baOpt electronic effects (Wed Apr 13 2022 - 22:28:14 CDT)
- Re: FFTK baOpt electronic effects (Wed Apr 13 2022 - 20:53:46 CDT)
- Re: Switching from MP2 in FFTK? (Fri Mar 26 2021 - 14:19:52 CDT)
- Re: FFTK: Charge Optimization (Water Int.) (Thu May 28 2020 - 01:39:15 CDT)
- Re: FFTK: Charge Optimization (Water Int.) (Fri May 22 2020 - 11:50:36 CDT)
- Re: ATOM LPH (Tue Apr 14 2020 - 15:19:45 CDT)
Aleksei Aksimentiev
- Re: ellipsoidal particles (Mon May 03 2010 - 16:14:13 CDT)
- Postdoc position in computational biophysics and nanotehnology (Tue May 05 2009 - 14:28:20 CDT)
Alessandro Cembran
- Trajectory title (Wed Apr 16 2008 - 07:53:47 CDT)
- Re: how to visualize Charmm generated files (Wed Jun 06 2007 - 18:15:41 CDT)
- NAMD Energy - Hexagonal Cell (Mon Mar 12 2007 - 18:10:14 CDT)
- Re: namd-l: Re: ionize (big, big, big system!) (Mon Feb 12 2007 - 18:57:05 CST)
- Re: namd-l: Re: ionize (big, big, big system!) (Mon Feb 12 2007 - 11:37:20 CST)
Alessandro Mariani
- NetCDF type is missing (Mon Jun 15 2015 - 07:31:59 CDT)
- Re: Graphic window does not refresh (Mon Dec 22 2014 - 19:58:34 CST)
- Graphic window does not refresh (Mon Dec 22 2014 - 20:04:41 CST)
- Re: Graphic window does not refresh (Sun Dec 21 2014 - 15:28:47 CST)
- Graphic window does not refresh (Sun Dec 21 2014 - 13:19:41 CST)
- Clusters help (Wed Sep 17 2014 - 03:57:10 CDT)
Alessandro Mascioni
- VMD 1.9.1 namdenergy plugin problem with GPU acceleration (Sun Jun 30 2013 - 15:42:38 CDT)
Alessandro Ruda
- get coordinates for each frame in a trjectory (Sun Feb 27 2022 - 08:03:44 CST)
- command measure inertia (Sat Feb 26 2022 - 09:59:14 CST)
- Error during minimizazion - Number of atoms in fixed atoms PDB... (Mon Jun 17 2019 - 17:12:26 CDT)
Alessandro.Maiorana_at_roma2.infn.it
- Remove PBC (Sun Dec 21 2008 - 04:09:38 CST)
Alessio Alexiadis
- dipole (Wed Mar 19 2008 - 06:54:21 CDT)
- combine together two PBD/PSF files (Wed Nov 07 2007 - 07:38:42 CST)
- merge pbd psf files (update) (Wed Nov 07 2007 - 07:47:48 CST)
- time step (Wed Oct 03 2007 - 07:44:13 CDT)
- hbonds (how to count) (Wed Oct 03 2007 - 03:28:52 CDT)
Alex Angerhofer
- rendering question (Thu Jan 19 2012 - 10:56:59 CST)
Alex Blayney
- BFEE2 Segmentation fault (Mon Mar 10 2025 - 04:57:18 CDT)
Alex Hahn
- H Bond Plug-in Questions (Thu Sep 29 2011 - 11:53:13 CDT)
Alex Hummels
- VMD Compatible with Windows with 64-bit OS? (Thu Apr 09 2020 - 15:44:24 CDT)
- Re: Tcl foreach/for loop error (Fri Sep 06 2019 - 08:50:48 CDT)
- Re: Tcl foreach/for loop error (Fri Sep 06 2019 - 07:23:54 CDT)
- Tcl foreach/for loop error (Thu Sep 05 2019 - 16:28:51 CDT)
- Re: Atoms on top of each in wrapped trajectory (Thu Aug 15 2019 - 16:18:57 CDT)
- Atoms on top of each in wrapped trajectory (Thu Aug 15 2019 - 14:42:02 CDT)
- How the Within Command Works (Thu Aug 08 2019 - 09:28:30 CDT)
alex lin
- Re: VMD crashing when loading prmtop files (Wed Dec 17 2014 - 17:31:31 CST)
- VMD crashing when loading prmtop files (Tue Dec 16 2014 - 17:37:58 CST)
Alex Liu
- RMSF measurement (Wed Feb 23 2011 - 12:51:16 CST)
- average structure/solute and solvent (Wed Nov 24 2010 - 10:19:28 CST)
- average structure/solute and solvent (Tue Nov 23 2010 - 09:21:31 CST)
- Re: atom selection in vmd (Mon Nov 22 2010 - 16:16:45 CST)
- atom selection in vmd (Wed Nov 17 2010 - 08:49:55 CST)
Alex Nazlidis
- Re: VMD 1.9.4 won't open .crd files (Mon Apr 05 2021 - 19:10:18 CDT)
- Re: VMD 1.9.4 won't open .crd files (Mon Apr 05 2021 - 16:49:29 CDT)
- Re: VMD 1.9.4 won't open .crd files (Mon Apr 05 2021 - 15:41:45 CDT)
- VMD 1.9.4 won't open .crd files (Mon Apr 05 2021 - 15:31:11 CDT)
Alex Peralvarez Marin
- Re: VMD and BigSur (Thu Dec 17 2020 - 00:46:10 CST)
- VMD and BigSur (Wed Dec 16 2020 - 08:32:01 CST)
Alex Richards
- can't read "::vmd_pick_event": no such variable (Wed Jun 26 2013 - 11:13:33 CDT)
- Re: Atom Selection & List Generation (Wed Jun 19 2013 - 16:49:40 CDT)
- Re: Atom Selection & List Generation (Tue Jun 18 2013 - 15:31:54 CDT)
- Atom Selection & List Generation (Mon Jun 17 2013 - 16:32:12 CDT)
Alex Saad-Falcon
- New OSX Requires 64-bit DMG (Fri Jan 03 2020 - 11:42:11 CST)
- Need FFTK Help from Someone w/ Gaussian (Mon May 21 2018 - 13:05:32 CDT)
- Solvent PDB and PSF Files (Thu Mar 29 2018 - 10:50:45 CDT)
Alex Sha
- Re: Compiling VMD 1.9.3 64-bit on MacOS 10.13.6 (Mon Nov 26 2018 - 00:28:12 CST)
- Compiling VMD 1.9.3 64-bit on MacOS 10.13.6 (Fri Nov 23 2018 - 00:48:06 CST)
Alex Vakhrouchev
- Re: console in vmd-1.8.3 amd64 is blank (like white text on white background) so I can't see any output messages (Tue Jun 07 2005 - 00:09:22 CDT)
Alexander A. Vakhrushev
- Re: Windows version: Loading/writing files (Mon Oct 13 2008 - 08:49:21 CDT)
- Re: Fw: VMD 1.8.6 for UBUNTU 8.04LTS (Wed Oct 08 2008 - 23:37:06 CDT)
- Re: Problems after installation (ubuntu 8.04) (Tue Oct 07 2008 - 12:08:35 CDT)
- Re: Problems after installation (ubuntu 8.04) (Tue Oct 07 2008 - 12:03:16 CDT)
- Re: Problems after installation (ubuntu 8.04) (Fri Oct 03 2008 - 22:55:52 CDT)
- Re: Problems after installation (ubuntu 8.04) (Fri Oct 03 2008 - 08:43:39 CDT)
- Re: water box (Tue Sep 30 2008 - 09:24:43 CDT)
- Re: water box (Tue Sep 30 2008 - 04:55:46 CDT)
- Re: question about sscache (Fri Sep 26 2008 - 22:41:50 CDT)
- Re: counting gas molecules inside the nanotube (Thu Sep 18 2008 - 12:11:04 CDT)
Alexander Adams
- Re: Tcl Scripts Fails Unless Run in Tkconsole (Thu May 26 2022 - 19:53:58 CDT)
- Re: Tcl Scripts Fails Unless Run in Tkconsole (Thu May 26 2022 - 19:35:44 CDT)
- Tcl Scripts Fails Unless Run in Tkconsole (Thu May 26 2022 - 17:50:41 CDT)
- Re: qwrap installation (Wed Apr 29 2020 - 14:30:31 CDT)
- qwrap installation (Tue Apr 28 2020 - 12:36:40 CDT)
- CG Martini File for Cholesterol (Mon May 20 2019 - 10:45:50 CDT)
Alexander Balaeff
- Re: [VMD TECH] Tracing VMD Variables (Part II) (Thu May 01 1997 - 16:29:52 CDT)
- How can I make VMD use the correct graphics card in a Remote Desktop session? (Thu Oct 14 2021 - 15:17:59 CDT)
- Re: Running out of memory due to multiple mol addfile's (?) (Wed Mar 01 2017 - 13:42:37 CST)
- Re: Running out of memory due to multiple mol addfile's (?) (Fri Jan 27 2017 - 13:07:23 CST)
- Re: Running out of memory due to multiple mol addfile's (?) (Fri Jan 27 2017 - 12:59:17 CST)
- Running out of memory due to multiple mol addfile's (?) (Fri Jan 27 2017 - 00:03:15 CST)
- Re: Reading PSF files with longer than 4-letter atom types (Wed Aug 13 2014 - 13:12:06 CDT)
- Reading PSF files with longer than 4-letter atom types (Wed Aug 13 2014 - 10:59:22 CDT)
- Which Linux distribution works best with Quadro cards? (Tue Jun 04 2013 - 01:39:26 CDT)
- Re: RMSD (Sun Mar 18 2012 - 12:59:28 CDT)
- Re: ionic radii of sodium and chloride (Fri Jan 20 2012 - 13:59:55 CST)
- VMD stereo for NVidia Quadro 5000? (Mon Dec 19 2011 - 12:07:18 CST)
- Re: Assign velocities so I can color by velocity (Mon Dec 19 2011 - 11:37:36 CST)
- Files closing/Memory issues in VMD (Mon Feb 19 2007 - 14:03:54 CST)
Alexander Beerhoff
- Re: can't build VMD on MacOs Ventura: use of undeclared identifier 'msms' (Tue Mar 07 2023 - 19:55:15 CST)
- can't build VMD on MacOs Ventura: use of undeclared identifier 'msms' (Tue Mar 07 2023 - 08:56:42 CST)
- Re: Re: Fwd: Problem building vmd with ospray - OSPRayRenderer.h error: â€˜OSPModelâ€™ does not name a typ (Fri Feb 24 2023 - 16:09:58 CST)
- Fwd: Problem building vmd with ospray - OSPRayRenderer.h error: â€˜OSPModelâ€™ does not name a typ (Thu Feb 23 2023 - 22:47:16 CST)
Alexander Farley
- Re: Chromium (Sun Sep 08 2002 - 09:44:58 CDT)
- Re: stereo on linux: DTI monitors? (Sun Sep 08 2002 - 09:36:48 CDT)
Alexander Howard
- MultiSeq Database Downloading Error (Fri Jul 30 2021 - 19:03:22 CDT)
Alexander Metz
- How to get rubber-like surface with Tachyon renderer (Mon Feb 25 2008 - 09:37:02 CST)
Alexander Peyser
- Re: VMD 1.8.2 and 1.8.3 fail on MacOS X after upgrade to 10.3.8 (Wed Mar 02 2005 - 12:45:30 CST)
- Re: User colors and povray (Wed Feb 23 2005 - 16:01:19 CST)
Alexander Spaar
- Re: AMBER pbsa electrostatic potential map (Tue Apr 19 2005 - 03:58:55 CDT)
- UHBD-grids (Fri Apr 15 2005 - 04:12:57 CDT)
Alexandr Bezginov
- Fullscreen mode in VMD (Tue Oct 07 2008 - 12:34:59 CDT)
Alexandr Isayev
- Re: MultiSeq on the windows vista OS (Mon Sep 24 2007 - 14:25:00 CDT)
- Re: Displaying the periodic box ... (Thu May 24 2007 - 10:59:08 CDT)
- Re: Tachyon renderer (Wed May 16 2007 - 23:40:54 CDT)
- count variable number of molecules (Wed Feb 28 2007 - 14:23:11 CST)
- Re: rendering time bars or other vmd added graphics with povray (Mon Feb 05 2007 - 11:23:12 CST)
- Re: Beginner's problem (Tue Nov 14 2006 - 12:01:36 CST)
- Re: .pdb file from XMD (Thu Nov 02 2006 - 09:18:20 CST)
- Re: CPK Graphical Representation (Fri Oct 20 2006 - 11:48:40 CDT)
- Re: movie (Wed Oct 11 2006 - 18:46:16 CDT)
- Re: puts format (Wed Sep 13 2006 - 16:18:04 CDT)
- Re: Movie Maker in VMD (Wed Jul 05 2006 - 10:27:02 CDT)
- Re: Making a Movie (Tue Jun 20 2006 - 13:07:45 CDT)
Alexandr Kornev
- NetCDF plugin (Tue Sep 20 2011 - 17:55:59 CDT)
Alexandra Ringsby
- Re: MDAnalysis/VMD discrepancy (Fri May 08 2020 - 16:44:31 CDT)
- MDAnalysis/VMD discrepancy (Fri May 08 2020 - 15:22:28 CDT)
alexandra.marques_at_fc.up.pt
- secondary_struct script (Wed Apr 18 2007 - 11:28:43 CDT)
- hbond calculation (Mon Mar 26 2007 - 15:49:19 CDT)
- hbonds problem (Sat Feb 17 2007 - 17:52:45 CST)
- Re: sasa by residue (Thu Jan 11 2007 - 13:42:07 CST)
- sasa by residue (Mon Jan 08 2007 - 19:01:04 CST)
- python (Sun Nov 12 2006 - 11:23:39 CST)
- Re: output file format (Fri Sep 01 2006 - 14:20:35 CDT)
- output file format (Thu Aug 31 2006 - 10:20:14 CDT)
- Re: water numbering (Mon Aug 28 2006 - 10:52:03 CDT)
- water numbering (Mon Aug 28 2006 - 06:50:33 CDT)
- gyration radius for a trajectory (Fri Aug 25 2006 - 05:38:06 CDT)
- large mdcrd files (Sun Aug 20 2006 - 07:56:30 CDT)
Alexandre A. Vakhrouchev
- Re: contour plots (Mon Jul 21 2008 - 02:25:51 CDT)
- Re: Away from VMD-L/email until July 8th... (Thu Jun 19 2008 - 21:09:17 CDT)
- Re: Dipole moment? (Sat Jun 07 2008 - 13:25:40 CDT)
- Dipole moment? (Sat Jun 07 2008 - 07:21:55 CDT)
- Re: Total list of Tcl features (Sat Jun 07 2008 - 10:31:31 CDT)
- Re: Total list of Tcl features (Sat Jun 07 2008 - 01:14:37 CDT)
- Total list of Tcl features (Sat Jun 07 2008 - 00:15:05 CDT)
- Re: Individual atoms trajectory (Fri May 16 2008 - 02:08:59 CDT)
- Re: Individual atoms trajectory (Fri May 16 2008 - 01:08:22 CDT)
- Energy plot script (Wed May 14 2008 - 22:11:19 CDT)
- Individual atoms trajectory (Wed May 14 2008 - 00:34:38 CDT)
- Re: Recompile VMD with larger index types (Sun May 11 2008 - 11:20:47 CDT)
- Recompile VMD with larger index types (Sat May 10 2008 - 07:36:43 CDT)
- Atomselect in loops (Fri Nov 24 2006 - 03:50:34 CST)
Alexandre Barrozo
- Reordering atom numbers on a XYZ file (Mon Dec 05 2016 - 18:39:01 CST)
Alexandre PERRET
- hydrogen bond criteria (Thu Dec 05 2013 - 04:31:55 CST)
- Re: problem with trr file (Fri Nov 08 2013 - 10:35:24 CST)
- Re: problem with trr file (Fri Nov 08 2013 - 01:43:41 CST)
- problem with trr file (Thu Nov 07 2013 - 09:31:15 CST)
Alexandre Suman de Araujo
- TachyonL-OptiX not shown in renderer list (Thu Jan 22 2015 - 04:56:22 CST)
- Units used by Volmap Tool (Fri Aug 15 2014 - 12:54:58 CDT)
- Re: Problem with writepsf and CGenFF long atomtypes (Thu Jun 13 2013 - 13:25:44 CDT)
- Problem with writepsf and CGenFF long atomtypes (Thu Jun 13 2013 - 12:57:30 CDT)
- Re: Question about FFTK charge optimization procedure to CGENFF modeling (Tue May 14 2013 - 08:12:10 CDT)
- Question about FFTK charge optimization procedure to CGENFF modeling (Fri May 03 2013 - 15:40:41 CDT)
- Re: Does Paratool support CgenFF? (Wed Sep 28 2011 - 09:28:14 CDT)
- Re: Does Paratool support CgenFF? (Wed Sep 28 2011 - 08:39:04 CDT)
- Does Paratool support CgenFF? (Wed Sep 14 2011 - 07:22:33 CDT)
- Re: Problem with creation of child fragment in Molefacture (Wed Apr 21 2010 - 08:06:07 CDT)
- Re: Problem with creation of child fragment in Molefacture (Tue Apr 20 2010 - 20:04:05 CDT)
- Problem with creation of child fragment in Molefacture (Tue Apr 20 2010 - 14:04:31 CDT)
- Re: MergeStructs Plugin in text mode (Fri Mar 12 2010 - 13:40:03 CST)
- Re: MergeStructs Plugin in text mode (Thu Mar 11 2010 - 12:04:44 CST)
- Re: MergeStructs Plugin in text mode (Wed Mar 10 2010 - 06:03:01 CST)
- MergeStructs Plugin in text mode (Tue Mar 09 2010 - 12:24:46 CST)
- Problem using psfgen and carbohydrate charmm parameters. (Thu Oct 08 2009 - 16:19:26 CDT)
- Building polymer psf from monomer topology (Thu Jul 30 2009 - 14:48:13 CDT)
- Bug in molefacture proline residue of official version (1.8.6 LINUXAMD64) (Mon Feb 02 2009 - 12:51:46 CST)
- Problems to load Gaussian .log file in Paratool (Mon Jul 30 2007 - 13:05:56 CDT)
- Molecular Display component (Mon Mar 28 2005 - 10:56:17 CST)
- Adding Atoms in Colors Menu (Fri Apr 02 2004 - 03:33:52 CST)
Alexandre Suman de AraÃºjo
- Re: Show tcl console selections in VMD graphical display (Thu Mar 23 2023 - 09:53:42 CDT)
- Show tcl console selections in VMD graphical display (Thu Mar 23 2023 - 04:06:05 CDT)
- Re: Error "vecscale: parameters must have data" in water interaction step of FFTK (Wed Nov 18 2020 - 15:44:56 CST)
- Error "vecscale: parameters must have data" in water interaction step of FFTK (Mon Nov 16 2020 - 08:49:36 CST)
Alexandre Vakhrouchev
- (no subject) (Wed Nov 19 2003 - 02:11:14 CST)
- Re: POV-Ray (Wed Nov 12 2003 - 03:33:03 CST)
- (no subject) (Thu Nov 06 2003 - 06:43:18 CST)
- VMD and Mandrake Linux 9.1 (Thu Nov 06 2003 - 02:59:04 CST)
Alexe Bojovschi
- Small molecules alignment with VMD (Sun Jun 04 2006 - 23:16:47 CDT)
Alexei Podtelezhnikov
- RE: dihedral angles cleaned up (Fri Aug 05 2005 - 17:47:13 CDT)
- dihedral angles cleaned up! (Thu Aug 04 2005 - 11:19:31 CDT)
- dihedral angles cleaned up (Thu Aug 04 2005 - 10:09:38 CDT)
Alexei Rossokhin
- residue torsion angles (Wed Aug 14 2024 - 05:55:57 CDT)
- NAMDenergy plugin (Fri Jan 26 2024 - 07:38:58 CST)
- (no subject) (Mon Jul 10 2023 - 07:26:50 CDT)
- covalent bond (Wed Jul 05 2023 - 09:18:37 CDT)
- water bridges (Wed Jun 15 2022 - 09:14:46 CDT)
- Re: energy partitioning (Thu Oct 28 2021 - 09:14:27 CDT)
- energy partitioning (Tue Oct 26 2021 - 06:19:49 CDT)
Alexey Kozlenkov
- python disabled (Wed Jan 30 2002 - 14:53:54 CST)
- 3 simple questions from a newbie (Mon Jul 23 2001 - 07:01:43 CDT)
Alexis Salas
- problem with DPPC topology (Tue Mar 08 2005 - 14:29:43 CST)
- Activation energy (Thu Aug 19 2004 - 13:33:36 CDT)
- Solvating with TIP4 or SPC (Tue Aug 03 2004 - 16:01:03 CDT)
- TIP3 by TIP4 (Tue Aug 03 2004 - 13:57:40 CDT)
- How i can changue the charge of my protein (Mon Aug 02 2004 - 13:13:06 CDT)
Alfred Shaohui Zheng
- how to draw the bonds in VMD? (Sat Sep 06 2008 - 03:07:16 CDT)
Alfredo Quevedo
- Re: Question about the Main Menu window display (Wed Oct 15 2008 - 13:31:58 CDT)
- Question about the Main Menu window display (Fri Oct 10 2008 - 14:15:47 CDT)
Alfredo Valles
- Re: Python's future in VMD (Tue Sep 30 2003 - 08:01:05 CDT)
- python question 2 (Mon Aug 25 2003 - 04:02:10 CDT)
- python question (Sat Aug 23 2003 - 09:41:37 CDT)
- hi (Sat Aug 23 2003 - 06:15:08 CDT)
Ali Ahmed
- Reading DL_POLY trajectory (Sat May 26 2018 - 20:02:17 CDT)
Ali Alizadeh
- Re: writing improper dihedral in topotools, (Wed Aug 13 2014 - 00:33:51 CDT)
- writing improper dihedral in topotools, (Tue Aug 12 2014 - 16:31:15 CDT)
- snapshot including molecules in a distance interval (Mon May 26 2014 - 05:55:37 CDT)
- Re: Webinar on VMD's use of GPUs to accelerate MD visualization and analysis (Mon Feb 24 2014 - 10:07:36 CST)
- Re: Webinar on VMD's use of GPUs to accelerate MD visualization and analysis (Mon Feb 24 2014 - 02:00:02 CST)
- Re: Atomic trajectory to COM trajectory, (Wed Feb 05 2014 - 14:20:17 CST)
- Re: Atomic trajectory to COM trajectory, (Wed Feb 05 2014 - 05:31:39 CST)
- Re: Atomic trajectory to COM trajectory, (Tue Feb 04 2014 - 15:21:03 CST)
- Re: self-diffusion coefficient from RMSD (Fri Jan 31 2014 - 12:45:41 CST)
- Re: self-diffusion coefficient from RMSD (Thu Jan 30 2014 - 06:57:55 CST)
- Re: Atomic trajectory to COM trajectory, (Wed Dec 11 2013 - 17:29:26 CST)
- Re: Atomic trajectory to COM trajectory, (Mon Dec 09 2013 - 13:13:49 CST)
- Re: Atomic trajectory to COM trajectory, (Mon Dec 09 2013 - 12:43:57 CST)
- Re: Atomic trajectory to COM trajectory, (Mon Dec 09 2013 - 10:26:49 CST)
- Re: Atomic trajectory to COM trajectory, (Mon Dec 09 2013 - 09:55:58 CST)
- Atomic trajectory to COM trajectory, (Mon Dec 09 2013 - 07:09:30 CST)
- Re: Add a gap in my simulation (Thu Sep 05 2013 - 14:41:00 CDT)
- Add a gap in my simulation (Thu Sep 05 2013 - 11:40:46 CDT)
- Add a gap in my simulation (Thu Sep 05 2013 - 11:36:54 CDT)
- Re: Considering special bonds not all of bonds, (Wed Aug 07 2013 - 16:07:29 CDT)
- Re: Considering special bonds not all of bonds, (Wed Aug 07 2013 - 15:03:10 CDT)
- Re: Considering special bonds not all of bonds, (Wed Aug 07 2013 - 12:42:56 CDT)
- Considering special bonds not all of bonds, (Wed Aug 07 2013 - 08:03:40 CDT)
- Re: Dihedrals (Wed Jun 05 2013 - 10:22:45 CDT)
- Re: Dihedrals (Wed Jun 05 2013 - 09:28:19 CDT)
- Dihedrals (Wed Jun 05 2013 - 07:48:14 CDT)
- Re: problem with g(r) (Sun Feb 10 2013 - 03:01:41 CST)
- problem with g(r) (Sat Feb 09 2013 - 08:29:46 CST)
Ali Deyhim
- Re: free sample!!! (Wed May 09 2001 - 10:35:13 CDT)
Ali Khanlarkhani
- Convergence of the Gram-Charlier expansion (Wed Sep 26 2012 - 15:24:20 CDT)
- Convergence of the Gram-Charlier expansion (Wed Sep 26 2012 - 15:25:54 CDT)
- Convergence of the Gram-Charlier expansion (Wed Sep 26 2012 - 10:36:37 CDT)
Ali Morshedi
- Re: Creating and using a tk button (Tue Apr 09 2019 - 01:22:22 CDT)
- Creating and using a tk button (Sun Apr 07 2019 - 03:34:39 CDT)
Ali Osman Acar
- Re: Loading files (Wed Apr 07 2021 - 15:50:54 CDT)
- Re: Loading files (Wed Apr 07 2021 - 14:07:11 CDT)
Ali Sheikholeslam
- Needing to visualize lots of spheres during solution steps (Tue Jan 25 2022 - 13:34:14 CST)
Ali, Rejwan
- RE: Issues with Paratools and Gaussian (Wed Jan 12 2011 - 12:13:54 CST)
- FW: Issues with Paratools and Gaussian (Wed Jan 12 2011 - 11:57:16 CST)
- RE: Issues with Paratools and Gaussian (Wed Jan 12 2011 - 11:54:33 CST)
- Issues with Paratools and Gaussian (Tue Jan 11 2011 - 14:51:18 CST)
ali.kamrani91_at_REMOVE_yahoo.com
- Transparent QuickSurf (Tue May 26 2020 - 12:29:29 CDT)
Aliakbartehrani Zahra
- Dynamical network analysis-NetworkView-error (Mon Nov 25 2019 - 04:56:22 CST)
Aliasghar Alizadeh-Mojarad
- Re: merging independent dcd files, (Thu Jul 28 2016 - 14:35:26 CDT)
- merging independent dcd files, (Tue Jul 26 2016 - 22:05:10 CDT)
- much larger diameter of ssDNA, (Sat Jun 04 2016 - 04:22:41 CDT)
Alicia Hopkins
- measuring h-bonds (Sun Sep 19 2004 - 08:42:12 CDT)
- measuring h-bonds (Thu Sep 16 2004 - 09:24:33 CDT)
- measuring h-bond distances (Sat Sep 11 2004 - 12:01:58 CDT)
Alilovic,Kata
- RBCG models using Martini forces - psf file (Mon Jul 13 2020 - 09:13:19 CDT)
- Re: Unable to create PSF file (Fri Jul 03 2020 - 12:55:10 CDT)
- Unable to create PSF file (Thu Jul 02 2020 - 16:04:29 CDT)
Alin Marin Elena - UKRI STFC
- Re: VR (Wed Aug 22 2018 - 15:49:22 CDT)
Alin-Marin Elena - STFC UKRI
- Re: VMD high DPI (Fri Jul 30 2021 - 03:06:33 CDT)
Alisha \
- cyclic peptides (Fri Jul 22 2011 - 13:09:55 CDT)
- Mutating a residue to a nonstandard amino acid (Tue Jul 19 2011 - 16:14:56 CDT)
Alison Grinthal
- list of residue contacts (Wed Sep 23 2009 - 15:02:23 CDT)
- Re: measure rmsf (Fri Jul 10 2009 - 13:10:14 CDT)
- measure rmsf (Fri Jul 10 2009 - 08:31:26 CDT)
- alignment (Fri Jun 19 2009 - 09:45:28 CDT)
- movie maker (Tue Jun 16 2009 - 09:44:48 CDT)
- helix axes (Tue Mar 31 2009 - 07:34:56 CDT)
- center of mass (Mon Jan 12 2009 - 13:51:43 CST)
- plotting on Mac (Fri Aug 10 2007 - 14:50:11 CDT)
- overlay (Tue May 29 2007 - 15:58:18 CDT)
- overlay (Mon May 28 2007 - 06:45:38 CDT)
ALIYUN
- how to make the structures in the movie look better (Mon Sep 29 2014 - 05:06:14 CDT)
Allen, Caley R
- Positioning protein on membrane-water interface (Fri Jun 17 2016 - 14:27:23 CDT)
- SMD Force TCL Script in NAMD (Sun May 01 2016 - 19:54:09 CDT)
- Re: FATAL ERROR: UNABLE TO FIND DIHEDRAL PARAMETERS FOR NH3 CT1 CT2A CT2 (ATOMS 1 5 7 10) (Mon Jan 27 2014 - 12:32:45 CST)
- Re: FATAL ERROR: UNABLE TO FIND DIHEDRAL PARAMETERS FOR NH3 CT1 CT2A CT2 (ATOMS 1 5 7 10) (Thu Jan 23 2014 - 16:00:54 CST)
- FATAL ERROR: UNABLE TO FIND DIHEDRAL PARAMETERS FOR NH3 CT1 CT2A CT2 (ATOMS 1 5 7 10) (Thu Jan 23 2014 - 13:37:06 CST)
Allison Rossetto
- Re: Command not found Error (Thu Feb 14 2013 - 11:55:58 CST)
- Command not found Error (Mon Feb 11 2013 - 16:02:50 CST)
Allison, Jane
- PhD and postdoctoral positions in biomolecular simulation (Thu Jan 07 2016 - 15:50:48 CST)
Almeida-Hernández, Yasser, Dr.
- Re: Re: FFTK Opt Torsions: can not find channel named "" (Tue Sep 29 2020 - 11:49:53 CDT)
- Re: FFTK Opt Torsions: can not find channel named "" (Tue Sep 29 2020 - 04:25:09 CDT)
- FFTK Opt Torsions: can not find channel named "" (Mon Sep 28 2020 - 05:45:50 CDT)
- Re: New LAMMPS atom style for TopoTools (Thu Aug 20 2020 - 03:16:52 CDT)
Almira Ovagimyan
- Re: Tcl (Fri Jul 19 2019 - 02:14:51 CDT)
- Tcl (Thu Jul 18 2019 - 07:36:15 CDT)
- Tcl (Thu Apr 11 2019 - 15:20:42 CDT)
Althea Lake
- You and a Rolex watch (Tue Apr 15 2008 - 17:12:00 CDT)
Alvea Tasneem
- measure sasa algorithm? (Fri Jan 06 2023 - 11:25:23 CST)
- Issue in wat_hbond.tcl script (Thu Mar 24 2022 - 12:47:24 CDT)
- Any TCL script to identify specific MD water molecules with their respective IDs, forming hbond with certain residues in every frame (Wed Feb 02 2022 - 11:48:23 CST)
Amadeu
- Re: povray problem: degenerate cylinder (Fri May 05 2006 - 09:48:43 CDT)
- povray problem: degenerate cylinder (Fri May 05 2006 - 07:09:51 CDT)
Amali Guruge
- VMD Slices (Wed May 06 2020 - 19:38:02 CDT)
Aman Jindal
- Re: Adding Hydroxide Ions to the simulation box (Wed Mar 21 2018 - 00:56:31 CDT)
- Adding Hydroxide Ions to the simulation box (Tue Mar 20 2018 - 01:56:10 CDT)
- Unable to build a symmetric (m=0) zigzag BN nanotube in VMD (Wed Feb 28 2018 - 01:29:20 CST)
- replicating a trajectory in VMD (Sun Mar 19 2017 - 06:01:28 CDT)
- Re: change_tkconsole_color_of_background_and_foreground (Sun Dec 04 2016 - 06:26:33 CST)
- Re: change_tkconsole_color_of_background_and_foreground (Sun Dec 04 2016 - 07:15:31 CST)
- labeling index of atoms of a particular type (Sat May 14 2016 - 05:19:40 CDT)
Amanda Jenkins
- Re: Ramachandran Dihedral Angles Suspiciously Constant (Sun Sep 25 2022 - 21:35:55 CDT)
- Re: Ramachandran Dihedral Angles Suspiciously Constant (Sat Sep 24 2022 - 21:22:13 CDT)
- Re: Ramachandran Dihedral Angles Suspiciously Constant (Sat Sep 24 2022 - 17:20:27 CDT)
- Re: Ramachandran Dihedral Angles Suspiciously Constant (Fri Sep 23 2022 - 21:19:26 CDT)
- Ramachandran Dihedral Angles Suspiciously Constant (Fri Sep 23 2022 - 05:14:30 CDT)
Amarda Shehu
- Re: how to reset a timed out connection (Tue Apr 24 2007 - 13:55:24 CDT)
- how to reset a timed out connection (Tue Apr 24 2007 - 09:23:44 CDT)
- Re: Best fit plane axis (Fri Dec 08 2006 - 14:21:19 CST)
- special instructions in psfgen for circular proteins? (Thu Mar 30 2006 - 16:50:02 CST)
- understanding NOE restraints (Mon May 02 2005 - 18:56:34 CDT)
- criteria for detecting hydrogen bonds (Sun Apr 17 2005 - 18:14:21 CDT)
- handling electron density maps (.mrc and .map files) (Sat Dec 18 2004 - 15:29:30 CST)
- outputing xyz coordinates of selection (Sat Oct 23 2004 - 14:58:21 CDT)
- Re: superimposing frames (Wed Sep 22 2004 - 12:16:56 CDT)
- superimposing frames (Wed Sep 22 2004 - 10:51:57 CDT)
Amaury Pupo Meriño
- saltbr plugging problem: too many open files (Fri Dec 21 2007 - 09:31:07 CST)
Amendra Fernando Hewa Dewage
- atoms within a radius cutoff and a percentage cutoff of a trajectory (Fri Jun 21 2019 - 15:27:01 CDT)
Ameya Harmalkar
- Color specific frames with specific colors in a trajectory (Sat Aug 01 2020 - 17:58:24 CDT)
Amin Koochaki
- Re: Coloring of a trajectory with atom types more than 9 (Thu Mar 29 2018 - 14:58:09 CDT)
- Coloring of a trajectory with atom types more than 9 (Thu Mar 29 2018 - 05:12:36 CDT)
amin sagar
- Re: Image render in VMD (Tue Jan 31 2023 - 07:58:50 CST)
- Using VolMap for center of mass (Mon Aug 10 2020 - 11:16:29 CDT)
- Re: Counting the number of ligand molecules around my protein (Thu Apr 16 2020 - 11:30:24 CDT)
- Re: selecting residues in a heterodimer (Mon Oct 29 2018 - 05:27:38 CDT)
- Re: selecting residues in a heterodimer (Mon Oct 29 2018 - 02:54:16 CDT)
- Re: selecting residues in a heterodimer (Mon Oct 29 2018 - 02:47:31 CDT)
- Network Path Backtraces (Sat Aug 18 2018 - 13:13:41 CDT)
- Re: display residues near ligand (Sat Aug 11 2018 - 03:14:12 CDT)
- Re: split multi frame pdb (Mon Jul 30 2018 - 00:57:09 CDT)
- Drastically different number of suboptimal paths in similar simulations (Tue Apr 10 2018 - 10:17:54 CDT)
- Re: setting up POPS or POPG in VMD (Tue Feb 13 2018 - 13:36:17 CST)
- Re: selecting residues within 5-10A of another molecule (Wed Jan 10 2018 - 23:57:28 CST)
- Re: Smoothening labels in vmd (Tue Oct 10 2017 - 10:57:57 CDT)
- Re: Error while using Alanine Scanning Plugin (Fri Sep 01 2017 - 08:33:17 CDT)
- Re: Error while using Alanine Scanning Plugin (Thu Aug 31 2017 - 01:28:35 CDT)
- Error while using Alanine Scanning Plugin (Tue Aug 29 2017 - 08:37:47 CDT)
amin_at_imtech.res.in
- RE: Problem while using multiseq (Sun Dec 25 2016 - 07:57:03 CST)
- Problem while using multiseq (Thu Dec 22 2016 - 08:01:57 CST)
- Calculate angles using fit_angle.tcl (Sat Oct 15 2016 - 03:25:48 CDT)
- Re: removing water from dcd file (Tue Mar 18 2014 - 12:03:26 CDT)
- Re: how to visualize water movement over trajectory (Sun Apr 07 2013 - 02:12:49 CDT)
- Re: Solvating protein in water sucrose solution (Tue Nov 06 2012 - 22:18:43 CST)
- Solvating protein in water sucrose solution (Tue Nov 06 2012 - 11:01:17 CST)
- RE: Joining DCD files with overlapping frames. (Fri Jul 20 2012 - 08:53:47 CDT)
- RE: Joining DCD files with overlapping frames (Fri Jul 20 2012 - 05:21:58 CDT)
- Joining DCD files with overlapping frames. (Thu Jul 19 2012 - 21:53:08 CDT)
- Re: gromacs trajectory file (Thu May 03 2012 - 02:51:23 CDT)
- Re: Free software for building peptide (Wed May 02 2012 - 04:06:30 CDT)
- Re:Problem with generating psf using CGENFF (Fri Apr 27 2012 - 22:46:21 CDT)
- Re:Problem with generating psf using CGENFF (Fri Apr 27 2012 - 22:35:16 CDT)
- RE: Problem with generating psf using CGENFF (Thu Apr 26 2012 - 23:34:55 CDT)
- Re: Problem with generating psf using CGENFF (Thu Apr 26 2012 - 13:00:01 CDT)
- Re: Problem with generating psf using CGENFF (Thu Apr 26 2012 - 12:26:50 CDT)
- Re: Problem with generating psf using CGENFF (Thu Apr 26 2012 - 11:37:56 CDT)
- Problem with generating psf using CGENFF (Thu Apr 26 2012 - 04:42:40 CDT)
- segmentation fault with NAMDenergy (Thu Apr 19 2012 - 20:12:53 CDT)
- Simulations with alpha methylated amino acids (Wed Mar 14 2012 - 20:17:04 CDT)
Amir
- Re: atomselection near periodic boundaries (Mon Feb 19 2024 - 12:49:35 CST)
- atomselection near periodic boundaries (Sun Feb 18 2024 - 14:54:49 CST)
Amir Afshar
- Re: Build graphene sheets using VMD (Thu Feb 20 2020 - 16:12:17 CST)
- Build graphene sheets using VMD (Thu Feb 20 2020 - 15:47:46 CST)
- Re: Check and remove the overlapping between atoms (Sat Feb 15 2020 - 17:14:23 CST)
- Re: Check and remove the overlapping between atoms (Sat Feb 15 2020 - 15:18:32 CST)
- Re: Check and remove the overlapping between atoms (Sat Feb 15 2020 - 13:31:55 CST)
- Check and remove the overlapping between atoms (Sat Feb 15 2020 - 10:26:43 CST)
Amir Hajiahmadi Farmahini
- RDF and Coordination Number (Fri May 28 2010 - 05:40:15 CDT)
- Re: Atom Selection for RDF (Sat May 22 2010 - 12:15:36 CDT)
- Atom Selection for RDF (Sat May 22 2010 - 09:19:18 CDT)
Amir Hossein Saeedi Dehaghani
- Deleting a given bond type by topo tool (Wed Jul 18 2018 - 07:15:40 CDT)
- Deleting a given bond type by topo tool (Tue Jul 17 2018 - 02:58:20 CDT)
Amir Suhail
- Re: topotool lammps data_file viewing (Sun Sep 06 2020 - 06:50:38 CDT)
- NAMD .coor file to pdb, WRITE PDB ERROR. (Thu Oct 03 2019 - 05:27:35 CDT)
- solvate protein in triclinic box (Wed Oct 02 2019 - 10:37:26 CDT)
Amir Zeb
- VMD Error: vecsub: two vectors don't have the same size (Thu Aug 26 2021 - 02:03:51 CDT)
- how to solvate the membrane in vmd?? (Thu Aug 05 2021 - 07:55:38 CDT)
- Autopsf error (Mon Jul 05 2021 - 21:48:42 CDT)
Amira Yu
- Re: Charge optimization in ffTK (Thu Nov 05 2015 - 07:20:32 CST)
- Re: Charge optimization in ffTK (Wed Nov 04 2015 - 14:05:26 CST)
- Charge optimization in ffTK (Wed Nov 04 2015 - 09:09:39 CST)
- ffTK charge optimizations (Fri Oct 30 2015 - 09:22:24 CDT)
- Re: IR Spectroscopy plugin questions (Wed Jun 03 2015 - 20:42:41 CDT)
- IR Spectroscopy plugin questions (Wed Jun 03 2015 - 17:39:49 CDT)
- FFTK: Running optimizations in batch? (Wed Mar 25 2015 - 22:09:15 CDT)
amirhossein taghavi
- VMD warnings (Fri Oct 24 2014 - 01:58:41 CDT)
- select a group of atoms/distance measurement (Fri Sep 26 2014 - 07:59:17 CDT)
Amit
- Small molecules (Fri Oct 12 2007 - 18:02:51 CDT)
amit dong
- glycerol box (Thu Jun 28 2007 - 11:14:12 CDT)
- H-bonds (Tue Apr 24 2007 - 10:58:13 CDT)
- contact map (over all frames) (Fri Apr 13 2007 - 15:53:24 CDT)
- H-bond energy (Thu Jan 18 2007 - 18:13:11 CST)
Amit Gupta
- Re: Accessing tachyon optix from commandline and dat file generation (Mon Apr 03 2017 - 04:16:44 CDT)
- Accessing tachyon optix from commandline and dat file generation (Mon Apr 03 2017 - 01:41:09 CDT)
- Re: Rendering images like those shown on VMD home page (Sat Jan 14 2017 - 07:30:10 CST)
- Re: Rendering images like those shown on VMD home page (Sat Jan 14 2017 - 02:58:58 CST)
- Re: Rendering images like those shown on VMD home page (Sat Jan 14 2017 - 00:32:03 CST)
- Rendering images like those shown on VMD home page (Fri Jan 13 2017 - 22:57:34 CST)
- Re: Fw: Draw arrows in trajectory file (Tue Dec 20 2016 - 09:54:03 CST)
- Re: Fw: Draw arrows in trajectory file (Tue Dec 20 2016 - 07:25:02 CST)
- Re: Fw: Draw arrows in trajectory file (Tue Dec 20 2016 - 06:28:54 CST)
- Fw: Draw arrows in trajectory file (Tue Dec 20 2016 - 03:45:40 CST)
- Draw arrows in trajectory file (Tue Dec 20 2016 - 00:31:18 CST)
Amit Jaiswal
- Re: Reg: Peptide dimer (Wed Oct 01 2014 - 23:12:13 CDT)
- Reg: Peptide dimer (Wed Oct 01 2014 - 03:42:30 CDT)
- Reg: Peptide dimer (Tue Sep 30 2014 - 06:18:14 CDT)
- Re: vmd-l digest V1 #2344 (Sun Mar 24 2013 - 02:26:04 CDT)
amit kunte
- Re: Dynamic number of atoms visualization (Sat Jul 20 2013 - 07:31:42 CDT)
- Dynamic number of atoms visualization (Sat Jul 20 2013 - 05:36:19 CDT)
- Visualise variable atoms (Thu Jun 27 2013 - 01:34:09 CDT)
- variable atoms visualization (Wed Jun 26 2013 - 23:28:17 CDT)
- Change atom color dynamically. (Wed Jun 05 2013 - 02:12:49 CDT)
Amit Paliwal
- dcd to coor files (Fri May 14 2004 - 15:18:26 CDT)
- Re: trouble loading dcd files (Sun May 09 2004 - 09:48:37 CDT)
- Re: RE: trouble loading dcd files (Sun May 09 2004 - 09:53:07 CDT)
- trouble loading dcd files (Sat May 08 2004 - 23:43:13 CDT)
amit_at_mbu.iisc.ernet.in
- Dynamic selection of residues on a trajectory (Tue Nov 07 2006 - 11:07:13 CST)
- Dynamic selection of residues on a trajectory (Tue Nov 07 2006 - 10:45:19 CST)
- Selection of residues in a trajectory (Tue Oct 31 2006 - 13:50:23 CST)
Amnah Alalmaie
- VR movie (Wed Aug 25 2021 - 21:18:01 CDT)
- Place complex in the center (Wed May 12 2021 - 14:13:11 CDT)
- Problem with the Box (Thu Mar 18 2021 - 15:43:30 CDT)
amodzelewska_at_dns.iimcb.gov.pl
- autoionize script (Sun May 16 2004 - 13:21:58 CDT)
amodzelewska_at_iimcb.gov.pl
- Re: error when solvating protein/vmd1.8.4a22 (Tue Nov 08 2005 - 08:44:30 CST)
Amor San Juan
- VMD: Ability to add terminal carbonyl oxygen (Sun Nov 07 2010 - 23:32:20 CST)
Amr Rizq
- RE: Problem in IMD with Compiled VMD (Wed Mar 04 2009 - 09:20:20 CST)
- RE: Problem in IMD with Compiled VMD (Wed Mar 04 2009 - 08:55:33 CST)
- Problem in IMD with Compiled VMD (Wed Mar 04 2009 - 06:00:58 CST)
- Equivalent Mouse Capabilities to Tracker CAVELib (Mon Feb 09 2009 - 07:06:26 CST)
Amrit Kalra
- Viewing Amber6 trajectory with VMD 1.8.1 (Mon Oct 20 2003 - 01:21:03 CDT)
Amy Rice
- Re: Difference in ParseFEP result with versions 1.9.2 and 2.1 (Tue Feb 19 2019 - 10:34:03 CST)
- Difference in ParseFEP result with versions 1.9.2 and 2.1 (Mon Feb 18 2019 - 15:16:00 CST)
- Re: Custom Water Box (Wed Jul 27 2016 - 12:46:51 CDT)
- Re: ffTK: Charge optimization (Tue Sep 22 2015 - 11:26:48 CDT)
- ffTK: Charge optimization (Thu Sep 17 2015 - 14:39:05 CDT)
Ana Celia Araujo Vila Verde
- RE: tcl variable withing variable name (Thu Apr 19 2007 - 10:29:43 CDT)
- RE: Calculate End-End distance for DCD (Tue Mar 13 2007 - 16:17:48 CDT)
- RE: Delete frames in a script (Tue Jan 30 2007 - 10:08:50 CST)
- RE: rotation to align (Fri Jan 19 2007 - 07:59:55 CST)
- script to load dcds from Replica Exchange simulations by Temperature (Mon Jan 15 2007 - 17:30:44 CST)
- RE: imposing period boundary conditions in a simulation with a crystal (Wed Sep 06 2006 - 08:31:59 CDT)
- imposing period boundary conditions in a simulation with a crystal (Tue Sep 05 2006 - 11:13:06 CDT)
- Re: problem with measure command (Fri Jun 23 2006 - 11:02:14 CDT)
- problem with measure command (Fri Jun 23 2006 - 10:22:49 CDT)
- the crystal structure of gold: questions about making the psf and about visualization in VMD; update (Tue May 23 2006 - 14:47:00 CDT)
- the crystal structure of gold: questions about making the psf and about visualization in VMD (Tue May 23 2006 - 11:36:54 CDT)
- RE: problem with script to get RMSD-solved (Tue Feb 21 2006 - 10:53:16 CST)
- RE: problem with script to get RMSD (Fri Feb 17 2006 - 14:10:10 CST)
- RE: problem with script to get RMSD (Fri Feb 17 2006 - 08:41:20 CST)
- RE: problem with script to get RMSD (Thu Feb 16 2006 - 15:49:23 CST)
- problem with script to get RMSD (Thu Feb 16 2006 - 13:31:28 CST)
- RE: printing to a file from a procedure to get RMSD (Thu Feb 02 2006 - 08:35:30 CST)
- printing to a file from a procedure to get RMSD (Tue Jan 31 2006 - 10:28:37 CST)
- psfgen error: MOLECULE DESTROYED BY FATAL ERROR (Tue Nov 22 2005 - 13:13:15 CST)
Ana Celia Vila Verde
- Re: a question about g(r) (Thu Mar 03 2016 - 09:30:18 CST)
- Re: A nanosphere with mass (Mon Feb 01 2016 - 01:55:14 CST)
- possible issue with specden package (Mon Nov 23 2015 - 09:19:35 CST)
- a question regarding the signalproc package (Thu Jul 09 2015 - 10:34:08 CDT)
- Fwd: namd-l: Free Energy Workshop, MÃ¼nster, March 9-11, 2015 (Fri Jan 09 2015 - 06:34:01 CST)
- Fwd: namd-l: Free Energy Workshop, MÃ¼nster, March 9-11, 2015 (Fri Jan 09 2015 - 03:35:00 CST)
- Re: Protein went out of the Box (Mon Sep 29 2014 - 09:21:18 CDT)
- Re: measure hbonds in VMD tcl script (Fri Sep 19 2014 - 06:31:36 CDT)
- Re: measure hbonds in VMD tcl script (Fri Sep 19 2014 - 05:57:45 CDT)
- Re: Selection along line in 3D (Sat Sep 06 2014 - 03:39:38 CDT)
- Re: hbonds (Tue Jul 15 2014 - 06:56:42 CDT)
- Re: number of water molecules within 5 angstroms of the ligand (Tue May 06 2014 - 01:35:14 CDT)
- Re: topology file for metal in the protein (Fri Aug 10 2012 - 02:30:51 CDT)
- Re: Selecting based on parameters from another file (Fri Aug 10 2012 - 02:23:27 CDT)
- Re: diffusion coefficient plug-in in VMD (Tue May 08 2012 - 11:17:41 CDT)
- Re: counting specific atom types (Tue May 08 2012 - 09:31:23 CDT)
- Re: get avg ca distance (Fri Mar 09 2012 - 02:10:56 CST)
- Re: Using VMD to plot coordination number of solvated ion v/s time (Fri Mar 02 2012 - 10:15:23 CST)
- possible memory leak with pbc wrap (Fri Feb 24 2012 - 09:16:59 CST)
- package ::struct::set not available (Thu Jan 26 2012 - 08:36:56 CST)
- RE: a question about dcd files (Thu Feb 02 2006 - 08:32:35 CST)
- a question about dcd files (Wed Feb 01 2006 - 13:53:39 CST)
Ana Célia Vila Verde
- problem with density map obtained by volmap (Sun Sep 20 2009 - 08:01:12 CDT)
Ana Vila Verde
- Re: measure hbonds between protein and water - problem with periodic boundary conditions (Thu Apr 17 2008 - 05:54:50 CDT)
- measure hbonds between protein and water - problem with periodic boundary conditions (Thu Apr 17 2008 - 02:54:08 CDT)
Anand Kaushal
- python callback!!!! (Wed Jul 28 2004 - 16:19:15 CDT)
Ananya Nayak
- Missing operand error in vmd pathways plugin (Thu Dec 14 2023 - 01:29:56 CST)
- (no subject) (Tue Dec 12 2023 - 23:06:48 CST)
Ananyo Bandyopadhyay
- Creating a cuboid box to fit in atoms (Thu Sep 25 2008 - 13:29:15 CDT)
- Movie maker problem in VMD (Wed Sep 24 2008 - 11:11:14 CDT)
anas forum
- How to create a color ramp in VMD? (Wed Oct 27 2021 - 06:55:37 CDT)
Anatoliy
- question about ionization (Wed Nov 07 2007 - 12:10:12 CST)
- question about water sphere script (Mon Nov 05 2007 - 11:21:54 CST)
Anatoly Chernyshev
- PSFgen failure (Mon Nov 05 2018 - 07:13:11 CST)
Anders Gabrielsson
- PMEPot plugin: epilon-surface (Wed Sep 16 2015 - 04:29:29 CDT)
- Re: Interactive Optix ray tracing on multiple GPUs? (Wed Aug 26 2015 - 11:18:18 CDT)
- Re: Interactive Optix ray tracing on multiple GPUs? (Wed Aug 26 2015 - 10:56:20 CDT)
- Re: Interactive Optix ray tracing on multiple GPUs? (Wed Aug 26 2015 - 10:19:26 CDT)
- Interactive Optix ray tracing on multiple GPUs? (Tue Aug 25 2015 - 09:08:04 CDT)
Andras Borosy
- automatic extraction of RMSD values of the heavy atoms of residues from NAMD output? (Tue Aug 05 2014 - 03:10:51 CDT)
andras.borosy_at_givaudan.com
- unique opportunity - 20% discount for the EuroQSAR 2006 (Tue Aug 15 2006 - 10:54:04 CDT)
- Periodic builder? (Tue Aug 08 2006 - 07:26:51 CDT)
Andre Farias de Moura
- Re: mpg image speed (Mon Apr 11 2005 - 09:40:46 CDT)
- drawing the edges of a non-rectangular box (Fri Mar 11 2005 - 06:17:46 CST)
- center of mass position (Tue Aug 24 2004 - 07:07:24 CDT)
andre padilla
- macosx 10.6 compilation issue (Thu Apr 19 2018 - 07:23:47 CDT)
- source download (Mon Apr 16 2018 - 08:17:40 CDT)
andrea
- Re: GTP and GDP parameter files (Wed Oct 15 2014 - 15:38:14 CDT)
- Re: Making trajectory movie last longer. (Wed Sep 03 2014 - 09:38:21 CDT)
Andrea Bernini
- H-bonds? (Wed Mar 05 1997 - 06:36:47 CST)
Andrea Carotti
- Bigdcd and Namdenergy batch problem (Wed Feb 24 2010 - 10:21:34 CST)
- Atom sorting according to resid (Wed Oct 21 2009 - 10:16:33 CDT)
- CatDCD Desmond Support (Wed Oct 07 2009 - 10:31:53 CDT)
- SAS values for a residue (Wed Jul 27 2005 - 07:58:45 CDT)
- Re: Script for automated selection (Wed Jun 22 2005 - 03:28:54 CDT)
- Script for automated selection (Mon Jun 20 2005 - 09:38:51 CDT)
Andrea Cristiani
- Fixed number of solvatation water (Wed Apr 25 2007 - 04:56:41 CDT)
Andrea Holfelder
- Re: Saving ionized.psf from add ions plug in of VMD (Wed Aug 31 2011 - 14:27:04 CDT)
- Saving ionized.psf from add ions plug in of VMD (Wed Aug 31 2011 - 10:35:45 CDT)
Andrea Kirkpatrick
- psfgen, mutate, and multiple chains (Mon Jul 09 2012 - 17:31:35 CDT)
Andrea Spitaleri
- Re: Accessing tachyon optix from commandline and dat file generation (Tue Apr 04 2017 - 05:04:45 CDT)
- Re: Accessing tachyon optix from commandline and dat file generation (Mon Apr 03 2017 - 02:36:37 CDT)
- open position in Computational Physics (Tue Mar 08 2016 - 06:00:24 CST)
- Re: Problem of VMD in ubuntu 14.04 (Fri Oct 23 2015 - 07:35:06 CDT)
- Re: Problems_calling_VMD_remotely_from_cluster (Tue Sep 29 2015 - 10:58:41 CDT)
- Re: nvidia cuda mismatch (Sun Aug 23 2015 - 11:21:05 CDT)
- Re: nvidia cuda mismatch (Wed Aug 19 2015 - 02:02:47 CDT)
- Re: nvidia cuda mismatch (Tue Aug 18 2015 - 04:10:24 CDT)
- nvidia cuda mismatch (Thu Aug 13 2015 - 10:58:39 CDT)
- Re: Updated VMD 1.9.2. Gromacs plugins posted for download (Tue Apr 14 2015 - 01:46:02 CDT)
- Re: crash with 1.9.2 and not with 1.9.1 (Thu Apr 09 2015 - 08:23:58 CDT)
- Re: crash with 1.9.2 and not with 1.9.1 (Thu Apr 09 2015 - 08:14:50 CDT)
- crash with 1.9.2 and not with 1.9.1 (Thu Apr 09 2015 - 07:14:52 CDT)
- Re: optixRender error (Sun Jan 25 2015 - 15:45:57 CST)
- optixRender error (Fri Jan 23 2015 - 12:37:43 CST)
- Re: AW: AW: The quality of movie made by VMD (Thu Jan 22 2015 - 04:40:35 CST)
- Re: AW: ion visualization in VMD (Thu Jan 22 2015 - 04:30:00 CST)
- Re: transparent material: set different opacity (Fri Mar 08 2013 - 09:19:38 CST)
- transparent material: set different opacity (Fri Mar 08 2013 - 08:19:14 CST)
- Re: About PLUMED with NAMD VMD (Thu Feb 28 2013 - 02:46:34 CST)
- Re: silly rmsd script doesn' t work ... (Fri May 30 2008 - 08:28:40 CDT)
- silly rmsd script doesn' t work ... (Fri May 30 2008 - 07:17:16 CDT)
- Re: resolution screen in Linux (Mon Apr 28 2008 - 02:54:15 CDT)
- resolution screen in Linux (Thu Apr 24 2008 - 07:33:24 CDT)
- color by frame? (Mon May 07 2007 - 04:58:40 CDT)
- rmsf (Tue Sep 19 2006 - 10:40:15 CDT)
- select only border of the water box (Fri Aug 04 2006 - 04:41:00 CDT)
- Re: number of frames in pdb file? (Fri May 26 2006 - 03:01:41 CDT)
- rms and align strucs (Wed Apr 19 2006 - 06:05:50 CDT)
- contact map lig-pro (Wed Apr 19 2006 - 05:37:23 CDT)
- Re: dict command (Thu Apr 06 2006 - 02:43:21 CDT)
- dict command (Wed Apr 05 2006 - 09:44:50 CDT)
- find neighbour ligand-protein (Thu Mar 23 2006 - 08:53:40 CST)
- Re: VMD script (Tue Mar 14 2006 - 05:05:00 CST)
- Re: VMD script (Mon Mar 13 2006 - 04:19:55 CST)
- Re: tcl-reading files (Mon Feb 13 2006 - 08:42:49 CST)
- Re: vmd installation on the server (Tue Jan 31 2006 - 03:25:19 CST)
- vmd installation on the server (Mon Jan 30 2006 - 09:31:46 CST)
- contact map [Re: vmd-xplor and noe call ] (Thu Dec 15 2005 - 10:13:30 CST)
- vmd-xplor and noe call (Thu Dec 15 2005 - 05:16:58 CST)
- discriminate aromatic ring face (Mon Dec 05 2005 - 09:54:38 CST)
- Re: s-s bond in vmd not visualized (Mon Dec 05 2005 - 03:24:16 CST)
- Re: s-s bond in vmd not visualized (Tue Nov 29 2005 - 03:22:52 CST)
- Re: s-s bond in vmd not visualized (Wed Nov 23 2005 - 03:05:39 CST)
- s-s bond in vmd not visualized (Tue Nov 22 2005 - 07:03:52 CST)
- Re: calculate rmsd in a loop:feedback [sorry if you get it twice] (Fri Nov 18 2005 - 10:16:01 CST)
- Re: calculate rmsd in a loop:feedback [sorry if you get it twice] (Fri Nov 18 2005 - 05:31:21 CST)
- Re: calculate rmsd in a loop:feedback [sorry if you get it twice] (Fri Nov 18 2005 - 03:42:29 CST)
- Re: Réf. : calculate rmsd in a loop:feedback [sorry if you get it twice] (Thu Nov 17 2005 - 04:14:01 CST)
- calculate rmsd in a loop:feedback [sorry if you get it twice] (Thu Nov 17 2005 - 02:50:19 CST)
- increase size membrane (Fri Nov 04 2005 - 02:58:43 CST)
- Re: position of protein respect to membrane (Tue Sep 27 2005 - 04:00:31 CDT)
- Re: position of protein respect to membrane (Tue Sep 27 2005 - 03:41:35 CDT)
- position of protein respect to membrane (Mon Sep 26 2005 - 09:35:10 CDT)
Andrea.Cristiani_at_pharm.unige.ch
- Create a PSF (Fri Sep 21 2007 - 04:16:37 CDT)
Andreas Kukol
- Using QwikMD with latest CHARMM36 force fields (Sat Apr 17 2021 - 03:58:22 CDT)
- RE: QwikMD Glycoside Hydrolase Tutorial step 2 (Fri Apr 26 2019 - 04:30:30 CDT)
- QwikMD Glycoside Hydrolase Tutorial step 2 (Thu Apr 25 2019 - 10:35:16 CDT)
Andreas Tosstorff
- MultiSeq error (Wed Jun 29 2016 - 03:26:50 CDT)
Andreas Wagenmann
- Re: Frame creation (Fri Sep 25 2009 - 02:01:27 CDT)
- Frame creation (Thu Sep 24 2009 - 09:28:50 CDT)
Andrei A Golosov
- Re: electrostatic potential maps in vmd (Fri Mar 10 2006 - 12:17:50 CST)
- electrostatic potential maps in vmd (Fri Mar 10 2006 - 10:52:14 CST)
Andrei Tudor
- RE : NVIDIA GeForce GT 750M and CUDA (Sat Oct 26 2013 - 11:32:18 CDT)
- RE : NVIDIA GeForce GT 750M and CUDA (Sat Oct 26 2013 - 10:26:38 CDT)
- Vmd visualizing occupancy maps (Tue Aug 13 2013 - 10:21:14 CDT)
- RE : namd-l: AW: Occupancy maps (Mon Aug 12 2013 - 10:40:27 CDT)
- Occupancy maps (Fri Aug 09 2013 - 11:27:25 CDT)
- RE : Replica exchange, colvars & harmonic restraints (Mon Jul 29 2013 - 13:22:45 CDT)
- Replica exchange, colvars & harmonic restraints (Mon Jul 29 2013 - 11:14:01 CDT)
- Center a trajectory (Tue Jul 16 2013 - 09:18:15 CDT)
- Combine volmap occupancy maps (Mon Jul 15 2013 - 14:44:54 CDT)
Andrej Tekel
- fftk dihedrals error (Sun Apr 12 2020 - 03:32:05 CDT)
Andres Bynum
- Your Pharm4cy 0rder #3747312 (Sat Apr 21 2007 - 19:50:21 CDT)
Andres Morales
- Andres Morales sent you a little gift (Sun Apr 11 2010 - 20:33:52 CDT)
Andres Morales N
- FW: Disulfide bonds (Tue Oct 13 2009 - 01:02:30 CDT)
- Disulfude bonds (Tue Oct 13 2009 - 01:00:39 CDT)
- Average structure and NamdEnergy (Thu Sep 17 2009 - 00:03:36 CDT)
- Average structure and NamdEnergy (Wed Sep 16 2009 - 14:27:23 CDT)
- get coordinates (Sat Sep 12 2009 - 12:05:35 CDT)
- RE: namd-l: Re: rmsd matrix (Thu Sep 03 2009 - 15:00:30 CDT)
- rmsd matrix (Thu Sep 03 2009 - 07:45:06 CDT)
- NAMDEnergy Plugin (Tue Jul 28 2009 - 00:34:43 CDT)
- NAMDEnergy (Wed Jun 10 2009 - 08:59:51 CDT)
- NAMDEnergy (Sun Jun 07 2009 - 15:23:35 CDT)
- NAMDEnergy (Sun Jun 07 2009 - 15:24:33 CDT)
- Energy (Wed Jun 03 2009 - 21:50:41 CDT)
- Align mistake (Tue May 19 2009 - 11:14:21 CDT)
- RE: Average strcuture (Tue May 19 2009 - 10:21:28 CDT)
- Average strcuture (Tue May 19 2009 - 08:51:23 CDT)
- Translate (Wed May 13 2009 - 22:25:22 CDT)
- Axes (Wed May 13 2009 - 08:42:45 CDT)
- Alignment (Mon May 11 2009 - 21:44:55 CDT)
- Using clustering tool (Fri Apr 24 2009 - 22:56:48 CDT)
- iTrajComp plugin. (Fri Apr 24 2009 - 22:23:45 CDT)
- RE: Load multiple files (Thu Feb 12 2009 - 08:59:39 CST)
- rmsd matrix (Tue Feb 03 2009 - 10:01:28 CST)
- rmsd matrix (Mon Feb 02 2009 - 10:59:50 CST)
- get a PDB file from DCD file (Tue Jan 27 2009 - 07:58:23 CST)
- (no subject) (Mon Jan 26 2009 - 14:37:40 CST)
Andres Palencia
- Re: duration of video mpeg (Mon Dec 04 2006 - 06:12:51 CST)
- Re: duration of video mpeg (Sun Dec 03 2006 - 13:07:28 CST)
- duration of video mpeg (Sat Dec 02 2006 - 11:39:04 CST)
- VMD installation problem (Fri Nov 10 2006 - 10:38:41 CST)
Andrew
- Re: surface representation question (Thu Dec 09 2010 - 18:47:43 CST)
- Re: Graphics card for VMD, number of atoms, file format (Mon Nov 08 2010 - 14:29:07 CST)
- Re: VMD / Tachyon Questions (Tue Jul 06 2010 - 17:05:13 CDT)
- VMD / Tachyon Questions (Sun Jun 27 2010 - 19:27:21 CDT)
Andrew Dalke
- Re: translations with fixed and unfixed molecules (Thu Apr 15 1999 - 23:18:33 CDT)
- Re: moving molecules and getting the new positions (Tue Mar 30 1999 - 18:50:35 CST)
- Re: questions about MSMS and H-bonds (Fri Mar 05 1999 - 15:04:39 CST)
- Re: questions about MSMS and H-bonds (Fri Mar 05 1999 - 14:54:07 CST)
- Re: extracting distances (Thu Dec 10 1998 - 20:06:25 CST)
- convex hull and VMD (Mon Sep 28 1998 - 17:31:10 CDT)
- Re: Transparent graphics (Fri Sep 18 1998 - 12:32:30 CDT)
- Re: VMDTECH: CONECTing atoms (Mon Aug 24 1998 - 15:01:05 CDT)
- Re: calculation of RMS values (Wed Aug 19 1998 - 13:49:12 CDT)
- VMDTECH: CONECTing atoms (Fri Aug 14 1998 - 17:16:26 CDT)
- Re: The pdb format of vmd (Thu Jan 22 1998 - 12:02:32 CST)
- protein surface and volume code (Wed Jan 14 1998 - 22:17:10 CST)
- Re: VMD on a DEC? (Wed Jan 14 1998 - 22:07:30 CST)
- Re: problem with getting started. (Sun Dec 21 1997 - 11:47:00 CST)
- Re: unable to animate alanine.dcd (Mon Dec 08 1997 - 13:34:06 CST)
- Re: unable to animate alanine.dcd (Sun Dec 07 1997 - 23:16:55 CST)
- Re: tcl script for writinging modified pdb co-ordinates (Thu Dec 04 1997 - 18:41:03 CST)
- Re: drawing spheres (Wed Nov 19 1997 - 08:03:35 CST)
- Re: VMD only read 58 frames from XYZ file (Thu Nov 06 1997 - 04:24:54 CST)
- Re: MSMS in VMD (Wed Oct 15 1997 - 00:30:42 CDT)
- Re: VMD & PoV files (Wed Oct 08 1997 - 12:12:54 CDT)
- Re: reading minimalised pdb files (Tue Oct 07 1997 - 04:34:33 CDT)
- Exporting VMD images to Alias (Thu Jul 24 1997 - 14:28:40 CDT)
- residue-residue distances and atom selection bug (Tue Jun 10 1997 - 13:05:11 CDT)
- [VMDTECH] Schedule Change (Fri Apr 18 1997 - 18:07:35 CDT)
- [VMDTECH] Smoothing Animations (Sun Apr 13 1997 - 01:28:43 CDT)
- Re: Segmentation error! (Wed Apr 09 1997 - 10:46:36 CDT)
- [VMDTECH] Tracing Atom Picks (Fri Apr 04 1997 - 18:27:57 CST)
- [VMDTECH] Morphing (Fri Mar 28 1997 - 12:14:17 CST)
- Two (small) VMD 1.2b1 bugs (Wed Mar 26 1997 - 13:55:16 CST)
- Re: [VMDTECH] VMD 1.2b1 is now available (Tue Mar 25 1997 - 03:03:32 CST)
- [VMDTECH] VMD 1.2b1 is now available (Tue Mar 25 1997 - 02:09:57 CST)
- [VMDTECH] Drawing Methods, Part II (Fri Mar 14 1997 - 16:40:47 CST)
- Re: Wavefront obj output (Wed Mar 12 1997 - 15:19:48 CST)
- [VMDTECH] Drawing Methods, Part I (Fri Mar 07 1997 - 16:22:57 CST)
- VMD now uses Tcl 7.6 (Wed Mar 05 1997 - 22:47:42 CST)
- Re: why does VMD quit automatically? (Wed Mar 05 1997 - 11:50:27 CST)
- Re: H-bonds? (Wed Mar 05 1997 - 09:37:55 CST)
- Re: why does VMD quit automatically? (Wed Mar 05 1997 - 08:58:34 CST)
- [VMDTECH] Secondary Structure (Fri Feb 28 1997 - 16:38:21 CST)
- [VMDTECH] Small things (Fri Feb 21 1997 - 13:02:34 CST)
- VMD workshop material (Tue Feb 18 1997 - 17:43:13 CST)
- [VMDTECH] Making Movies (Fri Feb 14 1997 - 12:56:27 CST)
- [VMDTECH] RMSD and best-fit alignments (Fri Feb 07 1997 - 14:37:24 CST)
- [Tech] Customizing VMD: hot keys and popup menus (Fri Jan 31 1997 - 12:10:02 CST)
- Re: textures in VMD and rayshade scripts (Mon Jan 27 1997 - 15:42:15 CST)
- Re: [Tech] Colors in VMD (Fri Jan 24 1997 - 15:24:38 CST)
- [Tech] Colors in VMD (Fri Jan 24 1997 - 11:44:45 CST)
- Special Christmas binary (Fri Dec 20 1996 - 04:01:38 CST)
- Welcome to VMD-L! (Thu Dec 19 1996 - 11:40:38 CST)
- Re: Custom VMD script development service for fee (Fri Jun 08 2018 - 06:57:14 CDT)
- Re: Coloring Scheme Spectrum (Mon May 07 2018 - 11:10:24 CDT)
- Re: Counting number of water molecules (Wed Dec 09 2009 - 17:20:43 CST)
- Re: Save State Fails (Thu Jul 23 2009 - 13:11:46 CDT)
- Re: ResdueType and hydrophobicity scale (Wed Jul 16 2008 - 05:45:13 CDT)
- Re: What's the main reason of the structure or function of a protein? (Thu Mar 06 2008 - 00:25:03 CST)
- Re: What's the main reason of the structure or function of a protein? (Wed Mar 05 2008 - 16:32:42 CST)
- Re: VMD languaje information (Tue Mar 04 2008 - 14:44:16 CST)
- Re: VMD and Cyclotides... (Tue Apr 05 2005 - 02:59:29 CDT)
- Re: displaying double, triple bonds (Tue Mar 29 2005 - 17:05:33 CST)
- Re: atom index starting at 0 (Fri Jan 07 2005 - 17:36:50 CST)
- Re: Tube representation of alpha carbons (Wed Dec 08 2004 - 01:53:05 CST)
- Re: Tube representation of alpha carbons (Tue Dec 07 2004 - 19:46:58 CST)
- Re: Elliptic molecules (Thu Jul 15 2004 - 15:35:47 CDT)
- Re: Van der Waal's radii of atoms (Wed Jun 02 2004 - 23:21:30 CDT)
- Re: attempting to source a script (Thu Feb 12 2004 - 08:41:46 CST)
- Re: "nucleic" selection (Wed Nov 12 2003 - 13:29:15 CST)
- Re: Python's future in VMD (Tue Sep 30 2003 - 12:19:46 CDT)
- Re: question about selection (Thu Sep 04 2003 - 18:57:00 CDT)
- Re: simple question (Tue Sep 02 2003 - 19:40:49 CDT)
- Re: Some improvements for 1.8.2 (Fri Jul 25 2003 - 20:18:57 CDT)
- Re: selection (Fri Jul 25 2003 - 18:22:25 CDT)
- Re: conect2psf (Wed Jul 24 2002 - 04:51:04 CDT)
- conect2psf (Tue Jul 23 2002 - 23:35:06 CDT)
- Re: Regular Expression problem with $ (Tue Apr 30 2002 - 20:38:10 CDT)
- Re: Which drawing method is used in the picture? (Tue Apr 09 2002 - 15:04:19 CDT)
- Re: boolean operators in graphics (Thu Mar 14 2002 - 22:32:38 CST)
- Re: Superimposing two frames (Tue Oct 30 2001 - 16:12:03 CST)
- Re: rasmol script (Tue Mar 20 2001 - 22:45:49 CST)
- Re: Spheres with OpenGL (was Re: linux graphics adapters?) (Sun Jul 16 2000 - 20:54:55 CDT)
- Re: VMD and GRASP Qu.II (Thu Jun 15 2000 - 04:23:39 CDT)
Andrew DeYoung
- Printing simulation box vectors to the display window (Wed Apr 28 2021 - 15:46:29 CDT)
- Labeling atoms by index (Fri Aug 15 2014 - 16:46:00 CDT)
- Tachyon question (Sun Feb 16 2014 - 09:48:37 CST)
- Why are all carbon atoms lumped into C in the Name category in the colors dialog? (Fri Nov 29 2013 - 11:37:41 CST)
- Changing the color of atoms of a particular name (Sat Jun 16 2012 - 18:50:47 CDT)
- RE: Another thought related to drawing dipole moment vectors (Sat May 26 2012 - 16:14:52 CDT)
- Another thought related to drawing dipole moment vectors (Sat May 26 2012 - 12:27:53 CDT)
- Using Dipole Moment Watcher with Gromacs configurations and trajectories (Sat May 26 2012 - 12:20:09 CDT)
- Making only a subset of atoms transparent (or otherwise non-emphasized) (Tue May 15 2012 - 12:49:22 CDT)
- RE: Units of Isovalue Slider in Isovalue Drawing Method (Wed Apr 18 2012 - 20:52:13 CDT)
- Units of Isovalue Slider in Isovalue Drawing Method (Wed Apr 18 2012 - 20:08:53 CDT)
- Is it possible to save the position and angle of the camera for future VMD sessions? (Fri Apr 13 2012 - 13:07:20 CDT)
- Drawing a high resolution transparent or translucent sphere (Wed Apr 11 2012 - 20:37:20 CDT)
- RE: Dynamically displaying the length of hydrogen bonds (Fri Mar 30 2012 - 11:54:56 CDT)
- Dynamically displaying the length of hydrogen bonds (Fri Mar 30 2012 - 10:30:08 CDT)
- Drawing the simulation box from a Gromacs trajectory (Mon Mar 12 2012 - 12:43:23 CDT)
Andrew Doig
- Nanopore Sequencing Tutorial Problem (Thu Feb 02 2023 - 19:07:57 CST)
Andrew Fenley
- Re: Mac OS X 64 bit Issues (Tue Nov 15 2011 - 17:47:41 CST)
- Mac OS X 64 bit Issues (Tue Nov 15 2011 - 15:00:56 CST)
- Re: color with name (Fri Sep 16 2011 - 16:11:17 CDT)
Andrew Gormanly
- RPM spec file (Tue Oct 17 2006 - 08:03:45 CDT)
Andrew Hall
- GRASP files (Wed Jun 14 2000 - 10:17:27 CDT)
- Remote control of VMD on SGI-NT mixture (Wed Apr 26 2000 - 11:11:50 CDT)
- MSMS help (Mon Apr 03 2000 - 15:04:30 CDT)
Andrew Huang
- Bond lengths from PDB and PSF (Mon May 12 2008 - 16:36:18 CDT)
Andrew James Bennett
- VMD not loading in Suse 11.1 (Fri Jan 23 2009 - 05:43:05 CST)
Andrew Jewett
- Re: Color atoms (Sun Sep 30 2012 - 03:00:13 CDT)
- Re: questions for trajectory analysis (Wed May 30 2012 - 15:41:25 CDT)
- Re: Individual components of RMSD? (Tue Mar 06 2012 - 20:31:31 CST)
- Re: how to place a membrane protein with OPM ? (Wed Feb 29 2012 - 19:24:10 CST)
- Re: Feedback wanted from Linux VMD users with ATI/AMD graphics chipsets (Thu Nov 03 2011 - 15:56:37 CDT)
- Re: Feedback wanted from Linux VMD users with ATI/AMD graphics chipsets (Thu Nov 03 2011 - 16:07:46 CDT)
- Re: Compiling vmd 1.9 plugins (Wed Oct 26 2011 - 16:44:48 CDT)
- Re: a guide for installing vmd-1.8.7 on ubuntu10.10 (LINUXAMD64) (Mon Jan 10 2011 - 22:27:39 CST)
- a guide for installing vmd-1.8.7 on ubuntu10.10 (LINUXAMD64) (Mon Jan 10 2011 - 19:56:23 CST)
- Re: menus unresponsive in ubuntu 10.10 (Sun Oct 31 2010 - 18:55:33 CDT)
- Re: menus unresponsive in ubuntu 10.10 (Sat Oct 30 2010 - 02:22:06 CDT)
- menus unresponsive in ubuntu 10.10 (Thu Oct 28 2010 - 02:42:15 CDT)
- request ability to append in CatDCD (and NAMD) (Fri Aug 08 2008 - 14:15:46 CDT)
Andrew M. Simms
- RE: mol urlload -- this doesn't seem to work in Windows (it does seem to work from Linux) (Fri Apr 16 2010 - 18:18:16 CDT)
- RE: mol urlload -- this doesn't seem to work in Windows (it does seem to work from Linux) (Fri Apr 16 2010 - 17:48:11 CDT)
- mol urlload -- this doesn't seem to work in Windows (it does seem to work from Linux) (Fri Apr 16 2010 - 11:30:09 CDT)
Andrew Petersen
- mol options first and last (Mon Apr 22 2013 - 13:59:06 CDT)
andrew ritchie
- aligning multiple trajectories to a single .pdb file (Wed May 18 2011 - 13:30:54 CDT)
Andrew Watts
- (no subject) (Fri Apr 23 2004 - 15:26:37 CDT)
Andrew White
- PDBx/CIF Problem on New PDBs (Thu Jan 20 2022 - 10:38:44 CST)
Andrews, Casey
- RE: Speeding up the VDW drawing method and Tachyon rendering process (Wed Nov 27 2013 - 12:28:22 CST)
- Speeding up the VDW drawing method and Tachyon rendering process (Tue Nov 26 2013 - 17:53:02 CST)
Andrés Morales
- Loop for (Thu May 10 2012 - 18:40:58 CDT)
- Re: Thickness of bilayer script (Thu Apr 19 2012 - 20:58:35 CDT)
- Re: Average angle between the lipid dipole vector and the bilayer normal. (Wed Apr 11 2012 - 16:43:01 CDT)
- Problems with for loop (Tue Apr 10 2012 - 11:43:10 CDT)
- Average angle between the lipid dipole vector and the bilayer normal. (Mon Apr 09 2012 - 12:55:17 CDT)
- Average angle between the lipid dipole vector and the bilayer normal. (Mon Apr 09 2012 - 12:45:44 CDT)
- Re: Change coordinates (Thu Nov 24 2011 - 10:38:15 CST)
- Change coordinates (Thu Nov 24 2011 - 02:14:02 CST)
- lipid bilayer thickness (Sun Nov 06 2011 - 00:07:36 CDT)
- Calculating parameters in lipid bilayers (Thu Oct 20 2011 - 22:04:03 CDT)
- area per lipid (Thu Oct 20 2011 - 01:12:14 CDT)
Andy Lam
- vmd display problem (Sat Nov 30 2013 - 19:22:27 CST)
Andy Liu
- Error loading .phi file (Thu May 10 2018 - 19:03:43 CDT)
- Displaying gaussian cube file produced by Delphi (Mon Apr 30 2018 - 17:04:24 CDT)
aneamtu_at_iasi.mednet.ro
- E-D stereo glasses (Sat Mar 03 2007 - 04:44:51 CST)
aneesh cna
- Removing an installed Plug-in (Thu Jan 31 2013 - 00:26:49 CST)
- Re: 'Abort file I/O' key not working (Wed Jan 02 2013 - 23:52:45 CST)
- 'Abort file I/O' key not working (Fri Dec 28 2012 - 04:59:56 CST)
- Script for counting water molecules (Mon Nov 08 2010 - 07:06:33 CST)
- Check out my photos on Facebook (Tue Sep 28 2010 - 04:27:52 CDT)
- Re: Regarding coordinates transformation (Thu Feb 25 2010 - 23:51:15 CST)
- Regarding coordinates transformation (Wed Feb 24 2010 - 01:04:27 CST)
- Space distribution functions (Wed Dec 24 2008 - 23:08:03 CST)
- atom selection (Wed Dec 03 2008 - 05:32:57 CST)
- algorithm for finding center of mass of the side chains in the protein (Fri Aug 29 2008 - 07:26:26 CDT)
- Re: Percentage Helicity calculation in VMD (Fri Feb 01 2008 - 03:18:53 CST)
- Percentage Helicity calculation in VMD (Thu Jan 31 2008 - 22:54:53 CST)
- problem with timeline plugin (Fri Jan 25 2008 - 00:12:17 CST)
- problem with superimposing two proteins (Thu Jan 10 2008 - 05:33:21 CST)
- Re: Hydrophobicity plots in VMD (Mon Nov 26 2007 - 23:31:43 CST)
- Re: Hydrophobicity plots in VMD (Mon Nov 26 2007 - 04:09:44 CST)
- Re: Hydrophobicity plots in VMD (Sat Nov 24 2007 - 22:50:51 CST)
- Hydrophobicity plots in VMD (Sat Nov 24 2007 - 00:33:38 CST)
- problem with loading trajectories in timline plugin (Thu Nov 22 2007 - 00:24:00 CST)
- stride binaries for windows XP OS (Mon Nov 12 2007 - 23:21:34 CST)
- problem with colouring the surface with electroststic potential (Mon Nov 12 2007 - 23:15:25 CST)
- problem with timeline plugin (Mon Sep 17 2007 - 05:33:29 CDT)
- problem regarding timeline (Mon Sep 10 2007 - 10:54:01 CDT)
- problem regarding stride (Mon Aug 13 2007 - 05:31:32 CDT)
- problem regarding stride (Mon Aug 13 2007 - 00:58:09 CDT)
angad sharma
- Aligning of ions and DNA (Sun Jan 08 2023 - 03:00:11 CST)
- Re: vmd-l@ks.uiuc.edu (Fri Nov 25 2022 - 00:33:20 CST)
- vmd-l@ks.uiuc.edu (Tue Nov 22 2022 - 05:06:23 CST)
- Residence time calculation (Thu Nov 17 2022 - 23:21:43 CST)
- Residence time of ions (Thu Nov 10 2022 - 00:32:40 CST)
Angana Ray
- Re: Query regarding qwrap (Tue Apr 16 2019 - 14:20:04 CDT)
- Regarding PBC unwrap (Fri Apr 12 2019 - 17:44:45 CDT)
angel
- Load (Thu Aug 17 2006 - 13:14:06 CDT)
- Compiling problem (Mon Jun 19 2006 - 14:23:04 CDT)
- Compilation propblem (Mon Jun 19 2006 - 12:26:52 CDT)
- Compilation (Wed May 24 2006 - 17:44:39 CDT)
- Plugin compilation problem (Thu May 18 2006 - 17:41:16 CDT)
- Plugin compilation (Fri May 12 2006 - 16:19:47 CDT)
- Compiling problem (Wed Apr 26 2006 - 14:59:31 CDT)
- Compiling problem (Fri Mar 31 2006 - 15:57:47 CST)
- Some errors (Mon Mar 27 2006 - 18:51:51 CST)
angel_at_cbuc.cl
- haptics device "novint falcon" (Mon Dec 15 2008 - 09:13:31 CST)
- paratool dont recognize gaussian output (Fri Dec 12 2008 - 10:10:13 CST)
Angelo R. Rossi
- Re: Problem with Starting vmd after Debian System Upgrade (Wed Jun 08 2011 - 07:27:05 CDT)
- Re:vmd, linux & dri (Tue Feb 13 2001 - 08:20:42 CST)
Angelo Rossi
- Problem with Starting vmd after Debian System Upgrade (Tue Jun 07 2011 - 11:26:06 CDT)
- Re: Need Guidance with pbctools (Sun Jul 12 2009 - 08:02:21 CDT)
- Need Guidance with pbctools (Sat Jul 11 2009 - 13:47:11 CDT)
angelo vargas
- vmd customization (Thu Oct 28 2004 - 03:57:25 CDT)
Anil Kumar
- VMD movie from XYZ coordinate if file has two type of atoms (Sun Dec 09 2007 - 22:12:58 CST)
- Re: VMD movie from XYZ coordinate if file has two type of atoms] (Wed Dec 12 2007 - 01:48:06 CST)
- Re: VMD movie from XYZ coordinate if file has two type of atoms] (Tue Dec 11 2007 - 21:00:58 CST)
- VMD movie from XYZ coordinate if file has two type of atoms] (Tue Dec 11 2007 - 04:20:07 CST)
- VMD movie from XYZ coordinate if file has two type of atoms (Mon Dec 10 2007 - 22:43:49 CST)
Anirban Ghosh
- How to generate an index (.ind) file? (Fri Dec 05 2008 - 00:07:49 CST)
- Re: use configure.options (Mon Nov 17 2008 - 22:34:14 CST)
- Re: Re: (Tue Nov 11 2008 - 22:27:15 CST)
- Re: Re: (Tue Nov 11 2008 - 21:59:01 CST)
- (no subject) (Tue Nov 11 2008 - 07:17:04 CST)
- CG Map Tool Syntax Error (Wed Nov 05 2008 - 04:48:32 CST)
- Re: PSFGEN problem with URA residues (Mon Oct 20 2008 - 08:30:49 CDT)
- Re: Catdcd? (Mon Oct 20 2008 - 06:31:25 CDT)
- PSFGEN problem with URA residues (Mon Oct 20 2008 - 06:27:06 CDT)
- Re: Problems after installation (ubuntu 8.04) (Sat Oct 04 2008 - 13:04:09 CDT)
- Restarting a simulation $ Langevin (Fri Sep 19 2008 - 07:17:12 CDT)
- How to ionize a Shape Based CG Model? (Mon Sep 15 2008 - 08:09:07 CDT)
Anirudh Nandakumar
- Unable to open VMD on Mac (Wed Jun 16 2021 - 08:34:31 CDT)
Anjali Patel
- Tk-console (Sat Apr 06 2019 - 03:45:37 CDT)
- Tk-Console (Sat Apr 06 2019 - 02:54:34 CDT)
Anjela Manandhar
- Re: using vslab in vmd (Mon Aug 15 2016 - 09:45:56 CDT)
- using vslab in vmd (Thu Aug 11 2016 - 10:56:54 CDT)
- frequecy of inter-residue contact (Mon Jun 13 2016 - 16:12:15 CDT)
- How to determine angle between two helices? (Wed Apr 06 2016 - 15:09:46 CDT)
- Aligning portions of proteins (Sun Mar 01 2015 - 20:06:02 CST)
- Re: GTP and GDP parameter files (Mon Dec 01 2014 - 15:00:59 CST)
- GTP and GDP parameter files (Wed Oct 15 2014 - 10:02:23 CDT)
- MDFF for multiple subunits (Mon Jul 21 2014 - 14:05:34 CDT)
- secondary structure calculation at certain frame (Tue Jul 08 2014 - 12:32:50 CDT)
AnkiReddy katha
- OPLS force-field in NAMD (Thu May 07 2015 - 02:12:03 CDT)
- Re: writing out a new dcd file (Tue Apr 29 2014 - 08:57:17 CDT)
- Re: fftk optimization of bonded parameters + Error: missing close-bracket (Thu Oct 31 2013 - 03:20:50 CDT)
- fftk optimization of bonded parameters + Error: missing close-bracket (Wed Oct 30 2013 - 03:08:57 CDT)
- Re: FFTK, pyrrolidine parametrization bonded parameters- issue with Hessian (Tue Oct 22 2013 - 06:59:59 CDT)
- FFTK, pyrrolidine parametrization bonded parameters- issue with Hessian (Thu Oct 17 2013 - 02:44:02 CDT)
- gofr between center of mass of a functional group and solvent (Tue Mar 19 2013 - 00:52:52 CDT)
- multiple residues with same resid and problem with solvation using VMD (Fri Aug 17 2012 - 06:36:59 CDT)
ankit agrawal
- Re: Overlaying multiple files in VMD (Mon Sep 08 2014 - 11:52:42 CDT)
- Overlaying multiple files in VMD (Mon Sep 08 2014 - 00:13:59 CDT)
Anna
- Mailing list problems (Wed Aug 24 2011 - 14:53:46 CDT)
- Re: Mailing list problems (Wed Aug 24 2011 - 15:12:02 CDT)
- Fwd: Initial configuration reorientation (Wed Aug 24 2011 - 12:34:11 CDT)
- Initial configuration reorientation (Wed Aug 24 2011 - 11:48:38 CDT)
- Re: DNA hairpin (Sat Aug 20 2011 - 04:30:52 CDT)
- Re: Vmd molecule rotation and translation (Tue Aug 09 2011 - 01:27:37 CDT)
- Fwd: Vmd molecule rotation and translation (Mon Aug 08 2011 - 19:45:53 CDT)
- Vmd molecule rotation and translation (Mon Aug 08 2011 - 18:41:49 CDT)
- Re: [lammps-users] Initial configurations / topology for LAMMPS (Thu Jul 14 2011 - 17:17:56 CDT)
Anna Aagaard
- Which drawing method is used in the picture? (Tue Apr 09 2002 - 14:40:17 CDT)
Anna Amat
- surface of an atomic property (Wed May 25 2011 - 11:44:38 CDT)
- surface from a generic atomic property (Wed May 25 2011 - 11:15:11 CDT)
Anna Battisti
- SASA area (Tue Jan 31 2017 - 01:28:16 CST)
Anna Ceguerra
- Re: LAMMPS trajectory file (Tue May 11 2010 - 03:32:52 CDT)
- LAMMPS trajectory file (Mon May 10 2010 - 21:12:28 CDT)
Anna Karawajczyk
- new coordinates (Thu Oct 06 2005 - 02:57:55 CDT)
- new coordinates (Thu Oct 06 2005 - 02:35:09 CDT)
- small figures (Fri Aug 19 2005 - 07:47:30 CDT)
Anna Kuznetsova
- script to modify cysteines with spinlabel (Mon Jan 23 2012 - 14:55:50 CST)
- How can I operate on multiple .pdb structures in a list (Wed Mar 23 2011 - 18:49:02 CDT)
Anna Lohning
- RE: error loading PDB (Tue Nov 22 2016 - 18:33:21 CST)
- Re: error loading PDB (Tue Nov 22 2016 - 17:44:03 CST)
- error loading PDB (Tue Nov 22 2016 - 00:56:00 CST)
Anna Modzelewska
- Re: tcl-reading files (Mon Feb 13 2006 - 08:52:19 CST)
- tcl-reading files (Mon Feb 13 2006 - 07:35:26 CST)
- Re: secondary structure's display - problem (Thu Jan 12 2006 - 10:21:07 CST)
- Re: secondary structure's display - problem (Thu Jan 12 2006 - 06:23:56 CST)
- Re: secondary structure's display - problem (Wed Jan 11 2006 - 09:03:28 CST)
- secondary structure's display - problem (Tue Jan 10 2006 - 10:29:43 CST)
- error when solvating protein/vmd1.8.4a22 (Mon Nov 07 2005 - 07:31:59 CST)
- saving macros (Wed Nov 02 2005 - 05:35:09 CST)
- Re: autoimd on windows (Wed Jun 22 2005 - 11:51:22 CDT)
- Re: autoimd on windows (Wed Jun 22 2005 - 05:29:52 CDT)
- autoimd on windows (Mon Jun 20 2005 - 06:40:29 CDT)
- autoimd error (Wed Jun 15 2005 - 09:35:01 CDT)
- Re: problem in autoionize (Thu Sep 30 2004 - 04:18:38 CDT)
- stereo with GForce video board (Thu Jul 29 2004 - 04:20:31 CDT)
- periodic box lines (Mon Dec 01 2003 - 06:50:05 CST)
Anna Petroff
- Re: non-heme iron coordination with His in NAMD2 (Thu Mar 15 2018 - 14:31:27 CDT)
- Re: non-heme iron coordination with His in NAMD2 (Thu Mar 15 2018 - 13:45:40 CDT)
- non-heme iron coordination with His in NAMD2 (Thu Mar 15 2018 - 10:33:15 CDT)
Anna Whitney
- Long atom types from CGenFF causing charge problems (Tue Aug 09 2011 - 16:01:09 CDT)
Annabelle Posey
- You can save 80% (Thu Apr 17 2008 - 17:58:17 CDT)
annalisa_at_biotec.tu-dresden.de
- combine.tcl (Tue Nov 21 2006 - 15:06:50 CST)
Anne Dara Bowen
- tachyon batch render in parallel (Wed Sep 04 2013 - 10:51:22 CDT)
Anne Laustsen
- VolMap Occupancy (Tue Nov 05 2013 - 03:04:48 CST)
Anneta Tzampazi
- Problem with creating psf file from structure made by inorganic builder (Fri Oct 03 2008 - 04:43:19 CDT)
- Concerning protein rotation (Mon Sep 08 2008 - 05:22:40 CDT)
- Inquiry concerning the plugin "Inorganic builder" (Mon Jun 23 2008 - 05:23:46 CDT)
Annika Wittenbecher
- VMD 1.9.1 installation (Fri Aug 22 2014 - 01:59:24 CDT)
Anoop Krishnan
- Re: Extension crashes (Sat Sep 20 2014 - 01:43:04 CDT)
- Re: Extension crashes (Sat Sep 20 2014 - 00:42:51 CDT)
- Re: Extension crashes (Wed Aug 20 2014 - 23:30:37 CDT)
- Re: Extension crashes (Tue Aug 19 2014 - 23:51:35 CDT)
- Extension crashes (Thu Aug 14 2014 - 06:49:57 CDT)
anshudx_at_indiatimes.com
- Info regarding residue based CG simulation (Thu May 15 2008 - 13:04:11 CDT)
Anshul Shah
- Re: Amber prmtop/inpcrd files (Mon Jul 28 2003 - 17:17:29 CDT)
- Amber prmtop/inpcrd files (Mon Jul 28 2003 - 15:45:05 CDT)
Anssi Nurminen
- RMSD heatmapper -plugin (Mon Sep 19 2011 - 12:03:51 CDT)
- Re: Tcl plugin development and debugging (Tue Apr 12 2011 - 12:11:47 CDT)
- Re: Tcl plugin development and debugging (Tue Apr 12 2011 - 11:55:16 CDT)
- Re: Tcl plugin development and debugging (Tue Apr 12 2011 - 11:21:56 CDT)
- Re: Tcl plugin development and debugging (Tue Apr 12 2011 - 10:49:32 CDT)
- Re: Tcl plugin development and debugging (Tue Apr 12 2011 - 09:33:01 CDT)
- Tcl plugin development and debugging (Tue Apr 12 2011 - 06:14:36 CDT)
Anthony Cruz
- Re: Analysis (Thu Mar 23 2006 - 14:01:45 CST)
- Big trr trajectory (Thu Mar 23 2006 - 13:27:17 CST)
- Re: Analysis (Thu Mar 23 2006 - 10:20:13 CST)
- Re: Analysis (Mon Mar 20 2006 - 12:33:53 CST)
- Analysis (Wed Mar 08 2006 - 13:37:21 CST)
- Re: selection of atoms on INSIDE protein (Mon Mar 06 2006 - 11:26:12 CST)
- Re: selection of atoms on INSIDE protein (Mon Mar 06 2006 - 10:20:08 CST)
- representation using COM (Fri Feb 24 2006 - 16:53:27 CST)
- RMSD or RMSF value (Tue Dec 20 2005 - 13:17:32 CST)
- Re: APBS plugin (Thu Dec 08 2005 - 14:07:37 CST)
- APBS plugin (Wed Dec 07 2005 - 14:06:06 CST)
- Protein volume and cavityes (Wed Dec 07 2005 - 13:01:53 CST)
- macros and variables (Thu Dec 01 2005 - 15:09:07 CST)
Anthony Cruz Balberdi
- Re: how to convert dcd to pdbs in command line (Tue Apr 09 2013 - 10:00:24 CDT)
- Plugins use after compilation question (Mon Feb 27 2012 - 12:38:01 CST)
Anthony Cruz-Balberdy
- Re: Packing periodic simulation using Pbc wrap error (Tue Jan 26 2021 - 11:25:45 CST)
- Re: Re: 3d visualization setup (Sat Feb 23 2019 - 08:35:24 CST)
- Re: 3d visualization setup (Thu Feb 21 2019 - 08:00:02 CST)
- 3d visualization setup (Sat Feb 16 2019 - 13:47:29 CST)
Anthony Ivetac
- Re: Labelling Coordinates (not Atoms) (Wed Jun 18 2008 - 21:32:03 CDT)
- Labelling Coordinates (not Atoms) (Wed Jun 18 2008 - 17:52:09 CDT)
- Re: Rendering Labels with Tachyon (Thu Apr 24 2008 - 17:43:08 CDT)
- Re: Rendering Labels with Tachyon (Thu Apr 24 2008 - 11:58:52 CDT)
- Rendering Labels with Tachyon (Wed Apr 23 2008 - 18:18:33 CDT)
- PPMTOMPEG Quality (Thu Apr 17 2008 - 14:40:15 CDT)
- Drawing Vectors (Tue Nov 16 2004 - 08:53:35 CST)
- Tachyon Internal Rendering (Mon Jul 26 2004 - 08:34:05 CDT)
- Visualising Helix Dipole Moment (Mon Jul 19 2004 - 05:25:54 CDT)
- Non-protein Multiple-Frame File (Mon May 24 2004 - 06:44:54 CDT)
Anthony Ma
- Re: VMD HBonds Plugin Produce Duplicate Results (Tue Apr 26 2016 - 17:57:06 CDT)
Anthony Rey
- Re: to use tcl script in command line (Thu Dec 08 2011 - 07:38:04 CST)
- Analyzing a 10ns simulation on Mac aborts (Tue Dec 06 2011 - 23:25:17 CST)
- Re: Run a variable through VMD Tk/Tcl console .vmdrc file (Mon Oct 31 2011 - 02:09:42 CDT)
- Run a variable through VMD Tk/Tcl console .vmdrc file (Sun Oct 30 2011 - 06:55:06 CDT)
- Run a variable through VMD Tk/Tcl console /// .vmdrc file (Sun Oct 30 2011 - 06:14:22 CDT)
- Re: Quick TCl scripting question (Thu Sep 22 2011 - 00:02:54 CDT)
- Quick TCl scripting question (Wed Sep 21 2011 - 22:49:02 CDT)
Anthony Ruth
- Re: Dangling Bonds (Fri Apr 03 2020 - 10:29:06 CDT)
- Dangling Bonds (Thu Apr 02 2020 - 14:46:33 CDT)
- Re: Filetype for Kinetic Monte Carlo (Mon Nov 25 2019 - 08:19:44 CST)
- Filetype for Kinetic Monte Carlo (Fri Nov 22 2019 - 09:07:31 CST)
Anthony Samiotakis
- Ramachandran plot tcl script (Sat Feb 23 2008 - 15:54:50 CST)
Anton Arkhipov
- Re: sbcg with multimers (Sun Jan 17 2010 - 23:37:48 CST)
- Re: Restraints on coarse grained model (Wed Dec 09 2009 - 10:58:56 CST)
- Re: CG lipid bilayer vmd 1.8.7 (Mon Dec 07 2009 - 10:15:53 CST)
- Re: CG lipid bilayer vmd 1.8.7 (Sun Dec 06 2009 - 00:35:46 CST)
- Re: problems with CG protein-lipidbilayer-water system (Mon Nov 23 2009 - 00:51:43 CST)
- Re: CG bead definition (Mon Aug 31 2009 - 23:24:05 CDT)
- Re: residue based CG model (Fri Jul 10 2009 - 10:47:00 CDT)
- Re: Satellite tobacco mosaic virus images making by VMD (Tue May 05 2009 - 12:48:10 CDT)
- Re: Can the CG model built from VMD be used as an Input of NAMD,GROMACS and any other MD program? (Tue Apr 28 2009 - 10:34:04 CDT)
- Re: selection syntax (Mon Mar 30 2009 - 09:03:47 CDT)
- Re: how to make a mivie by VMD (Wed Mar 25 2009 - 18:00:10 CDT)
- Re: SBCG membrane (Wed Dec 24 2008 - 15:01:38 CST)
- Re: CG bead definition (Mon Nov 24 2008 - 18:36:23 CST)
- Re: CG bead definition (Mon Nov 24 2008 - 16:43:28 CST)
- Re: CG Map Tool Syntax Error (Wed Nov 05 2008 - 16:16:59 CST)
- Re: Extract parameters of Shape-based Coarse Graining model from AA simulation (Wed Oct 22 2008 - 10:28:02 CDT)
- Re: volmap (Tue Oct 21 2008 - 10:43:40 CDT)
- Re: How to render an image like this one with VMD? (Thu Sep 25 2008 - 11:29:20 CDT)
- Re: viewing an embryo (Tue Sep 23 2008 - 15:03:01 CDT)
- Re: viewing an embryo (Tue Sep 23 2008 - 14:37:15 CDT)
- Re: How to ionize a Shape Based CG Model? (Mon Sep 15 2008 - 10:15:23 CDT)
- Re: How to ionize a Shape Based CG Model? (Mon Sep 15 2008 - 09:10:04 CDT)
Anton B. Guliaev
- Potential map display in VMD (GRASP) (Wed Sep 28 2005 - 18:33:59 CDT)
Antonija TomiÄ‡
- Problem with rendering modified bond label position with Tachyon (Thu Dec 10 2020 - 12:38:20 CST)
- Re: Hbond per residue (Mon Jan 26 2015 - 03:08:07 CST)
- Hbond per residue (Sun Jan 25 2015 - 03:56:19 CST)
Antonija Tomiæ
- ied with VMD 1.9.1 (Fri Jan 18 2013 - 09:03:05 CST)
- per-residue alignment (Wed Dec 01 2010 - 02:24:33 CST)
Antonio Tilocca
- distance selection (Fri Mar 07 2014 - 10:41:43 CST)
anu chandra
- Re: VMD failed after FFTW installation (Thu Jul 14 2016 - 06:30:11 CDT)
- Re: VMD failed after FFTW installation (Tue Jul 12 2016 - 11:32:50 CDT)
- Re: VMD failed after FFTW installation (Tue Jul 12 2016 - 07:19:06 CDT)
- VMD failed after FFTW installation (Mon Jul 11 2016 - 11:37:34 CDT)
- Re: Improving movie clarity (Thu Dec 31 2015 - 15:32:22 CST)
- Re: Improving movie clarity (Thu Dec 31 2015 - 06:34:57 CST)
- Improving movie clarity (Tue Dec 29 2015 - 18:05:58 CST)
- molecule selection along an axis (Mon Jul 06 2015 - 10:18:17 CDT)
- Re: Moving making with short trajectories (Sat Feb 28 2015 - 11:30:52 CST)
- Re: Moving making with short trajectories (Sat Feb 28 2015 - 11:07:23 CST)
- Re: Moving making with short trajectories (Sat Feb 28 2015 - 07:49:41 CST)
- Moving making with short trajectories (Fri Feb 27 2015 - 14:24:59 CST)
- Re: Nvidia GPU driver not detected with VMD (Fri Feb 27 2015 - 14:14:59 CST)
- Re: Nvidia GPU driver not detected with VMD (Fri Feb 27 2015 - 08:55:16 CST)
- Re: Nvidia GPU driver not detected with VMD (Fri Feb 27 2015 - 07:58:43 CST)
- Nvidia GPU driver not detected with VMD (Fri Feb 27 2015 - 04:31:00 CST)
anupama sharma
- (no subject) (Wed Oct 02 2019 - 07:53:27 CDT)
Anuradha Mittal
- Re: RMSD (Wed Apr 12 2006 - 09:24:45 CDT)
- RMSD (Tue Apr 11 2006 - 13:47:06 CDT)
- solvation (Wed Mar 22 2006 - 17:38:38 CST)
- contact map (Wed Jun 01 2005 - 14:56:06 CDT)
- hbond (Mon Apr 11 2005 - 12:24:05 CDT)
- rmsd (Tue Apr 05 2005 - 11:24:28 CDT)
ANURAG JHA
- connectivity in RBCG file(pdb extension) (Tue Sep 27 2011 - 18:46:20 CDT)
Anurag Sethi
- Re: NetworkView -- Averaging SEPARATE contact.dat files? (Tue Oct 07 2014 - 11:16:31 CDT)
- Re: NetworkView - Path lengths (Tue Oct 07 2014 - 11:12:52 CDT)
- Re: Dynamical Network Analysis (Network View) -- Please help (Mon Sep 01 2014 - 14:05:21 CDT)
- Re: Comparing Structures with Multiseq and Qres (Wed Apr 16 2014 - 10:41:02 CDT)
- Re: Comparing Structures with Multiseq and Qres (Mon Apr 07 2014 - 19:37:48 CDT)
- Re: STAMP Multiseq (Tue Aug 13 2013 - 13:46:42 CDT)
- Re: Strange results when visualizing .trr trajectory (Sat Jun 02 2012 - 12:36:14 CDT)
- Re: Maximum length of an extended peptide? (Tue Nov 15 2011 - 21:57:44 CST)
- Re: Clustering MD trajectories (Fri Sep 16 2011 - 17:04:29 CDT)
- Re: Multiseq in text mode (Tue Feb 08 2011 - 12:11:29 CST)
- Re: Finding residues with some distance (Wed Mar 03 2010 - 18:25:11 CST)
Anurag Sharma
- Structure summary in output file (Wed Nov 06 2013 - 12:11:55 CST)
- RE: error in merging two structures (Thu Jun 13 2013 - 17:26:59 CDT)
- RE: error in merging two structures (Thu Jun 13 2013 - 12:24:09 CDT)
- RE: error in merging two structures (Thu Jun 13 2013 - 12:18:17 CDT)
- RE: error in merging two structures (Thu Jun 13 2013 - 09:21:43 CDT)
- Calculation of no. of turns, pitch in DNA (Wed Jun 12 2013 - 13:49:04 CDT)
- Calculation of no. of turns, pitch in DNA (Wed Jun 05 2013 - 17:04:45 CDT)
- error in merging two structures (Mon May 20 2013 - 12:38:18 CDT)
- error in merging two structures (Wed May 15 2013 - 18:38:58 CDT)
- RE: No bonds in the generated psf file (Wed Apr 17 2013 - 23:33:21 CDT)
- RE: No bonds in the generated psf file (Wed Apr 17 2013 - 21:25:30 CDT)
- RE: No bonds in the generated psf file (Wed Apr 17 2013 - 21:34:36 CDT)
- Re: No bonds in the generated psf file (Wed Apr 17 2013 - 20:59:28 CDT)
- RE: No bonds in the generated psf file (Wed Apr 17 2013 - 19:37:42 CDT)
- Re: No bonds in the generated psf file (Wed Apr 17 2013 - 17:52:16 CDT)
- No bonds in the generated psf file (Wed Apr 17 2013 - 14:54:35 CDT)
- Re: Improper parameters for CNT (Mon Apr 15 2013 - 01:56:42 CDT)
- Re: Improper parameters for CNT (Sun Apr 14 2013 - 18:20:09 CDT)
- Improper parameters for CNT (Sun Apr 14 2013 - 16:30:59 CDT)
- Re: Error with NAMD Energy (Thu Mar 28 2013 - 17:06:58 CDT)
- Error with NAMD Energy (Thu Mar 28 2013 - 15:25:11 CDT)
Anwaar Al-Zireeni
- Adding Single Residues to a Protein (Thu Jul 15 2010 - 18:34:56 CDT)
anyy zsj
- How to get the coordinate of periodic images (Tue Dec 18 2012 - 23:58:53 CST)
apeyser_at_newssun.med.miami.edu
- Re: User colors and povray (Wed Feb 23 2005 - 15:45:26 CST)
- User colors and povray (Tue Feb 22 2005 - 13:34:47 CST)
- vmd on ppc (G4) (Mon Feb 23 2004 - 14:07:25 CST)
- Compiling vmd for ppc linux (Fri Feb 20 2004 - 13:46:50 CST)
- Compiling vmd for ppc linux (Fri Feb 20 2004 - 13:55:41 CST)
aramice Malkhasian
- Re: vmd-1.9.1 broken after upgrade to Ubuntu 13.10 (Wed Nov 27 2013 - 00:53:30 CST)
- pleaseme help how to build Metal ion topology file conneted (Sat Aug 11 2012 - 01:50:05 CDT)
- how to write topology for Metal in protein (Thu Aug 09 2012 - 17:28:33 CDT)
- topology file for metal in the protein (Thu Aug 09 2012 - 10:12:43 CDT)
Arango, Andres Santiago
- Re: CUDA Error with Quicksurf (Tue Oct 29 2024 - 16:56:41 CDT)
- CUDA Error with Quicksurf (Fri Oct 25 2024 - 14:39:37 CDT)
Arash Azari
- Re: Error (incompatible tcl8.5.so) when installing VMD plugins (Sat Nov 14 2015 - 10:34:34 CST)
- Re: OpenDX file format website down: What do the three values at each grid point represent (Tue Oct 06 2015 - 00:47:38 CDT)
- Re: vmd-1.9.1 linux installation problem (Mon Jul 21 2014 - 12:36:30 CDT)
- Re: psfgen error for Argon atoms (Mon Jan 27 2014 - 15:10:16 CST)
- Re: psfgen error for Argon atoms (Mon Jan 27 2014 - 00:51:37 CST)
- psfgen error for Argon atoms (Sun Jan 26 2014 - 15:06:16 CST)
- pbwithin selection (Thu Nov 10 2011 - 07:58:28 CST)
- catdcd and velocity dcd file (Fri Jul 01 2011 - 10:06:11 CDT)
Arash Firouzbakht
- CIonize Not Installed on Windows VMD (Tue Apr 13 2021 - 14:33:15 CDT)
- secondary structure of a protein containing non-canonical residues (Tue Apr 06 2021 - 09:59:48 CDT)
aravind chandrasekaran
- Re: Step 6 ffTK ligand calculation. (Mon May 06 2013 - 00:31:09 CDT)
- Step 6 ffTK ligand calculation. (Thu May 02 2013 - 10:26:06 CDT)
- FFTK - Step -3 missing log file. (Sun Apr 28 2013 - 10:54:59 CDT)
Aravind Ravichandran
- Error in PCA analysis (Wed Jun 27 2018 - 05:26:18 CDT)
Aravinda Munasinghe
- Re: Readpsf Error (Sun Nov 29 2020 - 10:19:45 CST)
- Re: Readpsf Error (Sun Nov 29 2020 - 09:29:34 CST)
- Re: Readpsf Error (Sun Nov 29 2020 - 09:20:28 CST)
- Re: Readpsf Error (Sun Nov 29 2020 - 09:11:45 CST)
- Re: Readpsf Error (Sun Nov 29 2020 - 08:48:32 CST)
- Re: VMD crash due to large volume of .dcd file (Sun Nov 29 2020 - 08:56:43 CST)
- Re: FATAL ERROR: DIDN'T FIND vdW PARAMETER FOR ATOM TYPE OT (Wed Jul 10 2019 - 11:18:51 CDT)
- Re: atoms within a radius cutoff and a percentage cutoff of a trajectory (Sun Jun 23 2019 - 11:48:15 CDT)
- VMD psfgen lonepair handling (Mon Mar 25 2019 - 21:37:32 CDT)
- Re: PDB structures of peptides (Thu Feb 14 2019 - 18:26:40 CST)
Araz Jakalian
- Electrostatic potential values (Fri Jan 29 2021 - 08:29:12 CST)
Archana Sonawani-Jagtap
- Running Cionize1.0 (Sat Aug 25 2018 - 15:27:45 CDT)
- Re: vmd installation (Fri Nov 25 2016 - 07:02:34 CST)
- Re: vmd installation (Thu Nov 24 2016 - 02:56:44 CST)
- Re: vmd installation (Thu Nov 24 2016 - 01:12:42 CST)
- vmd installation (Wed Nov 23 2016 - 01:34:45 CST)
Ardavan Mehdizadeh
- Select Residues (Mon Feb 09 2015 - 00:46:16 CST)
Ardy Davari
- Re: color charmm dcd by kinetic energy (Tue Jul 06 2010 - 09:30:27 CDT)
- color charmm dcd by kinetic energy (Mon Jul 05 2010 - 15:59:22 CDT)
- Color by velocity (speed?) (Wed Jun 16 2010 - 12:04:04 CDT)
Aref Takiden
- Re: merging several pdbs in one file (Mon Sep 29 2014 - 06:07:23 CDT)
- Re: merging several pdbs in one file (Fri Sep 26 2014 - 02:55:30 CDT)
- merging several pdbs in one file (Mon Sep 22 2014 - 07:55:53 CDT)
Arent, Michael
- Some newbie questions (Fri Apr 20 2001 - 08:44:27 CDT)
Arham Amouie
- Problem when rendering within a tcl loop (Sun Jan 10 2021 - 04:17:35 CST)
- Re: how draw color bar? (Mon Jul 24 2017 - 15:10:44 CDT)
- how draw color bar? (Mon Jul 24 2017 - 09:35:18 CDT)
- Re: Bug in VMD 1.9.3? (Wed Apr 26 2017 - 11:17:55 CDT)
- Re: Bug in VMD 1.9.3? (Wed Apr 26 2017 - 10:37:58 CDT)
- Bug in VMD 1.9.3? (Wed Apr 26 2017 - 07:07:20 CDT)
- Re: Meaning of computer graphic terms (Wed Apr 19 2017 - 12:42:41 CDT)
- Meaning of computer graphic terms (Wed Apr 19 2017 - 12:33:18 CDT)
- Re: how to have an array of snapshots in an image file? (Mon Apr 10 2017 - 15:24:09 CDT)
- how to have an array of snapshots in an image file? (Mon Apr 10 2017 - 14:55:21 CDT)
- Re: processing a large "molecule" (Sun Aug 07 2016 - 03:13:52 CDT)
- processing a large "molecule" (Sat Aug 06 2016 - 13:12:18 CDT)
- Re: Simplest file format that includes atom color? (Tue Feb 18 2014 - 05:17:57 CST)
- Re: Simplest file format that includes atom color? (Tue Feb 18 2014 - 04:52:20 CST)
- Re: Simplest file format that includes atom color? (Tue Feb 18 2014 - 03:59:27 CST)
- How upgrade a molfile plugin? (Sun Feb 16 2014 - 12:28:17 CST)
- Re: Simplest file format that includes atom color? (Sun Feb 16 2014 - 05:44:20 CST)
- Re: Simplest file format that includes atom color? (Thu Feb 13 2014 - 05:27:45 CST)
- Re: Simplest file format that includes atom color? (Thu Feb 13 2014 - 05:06:07 CST)
- Re: AW: Simplest file format that includes atom color? (Thu Feb 13 2014 - 02:51:07 CST)
- (no subject) (Wed Feb 12 2014 - 13:22:40 CST)
- Simplest file format that includes atom color? (Wed Feb 12 2014 - 13:28:44 CST)
- camera position and scale (Mon Jan 09 2012 - 08:09:46 CST)
Ari Turpeinen
- Re: Incompatible cubefiles (G09revD.01 cubegen) (Tue Sep 24 2013 - 06:57:21 CDT)
- Re: Incompatible cubefiles (G09revD.01 cubegen) (Tue Sep 24 2013 - 03:23:51 CDT)
- Incompatible cubefiles (G09revD.01 cubegen) (Tue Sep 24 2013 - 01:20:18 CDT)
Arian Arian
- Input File Format (Wed Oct 21 2009 - 14:03:01 CDT)
Aric Newton
- Re: Fwd: VMD Crash with Ubuntu 12.04 LTS and NVidia 310.44 driver. (Sun May 05 2013 - 10:32:15 CDT)
- VMD Crash with Ubuntu 12.04 LTS and NVidia 310.44 driver. (Thu May 02 2013 - 06:17:49 CDT)
- Do H-bonds cross periodic boundaries? Re: Hbonds Analysis. (Thu Feb 16 2012 - 10:27:38 CST)
- Re: Hbonds Analysis (Wed Feb 15 2012 - 18:11:58 CST)
- Hbonds Analysis (Tue Feb 14 2012 - 14:22:27 CST)
- Re: Reading MatStudio/ LAMMPS structures to VMD (Fri Oct 29 2010 - 09:16:30 CDT)
- Reading MatStudio/ LAMMPS structures to VMD (Sat Oct 23 2010 - 18:45:06 CDT)
Arieana Moore
- problems with Autoimd on mac os x ( panther ) (Thu Apr 29 2004 - 19:02:09 CDT)
Ariel Mitchell
- The affordable watch alternative (Fri May 02 2008 - 20:35:12 CDT)
Arienti, Marco UTRC
- more on lammps and VMD coordinates (Tue Feb 26 2008 - 11:18:37 CST)
Arijit Ghosh
- Using Multiseq for aligning a structure and a sequence (Wed Mar 04 2015 - 00:56:40 CST)
- Problem creating tetramer from a monomer (Thu Feb 26 2015 - 23:03:23 CST)
Arindam Ganguly
- Replica exchange molecular dynamics (REMD) (Tue Mar 20 2007 - 21:22:15 CDT)
- Re: making movie from GROMACS trajectory (Thu Aug 17 2006 - 15:43:43 CDT)
- making movie from GROMACS trajectory (Wed Aug 09 2006 - 18:05:36 CDT)
Aris Marcolongo
- Re: script for plotting trajectories (Mon Oct 26 2015 - 17:42:25 CDT)
- Re: script for plotting trajectories (Mon Oct 26 2015 - 17:25:40 CDT)
- Re: script for plotting trajectories (Mon Oct 26 2015 - 17:04:21 CDT)
- Re: script for plotting trajectories (Mon Oct 26 2015 - 15:06:07 CDT)
- script for plotting trajectories (Mon Oct 26 2015 - 06:02:27 CDT)
Arjun Sharma
- Atom order in VMD (Sat Mar 14 2015 - 17:50:42 CDT)
Armando Jerome de Jesus
- Re: implicit membrane in QwikMD? (Tue Nov 27 2018 - 14:52:08 CST)
- implicit membrane in QwikMD? (Tue Nov 27 2018 - 09:37:15 CST)
Armen Nalian
- Re: custom db in Multiseq (Fri May 18 2007 - 12:29:41 CDT)
- custom db in Multiseq (Thu May 17 2007 - 18:48:01 CDT)
- RE: trouble with autopsf (Mon Oct 24 2005 - 16:56:41 CDT)
- RE: trouble with autopsf (Sun Oct 23 2005 - 23:36:09 CDT)
- APBS error (Wed Feb 16 2005 - 18:58:54 CST)
Arnab Chakrabarty
- Re: Unable to see VDW , CPK representations (Sat Feb 16 2008 - 17:51:04 CST)
- Unable to see VDW , CPK representations (Fri Feb 15 2008 - 16:25:23 CST)
Arnab Mukherjee
- Re: vmd crashes on startup (Fri Jul 06 2007 - 15:24:42 CDT)
- vmd crashes on startup (Wed Jul 04 2007 - 16:11:36 CDT)
Arneh Babakhani
- Re: Calculating the Tilt Angle of a non-helical peptide (Wed Mar 19 2008 - 21:37:45 CDT)
- Calculating the Tilt Angle of a non-helical peptide (Wed Mar 19 2008 - 20:24:38 CDT)
- Re: Render Snapshot from the Tcl console (jpg gif format) (Sun Dec 02 2007 - 23:24:35 CST)
- Re: Render Snapshot from the Tcl console (jpg gif format) (Sun Dec 02 2007 - 20:57:41 CST)
- Re: Render Snapshot from the Tcl console (jpg gif format) (Sun Dec 02 2007 - 20:45:38 CST)
- Re: Render Snapshot from the Tcl console (jpg gif format) (Sun Dec 02 2007 - 18:31:17 CST)
- Render Snapshot from the Tcl console (jpg gif format) (Sun Dec 02 2007 - 15:02:52 CST)
- Re: peptide builder (Fri Sep 07 2007 - 10:50:23 CDT)
- Re: Changing the Index values of a molecule (the differenece between gro and pdb files) (Wed Aug 15 2007 - 13:06:17 CDT)
- Changing the Index values of a molecule (the differenece between gro and pdb files) (Wed Aug 15 2007 - 12:39:08 CDT)
- Running a vmd tcl script in the background (Mon Aug 13 2007 - 19:05:20 CDT)
- Re: Deleting bonds based on length (Fri Jul 27 2007 - 07:58:41 CDT)
- Deleting bonds based on length (Thu Jul 26 2007 - 23:41:11 CDT)
- Recognized atom types by VMD PDB reader (Fri Jul 20 2007 - 12:52:48 CDT)
- Re: Reading a pdbqt file (generated from AutoDock) (Fri Jul 20 2007 - 12:35:24 CDT)
- Re: Reading a pdbqt file (generated from AutoDock) (Fri Jul 20 2007 - 09:19:00 CDT)
- Reading a pdbqt file (generated from AutoDock) (Thu Jul 19 2007 - 18:01:01 CDT)
- Re: Making a selection from another selection (Tue Jul 17 2007 - 20:41:29 CDT)
- Re: Making a selection from another selection (Tue Jul 17 2007 - 20:35:19 CDT)
- Making a selection from another selection (Tue Jul 17 2007 - 20:02:49 CDT)
- Re: Divide by Zero Error , but can't find the zero! (Thu Jul 05 2007 - 20:03:45 CDT)
- Divide by Zero Error , but can't find the zero! (Thu Jul 05 2007 - 14:57:03 CDT)
- Re: Using VMD just to plot some coordinates from a mathematical/geometrical model (Sat Jun 23 2007 - 10:29:11 CDT)
- Re: Using VMD just to plot some coordinates from a mathematical/geometrical model (Fri Jun 22 2007 - 20:04:40 CDT)
- Using VMD just to plot some coordinates from a mathematical/geometrical model (Fri Jun 22 2007 - 17:51:35 CDT)
- Re: Loading up PDB files in absolute coordinates (Fri Jun 22 2007 - 15:04:24 CDT)
- Re: Loading up PDB files in absolute coordinates (Fri Jun 22 2007 - 14:38:42 CDT)
- Re: Loading up PDB files in absolute coordinates (Fri Jun 22 2007 - 14:26:12 CDT)
- Re: Loading up PDB files in absolute coordinates (Fri Jun 22 2007 - 13:50:59 CDT)
- Loading up PDB files in absolute coordinates (Fri Jun 22 2007 - 13:10:06 CDT)
- Re: Measuring hbonds between selections from different molecules (Tue Jun 05 2007 - 20:57:11 CDT)
- Measuring hbonds between selections from different molecules (Tue Jun 05 2007 - 20:13:15 CDT)
- Move labels (Wed May 23 2007 - 16:21:33 CDT)
- Re: Error while running scripts: terminate called after throwing an instance of 'std::bad_alloc' (Mon Feb 05 2007 - 10:59:04 CST)
- Re: Error while running scripts: terminate called after throwing an instance of 'std::bad_alloc' (Sun Feb 04 2007 - 21:58:19 CST)
- Re: Error while running scripts: terminate called after throwing an instance of 'std::bad_alloc' (Fri Feb 02 2007 - 20:04:29 CST)
- Error while running scripts: terminate called after throwing an instance of 'std::bad_alloc' (Fri Feb 02 2007 - 16:16:04 CST)
- Re: Segmentation fault when trying to load GROMACS trajectories (Mon Jun 12 2006 - 14:10:19 CDT)
- Segmentation fault when trying to load GROMACS trajectories (Mon Jun 12 2006 - 11:47:06 CDT)
- Re: Launching Tk Console (Wed May 10 2006 - 19:00:57 CDT)
- Launching Tk Console (Wed May 10 2006 - 11:23:42 CDT)
- Secondary Structure along a trajectory (Wed Apr 26 2006 - 18:44:21 CDT)
Arno Proeme
- Announcement: call for abstracts (**extended deadline**): SC15 workshop "Producing High-Performance and Sustainable Software for Molecular Simulation" (Mon Oct 05 2015 - 19:33:18 CDT)
Aronica, Pietro
- Command line representation (Mon Oct 29 2012 - 06:57:30 CDT)
Arpita Srivastava
- Structure factor and Steinhardt order parameter (Wed Sep 22 2021 - 11:54:54 CDT)
- Regarding atom index in VMD (Mon Sep 13 2021 - 14:20:59 CDT)
Arsene Marian Alain
- Issue install VMD 1.9.3 Spack (Mon Dec 05 2022 - 01:34:27 CST)
Artem Mamonov
- Memory leak using "moveby" command inside a loop (Wed Apr 14 2004 - 21:34:20 CDT)
Arthur Oliveira Vale
- Periodic Conditions for Hexagonal Membrane System (Fri May 19 2017 - 18:52:11 CDT)
Arthur Pereira da Fonseca
- RES: Protein residue read as solvent (Wed Aug 17 2022 - 10:21:48 CDT)
- Protein residue read as solvent (Tue Aug 16 2022 - 18:49:52 CDT)
- RES: simple script question (Sun Jun 12 2022 - 11:54:27 CDT)
- RES: VMD license (Fri Dec 17 2021 - 17:32:10 CST)
- VMD license (Thu Dec 16 2021 - 08:37:57 CST)
- Generating parameter files (Wed May 19 2021 - 12:04:33 CDT)
- (no subject) (Sat Dec 05 2020 - 15:31:30 CST)
- VMD write pdb error (Wed Sep 09 2020 - 12:16:46 CDT)
Arthur Vale
- Select Atoms that are bonded to specific atom type (Thu Sep 07 2017 - 15:09:20 CDT)
- RE: Selection Text for two C atoms with a double bond (Thu Aug 24 2017 - 18:17:29 CDT)
- Selection Text for two C atoms with a double bond (Thu Aug 24 2017 - 17:09:22 CDT)
- Selection Text for two C atoms with a double bond (Thu Aug 24 2017 - 16:55:20 CDT)
- RE: Building HMMM using patch files (Tue Aug 01 2017 - 23:36:30 CDT)
- RE: Building HMMM using patch files (Sun Jul 30 2017 - 14:14:17 CDT)
- RE: Building HMMM using patch files (Thu Jul 20 2017 - 21:32:45 CDT)
- RE: Building HMMM using patch files (Thu Jul 20 2017 - 17:13:41 CDT)
- Building HMMM using patch files (Thu Jul 20 2017 - 15:19:54 CDT)
Artur Duque Rossi
- Cant use NAMDplot to plot (Sat Nov 24 2018 - 16:34:18 CST)
Artur Hermano
- Re: hmassrepart (Mon Feb 14 2022 - 11:03:59 CST)
- Re: hmassrepart (Thu Feb 10 2022 - 18:25:43 CST)
- Re: hmassrepart (Thu Feb 10 2022 - 17:32:28 CST)
- hmassrepart (Thu Feb 10 2022 - 16:05:12 CST)
Arturas
- solid color clipping plane - render with "scratches" (Tue Oct 25 2005 - 04:49:45 CDT)
- VMD shows bad structure with 'line' type (Fri Apr 02 2004 - 06:27:38 CST)
- Re: configure do nothing in Linux (???) - thank you ! (Thu Apr 01 2004 - 03:23:39 CST)
- configure do nothing (Linux) (Wed Mar 31 2004 - 09:22:54 CST)
- configure do nothing in Linux(???) (Wed Mar 31 2004 - 09:27:36 CST)
Arturas Ziemys
- Fast routines for distance evaluations using PBC. (Fri May 11 2007 - 11:52:49 CDT)
- polyethylene topology (Tue Dec 05 2006 - 12:05:57 CST)
- gofr (Wed Oct 11 2006 - 13:22:54 CDT)
- Recentering the box on target molecule and wraping (Mon Sep 11 2006 - 10:39:55 CDT)
- charmm toppology : internal coordinates (Tue Aug 22 2006 - 16:39:00 CDT)
- Manipulation on loaded MSMS surface (Tue Aug 15 2006 - 16:19:18 CDT)
- loading trajectory file (Mon Aug 07 2006 - 11:38:34 CDT)
Arturo Fernandez
- You can save 80% (Fri Apr 25 2008 - 05:58:21 CDT)
Arun Krishnan
- Re: Changing Beta values for each frame of a trajectory.. (Wed Jun 20 2007 - 23:39:21 CDT)
- Changing Beta values for each frame of a trajectory.. (Wed Jun 20 2007 - 22:08:17 CDT)
arun kumar
- Re: Segmentation fault (core dumped) (Fri Jun 08 2012 - 05:17:48 CDT)
- Re: Segmentation fault (core dumped) (Thu Jun 07 2012 - 07:45:30 CDT)
- Segmentation fault (core dumped) (Tue Jun 05 2012 - 09:01:03 CDT)
Arusha Acharyya
- Unknown atom type while running psfgen (Mon Oct 26 2020 - 20:37:20 CDT)
Aryan Vahedi
- measure sasa of a complex (CNT and protein) (Thu Apr 16 2015 - 10:58:38 CDT)
- Re: Residues within a specified distance across all trajectories time steps (Mon Apr 06 2015 - 13:34:57 CDT)
- Residues within a specified distance across all trajectories time steps (Fri Apr 03 2015 - 11:24:56 CDT)
Aryan Vahedi-Faridi
- Get XST or XSC from NAMDenergy plugin? (Sun Aug 02 2015 - 19:30:52 CDT)
- Unwrap issue, Completely Different Chart Than Expected, Trajectory Compromised (Thu Jul 30 2015 - 15:04:12 CDT)
- Carbon Nanotube Interaction with Protein Simulation NAMD VMD (Thu Sep 18 2014 - 14:44:34 CDT)
Asaf Farhi
- generation of psf of phenol (Thu Aug 22 2013 - 11:42:14 CDT)
Asfa Ali
- regarding installation (Fri Apr 09 2010 - 10:45:45 CDT)
- VMD (Thu Feb 25 2010 - 13:18:21 CST)
- RMSD trajectory tools (Fri Feb 12 2010 - 06:16:22 CST)
Asghar Razavi
- How select atoms from mol 0 within "x" of mol 1? (Thu Oct 01 2020 - 12:20:19 CDT)
Ash Johnson
- RE: Merging two structures with duplicate segment names using TCL/Tk Console (Thu Aug 13 2015 - 04:29:19 CDT)
- Merging two structures with duplicate segment names using TCL/Tk Console (Mon Aug 10 2015 - 19:29:31 CDT)
Ashar Malik
- Re: Angle between a vector and a plane (Wed Sep 20 2023 - 04:13:25 CDT)
- Re: Atoms dropped on running AutoPSF (Fri Mar 24 2023 - 19:38:09 CDT)
- Re: calculation of rotation angle (Tue Mar 21 2023 - 15:50:07 CDT)
- Re: bash calling multiple python scripts that open vmd pauses (Sat Jan 21 2023 - 05:36:52 CST)
- Re: Maximum Stride Possible for Publishable Results (Mon Oct 03 2022 - 23:47:24 CDT)
- Re: atomselect for interacting hydroxyl groups (Tue Aug 16 2022 - 12:53:49 CDT)
- Re: << multiple atom selection >> (Sat Jul 23 2022 - 12:14:54 CDT)
- Re: NAMDEnergy Plugin in VMD (Sat Jul 16 2022 - 08:22:11 CDT)
- Re: Error with CaFE VMD Plugin (Thu Jun 16 2022 - 06:32:12 CDT)
- Re: simple script question (Fri Jun 10 2022 - 02:08:03 CDT)
- Re: Re: namd-l: RMSD and RMSF of ligand Only (Thu Oct 28 2021 - 09:26:11 CDT)
- Re: RMSD and RMSF of ligand Only (Thu Oct 28 2021 - 06:28:27 CDT)
- Re: protein and lipid jumping (Sat Oct 23 2021 - 01:17:03 CDT)
- Re: protein and lipid jumping (Sat Oct 23 2021 - 00:42:39 CDT)
- Re: protein and lipid jumping (Fri Oct 22 2021 - 22:15:11 CDT)
- Re: protein and lipid jumping (Fri Oct 22 2021 - 21:34:47 CDT)
- Re: Fwd: Fwd: namd-l: impropers for protonated 1-methyladenosine (Thu Oct 21 2021 - 08:51:20 CDT)
- Re: Fwd: Fwd: namd-l: impropers for protonated 1-methyladenosine (Thu Oct 21 2021 - 05:04:03 CDT)
- Re: running TCL script (Tue Sep 14 2021 - 05:30:01 CDT)
- Re: Funnel metadynamics (Fri Aug 13 2021 - 08:05:38 CDT)
- Re: Funnel metadynamics (Fri Aug 13 2021 - 07:20:50 CDT)
- Re: how to solvate the membrane in vmd?? (Thu Aug 05 2021 - 08:54:20 CDT)
- Re: Tcl Scripting Question (Tue May 04 2021 - 14:11:45 CDT)
- Re: vecsub: two vectors don't have the same size (Fri Apr 16 2021 - 05:31:31 CDT)
- Re: Problem with the Box (Thu Mar 18 2021 - 18:02:35 CDT)
- Re: TCL script to measure distance between two points in space (Wed Mar 10 2021 - 18:01:10 CST)
- Re: Native contacts tcl script crashed (Thu Feb 18 2021 - 01:02:58 CST)
- Re: Creating PDB files of binding pockets that lists ligands first within the file (Tue Feb 02 2021 - 19:22:51 CST)
- Re: Trajectory analysis without loading all frames (Thu Nov 19 2020 - 09:29:43 CST)
- Re: Colors in VMd graphics (Sat Oct 17 2020 - 22:22:49 CDT)
- Re: Questions about using VMD to modify/alter nucleic acid structures (Mon Sep 14 2020 - 03:48:25 CDT)
- Re: PME boolean (Fri Aug 14 2020 - 03:03:02 CDT)
- Re: Create Binding Pocket of Every PDB File In A Directory Using TCL Scripts and Atomselect Command protein and within 4 of resname LIG (Mon Jul 20 2020 - 16:06:03 CDT)
- Re: Phi and Psi angles for particular residues as a function of time (Tue Jul 14 2020 - 11:27:50 CDT)
- Re: VMD on HPC (Wed Jul 01 2020 - 04:52:54 CDT)
- Re: VMD on HPC (Wed Jul 01 2020 - 03:19:24 CDT)
- Re: volmap computation_ILS method (Sat Jun 06 2020 - 17:42:31 CDT)
- Re: Selecting first three characters of a variable with tcl in VMD (Wed Jun 03 2020 - 23:53:46 CDT)
- Re: qwrap installation (Tue Apr 28 2020 - 15:03:51 CDT)
- Re: DNA on RMSD Trajectory Tool (Tue Apr 28 2020 - 04:57:54 CDT)
- Re: mapping values on protein structure (Fri Apr 24 2020 - 11:49:33 CDT)
- Re: mapping values on protein structure (Fri Apr 24 2020 - 01:51:44 CDT)
- Re: Assign active site (Mon Apr 20 2020 - 17:16:33 CDT)
- Re: Assign active site (Mon Apr 20 2020 - 08:54:41 CDT)
- Re: Assign active site (Mon Apr 20 2020 - 07:55:37 CDT)
- Re: Assign active site (Mon Apr 20 2020 - 04:35:30 CDT)
- Re: Assign active site (Sun Apr 19 2020 - 20:31:17 CDT)
- Re: Assign active site (Sun Apr 19 2020 - 18:00:28 CDT)
- Re: Assign active site (Sun Apr 19 2020 - 17:20:40 CDT)
- Re: SDS molecules agglomeration. (Tue Feb 18 2020 - 11:21:52 CST)
- Re: could not read file no atoms found error (Thu Jan 23 2020 - 05:13:57 CST)
- Re: Restrain a molecule in movie (Mon Jan 20 2020 - 09:42:10 CST)
- Re: orienting aquaporin in bilayer (Sat Jan 18 2020 - 08:37:54 CST)
- Re: Select Nucleic Acid sequence (Thu Jan 09 2020 - 04:43:56 CST)
- Re: Using RMSD for individual residues script (as seen in the NAMD tutorial) and bigdcd (Mon Dec 09 2019 - 21:43:23 CST)
- Re: splitting pdb (Tue Oct 08 2019 - 23:20:52 CDT)
- Re: sub : considering waters with in 5A of solute (Tue Jul 23 2019 - 15:30:18 CDT)
- Re: followup: atomselect one liner (Sat Jul 20 2019 - 05:15:51 CDT)
- Re: catdcd error (Sat Jun 15 2019 - 17:05:15 CDT)
- Re: Get number of fragments (Mon May 27 2019 - 09:48:23 CDT)
- Re: Measre dihedral angle of a certain type (Tue Apr 09 2019 - 20:52:47 CDT)
- Re: PSF File (Wed Mar 13 2019 - 03:25:10 CDT)
- Re: Windows build newer than 1.9.3 (Mon Mar 04 2019 - 03:03:59 CST)
- Re: TCL For Loop Problem (Sun Feb 24 2019 - 22:24:08 CST)
- Re: Error: invalid command name "voltool" (Tue Feb 19 2019 - 11:14:49 CST)
- Re: measure distance atom from plane (Tue Feb 05 2019 - 05:50:15 CST)
- Re: calculating number of water and osmolytes molecules at particular distance from protein surface. (Thu Jan 31 2019 - 00:00:10 CST)
- Re: Parsing error in TkConsole (Wed Jan 02 2019 - 15:14:44 CST)
- Re: beta barrel structure generation (Fri Dec 21 2018 - 21:45:16 CST)
- Re: problem of calculating hydrogen bonds (Sun Sep 09 2018 - 03:16:05 CDT)
- Re: Connect particular residues with a line (Sat Sep 01 2018 - 22:39:17 CDT)
- Re: Atomselection with the position selected conditions inside the loop is not working properly (Thu Aug 16 2018 - 11:22:21 CDT)
- Re: Atomselection with the position selected conditions inside the loop is not working properly (Thu Aug 16 2018 - 08:43:50 CDT)
- Re: Atomselection with the position selected conditions inside the loop is not working properly (Thu Aug 16 2018 - 06:50:38 CDT)
- Re: Where to save the script (Sun Aug 05 2018 - 20:38:47 CDT)
- Re: request for provide a script of rmsf (Wed Aug 01 2018 - 10:22:57 CDT)
- Re: request for provide a script of rmsf (Wed Aug 01 2018 - 03:39:39 CDT)
- Re: request for provide a script of rmsf (Tue Jul 31 2018 - 19:40:09 CDT)
- Re: Fusing proteins together (Thu Jul 26 2018 - 19:33:48 CDT)
- Re: Fusing proteins together (Thu Jul 26 2018 - 16:01:55 CDT)
- Re: (Sun Jul 22 2018 - 05:48:29 CDT)
- Re: Protein mutation issues (Mon Jun 11 2018 - 00:22:13 CDT)
- Re: Flipping a molecule around its geometrical center (Mon Jun 04 2018 - 23:29:51 CDT)
- Re: problem with mol IDs when running script from same VMD session. (Sun Jun 03 2018 - 14:29:11 CDT)
- Re: Alignment with RMSD trajectory tool (Tue May 29 2018 - 21:00:08 CDT)
- Re: Reading DL_POLY trajectory (Sat May 26 2018 - 20:28:34 CDT)
- Re: Re: invalid command name "La::mevsvd_br" (Mon May 21 2018 - 09:50:45 CDT)
- Re: VMD in OS X Yosemite version 10.1.1.5 (Sun May 06 2018 - 15:40:51 CDT)
- Re: VMD in OS X Yosemite version 10.1.1.5 (Sat May 05 2018 - 23:45:48 CDT)
- Re: RMSD Question (Fri May 04 2018 - 19:07:17 CDT)
- Re: Automating VMD (Thu May 03 2018 - 17:40:36 CDT)
- Re: excluding atoms (Sat Apr 28 2018 - 08:12:45 CDT)
- Re: RMSD of lipid molecules (Fri Apr 27 2018 - 12:31:57 CDT)
- Re: RMSD of lipid molecules (Fri Apr 27 2018 - 12:23:12 CDT)
- Re: vmd tcl script writing issue (Wed Apr 18 2018 - 09:53:53 CDT)
- (no subject) (Tue Apr 10 2018 - 18:51:32 CDT)
- Re: i thought I could run a 100 ns NAMD simulation in my laptop for a protein-hormone system containing around 2000 atoms in its pdb file(4lnx.pdb). But even to run a simulation for four hundred fifty thousand steps, it has taken almost 4700 minutes. is this normal or its low? the device has 4 cores with 16 gigs of ram and 4 gigs of gpu(amd). Or any suggestions to run it faster??? (Sun Mar 25 2018 - 20:44:48 CDT)
- Re: Decompose Transformation Matrix to Rotations and Translations along XYZ axes (Wed Mar 21 2018 - 13:29:17 CDT)
- Re: Propagating PDB coordinates using Quaternion matrix (Wed Mar 21 2018 - 13:34:12 CDT)
- Re: Average structure (Wed Mar 21 2018 - 02:55:20 CDT)
- Re: Propagating PDB coordinates using Quaternion matrix (Wed Mar 21 2018 - 01:16:18 CDT)
- Re: Propagating PDB coordinates using Quaternion matrix (Tue Mar 20 2018 - 12:15:10 CDT)
- Re: Propagating PDB coordinates using Quaternion matrix (Tue Mar 20 2018 - 10:00:57 CDT)
- Re: Text mode data extraction without trajectory update (Sun Mar 18 2018 - 07:50:26 CDT)
- Re: How to hide water in mdcrd file? (Thu Mar 08 2018 - 13:21:20 CST)
- Re: Running vmd (Mon Mar 05 2018 - 06:54:44 CST)
- Re: Running vmd (Mon Mar 05 2018 - 05:00:48 CST)
- RE: VMD stops furing loading of DCD trajectory (Fri Mar 02 2018 - 17:53:43 CST)
- Re: VMD stops furing loading of DCD trajectory (Fri Mar 02 2018 - 17:25:43 CST)
- Re: How to identify the index number of some particular atoms (Tue Feb 20 2018 - 03:35:19 CST)
- Re: How to copy/paste a membrane patch to create a larger membrane? (Mon Feb 05 2018 - 10:14:19 CST)
- Re: Molecule limit (Mon Jan 29 2018 - 19:06:53 CST)
- Re: Alignment issues (Wed Jan 24 2018 - 08:02:02 CST)
- Re: Superimpose Structures (Wed Jan 24 2018 - 01:42:55 CST)
- Re: Rotate a specific residue and save the coordinates in VMD (Wed Jan 17 2018 - 17:44:21 CST)
- Re: catdcd plugin for Windows users (Tue Jan 16 2018 - 01:58:45 CST)
- Re: View sidechains in VMD (Tue Jan 16 2018 - 01:52:23 CST)
- Re: selecting residues within 5-10A of another molecule (Wed Jan 10 2018 - 23:05:01 CST)
- Re: having problem with disulfide bond (Tue Jan 09 2018 - 00:48:54 CST)
- Re: (Sat Jan 06 2018 - 07:04:01 CST)
- Re: tcl script not executed when submitted using a slurm script (Wed Dec 20 2017 - 09:50:11 CST)
- Re: tcl script not executed when submitted using a slurm script (Wed Dec 20 2017 - 01:38:26 CST)
- Re: Re: How can I measure bond length with â€œname ** and resid **" in scripts? (Tue Dec 19 2017 - 06:20:48 CST)
- Re: How can I measure bond length with â€œname ** and resid **" in scripts? (Tue Dec 19 2017 - 02:42:41 CST)
- Re: Same starting configuration gives two values of backbone RMSD (Fri Dec 15 2017 - 18:56:57 CST)
- Re: Cycling between files using the same output file (Fri Dec 15 2017 - 17:34:44 CST)
- Re: Same starting configuration gives two values of backbone RMSD (Fri Dec 15 2017 - 06:58:29 CST)
- Re: Same starting configuration gives two values of backbone RMSD (Fri Dec 15 2017 - 06:10:00 CST)
- Re: I would like to get a trajectory file in PDB. Can I use like data frame in VMD? (Wed Dec 13 2017 - 02:40:25 CST)
- Re: I would like to get a trajectory file in PDB. Can I use like data frame in VMD? (Wed Dec 13 2017 - 02:37:16 CST)
- Re: Nonbond energy between 3 part (Wed Dec 13 2017 - 01:34:08 CST)
- Re: Nonbond energy between 3 part (Tue Dec 12 2017 - 21:41:31 CST)
- Re: Nonbond energy between 3 part (Tue Dec 12 2017 - 08:43:02 CST)
- Re: error : invalid command name "psfgen" in 6pti tutorial (Mon Nov 20 2017 - 23:22:31 CST)
- Re: Computing atom distances (Sun Nov 05 2017 - 00:25:41 CDT)
- Re: Computing atom distances (Tue Oct 31 2017 - 17:00:25 CDT)
- Re: Wrapping molecules in unit box (Sun Oct 29 2017 - 18:27:54 CDT)
- Re: Moving atoms so that origin is at fixed position with respect to the display (Thu Oct 26 2017 - 14:41:59 CDT)
- Re: write a new dcd file for a sub selection of atoms (Mon Oct 23 2017 - 18:10:26 CDT)
- Re: write a new dcd file for a sub selection of atoms (Mon Oct 23 2017 - 02:05:30 CDT)
- Re: HOW TO VISUALIZE HBOND AFTER SIMULATIONS THROUGH VMD (Wed Oct 11 2017 - 03:24:28 CDT)
- Re: PDB loading in old vmd versions (Wed Oct 11 2017 - 03:18:41 CDT)
- Re: bond updating in VMD (Sat Aug 19 2017 - 01:27:26 CDT)
- Re: convert frames to nano seconds (Thu Aug 17 2017 - 09:27:56 CDT)
- Re: convert frames to nano seconds (Thu Aug 17 2017 - 07:58:49 CDT)
- Re: convert frames to nano seconds (Wed Aug 16 2017 - 09:53:19 CDT)
- Re: Finding atoms in protein-lipid system having electrostatic interaction (Wed Aug 09 2017 - 14:27:48 CDT)
- Re: autoionize not neutralizing the system (Sun Aug 06 2017 - 22:41:58 CDT)
- Re: autoionize not neutralizing the system (Sun Aug 06 2017 - 11:11:45 CDT)
- Re: Re: Unequal atoms size (Wed Jul 26 2017 - 03:37:36 CDT)
- Re: mol pdbload failing (Wed Jul 26 2017 - 00:39:09 CDT)
- Re: mol pdbload failing (Wed Jul 26 2017 - 00:35:27 CDT)
- Re: (Thu Jul 20 2017 - 03:23:39 CDT)
- Re: psfgen error with "auto angles dihe patch" (Thu Jun 29 2017 - 14:30:57 CDT)
- Re: PSF and PDB files do not show up (Wed Jun 28 2017 - 13:37:28 CDT)
- Re: Micelle formation visualisation (Tue Jun 27 2017 - 14:28:30 CDT)
- Re: Extract coordinates from a pdb file (Tue Jun 13 2017 - 08:27:08 CDT)
- Re: Extract coordinates from a pdb file (Mon Jun 12 2017 - 06:04:53 CDT)
- Re: VMD crashed during reading the trajectory file (Sat Jun 10 2017 - 02:15:30 CDT)
- Re: H-bond angle (Thu Jun 08 2017 - 10:58:40 CDT)
- Re: winvmd stopped working (Fri Jun 02 2017 - 18:59:03 CDT)
- Re: Average structure using multiple frame trajectory (Thu May 25 2017 - 06:07:34 CDT)
- Re: Atoms moving too fast (Wed May 24 2017 - 20:49:05 CDT)
- Re: Selection of lipids not in contact with polymer (Sun May 21 2017 - 18:00:34 CDT)
- Re: psfgen error with charmm36 parameters? (Wed Apr 05 2017 - 05:15:38 CDT)
- Re: How to extract data from log file (Thu Mar 30 2017 - 02:18:27 CDT)
- Re: creating the center of mass pdb file (Tue Feb 28 2017 - 15:27:07 CST)
- Re: How to remove rmsd spikes due to PB (Sat Feb 25 2017 - 14:43:39 CST)
- Re: Issue viewing GRO file in VMD (Fri Feb 24 2017 - 19:10:53 CST)
- Re: Using variables inside Atomselect (Tue Feb 07 2017 - 08:15:44 CST)
- Re: Running out of memory due to multiple mol addfile's (?) (Fri Jan 27 2017 - 02:01:13 CST)
- Re: minimizing each structure of a DCD file (Sun Jan 22 2017 - 07:48:30 CST)
- Re: psf for a DNA chain (Wed Jan 18 2017 - 07:12:54 CST)
- Re: working with VMD (Sat Jan 14 2017 - 11:59:46 CST)
- Re: Analyzing results of simulation done by gromacs (Sat Jan 14 2017 - 06:15:12 CST)
- Re: Analyzing results of simulation done by gromacs (Fri Jan 13 2017 - 16:41:27 CST)
- Re: AW: why vmd cannot load the dcd trajectory? (Tue Jan 10 2017 - 04:18:44 CST)
- Re: AW: why vmd cannot load the dcd trajectory? (Tue Jan 10 2017 - 04:30:36 CST)
- Re: Fw: Draw arrows in trajectory file (Tue Dec 20 2016 - 07:35:02 CST)
- Re: Fw: Draw arrows in trajectory file (Tue Dec 20 2016 - 06:41:58 CST)
- Re: Fw: Draw arrows in trajectory file (Tue Dec 20 2016 - 06:19:33 CST)
- Re: Superimpose (Tue Dec 06 2016 - 22:56:55 CST)
- Re: change_tkconsole_color_of_background_and_foreground (Sun Dec 04 2016 - 10:53:47 CST)
- Re: Superimpose (Thu Dec 01 2016 - 02:42:56 CST)
- Re: Superimpose Models (Thu Nov 24 2016 - 22:41:36 CST)
- Re: error loading PDB (Tue Nov 22 2016 - 18:13:11 CST)
- Re: exact number of solvent molecule in simulation box (Tue Nov 15 2016 - 09:10:39 CST)
- Re: exact number of solvent molecule in simulation box (Tue Nov 15 2016 - 09:07:20 CST)
- PhD position available (Sat Nov 12 2016 - 19:17:08 CST)
- Re: Problem with Autopsf tool of vmd (Wed Oct 19 2016 - 20:49:50 CDT)
- Re: Re: Problem with Autopsf tool of vmd (Wed Oct 19 2016 - 17:12:33 CDT)
- Re: Alignment and RMSD calculation (Tue Sep 27 2016 - 21:46:17 CDT)
- Re: measuring angle between two domains of protein (Fri Sep 23 2016 - 06:40:58 CDT)
- Re: Atom Selection based on angular criterion (Thu Sep 01 2016 - 07:02:34 CDT)
- Re: psf file is changed (Sat Jul 09 2016 - 12:01:42 CDT)
- Re: making cluster for simulations (Wed Jun 29 2016 - 13:15:26 CDT)
- Re: generating autopsf (Wed Jun 29 2016 - 11:30:14 CDT)
- Re: generating autopsf (Tue Jun 28 2016 - 13:50:48 CDT)
- Re: System requirement for MD 10ns (Tue Jun 28 2016 - 11:03:49 CDT)
- Re: Script to generate PSF: ERROR, additional atoms (Wed Jun 08 2016 - 15:31:40 CDT)
- Re: backbone selection failing (Fri Apr 22 2016 - 04:32:13 CDT)
- Re: backbone selection failing (Thu Apr 21 2016 - 13:28:42 CDT)
- Re: adding free Fe(II) ions? (Thu Apr 21 2016 - 05:07:04 CDT)
- Re: solvate fails to set coordinates for the first few residues of the first chain? (Wed Apr 20 2016 - 00:29:41 CDT)
- Re: solvate fails to set coordinates for the first few residues of the first chain? (Tue Apr 19 2016 - 19:38:54 CDT)
- Re: solvate fails to set coordinates for the first few residues of the first chain? (Tue Apr 19 2016 - 19:33:32 CDT)
- Re: solvate fails to set coordinates for the first few residues of the first chain? (Tue Apr 19 2016 - 16:17:17 CDT)
- Re: How to determine angle between two helices? (Wed Apr 06 2016 - 20:54:17 CDT)
- Re: Reading from file (Mon Apr 04 2016 - 01:36:25 CDT)
- Re: protein from protein sequence in VMD (Thu Mar 31 2016 - 09:47:27 CDT)
- Re: Not all frames loaded (Mon Feb 29 2016 - 15:24:14 CST)
- Re: selection of atoms/residues across multiple molecules... (Mon Feb 01 2016 - 16:02:49 CST)
- Re: selection of atoms/residues across multiple molecules... (Mon Feb 01 2016 - 11:52:22 CST)
- Re: A nanosphere with mass (Mon Feb 01 2016 - 05:30:30 CST)
- Re: A nanosphere with mass (Mon Feb 01 2016 - 03:51:35 CST)
- Re: selection of atoms/residues across multiple molecules... (Sat Jan 30 2016 - 23:26:21 CST)
- Re: Specify stride from command line (Thu Jan 28 2016 - 14:19:13 CST)
- Re: select atoms within a sphere - atomselect (Mon Jan 25 2016 - 12:59:23 CST)
- Re: select atoms within a sphere - atomselect (Mon Jan 25 2016 - 03:56:04 CST)
- Re: select atoms within a sphere - atomselect (Mon Jan 25 2016 - 00:51:22 CST)
- Re: Manipulating the pdb file (Wed Jan 20 2016 - 19:03:05 CST)
- Re: TCL code for psf file (Sun Dec 27 2015 - 12:57:33 CST)
- Re: calculating RMSD for a trajectory file (Mon Dec 21 2015 - 05:20:43 CST)
- Re: Number of pdb and psf atoms are not the same! (Wed Dec 16 2015 - 09:57:47 CST)
- Re: Unable to access config file (Thu Dec 10 2015 - 22:57:56 CST)
- Re: How can I trace an oxygen atom in VMD? (Mon Oct 19 2015 - 01:42:45 CDT)
- Re: Re: VMD Tricky selection of protein water bridge (2 bridge waters) (Fri Oct 02 2015 - 18:17:31 CDT)
- Re: How to extract data from NAMD log file for viscosity calculation (Tue Aug 18 2015 - 22:44:28 CDT)
- Re: Generating PSF for several proteins in one shot (Tue Jul 21 2015 - 02:33:02 CDT)
- Re: Primary structure, (Fri Jul 10 2015 - 11:21:09 CDT)
- Re: pdb and topology files for DNA (Fri Jul 03 2015 - 13:18:23 CDT)
- Re: Error- Periodic cell (Thu Jul 02 2015 - 11:13:29 CDT)
- Re: Re: Alpha-RMSD (Thu May 28 2015 - 17:16:23 CDT)
- Re: Re: Alpha-RMSD (Thu May 28 2015 - 17:14:24 CDT)
- Re: Re: Alpha-RMSD (Wed May 27 2015 - 21:54:20 CDT)
- Re: Orienting molecule along principal axes (Wed May 20 2015 - 04:17:20 CDT)
- Re: How to continue the calculation of NAMD in case of power failure? (Sun May 17 2015 - 21:13:43 CDT)
- Re: Error saying "too many open files" (Mon Apr 20 2015 - 02:33:57 CDT)
- Re: Error saying "too many open files" (Mon Apr 20 2015 - 01:56:39 CDT)
- Re: flip the sheet using transaxis command (Sun Mar 29 2015 - 01:29:38 CDT)
- Re: flip the sheet using transaxis command (Sat Mar 28 2015 - 23:30:46 CDT)
- Re: Problem with generating psf and pdb files of metalloprotein made up of two fragments (Fri Mar 27 2015 - 06:11:27 CDT)
- Re: How to run VMD text mode on Windows 7 (Wed Mar 25 2015 - 02:03:26 CDT)
- Re: How to run VMD text mode on Windows 7 (Tue Mar 24 2015 - 23:32:54 CDT)
- Re: (Mon Feb 23 2015 - 15:57:27 CST)
- Re: (Thu Feb 19 2015 - 17:48:43 CST)
- Re: (Wed Feb 18 2015 - 17:08:05 CST)
- Re: (Wed Feb 18 2015 - 16:48:31 CST)
- Re: Bonding energies between two atom selections (Tue Feb 17 2015 - 05:56:18 CST)
- Re: how to select a particular molecule (Thu Feb 12 2015 - 20:21:06 CST)
- Re: how to select a particular molecule (Thu Feb 12 2015 - 20:56:57 CST)
- Re: NAMDEnergy fails to locate supporting files (Thu Feb 12 2015 - 03:53:34 CST)
- Re: NAMDEnergy fails to locate supporting files (Thu Feb 12 2015 - 03:49:52 CST)
- Re: NAMDEnergy fails to locate supporting files (Thu Feb 12 2015 - 03:02:21 CST)
- Re: NAMDEnergy fails to locate supporting files (Thu Feb 12 2015 - 03:00:29 CST)
- Fwd: NAMDEnergy fails to locate supporting files (Thu Feb 12 2015 - 00:48:48 CST)
- Re: Is a PDB file hiding something ??? (Sat Jan 17 2015 - 21:14:19 CST)
- Re: Is a PDB file hiding something ??? (Sat Jan 17 2015 - 05:01:53 CST)
- Is a PDB file hiding something ??? (Sat Jan 17 2015 - 00:27:13 CST)
- Re: add/remove bonds between different types of atoms (Mon Jan 05 2015 - 08:27:03 CST)
- Re: non-bonded interactions (Thu Dec 25 2014 - 00:03:08 CST)
- Re: non-bonded interactions (Wed Dec 24 2014 - 06:43:07 CST)
- Re: need help for tcl script (Sun Dec 14 2014 - 14:38:33 CST)
- Re: format I should use if I have different total number of atoms for each timesteps (Thu Dec 11 2014 - 20:58:14 CST)
- Re: tcl and vmd (Thu Dec 11 2014 - 18:01:48 CST)
- Re: adding solvation box (Thu Dec 11 2014 - 15:05:14 CST)
- Re: How to save particular md frames by VMD (Wed Dec 10 2014 - 00:17:59 CST)
- Re: A query about the deletion of Hydrogen and re-adding them by psfgen (Tue Dec 09 2014 - 19:44:20 CST)
- Re: A query about the deletion of Hydrogen and re-adding them by psfgen (Tue Dec 09 2014 - 16:50:08 CST)
- Re: Problem with 'measure energy elect' command in VMD (Fri Dec 05 2014 - 00:03:26 CST)
- Fwd: How can I get the path of the TOP molecule in the tcl console? (Thu Dec 04 2014 - 22:15:51 CST)
- Re: Regarding RMSD (Wed Dec 03 2014 - 01:13:42 CST)
- Re: How to find rmsd of energy minimized structure of protein (Wed Dec 03 2014 - 00:27:32 CST)
- Re: Problem with merging structures!( psfgen) Warning: failed to set coordinate for atom AU0 AU:1 A) (Thu Nov 27 2014 - 08:48:56 CST)
- Re: Problem with merging structures!( psfgen) Warning: failed to set coordinate for atom AU0 AU:1 A) (Wed Nov 26 2014 - 17:02:34 CST)
- Re: velocity or force of water molecules (Wed Nov 26 2014 - 17:31:30 CST)
- Re: question about CUDA-enabled (Mon Nov 24 2014 - 03:45:07 CST)
- Re: Fixing the rotation of complex during trajectory visualization (Wed Nov 19 2014 - 06:54:59 CST)
- Re: FFTK-Opt.Bonded-empty string error_VMD1.9.2Beta (Wed Nov 12 2014 - 06:51:52 CST)
- Re: Protein went out of the Box (Wed Nov 12 2014 - 00:41:23 CST)
- Re: Protein went out of the Box (Tue Nov 11 2014 - 19:13:00 CST)
- Re: Re: Charge Optimization error: error deleting "base-wat.pdb": permission denied (Sat Nov 08 2014 - 10:46:00 CST)
- Re: psfgen N-terminal patches (Fri Oct 31 2014 - 16:05:54 CDT)
- Re: psfgen N-terminal patches (Fri Oct 31 2014 - 15:37:42 CDT)
- Re: removing water inside the nanotube (Wed Oct 29 2014 - 03:54:03 CDT)
- Re: vmd-l incoming mails become Spam (Fri Oct 24 2014 - 07:00:24 CDT)
- Re: vmd-l incoming mails become Spam (Fri Oct 24 2014 - 07:04:41 CDT)
- vmd-l incoming mails become Spam (Fri Oct 24 2014 - 06:20:43 CDT)
- Re: VMD plugins not available without gui (Wed Oct 08 2014 - 04:13:33 CDT)
- Re: calculate structure of protein (Fri Oct 03 2014 - 07:18:08 CDT)
- Re: Resname CHARMM to NAMD (Mon Sep 22 2014 - 23:50:14 CDT)
- Re: CatDCD on Windows (Mon Sep 22 2014 - 19:35:07 CDT)
- CatDCD on Windows (Mon Sep 22 2014 - 18:07:48 CDT)
- Parameter and Topology File UPDATE. (Fri Aug 15 2014 - 21:23:48 CDT)
Ashish .Chauniyal
- Re: How do i merge files with mergemols (Thu May 01 2014 - 05:39:14 CDT)
- Re: How do i merge files with mergemols (Sat Apr 26 2014 - 10:10:45 CDT)
- Re: How do i merge files with mergemols (Sat Apr 26 2014 - 09:01:14 CDT)
- Re: How do i merge files with mergemols (Sat Apr 26 2014 - 09:07:27 CDT)
- Re: How do i merge files with mergemols (Fri Apr 25 2014 - 06:14:22 CDT)
- How do i merge files with mergemols (Wed Apr 16 2014 - 10:07:00 CDT)
- problem with 'atomselect' command (Tue Apr 08 2014 - 12:23:05 CDT)
ASHISH BIHANI
- CentOS 6.4 crashed right after starting vmd (Thu Apr 16 2015 - 00:57:51 CDT)
Ashley Bennett
- Tachyon Render and MacOS segfault Issue (Wed Nov 02 2016 - 16:39:20 CDT)
Ashlynne Monroe
- capping or patching protein ends (Thu Mar 03 2011 - 10:40:37 CST)
Ashma Khan
- (no subject) (Thu Dec 10 2020 - 10:16:13 CST)
- Re: confusing about the residue number (Thu Dec 10 2020 - 10:07:56 CST)
- Re: confusing about the residue number (Wed Dec 09 2020 - 23:24:36 CST)
- confusing about the residue number (Wed Dec 09 2020 - 22:43:18 CST)
- Re: For calculating the number of osmolytes molecules (Mon Sep 16 2019 - 09:47:08 CDT)
- For calculating the number of osmolytes molecules (Mon Sep 16 2019 - 04:51:51 CDT)
- selection of water molecules around particular number of atoms (Wed Nov 28 2018 - 23:54:42 CST)
Ashraya Ravikumar
- RMSD per residue vs RMSF (Wed Dec 18 2019 - 12:34:19 CST)
asimplefunguy_at_netscape.net
- nvidia drivers and 64bit OS VMD/PYMOL (Mon Oct 24 2005 - 09:10:23 CDT)
Asis Jana
- Re: removing water inside the nanotube (Tue Oct 28 2014 - 23:24:57 CDT)
- removing water inside the nanotube (Tue Oct 28 2014 - 11:19:42 CDT)
Asmaa Elsheshiny
- apbs with vmd, no output (Tue May 10 2011 - 12:14:08 CDT)
- "can not find channel named ... (Wed Jul 28 2010 - 04:14:31 CDT)
Assa Sittner
- viewing .brix maps (Sun Mar 13 2005 - 04:58:03 CST)
Ata Madanchi
- Extracting hydrogen bond information of water (Thu Nov 03 2022 - 14:28:43 CDT)
Atanu Acharya
- Re: VMD on Windows 11 (Wed Feb 08 2023 - 15:39:47 CST)
- Re: VMD 1.9.4.a53 crashes on windows 11 (Thu Nov 03 2022 - 23:06:27 CDT)
- VMD 1.9.4.a53 crashes on windows 11 (Thu Nov 03 2022 - 11:01:49 CDT)
Atanu Maity
- Re: query regarding phi-psi range for asigning secondary structure (Fri Oct 09 2015 - 04:44:24 CDT)
- query regarding phi-psi range for asigning secondary structure (Fri Oct 09 2015 - 01:43:43 CDT)
Athanassios Stavrakoudis
- Re: Calculating system net charge with tcl in VMD (Mon Apr 27 2009 - 05:12:18 CDT)
Atila Iamarino
- removing water molecules (Mon Jun 04 2007 - 13:21:33 CDT)
- Re: Saving mol2 file (Wed Apr 18 2007 - 10:50:57 CDT)
- Saving mol2 file (Mon Apr 16 2007 - 12:36:00 CDT)
Atila Petrosian
- rlwrap: Command not found. /usr/local/lib/vmd/vmd_LINUX: Command not found. (Fri Dec 09 2016 - 13:29:11 CST)
- Re: rlwrap: Command not found. /usr/local/lib/vmd/vmd_LINUX: Command not found. (Fri Dec 09 2016 - 01:55:18 CST)
- rlwrap: Command not found. /usr/local/lib/vmd/vmd_LINUX: Command not found. (Fri Dec 09 2016 - 01:49:42 CST)
- Re: netcdf trajectory file (Fri Oct 30 2015 - 08:42:20 CDT)
- Re: netcdf trajectory file (Fri Oct 30 2015 - 07:46:10 CDT)
- Re: netcdf trajectory file (Fri Oct 30 2015 - 06:17:27 CDT)
- netcdf trajectory file (Fri Oct 30 2015 - 02:22:12 CDT)
- embedding proteins in membrane: child killed: segmentation violation (Sun Aug 23 2015 - 09:59:08 CDT)
- contact map for Protein-DNA interaction (Mon Jul 12 2010 - 02:19:13 CDT)
Atreya Dey
- Using the -updatesel parameter in namdenergy (Fri Nov 20 2015 - 01:49:58 CST)
- Energy based coloring of residues (Mon Jul 06 2015 - 06:28:54 CDT)
Atreyo Pal
- VMD running on Mac OS Big Sur (Tue Nov 17 2020 - 20:28:30 CST)
- cionize plugin VMD (Mon Nov 09 2020 - 11:33:51 CST)
Audrey Salazar
- Questions abt VMD plugins (Fri Sep 14 2007 - 08:59:48 CDT)
- Re: Installing VMD to work with MSMS (Tue Aug 14 2007 - 13:42:35 CDT)
- Installing VMD to work with MSMS (Tue Aug 14 2007 - 11:07:38 CDT)
- Archived Spam in the VMD-L Mailing List (Tue Aug 14 2007 - 10:00:30 CDT)
- Re: Automatic PSF Builder Help (Mon Aug 06 2007 - 14:47:08 CDT)
- Re: Automatic PSF Builder Help (Mon Aug 06 2007 - 14:27:52 CDT)
- Automatic PSF Builder Help (Mon Aug 06 2007 - 11:16:12 CDT)
Aurelie.DeLuca_at_sanofi-aventis.com
- RMSD between two structures without the same number of atoms (Fri Apr 18 2008 - 08:08:39 CDT)
Aurore Zyto
- Cartoon representation for large molecules (Wed Dec 31 2003 - 15:43:11 CST)
Aurum Bai
- About "Visualization and Analysis of CPMD data with VMD" tutorial (Thu Dec 10 2009 - 02:29:22 CST)
- Is it the bug of VMD1.87_partool? (Wed Nov 18 2009 - 06:29:56 CST)
- How to compile the source of VMD1.8.7 on linux system (Fri Aug 07 2009 - 00:10:40 CDT)
- Why the win_version of vmd1.86 can not change to python interpreter? (Sat Aug 01 2009 - 08:21:06 CDT)
Austin Small
- RE: Can't execvp vmd_SOLARISX86 (Tue Sep 25 2007 - 16:14:16 CDT)
- Can't execvp vmd_SOLARISX86 (Sun Sep 23 2007 - 23:42:50 CDT)
- vmdbasename: Undefined variable (Sat Sep 08 2007 - 12:13:41 CDT)
AustinSmall_at_comcast.net
- VMD plugin error src/webpdbplugin.c (Sun Aug 12 2007 - 18:08:17 CDT)
- Re: gmake invalid option --c install (Sat Aug 11 2007 - 12:52:32 CDT)
- gmake invalid option --c install (Sat Aug 11 2007 - 10:47:45 CDT)
- VMD plugins error (Mon Aug 06 2007 - 22:18:52 CDT)
- (no subject) (Thu Jul 26 2007 - 16:06:23 CDT)
- installation errors with src/hesstrans_wrap.C (Thu Jul 26 2007 - 16:16:39 CDT)
Avell Diroll
- Re: Hydrophobicity plots in VMD (Tue Nov 27 2007 - 03:22:21 CST)
- Re: Moving volume data with molecule (Thu Mar 29 2007 - 11:59:01 CDT)
- Moving volume data with molecule (Thu Mar 29 2007 - 10:05:40 CDT)
- Re: read the pdb file using VMD (Wed Mar 07 2007 - 17:39:38 CST)
- Re: Isosurface rendering (Thu Feb 22 2007 - 08:11:28 CST)
- Re: Isosurface rendering (Wed Feb 21 2007 - 06:42:05 CST)
- Isosurface rendering (Tue Feb 20 2007 - 08:52:35 CST)
Avisek Das
- Re: VMD on Blue Waters (Fri Dec 20 2013 - 13:05:17 CST)
- Re: VMD on Blue Waters (Fri Dec 20 2013 - 12:45:45 CST)
- Re: VMD on Blue Waters (Fri Dec 20 2013 - 12:32:48 CST)
- VMD on Blue Waters (Fri Dec 20 2013 - 11:55:25 CST)
- OpenGL problem (Mon Apr 29 2013 - 11:04:36 CDT)
avl211_at_lehigh.edu
- Problem With Psfgen again (Fri Jul 17 2009 - 13:53:49 CDT)
- Problems with psfgen (Thu Jul 16 2009 - 16:06:31 CDT)
Axel Berg
- questions about MSMS and H-bonds (Fri Mar 05 1999 - 06:38:48 CST)
- MSMS in VMD (Tue Oct 14 1997 - 07:58:11 CDT)
Axel Kohlmeyer
- VMD TopoTools plugin is looking for a new maintainer (Thu Apr 17 2025 - 01:01:48 CDT)
- Re: Passing frame number list to measure command (Thu Feb 27 2025 - 16:27:09 CST)
- Re: Volume considered in calculation of g(r) (Thu Nov 14 2024 - 00:15:11 CST)
- Re: << Using CPK/Rasmol color scheme >> (Mon Nov 11 2024 - 18:14:49 CST)
- Re: Volume considered in calculation of g(r) (Wed Nov 06 2024 - 12:08:29 CST)
- Re: saving a PDB in a different order than it was loaded (Thu May 02 2024 - 22:30:44 CDT)
- Re: atomselection near periodic boundaries (Mon Feb 19 2024 - 06:55:01 CST)
- Re: unable to open VMD as normal (Tue Feb 06 2024 - 10:46:16 CST)
- Re: unable to open VMD as normal (Mon Feb 05 2024 - 19:26:07 CST)
- Re: unable to open VMD as normal (Mon Feb 05 2024 - 16:58:07 CST)
- Re: Visualization of new bonds created in LAMMPS simulation (Wed Jan 03 2024 - 13:04:34 CST)
- Re: assigning segment id or a unique identity in lammps data file (Wed Jan 03 2024 - 12:58:48 CST)
- Re: Please help me understand the .dx file generated when using PME Electrostatics Analysis (Sat Dec 09 2023 - 14:48:21 CST)
- Re: VMD openGL over ssh from a server with NVIDIA (Thu Nov 02 2023 - 16:54:02 CDT)
- Re: VMD openGL over ssh from a server with NVIDIA (Thu Nov 02 2023 - 16:27:46 CDT)
- Re: Re: <<cionize on macOS error>> (Mon Sep 25 2023 - 17:14:53 CDT)
- Re: Re: <<cionize on macOS error>> (Mon Sep 25 2023 - 16:04:06 CDT)
- Re: Re: <<cionize on macOS error>> (Mon Sep 25 2023 - 15:49:35 CDT)
- Re: Python crash VMD1.9.4 (Wed Apr 12 2023 - 09:57:28 CDT)
- Re: Gaussian09 install on macOS Inquiry (Tue Apr 11 2023 - 08:43:23 CDT)
- Re: Gaussian09 install on macOS Inquiry (Tue Apr 11 2023 - 08:31:28 CDT)
- Re: Two questions: reordering molecule IDs and deleting frames with TCL commands (Sat Mar 11 2023 - 23:49:00 CST)
- Re: Two questions: reordering molecule IDs and deleting frames with TCL commands (Sat Mar 11 2023 - 23:23:27 CST)
- Re: Fwd: Problem building vmd with ospray - OSPRayRenderer.h error: â€˜OSPModelâ€™ does not name a typ (Thu Feb 23 2023 - 23:55:57 CST)
- Re: Problem with make_trajectory_movie_files script for lammps trajectory with -dispdev text (Fri Feb 17 2023 - 06:45:21 CST)
- Re: VMD on Windows 11 (Wed Feb 08 2023 - 12:57:05 CST)
- Re: coloring (Fri Dec 30 2022 - 19:16:49 CST)
- Re: << thresholds for drawing bonds >> (Tue Dec 27 2022 - 16:12:10 CST)
- Re: Issue install VMD 1.9.3 Spack (Mon Dec 05 2022 - 05:45:24 CST)
- Re: Topotools "guessangles" not assigning angles (Wed Nov 09 2022 - 03:07:42 CST)
- Re: Maximum Stride Possible for Publishable Results (Fri Oct 07 2022 - 13:42:45 CDT)
- Re: Maximum Stride Possible for Publishable Results (Wed Oct 05 2022 - 14:42:34 CDT)
- Re: Overriding default bond heuristics (Mon Oct 03 2022 - 13:39:22 CDT)
- Re: DisRG Plugin Availability (Thu Aug 25 2022 - 17:45:01 CDT)
- Re: rdf with respect to a specific point (Thu Aug 25 2022 - 17:37:03 CDT)
- Re: rdf with respect to a specific point (Wed Aug 24 2022 - 17:16:42 CDT)
- Re: Protein residue read as solvent (Wed Aug 17 2022 - 07:48:42 CDT)
- Re: compiling VMD 1.9.3 under Ubuntu 22.04LTS: modern C library issues (Sat Jul 30 2022 - 16:04:14 CDT)
- Re: Create CHARMM COR files with VMD (Tue Jul 26 2022 - 12:09:13 CDT)
- Re: << multiple atom selection >> (Sat Jul 23 2022 - 13:02:47 CDT)
- Re: << multiple atom selection >> (Sat Jul 23 2022 - 13:03:27 CDT)
- Re: How to reduce the size of a .dcd file? (Fri Jun 17 2022 - 09:45:16 CDT)
- Re: Movie Maker plugin parallel MPI rendering (Sun May 29 2022 - 18:49:42 CDT)
- Re: â€œFilesize limit exceeded (core dumped)Q=80=9D_with_VMD_on_Linux?= (Thu May 26 2022 - 12:09:10 CDT)
- Re: measure sasa and memory issue (Sun May 22 2022 - 12:24:04 CDT)
- Re: Launching VMD Gui from WSL Centos compiled from source (Sat May 21 2022 - 11:07:29 CDT)
- Re: Parsing exit code from TCL script to bash bypassing VMD (Mon May 09 2022 - 09:17:29 CDT)
- Re: question on increasing font size on VMD main menu (Sat Apr 30 2022 - 15:18:13 CDT)
- Re: VMD MPI error (Wed Apr 06 2022 - 05:48:26 CDT)
- Re: error 1114 when loading plugins (Tue Apr 05 2022 - 13:36:18 CDT)
- Re: GPU-accelerated RDF Calculation (Thu Mar 31 2022 - 18:10:50 CDT)
- Re: How to increase bond length maximum ? (Thu Mar 31 2022 - 09:05:33 CDT)
- Re: << memory issue? >> (Wed Mar 30 2022 - 21:05:09 CDT)
- Re: How to increase bond length maximum ? (Wed Mar 30 2022 - 08:15:31 CDT)
- Re: How to read netcdf files on Windows version of VMD? (Mon Mar 14 2022 - 03:02:28 CDT)
- Re: How to read netcdf files on Windows version of VMD? (Mon Mar 14 2022 - 02:45:43 CDT)
- Re: read setting from text file (Tue Mar 01 2022 - 09:00:17 CST)
- Re: Visualize a lammpstrij file (Thu Jan 20 2022 - 06:45:18 CST)
- Re: MOLECULE DESTROYED BY FATAL ERROR (Sun Jan 16 2022 - 15:40:25 CST)
- Re: How to write a netcdf file in vmd from already loaded netcdf/dcd trajectory (Thu Dec 23 2021 - 06:16:31 CST)
- Re: VMD warning: ignoring out of range atom #*** with id *** (Wed Dec 15 2021 - 09:28:58 CST)
- Re: molfile plugin compilation for webassembly (Wed Dec 01 2021 - 22:22:57 CST)
- Re: CIF file reader (Wed Dec 01 2021 - 22:26:19 CST)
- Re: Re: CNT structure formation (Sat Nov 27 2021 - 14:03:46 CST)
- Re: Dynamic bonds across PBC (Sat Nov 27 2021 - 07:45:18 CST)
- Re: support for gromacs topology files (Fri Nov 26 2021 - 19:25:44 CST)
- Re: Change Atom serial Atom (Wed Nov 17 2021 - 20:52:39 CST)
- Re: Change Atom serial Atom (Wed Nov 17 2021 - 20:19:32 CST)
- Re: Change Atom serial Atom (Wed Nov 17 2021 - 20:14:48 CST)
- Re: Color Transition in VMD (Sun Nov 14 2021 - 08:46:55 CST)
- Re: Color Transition in VMD (Sun Nov 14 2021 - 02:44:41 CST)
- Re: Color Transition in VMD (Sat Nov 13 2021 - 18:42:24 CST)
- Re: Color Transition in VMD (Sat Nov 13 2021 - 16:32:52 CST)
- Re: Remote IMD simulation (Sat Nov 06 2021 - 13:38:23 CDT)
- Re: Install of VMD on amazon linux2 NICE DCV server (Sat Nov 06 2021 - 11:41:25 CDT)
- Re: Merge frames of PDB asymmetric unit to biological assembly (Tue Oct 05 2021 - 23:42:45 CDT)
- Re: loading movies of ply files (Thu Sep 02 2021 - 11:14:40 CDT)
- Re: Tachyon not rendering large scenes (Thu Sep 02 2021 - 11:06:30 CDT)
- Re: Discrepancy in value of dihedral angles of a sugar molecule by VMD tools (Thu Jul 22 2021 - 07:41:39 CDT)
- Re: [External] Re: troubles in setting pbc on m1 mac version (Thu Jul 15 2021 - 09:50:28 CDT)
- Re: vmd change atom type when saving lammpstrj (Tue Jul 13 2021 - 15:31:04 CDT)
- Re: showing bonds in .xyz files (Wed Jul 07 2021 - 12:32:32 CDT)
- Re: Re: [topotools]writelammpsdata (Fri Jun 18 2021 - 08:52:30 CDT)
- Re: [topotools]writelammpsdata (Fri Jun 18 2021 - 07:58:55 CDT)
- Re: topotools lammps style sphere - write molecules (Mon Jun 14 2021 - 10:55:13 CDT)
- Re: topotools lammps style sphere - write molecules (Mon Jun 14 2021 - 10:59:40 CDT)
- Re: topotools lammps style sphere - write molecules (Mon Jun 14 2021 - 10:52:29 CDT)
- Re: loading multiple different topologies into the same "molecule" (Thu Jun 10 2021 - 13:26:26 CDT)
- Re: [topotool] writelammpsdata : custom order for atom types (Wed May 12 2021 - 08:20:02 CDT)
- Re: [topotool] writelammpsdata : custom order for atom types (Wed May 12 2021 - 04:30:22 CDT)
- Re: Compilation error: stride_LINUXAMD64', surf_LINUXAMD64, tachyon_LINUXAMD64 : No such file or directory (Thu Apr 22 2021 - 15:34:04 CDT)
- Re: BFEE plugin error: 'measure center: bad weight sum would cause divide by zero' (Thu Apr 22 2021 - 12:59:51 CDT)
- Re: Loading files (Wed Apr 07 2021 - 16:34:57 CDT)
- Re: Loading files (Wed Apr 07 2021 - 14:59:25 CDT)
- Re: Loading files (Wed Apr 07 2021 - 15:02:28 CDT)
- Re: (Fri Mar 26 2021 - 14:01:39 CDT)
- Re: Why do the coordinates of my atoms change when writing to a pdb file? (Sun Mar 21 2021 - 00:18:28 CDT)
- Re: set non-zero box sizes for GAMESS output (Tue Mar 16 2021 - 13:30:53 CDT)
- Re: Using writelammpsdata in 1.9.4 (Tue Mar 02 2021 - 20:49:54 CST)
- Re: Using writelammpsdata in 1.9.4 (Tue Mar 02 2021 - 20:05:55 CST)
- Re: New User Cannot Access VMD on Windows (Fri Feb 26 2021 - 18:59:05 CST)
- Re: Native contacts tcl script crashed (Thu Feb 18 2021 - 01:13:34 CST)
- Re: Native contacts tcl script crashed (Tue Feb 16 2021 - 05:12:14 CST)
- Re: Pbc box on, default (Wed Feb 03 2021 - 13:07:03 CST)
- Re: Fwd: Naming Atoms in VMD (Thu Jan 21 2021 - 16:36:16 CST)
- Re: OpenGL window not rendering over ssh but works when connecting from other computers and works fine locally (Thu Jan 21 2021 - 07:15:46 CST)
- Re: RE: Install VMD from source on Amazon EC2 instance (Thu Jan 07 2021 - 17:29:43 CST)
- Re: RE: Install VMD from source on Amazon EC2 instance (Thu Jan 07 2021 - 17:14:13 CST)
- Re: RE: Install VMD from source on Amazon EC2 instance (Thu Jan 07 2021 - 16:58:26 CST)
- Re: RE: Install VMD from source on Amazon EC2 instance (Thu Jan 07 2021 - 16:48:47 CST)
- Re: lammpstrj move out zoom (Fri Jan 01 2021 - 11:03:26 CST)
- Re: (Sat Dec 05 2020 - 17:08:10 CST)
- Re: Saving updated trajectory coordinates of selected atoms (Mon Nov 16 2020 - 09:02:07 CST)
- Re: Saving updated trajectory coordinates of selected atoms (Mon Nov 16 2020 - 07:42:46 CST)
- Re: Sorting as an increasing function of the integers in suffices (Mon Nov 16 2020 - 07:47:14 CST)
- Re: Calculating mean square displacement and removing PBC (Thu Oct 22 2020 - 15:03:21 CDT)
- Re: Calculating mean square displacement and removing PBC (Thu Oct 22 2020 - 14:28:43 CDT)
- Re: Calculating mean square displacement and removing PBC (Thu Oct 22 2020 - 13:47:24 CDT)
- Re: Glu-Lys Isopeptide Bond Parameters? (Wed Oct 07 2020 - 16:08:35 CDT)
- Re: shifting of ions from +z to -z in a single frame(1ps) (Tue Oct 06 2020 - 22:13:37 CDT)
- Re: FFTK Gaussian Input Generator - Bug? (Fri Sep 25 2020 - 17:29:43 CDT)
- Re: compile vmd for windows 10 (Tue Sep 22 2020 - 09:07:27 CDT)
- Re: Unusual coordinates in PDB files exracted from dcd file (Sun Sep 20 2020 - 21:12:41 CDT)
- Re: topo tool guess bond algorithm (Tue Sep 15 2020 - 19:07:28 CDT)
- Re: Regarding arsorite files (Tue Sep 15 2020 - 08:10:10 CDT)
- Re: New LAMMPS atom style for TopoTools (Wed Aug 19 2020 - 10:10:46 CDT)
- Re: No file upon rendering (Mon Aug 10 2020 - 10:26:23 CDT)
- Re: LAMMPS output with VMD (Mon Aug 03 2020 - 09:57:20 CDT)
- Re: building VMD with Ubuntu 18.04 (Mon Aug 03 2020 - 09:52:16 CDT)
- Re: Trajectory smoothing (Mon Jul 13 2020 - 22:41:55 CDT)
- Re: Trajectory smoothing (Mon Jul 13 2020 - 22:06:24 CDT)
- Re: Best way to extend molfile plugin (Tue Jul 07 2020 - 08:15:37 CDT)
- Re: Fw: selection of molecules in dynamic region (Wed Jul 01 2020 - 10:53:37 CDT)
- Re: VMD on HPC (Wed Jul 01 2020 - 04:52:33 CDT)
- Re: selection of molecules in dynamic region (Mon Jun 29 2020 - 06:13:44 CDT)
- Re: Visualizing Molecule-Molecule RDFs instead of atom-atom (Tue Jun 16 2020 - 16:58:45 CDT)
- Re: Visualizing Molecule-Molecule RDFs instead of atom-atom (Tue Jun 16 2020 - 16:01:39 CDT)
- Re: how to keep the bond , angle , dihedral and improper type after solvating the lammps data (Fri Jun 12 2020 - 15:04:44 CDT)
- Re: Radial distribution function calculation (Wed Jun 10 2020 - 23:59:10 CDT)
- Re: Visualizing Vibrational Modes (Tue Jun 09 2020 - 18:08:29 CDT)
- Re: Visualizing Vibrational Modes (Tue Jun 09 2020 - 17:23:13 CDT)
- Re: Fw: Hbond extension (Tue Jun 02 2020 - 12:43:54 CDT)
- Re: new type cross terms in topo tool (Sat May 09 2020 - 16:14:11 CDT)
- Re: delete angle type with topo tool (Sat May 09 2020 - 16:12:13 CDT)
- Re: Memory Pool Size - can I optimize this? (Mon Mar 30 2020 - 12:38:51 CDT)
- Re: Memory Pool Size - can I optimize this? (Mon Mar 30 2020 - 12:12:32 CDT)
- Re: Build graphene sheets using VMD (Thu Feb 20 2020 - 16:22:12 CST)
- Re: Build graphene sheets using VMD (Thu Feb 20 2020 - 15:54:39 CST)
- Re: Keeping molecules intact when unwrapping (Sun Feb 16 2020 - 17:37:22 CST)
- Re: Check and remove the overlapping between atoms (Sun Feb 16 2020 - 17:47:25 CST)
- Re: Check and remove the overlapping between atoms (Sat Feb 15 2020 - 11:09:48 CST)
- Re: writing psf file without any coordinates (Wed Jan 22 2020 - 20:23:25 CST)
- Re: save contact map residue-residue distance plot (Mon Jan 20 2020 - 08:28:11 CST)
- Re: vmd draw material affects previous drawings (Mon Dec 16 2019 - 13:50:25 CST)
- Re: Filetype for Kinetic Monte Carlo (Fri Nov 22 2019 - 10:29:22 CST)
- Re: Is it possible to use VMD to plot RDFs where the cell volume/parameter changes at each time step? (Wed Oct 23 2019 - 15:49:48 CDT)
- Re: Periodic image (Thu Oct 17 2019 - 04:40:39 CDT)
- Re: lammps data file simulation box center and VMD origin (Wed Oct 02 2019 - 15:07:54 CDT)
- Re: XenoView saved file (.car/.mdf file) (Tue Sep 24 2019 - 11:20:18 CDT)
- Re: VMD not reading plain mdcrd trajectories (Fri Sep 20 2019 - 10:26:47 CDT)
- Re: << Loading trajectory file in Windows fails >> (Wed Aug 28 2019 - 09:08:53 CDT)
- Re: sub : considering waters with in 5A of solute (Wed Jul 24 2019 - 12:24:05 CDT)
- Re: Periodic boundary conditions for multimeric systems (Mon Jul 22 2019 - 11:58:08 CDT)
- Re: atomselect one liner (Sat Jul 20 2019 - 03:22:13 CDT)
- Re: Increasing the number of bonds per atom (Thu Jun 27 2019 - 07:31:22 CDT)
- Re: how to draw boxes with semi-transparent sides (Sun Jun 02 2019 - 20:21:05 CDT)
- Re: Topotools - silicon (110) creation (Sat Mar 30 2019 - 06:05:07 CDT)
- Re: Topotools - silicon (110) creation (Thu Mar 28 2019 - 11:56:12 CDT)
- Re: PSF File (Wed Mar 13 2019 - 19:54:21 CDT)
- Re: How to fix the position of the lipid bilayer in the trajectories (Wed Mar 13 2019 - 16:18:12 CDT)
- Re: TCL For Loop Problem (Sun Feb 24 2019 - 22:18:12 CST)
- Re: Topo tools error in dihedral guess (Wed Feb 20 2019 - 06:12:00 CST)
- Re: Topo tools error in dihedral guess (Tue Feb 19 2019 - 01:59:57 CST)
- Re: Topo tools error in dihedral guess (Mon Feb 18 2019 - 13:14:00 CST)
- Re: Topo tools error in dihedral guess (Mon Feb 18 2019 - 08:46:13 CST)
- Re: Problem in loading netcdf file from LAMMPS output in VMD (Fri Jan 04 2019 - 12:36:22 CST)
- Re: Problem in loading netcdf file from LAMMPS output in VMD (Fri Jan 04 2019 - 11:43:06 CST)
- Re: Problem in loading netcdf file from LAMMPS output in VMD (Tue Jan 01 2019 - 23:52:35 CST)
- Re: Calculation of gofr for non-orthorhombic boxes (Tue Jan 01 2019 - 22:55:07 CST)
- Re: Error in Loading atom_style hybrid LAMMPS data file in VMD (Mon Dec 17 2018 - 09:13:01 CST)
- Re: Create new atoms (Wed Nov 07 2018 - 14:32:13 CST)
- Re: Question (Sun Nov 04 2018 - 18:56:26 CST)
- Re: Dipole Watcher Plugin - atom selection not updated at every frame when drawing dipoles (Mon Oct 22 2018 - 10:15:14 CDT)
- Re: Dipole Watcher Plugin - atom selection not updated at every frame when drawing dipoles (Thu Oct 18 2018 - 08:05:04 CDT)
- Re: problem with Catdcd (Wed Sep 12 2018 - 23:50:14 CDT)
- Re: Atomselection with the position selected conditions inside the loop is not working properly (Thu Aug 16 2018 - 08:14:03 CDT)
- Re: psfgen building fails due to locale (Mon Jul 23 2018 - 08:12:37 CDT)
- Re: IR spectral density calculation (Sun Jul 22 2018 - 14:26:45 CDT)
- Re: Deleting a given bond type by topo tool (Wed Jul 18 2018 - 08:27:37 CDT)
- Re: Issue with visualizing model (Sat Jul 14 2018 - 01:16:28 CDT)
- Re: How to define charge group and pass it to topo writegmxtop (Mon Jul 02 2018 - 06:07:08 CDT)
- Re: tcl script to pull pdb file from tgz (Thu Jun 21 2018 - 22:18:58 CDT)
- Re: VMD Update Questions (Mon Jun 11 2018 - 15:11:52 CDT)
- Re: Finding Local Kinetic Energy or Velocities (Wed May 23 2018 - 10:55:36 CDT)
- Re: namd-l: Re: Fwd: FEP with intermediary segments (Fri May 04 2018 - 11:12:04 CDT)
- Re: How to change the coordinates of the dummy atoms in readvarxyz (Fri May 04 2018 - 11:17:19 CDT)
- Re: Calculating Diffusion Coefficient Using VMD (Tue May 01 2018 - 19:25:54 CDT)
- Re: Resp on VMD (Mon Apr 23 2018 - 16:27:52 CDT)
- Re: Calculating Diffusion Coefficient Using VMD (Mon Apr 23 2018 - 14:01:31 CDT)
- Re: NAMD Color By Velocity (Tue Apr 17 2018 - 14:03:22 CDT)
- Re: source download (Mon Apr 16 2018 - 08:43:31 CDT)
- Re: Regarding RDF and Cordination number calculatin (Wed Apr 04 2018 - 05:04:34 CDT)
- Re: ATOM VELOCITY HIGH ERROR in Coarse grained Simulation (Fri Mar 30 2018 - 09:41:50 CDT)
- Re: Solvent PDB and PSF Files (Thu Mar 29 2018 - 12:58:02 CDT)
- Re: Parallelization to an axis (Fri Mar 23 2018 - 09:57:52 CDT)
- Re: Building plugins with _USE_ZLIB (how to activate preprocessor macro) (Tue Mar 13 2018 - 16:53:08 CDT)
- Re: Building plugins with _USE_ZLIB (how to activate preprocessor macro) (Tue Mar 13 2018 - 16:32:37 CDT)
- Re: Building plugins with _USE_ZLIB (how to activate preprocessor macro) (Tue Mar 13 2018 - 16:30:12 CDT)
- Re: Running vmd (Mon Mar 05 2018 - 09:50:16 CST)
- Re: Running vmd (Mon Mar 05 2018 - 04:55:07 CST)
- Re: netcdf for plugins (Sun Mar 04 2018 - 07:49:42 CST)
- Re: vmd error related to tcl.h (Sun Mar 04 2018 - 07:42:32 CST)
- Re: netcdf for plugins (Sun Mar 04 2018 - 07:34:44 CST)
- Re: Unable to build a symmetric (m=0) zigzag BN nanotube in VMD (Wed Feb 28 2018 - 02:15:29 CST)
- Re: Atom type information is not incremented after merging two molecules. (Fri Feb 23 2018 - 04:02:27 CST)
- Re: salvation of heavy water (Mon Feb 19 2018 - 09:45:18 CST)
- Re: Can specden produce the autocorrelation and not only the powerspectrum? (Tue Feb 06 2018 - 12:46:27 CST)
- Re: removing rotation in trajectories (Wed Dec 20 2017 - 10:38:40 CST)
- Re: Topotools guessing angle and bond topology from CONNECT info in PDB files (Wed Nov 22 2017 - 13:25:20 CST)
- Re: Topotools guessing angle and bond topology from CONNECT info in PDB files (Wed Nov 22 2017 - 00:41:16 CST)
- Re: error : invalid command name "psfgen" in 6pti tutorial (Mon Nov 20 2017 - 23:47:19 CST)
- Re: Fwd: Topotools to keep atomtypes same (Wed Nov 01 2017 - 21:03:27 CDT)
- Re: Fwd: Topotools to keep atomtypes same (Wed Nov 01 2017 - 17:38:50 CDT)
- Re: calculate g(r) (Sun Oct 15 2017 - 14:09:46 CDT)
- Re: calculate g(r) (Sun Oct 15 2017 - 08:42:56 CDT)
- Re: calculate g(r) (Sun Oct 15 2017 - 07:00:57 CDT)
- Re: Rgarding the output for dx file of occupancy(VolMap) (Mon Sep 18 2017 - 14:17:22 CDT)
- Re: install VMD IN parallel (Fri Sep 01 2017 - 14:10:44 CDT)
- Re: Problem loading Amber trajectory (Sun Aug 13 2017 - 09:22:54 CDT)
- Re: vmd smooth trajectory distorted molecule (Wed Aug 09 2017 - 13:00:15 CDT)
- Re: vmd smooth trajectory distorted molecule (Wed Aug 09 2017 - 09:15:58 CDT)
- Re: vmd smooth trajectory distorted molecule (Wed Aug 09 2017 - 05:40:02 CDT)
- Re: autoionize not neutralizing the system (Sun Aug 06 2017 - 22:26:32 CDT)
- Re: coloring different polymers with different (random) colors (Mon Jul 10 2017 - 09:46:33 CDT)
- Re: Get empirical formula of fragment (Mon Jul 03 2017 - 14:19:13 CDT)
- Re: dynamic bond making/breaking formats (Fri Jun 30 2017 - 17:49:12 CDT)
- Re: convert psf to top with topotools (Wed Jun 21 2017 - 13:04:40 CDT)
- Re: problem of displaying simulation box (Fri Jun 16 2017 - 11:20:00 CDT)
- Re: CG builder in script (Wed Jun 14 2017 - 05:53:26 CDT)
- Re: CG builder in script (Wed Jun 14 2017 - 05:31:14 CDT)
- Re: Periodic Conditions for Hexagonal Membrane System (Fri May 19 2017 - 19:40:24 CDT)
- Re: Writing velocities in lammps dump file (Thu Apr 27 2017 - 06:28:09 CDT)
- Re: RDF and RMSD calculation (Tue Apr 11 2017 - 09:54:28 CDT)
- Re: video streaming (Thu Mar 30 2017 - 06:01:19 CDT)
- Re: replicating a trajectory in VMD (Sun Mar 19 2017 - 10:55:51 CDT)
- Re: Localhost port 3000 error (Wed Mar 08 2017 - 15:26:21 CST)
- Re: Body (Mon Mar 06 2017 - 12:10:52 CST)
- Re: ReadVarXYZ and measure gofr (Fri Feb 24 2017 - 15:12:28 CST)
- Re: How to set the representations in batch in VMD? (Sat Feb 11 2017 - 13:42:12 CST)
- Re: Topo file (Tue Feb 07 2017 - 11:14:14 CST)
- Re: Topo file (Tue Feb 07 2017 - 10:45:30 CST)
- Re: RDFs Calculation incorporating PBC (Mon Jan 23 2017 - 06:43:25 CST)
- Re: writegmxtop error invalid command name "..." (Tue Jan 17 2017 - 07:14:29 CST)
- Re: compiling VMD 1.9.3 with OSPRay support (Tue Jan 10 2017 - 08:54:18 CST)
- Re: reading big xtc file (Thu Jan 05 2017 - 16:25:48 CST)
- Re: topotools readlammpsdata redefining xyz coordinates? (Wed Jan 04 2017 - 17:49:44 CST)
- Re: Fw: Draw arrows in trajectory file (Tue Dec 20 2016 - 08:27:51 CST)
- Re: vmd1.9.23 rlwrap: No match (Mon Dec 19 2016 - 16:07:55 CST)
- Re: Atom selections for measure - index sorting (Thu Dec 15 2016 - 10:24:15 CST)
- Re: rlwrap: Command not found. /usr/local/lib/vmd/vmd_LINUX: Command not found. (Fri Dec 09 2016 - 13:51:56 CST)
- Re: rlwrap: Command not found. /usr/local/lib/vmd/vmd_LINUX: Command not found. (Fri Dec 09 2016 - 13:50:14 CST)
- Re: Distribute evenly n-molecules at m-angstroem from protein surface (Sun Dec 04 2016 - 00:29:54 CST)
- Re: Limits of the VMD Visualisation (Wed Nov 09 2016 - 12:21:13 CST)
- Re: MD movie making of fluent movements (Fri Nov 04 2016 - 10:35:30 CDT)
- Re: selection atoms depending on bonding, selection of 'new' molecules (Fri Oct 14 2016 - 09:52:54 CDT)
- Re: by using Axel's HOOMD plugin, convert pdb to xml and missing bond information (Mon Sep 26 2016 - 06:11:58 CDT)
- Re: by using Axel's HOOMD plugin, convert pdb to xml and missing bond information (Sun Sep 25 2016 - 23:20:00 CDT)
- Re: mkdir command in vmd (Sun Sep 25 2016 - 22:05:45 CDT)
- Re: compiling VMD from CVS 2016 09 21 (Wed Sep 21 2016 - 08:10:58 CDT)
- Re: dcd File and bounds (Mon Sep 19 2016 - 09:47:15 CDT)
- Re: IR Spectrum Units (Wed Sep 07 2016 - 09:16:06 CDT)
- Re: Lammps data visualization with VMD (Mon Sep 05 2016 - 22:01:25 CDT)
- Re: processing a large "molecule" (Sat Aug 06 2016 - 13:49:48 CDT)
- Re: strange output from measure cluster (Thu Jul 21 2016 - 18:11:24 CDT)
- Re: VMD failed after FFTW installation (Fri Jul 15 2016 - 06:27:35 CDT)
- Re: VMD failed after FFTW installation (Thu Jul 14 2016 - 16:32:26 CDT)
- Re: VMD failed after FFTW installation (Thu Jul 14 2016 - 10:59:22 CDT)
- Re: VMD failed after FFTW installation (Thu Jul 14 2016 - 10:31:15 CDT)
- Re: On CHARMM angle bending potential (Tue Jul 05 2016 - 08:37:15 CDT)
- Re: changing molid number (Mon Jul 04 2016 - 16:27:37 CDT)
- Re: catdcd (Wed Jun 22 2016 - 07:21:37 CDT)
- Re: Isosurface Render - No Color? (Tue Jun 21 2016 - 08:19:27 CDT)
- Re: Bondlist limit (Wed Jun 15 2016 - 14:39:52 CDT)
- Re: VMD XYZ plugin: add support for reading velocities (Thu Jun 09 2016 - 10:45:58 CDT)
- Re: trr generated by catdcd (Sun Jun 05 2016 - 07:06:53 CDT)
- Re: Bondlist limit (Thu May 19 2016 - 12:35:29 CDT)
- Re: Superimposing 2 dcd files (Mon May 02 2016 - 09:46:11 CDT)
- LAMMPS tutorial and Materials Simulation Symposium @ Temple, August 15-19, 2016 (Fri Apr 29 2016 - 21:11:16 CDT)
- Re: mail about visualization state (Fri Apr 29 2016 - 03:43:45 CDT)
- Re: Finding waters near a protein (Tue Apr 26 2016 - 17:14:43 CDT)
- Re: Changing atoms diameter (Fri Apr 22 2016 - 05:18:28 CDT)
- Re: output data file problem (Tue Apr 19 2016 - 15:38:21 CDT)
- Re: Atom ID Change (Mon Apr 11 2016 - 13:12:20 CDT)
- Re: How to work on multiple pdbs by tcl script? (Tue Mar 22 2016 - 05:47:43 CDT)
- Re: Adding hydrogens breaks "protein" atomselection and bonds (Wed Mar 16 2016 - 09:20:30 CDT)
- Re: default drawing style (Mon Mar 14 2016 - 22:04:59 CDT)
- Re: tcl8.6 (Thu Mar 03 2016 - 12:52:12 CST)
- Re: Problem wit solvating carbon nano-tube, psfgen) error reading atoms from psf file (Sun Feb 28 2016 - 11:48:58 CST)
- Re: Tachyon renderer memory error (Tue Feb 09 2016 - 05:09:50 CST)
- Re: Regarding pbc tool: pbc join fragment -bondlist + topo tool (Sat Feb 06 2016 - 07:41:31 CST)
- Re: What is the correct way of using "pbcwrap" with "atomselect [within]"? (Tue Feb 02 2016 - 02:07:21 CST)
- Re: A nanosphere with mass (Mon Feb 01 2016 - 01:47:00 CST)
- Re: making a movie in a tcl script using graphics commands (Thu Jan 28 2016 - 17:16:48 CST)
- Re: Possible bug in topotools plugin (Sun Jan 03 2016 - 11:17:49 CST)
- Re: importing deMon2k "molden" files into VMD (Sat Dec 19 2015 - 17:48:31 CST)
- Re: Defining space coordinates for multiple structures (Tue Dec 08 2015 - 13:45:12 CST)
- Re: couldn't execute "psfgen": no such file or directory (Mon Dec 07 2015 - 07:03:19 CST)
- Re: couldn't execute "psfgen": no such file or directory (Sun Dec 06 2015 - 07:26:56 CST)
- Re: Measure atom position directly from index (Wed Dec 02 2015 - 19:56:14 CST)
- Re: Guessbonds and retype bonds (Wed Dec 02 2015 - 15:46:43 CST)
- Re: vmd killed - memory problems? (Fri Nov 27 2015 - 12:01:38 CST)
- Re: vmd killed - memory problems? (Thu Nov 26 2015 - 07:27:01 CST)
- Re: Re: Attractive or repulsive with Namd Energy? (Wed Nov 25 2015 - 11:35:39 CST)
- Re: Minimum content/format of PSF file to specify bonds? (Mon Nov 23 2015 - 11:29:58 CST)
- Re: Error (incompatible tcl8.5.so) when installing VMD plugins (Sat Nov 14 2015 - 09:31:15 CST)
- Re: Problems with vmd plugin namdenergy output (Mon Nov 02 2015 - 10:51:24 CST)
- Re: netcdf trajectory file (Fri Oct 30 2015 - 08:28:50 CDT)
- Re: script for plotting trajectories (Mon Oct 26 2015 - 17:37:04 CDT)
- Re: script for plotting trajectories (Mon Oct 26 2015 - 17:10:41 CDT)
- Re: script for plotting trajectories (Mon Oct 26 2015 - 15:39:37 CDT)
- Re: catdcd in VMD (Sat Oct 24 2015 - 10:57:48 CDT)
- Re: Topology for drugs to do MD after docking (Thu Oct 22 2015 - 12:39:04 CDT)
- Re: Problem on merging multi-psf files into one (Tue Oct 20 2015 - 05:58:07 CDT)
- Re: Plot waters vs time in a trajectory (Mon Oct 19 2015 - 15:51:23 CDT)
- Re: Delete atoms from selection (Mon Oct 19 2015 - 09:25:03 CDT)
- Re: namd-l: Problem on merging multi-psf files into one (Sun Oct 18 2015 - 09:39:43 CDT)
- Re: How to remove the simulation box (Wed Oct 14 2015 - 20:53:12 CDT)
- Re: How to remove the simulation box (Wed Oct 14 2015 - 20:52:20 CDT)
- Re: Change color of drawn object (Sun Oct 11 2015 - 09:53:37 CDT)
- Re: set $sel {x y z} not working? (Sun Oct 11 2015 - 09:46:22 CDT)
- Re: OpenDX file format website down: What do the three values at each grid point represent (Mon Oct 05 2015 - 10:57:17 CDT)
- Re: OpenDX file format website down: What do the three values at each grid point represent (Fri Oct 02 2015 - 13:09:36 CDT)
- Re: SSD vs SSHD vs mechanical (Wed Sep 23 2015 - 14:52:43 CDT)
- Re: mergemols not combining topology information (Mon Sep 21 2015 - 08:20:25 CDT)
- Re: How to remove the simulation box (Thu Sep 17 2015 - 22:46:33 CDT)
- Re: align molecules using "anchor" atoms (Tue Sep 15 2015 - 15:41:30 CDT)
- Re: APPCRASH when loading a big trajectory file (.dcd) into VMD (Tue Sep 01 2015 - 20:18:06 CDT)
- Re: Bader Charge Analysis (Fri Aug 21 2015 - 12:05:44 CDT)
- Re: removing bonds across periodic boundary in a video (Thu Aug 20 2015 - 14:38:26 CDT)
- Re: Delete redundant bonds in water molecule (Wed Aug 12 2015 - 18:27:41 CDT)
- Re: setting the view in VMD (Sat Aug 01 2015 - 13:56:30 CDT)
- Re: Question about visualization of multiple frame xyz file (Mon Jul 27 2015 - 12:31:11 CDT)
- Re: Question about visualization of multiple frame xyz file (Sun Jul 26 2015 - 23:05:42 CDT)
- Re: Unit cell for clay material (Sat Jul 25 2015 - 17:12:56 CDT)
- Re: Modify XYZ reader plugin (Wed Jul 15 2015 - 07:21:08 CDT)
- Re: Modify XYZ reader plugin (Tue Jul 14 2015 - 11:21:27 CDT)
- Re: a question regarding the signalproc package (Tue Jul 14 2015 - 11:45:56 CDT)
- Re: write psf is generating an error (Tue Jul 14 2015 - 11:09:18 CDT)
- Re: cvs (Mon Jul 13 2015 - 03:06:18 CDT)
- Re: reading in trajectory file causes VMD to crash (Mon Jul 06 2015 - 20:45:15 CDT)
- Re: reading in trajectory file causes VMD to crash (Mon Jul 06 2015 - 20:12:10 CDT)
- Re: molecule selection along an axis (Mon Jul 06 2015 - 11:46:08 CDT)
- Re: Error- Periodic cell (Thu Jul 02 2015 - 11:11:06 CDT)
- Re: VMD MEMBPLUGIN : MEMBRANE THICKNESS (Mon Jun 29 2015 - 05:21:13 CDT)
- Re: PBC tool does not read center from a xsc (Thu Jun 25 2015 - 12:41:36 CDT)
- Re: Viewing gromacs .xtc trajectory 'Error reading timestep, file does not match format' (Thu Jun 25 2015 - 10:45:51 CDT)
- Re: Viewing gromacs .xtc trajectory 'Error reading timestep, file does not match format' (Thu Jun 25 2015 - 10:29:11 CDT)
- Re: Viewing gromacs .xtc trajectory 'Error reading timestep, file does not match format' (Thu Jun 25 2015 - 08:56:29 CDT)
- Re: Drawing extended arrow to show direction vector on VMD (Tue Jun 23 2015 - 13:51:34 CDT)
- Re: Drawing extended arrow to show direction vector on VMD (Tue Jun 23 2015 - 12:12:10 CDT)
- Re: Colouring atoms according to their q4 or q6 values (Tue Jun 23 2015 - 06:53:10 CDT)
- Re: Problem with topotools for residue >10k (Tue Jun 23 2015 - 06:43:51 CDT)
- Re: Visualizing and counting broken bonds in VMD (Fri Jun 19 2015 - 16:11:54 CDT)
- Re: Visualizing and counting broken bonds in VMD (Fri Jun 19 2015 - 16:03:03 CDT)
- Re: differentiate between nitroso and oxime atomselections (Wed Jun 17 2015 - 19:34:09 CDT)
- Re: minimum value of index numbers (Tue Jun 16 2015 - 13:08:04 CDT)
- Re: Load trajectory file in .sim format (Tue Jun 16 2015 - 09:38:18 CDT)
- Re: Load trajectory file in .sim format (Tue Jun 16 2015 - 09:49:24 CDT)
- Re: Merging multiple PDB files (Mon Jun 15 2015 - 14:49:29 CDT)
- Re: Generating psf for uranyl ion (Mon Jun 15 2015 - 11:10:14 CDT)
- Re: annoying bug in 1.9.2 (Mon Jun 15 2015 - 08:07:38 CDT)
- Re: NetCDF type is missing (Mon Jun 15 2015 - 07:58:46 CDT)
- Re: Water molecules (Fri Jun 12 2015 - 17:16:42 CDT)
- Re: Per Residue Interaction Energy from Desmond MD simulations (Fri Jun 12 2015 - 05:57:23 CDT)
- Re: finding distance of atoms (Wed Jun 10 2015 - 13:01:03 CDT)
- Re: Dynamic molecular connectivity (Sat Jun 06 2015 - 15:51:20 CDT)
- Re: Dynamic molecular connectivity (Sat Jun 06 2015 - 13:28:17 CDT)
- Re: H.bond - VMD (Fri Jun 05 2015 - 08:29:59 CDT)
- Re: H.bond - VMD (Fri Jun 05 2015 - 02:04:34 CDT)
- Re: Density Profile Tool: Is the selection updated as the frame is changed? (Wed May 27 2015 - 22:37:02 CDT)
- Re: Re-numbering resID after psfgen (Wed May 27 2015 - 01:05:52 CDT)
- Re: Error while merging structures (Sun May 24 2015 - 07:36:55 CDT)
- Re: Creating boxes of different water models (Sun May 24 2015 - 04:06:30 CDT)
- Re: Error while merging structures (Sun May 24 2015 - 03:58:34 CDT)
- Re: Resid and residue atomselect bug (Thu May 21 2015 - 08:09:00 CDT)
- Re: Orienting molecule along principal axes (Wed May 20 2015 - 03:39:57 CDT)
- Re: How can I swap specific atoms for all frames of xyz file? (Wed May 13 2015 - 21:23:45 CDT)
- Re: Using topotools with no VMD display (Tue May 12 2015 - 08:07:24 CDT)
- School on Molecular Dynamics and Enhanced Sampling Methods @ Temple University July 6-10, 2015 (Fri May 08 2015 - 11:29:01 CDT)
- Re: VMD for MacBook Pro -- NetCDF (Wed May 06 2015 - 15:31:18 CDT)
- Re: VMD for MacBook Pro -- NetCDF (Wed May 06 2015 - 15:17:00 CDT)
- Re: VMD for MacBook Pro -- NetCDF (Wed May 06 2015 - 14:53:00 CDT)
- Re: How to create an aggregation of molecules with VMD? (Tue May 05 2015 - 07:20:27 CDT)
- Re: How to create the psf of an aggregation of molecules with VMD? (Tue May 05 2015 - 07:24:10 CDT)
- Re: dielectric constant for ELEC energy in VMD namdenergy tool (Tue Apr 28 2015 - 16:34:47 CDT)
- Re: Setting up a truncation cutoff fro volumetric data (Tue Apr 28 2015 - 10:41:55 CDT)
- Re: reg list of non standard residues. (Sat Apr 11 2015 - 18:03:49 CDT)
- Re: new VMD plugin for H5MD file format (Thu Apr 09 2015 - 15:50:37 CDT)
- Re: crash with 1.9.2 and not with 1.9.1 (Thu Apr 09 2015 - 08:16:24 CDT)
- Re: crash with 1.9.2 and not with 1.9.1 (Thu Apr 09 2015 - 07:44:43 CDT)
- Re: compiling VMD 1.9.2 source with tcl 8.6 (Tue Apr 07 2015 - 05:57:58 CDT)
- Re: Writing Lammps data file (Sat Apr 04 2015 - 22:51:09 CDT)
- Re: Resid and residue atomselect bug (Thu Apr 02 2015 - 08:42:34 CDT)
- Re: Resid and residue atomselect bug (Thu Apr 02 2015 - 08:20:34 CDT)
- Re: Resid and residue atomselect bug (Thu Apr 02 2015 - 07:43:14 CDT)
- Re: Resid and residue atomselect bug (Thu Apr 02 2015 - 06:54:55 CDT)
- Re: segv in vmd upon opening a file (Wed Apr 01 2015 - 13:01:07 CDT)
- Re: segv in vmd upon opening a file (Wed Apr 01 2015 - 11:29:34 CDT)
- Re: segv in vmd upon opening a file (Wed Apr 01 2015 - 10:51:25 CDT)
- Re: Fw: Colour coordinating atoms in a trajectory by Coordination Number (Mon Mar 30 2015 - 10:59:18 CDT)
- Re: Colour coordinating atoms in a trajectory by Coordination Number (Thu Mar 26 2015 - 12:08:48 CDT)
- Re: How to visualize the moving periodic boundaries in VMD (Wed Mar 25 2015 - 20:07:42 CDT)
- Re: "color by mass" - change default colors (Wed Mar 25 2015 - 15:42:32 CDT)
- Re: Visualizing H-bonds between two segnames or chains (Wed Mar 25 2015 - 12:43:28 CDT)
- Re: Running TCL scripts (textmode) on a Server (Wed Mar 25 2015 - 11:21:03 CDT)
- Re: Periodic Tab with PDB input (Wed Mar 25 2015 - 08:59:25 CDT)
- GPU Programming workshop @ ICTP: deadline extended for participants not requiring visa and financial support (Tue Mar 24 2015 - 14:17:22 CDT)
- Re: Align a trajectory (Thu Mar 19 2015 - 10:08:57 CDT)
- Re: writing a new plugin (Wed Mar 11 2015 - 05:54:56 CDT)
- Re: writing a new plugin (Tue Mar 10 2015 - 15:11:59 CDT)
- Re: writing a new plugin (Tue Mar 10 2015 - 07:44:19 CDT)
- Re: TopoTools and box information in LAMMPS data (Mon Mar 09 2015 - 03:22:53 CDT)
- Re: TopoTools and box information in LAMMPS data (Mon Mar 09 2015 - 01:12:52 CDT)
- Re: topotools addbond and retypeimpropers commands (Thu Feb 19 2015 - 22:20:36 CST)
- Re: topotools addbond and retypeimpropers commands (Thu Feb 19 2015 - 21:47:12 CST)
- Re: Fwd: To delete some atoms via VMD (Tue Feb 10 2015 - 22:34:17 CST)
- RE: topo guessatom (Tue Feb 10 2015 - 09:15:46 CST)
- Re: topo guessatom (Mon Feb 09 2015 - 13:25:36 CST)
- Re: topo guessatom (Mon Feb 09 2015 - 13:07:10 CST)
- Re: topo guessatom (Mon Feb 09 2015 - 12:37:07 CST)
- Re: Problem by removing vmd 1.9.1 and installing 1.9.2. (Fri Feb 06 2015 - 21:55:59 CST)
- Re: Problem by removing vmd 1.9.1 and installing 1.9.2. (Fri Feb 06 2015 - 06:47:56 CST)
- Re: Selecting structure closest to average (Tue Feb 03 2015 - 11:55:55 CST)
- Re: Unit Cell PDB of Copper (Mon Feb 02 2015 - 17:53:34 CST)
- Re: Does topo readlammpsdata automatically detect bonds? (Thu Jan 29 2015 - 20:31:31 CST)
- Re: quick tcl question with vmd/psfgen (Thu Jan 29 2015 - 13:56:45 CST)
- Re: quick tcl question with vmd/psfgen (Thu Jan 29 2015 - 13:33:20 CST)
- Re: Fwd: To delete some angles via VMD (Thu Jan 29 2015 - 06:45:34 CST)
- Re: VMD Segmentation fault (core dumped) (Wed Jan 28 2015 - 10:52:58 CST)
- Re: making self-adjustable high resolution images (Wed Jan 28 2015 - 11:34:59 CST)
- Re: VMD Segmentation fault (core dumped) (Wed Jan 28 2015 - 10:44:10 CST)
- Re: making self-adjustable high resolution images (Wed Jan 28 2015 - 07:13:19 CST)
- Re: Hbond calculation - periodic atoms (Mon Jan 26 2015 - 20:50:46 CST)
- Re: Output of topo getbondlist to text file from VMD (Fri Jan 23 2015 - 15:05:04 CST)
- Re: within command (Fri Jan 23 2015 - 14:05:27 CST)
- Re: optixRender error (Fri Jan 23 2015 - 13:00:11 CST)
- Re: Select phi, psi dihedrals with TopoTools (Wed Jan 21 2015 - 12:18:50 CST)
- Re: vmd-1: Creating movies in VMD (Tue Jan 20 2015 - 16:19:18 CST)
- Re: vmd-1: Creating movies in VMD (Tue Jan 20 2015 - 15:57:08 CST)
- Re: vmd-1: Creating movies in VMD (Tue Jan 20 2015 - 15:26:13 CST)
- Re: Can I load NetCDF trajectories from AMBER in VMD on a Windows machine? (Sat Jan 17 2015 - 17:11:07 CST)
- Re: Is a PDB file hiding something ??? (Sat Jan 17 2015 - 08:39:19 CST)
- Re: using topotools: error in identifying atoms and dihedrals (Thu Jan 15 2015 - 05:10:10 CST)
- Re: Re: FW: atomselection by wildcard and distance exclusion (Tue Jan 13 2015 - 10:54:08 CST)
- Re: Feature Request: Stride on vmd commandline startup (Tue Jan 13 2015 - 08:18:01 CST)
- Re: Fwd: VMD 1.9.2 released! (Mon Jan 12 2015 - 11:10:34 CST)
- Re: write bonding/connectivity to file (Thu Jan 08 2015 - 16:57:40 CST)
- Re: Change bond per atom limit of VMD (Wed Jan 07 2015 - 02:44:03 CST)
- Re: Change bond per atom limit of VMD (Tue Jan 06 2015 - 23:24:11 CST)
- Re: Change bond per atom limit of VMD (Tue Jan 06 2015 - 14:23:56 CST)
- Re: Change bond per atom limit of VMD (Tue Jan 06 2015 - 10:24:19 CST)
- Re: Topotools: Lammps data file for protein (Thu Dec 18 2014 - 12:05:48 CST)
- Re: FFTK most probably doesn't work with molecules containing new atom types (Sat Dec 13 2014 - 18:15:42 CST)
- Re: FFTK most probably doesn't work with molecules containing new atom types (Sat Dec 13 2014 - 15:15:52 CST)
- Re: tcl and vmd (Fri Dec 12 2014 - 05:20:29 CST)
- Re: Fwd: How find water mediated hydrogen bond (Wed Dec 10 2014 - 18:06:44 CST)
- Re: How find water mediated hydrogen bond (Wed Dec 10 2014 - 10:27:34 CST)
- Re: Select phi, psi dihedrals with TopoTools (Wed Dec 10 2014 - 08:46:14 CST)
- Re: Topotools not changing psf (Thu Dec 04 2014 - 14:53:13 CST)
- Re: Topotools not changing psf (Thu Dec 04 2014 - 12:45:12 CST)
- Re: XOpenIM failed (failed to find CUDA devices) (Wed Dec 03 2014 - 13:21:23 CST)
- Re: How to make solid surfaces work with non-orthorhombic cells (Fri Nov 28 2014 - 07:04:17 CST)
- Re: Problem with merging structures!( psfgen) Warning: failed to set coordinate for atom AU0 AU:1 A) (Thu Nov 27 2014 - 08:19:22 CST)
- Re: Problem with merging structures!( psfgen) Warning: failed to set coordinate for atom AU0 AU:1 A) (Wed Nov 26 2014 - 15:50:09 CST)
- Re: Problem with merging structures!( psfgen) Warning: failed to set coordinate for atom AU0 AU:1 A) (Wed Nov 26 2014 - 12:33:15 CST)
- Re: Problem with merging structures!( psfgen) Warning: failed to set coordinate for atom AU0 AU:1 A) (Wed Nov 26 2014 - 11:25:44 CST)
- Re: Problem with merging structures!( psfgen) Warning: failed to set coordinate for atom AU0 AU:1 A) (Wed Nov 26 2014 - 10:13:20 CST)
- Re: A box of amino acids (Mon Nov 24 2014 - 10:40:31 CST)
- Re: Protein went out of the Box (Wed Nov 12 2014 - 01:38:30 CST)
- Re: can't use arrow key in vmd -disp text mode (Sat Nov 08 2014 - 18:19:50 CST)
- Re: FATAL ERROR: DIDN'T FIND vdW PARAMETER FOR ATOM TYPE OE (Thu Nov 06 2014 - 22:23:45 CST)
- Re: Fwd: namd-l: Why RDF increases as r increase instead of constant (Tue Nov 04 2014 - 14:29:41 CST)
- Re: Fwd: namd-l: Why RDF increases as r increase instead of constant (Tue Nov 04 2014 - 11:39:49 CST)
- Re: Fwd: namd-l: Why RDF increases as r increase instead of constant (Mon Nov 03 2014 - 15:49:48 CST)
- Re: Fwd: namd-l: Why RDF increases as r increase instead of constant (Mon Nov 03 2014 - 00:58:07 CST)
- Re: vmd-l incoming mails become Spam (Fri Oct 24 2014 - 06:48:24 CDT)
- Re: Haptic interface options (Tue Oct 07 2014 - 12:00:37 CDT)
- Re: log colorscale (Sun Oct 05 2014 - 16:09:50 CDT)
- Re: topotools question regarding ordering of bonds, angles, etc in output. (Fri Oct 03 2014 - 14:32:48 CDT)
- Re: topotools question regarding ordering of bonds, angles, etc in output. (Fri Oct 03 2014 - 13:16:37 CDT)
- Re: topotools question regarding ordering of bonds, angles, etc in output. (Fri Oct 03 2014 - 12:44:53 CDT)
- Re: Tk script (Tue Sep 30 2014 - 13:45:03 CDT)
- Re: Tk script (Tue Sep 30 2014 - 11:08:27 CDT)
- Re: how to make the structures in the movie look better (Mon Sep 29 2014 - 08:55:27 CDT)
- Re: create bonds with uniform pairwise cut off radius for XYZ trajectories. (Fri Sep 26 2014 - 06:47:40 CDT)
- Re: create bonds with uniform pairwise cut off radius for XYZ trajectories. (Fri Sep 26 2014 - 06:46:27 CDT)
- Re: create bonds with uniform pairwise cut off radius for XYZ trajectories. (Fri Sep 26 2014 - 03:59:32 CDT)
- Re: gofr not full PBC length (Wed Sep 17 2014 - 22:47:25 CDT)
- Re: graphics command displays shapes of unusual sizes (Wed Sep 17 2014 - 22:49:48 CDT)
- Re: Clusters help (Wed Sep 17 2014 - 05:53:48 CDT)
- Re: Clusters help (Wed Sep 17 2014 - 04:41:59 CDT)
- Re: actual simulation time for a frame (Thu Sep 11 2014 - 08:38:34 CDT)
- Re: velocities in trr (Wed Sep 10 2014 - 15:43:58 CDT)
- Re: actual simulation time for a frame (Mon Sep 08 2014 - 12:45:34 CDT)
- Re: update selection used in "animate write" (Mon Sep 08 2014 - 00:34:10 CDT)
- Re: actual simulation time for a frame (Thu Sep 04 2014 - 10:51:44 CDT)
- Re: BUG REPORT: Malfunctioning of VMD with Yosemite? (Thu Sep 04 2014 - 07:45:04 CDT)
- Re: How to get all bond angles and bond distances for all atoms in sheet (Wed Sep 03 2014 - 10:30:27 CDT)
- Re: How to get all bond angles and bond distances for all atoms in sheet (Wed Sep 03 2014 - 10:17:38 CDT)
- Re: Making trajectory movie last longer. (Wed Sep 03 2014 - 09:25:13 CDT)
- Re: How to get all bond angles and bond distances for all atoms in sheet (Wed Sep 03 2014 - 03:07:04 CDT)
- Re: How to get all bond angles and bond distances for all atoms in sheet (Tue Sep 02 2014 - 08:37:31 CDT)
- Re: How to get all bond angles and bond distances for all atoms in sheet (Tue Sep 02 2014 - 08:42:38 CDT)
- Re: How to get all bond angles and bond distances for all atoms in sheet (Mon Sep 01 2014 - 08:19:05 CDT)
- Re: ç”å¤ï¼š c_top2psf.pl (Sun Aug 31 2014 - 10:38:00 CDT)
- Re: c_top2psf.pl (Sat Aug 30 2014 - 11:21:33 CDT)
- Re: entropy calculation by g_anaeig (Sat Aug 30 2014 - 11:22:28 CDT)
- Re: VMD 1.9.1 installation (Fri Aug 22 2014 - 03:43:18 CDT)
- Re: writing improper dihedral in topotools, (Tue Aug 12 2014 - 17:36:31 CDT)
- Re: averaged structure (Tue Aug 12 2014 - 14:18:33 CDT)
- Re: averaged structure (Tue Aug 12 2014 - 12:35:25 CDT)
- Re: mol new [from memory] (Mon Aug 11 2014 - 12:36:16 CDT)
- Re: visualizing janus particles in VMD (Mon Aug 11 2014 - 07:04:31 CDT)
- Re: visualizing janus particles in VMD (Sat Aug 09 2014 - 19:05:25 CDT)
- Re: Running ABF to seperate DNA strands (Mon Aug 04 2014 - 20:35:35 CDT)
- Re: Is VMD available to control the movie made by movie maker (Mon Aug 04 2014 - 17:24:14 CDT)
- Re: rlwrap: No match. (Fri Aug 01 2014 - 16:23:39 CDT)
- Re: rlwrap: No match. (Fri Aug 01 2014 - 15:51:43 CDT)
- Re: color scale definitions with more than three colors? (Thu Jul 31 2014 - 13:19:31 CDT)
- Re: loading multiple trajectories with stride command in the terminal (Fri Jul 25 2014 - 10:42:57 CDT)
- Re: export trajectory all frames coordinates to numpy array (Thu Jul 24 2014 - 17:49:26 CDT)
- Re: export trajectory all frames coordinates to numpy array (Thu Jul 24 2014 - 17:04:28 CDT)
- Re: export trajectory all frames coordinates to numpy array (Thu Jul 24 2014 - 14:37:31 CDT)
- Re: Topo Tools for triclinic system (Wed Jul 23 2014 - 07:04:10 CDT)
- Re: Creating data file for triclinic system (Wed Jul 23 2014 - 07:03:17 CDT)
- Re: VMD Quantum Chemistry Visualization (Mon Jul 21 2014 - 11:43:31 CDT)
- Re: How to adjust different atom size separately (Fri Jul 18 2014 - 11:31:27 CDT)
- School on Molecular Dynamics with NAMD and LAMMPS in Philadelphia, August 18-22 2014 (Thu Jul 17 2014 - 14:48:17 CDT)
- Re: origin in VMD (Thu Jul 10 2014 - 15:47:34 CDT)
- Re: Subtract structure to a trajectory (Thu Jul 10 2014 - 10:51:23 CDT)
- Re: How to contribute to VMD? (Wed Jul 09 2014 - 13:01:10 CDT)
- Re: How to contribute to VMD? (Wed Jul 09 2014 - 10:15:29 CDT)
- Re: Fwd: Visualizing the displacement vector (Fri Jul 04 2014 - 10:47:12 CDT)
- Re: Fwd: Visualizing the displacement vector (Fri Jul 04 2014 - 10:50:03 CDT)
- Re: CL (Fri Jul 04 2014 - 10:47:12 CDT)
- Re: tachyon renderer syntax (Fri Jun 27 2014 - 22:07:49 CDT)
- Re: running a C code in VMD (Thu Jun 26 2014 - 06:43:17 CDT)
- Re: Boron nitride preparation (Sat Jun 21 2014 - 09:26:48 CDT)
- Re: Boron nitride preparation (Sat Jun 21 2014 - 03:31:23 CDT)
- Re: regarding .vmdrc file (Tue Jun 17 2014 - 01:02:54 CDT)
- Re: Viewing SASA points through draw command-problem (Thu Jun 12 2014 - 12:16:20 CDT)
- Re: analyzing gromacs trajectories with VMD (Sat Jun 07 2014 - 05:36:12 CDT)
- Re: Calculating RMSF for a lot of trajectories (Thu May 29 2014 - 11:59:26 CDT)
- Re: Re: Help with RDF calculation (Wed May 28 2014 - 15:55:45 CDT)
- Re: Help with RDF calculation (Wed May 28 2014 - 13:45:51 CDT)
- Re: proper enviroment for the VMD namdenergy plugin (Sun May 18 2014 - 08:08:19 CDT)
- Re: default representations for multiple molecules (Thu May 15 2014 - 18:06:53 CDT)
- Re: default representations for multiple molecules (Thu May 15 2014 - 17:30:12 CDT)
- Re: namd-l: NAMD-GPU (Wed May 14 2014 - 07:51:37 CDT)
- Re: Problem with amorphous silicon dioxide: Inorganic builder (Mon May 12 2014 - 03:58:17 CDT)
- Re: Problem with amorphous silicon dioxide: Inorganic builder (Sun May 11 2014 - 09:44:42 CDT)
- Re: choosing an optimal workstation video card for VMD (Tue May 06 2014 - 12:58:13 CDT)
- Re: Re: Add bond across boundaries (Tue May 06 2014 - 10:06:39 CDT)
- Re: Add bond across boundaries (Tue May 06 2014 - 09:15:13 CDT)
- Re: number of water molecules within 5 angstroms of the ligand (Mon May 05 2014 - 05:30:00 CDT)
- Re: How do i merge files with mergemols (Thu May 01 2014 - 06:29:36 CDT)
- Re: How do i merge files with mergemols (Thu May 01 2014 - 06:32:35 CDT)
- Re: [lammps-users] Regarding rdf from VMD extensions+lammps (Tue Apr 29 2014 - 13:37:43 CDT)
- Re: Visualize a SMILES string (Tue Apr 29 2014 - 10:50:28 CDT)
- Re: Visualize a SMILES string (Tue Apr 29 2014 - 09:32:36 CDT)
- Re: Visualize a SMILES string (Tue Apr 29 2014 - 09:16:43 CDT)
- Re: Visualize a SMILES string (Tue Apr 29 2014 - 08:54:50 CDT)
- Re: writing out a new dcd file (Tue Apr 29 2014 - 06:50:35 CDT)
- Re: How do i merge files with mergemols (Sat Apr 26 2014 - 15:15:35 CDT)
- Re: How do i merge files with mergemols (Sat Apr 26 2014 - 10:02:00 CDT)
- Re: ligand-protein bonds representation (Tue Apr 22 2014 - 10:53:19 CDT)
- Re: ligand-protein bonds representation (Tue Apr 22 2014 - 09:50:52 CDT)
- Re: alchemical transformations (Mon Apr 21 2014 - 11:18:16 CDT)
- Re: convert AMBER format file to CHARMM format file or NAMD format file (Thu Apr 17 2014 - 11:03:49 CDT)
- Re: convert AMBER format file to CHARMM format file or NAMD format file (Wed Apr 16 2014 - 14:55:58 CDT)
- Re: How to output formed dynamic bonds in VMD (Wed Apr 16 2014 - 00:40:16 CDT)
- Re: Altering extrabonds force constant during MD (Mon Apr 14 2014 - 16:56:59 CDT)
- Re: No native HOOMD xml support for Windows? (Mon Apr 14 2014 - 12:06:42 CDT)
- Re: Changing the Font size of the XYZ Logo (Fri Apr 11 2014 - 12:45:51 CDT)
- Re: custom color on surface plot (Thu Apr 10 2014 - 09:57:41 CDT)
- Re: hiding or disabling some of the atom types (Wed Apr 09 2014 - 16:20:34 CDT)
- Re: Changing colors during a dynamics (Wed Apr 09 2014 - 10:15:02 CDT)
- Re: problem with 'atomselect' command (Tue Apr 08 2014 - 13:23:22 CDT)
- Re: Feature request: capturing tool location and steering forces in IMD trajectory (Mon Apr 07 2014 - 01:23:09 CDT)
- Re: Dynamical bond rendering (Sat Apr 05 2014 - 02:35:50 CDT)
- Re: writing velocities from VMD (Fri Apr 04 2014 - 06:36:30 CDT)
- Re: selecting every nth residue in a protein (Thu Mar 27 2014 - 17:34:30 CDT)
- Re: Unwrapping a trajectory with H2O (Fri Mar 21 2014 - 15:23:29 CDT)
- Re: problem for VMD extension_radial pair distribution function_truncation (Fri Mar 21 2014 - 11:08:28 CDT)
- Re: Changing bond numbers (Thu Mar 20 2014 - 11:58:09 CDT)
- Re: Get num. of residues (Wed Mar 19 2014 - 02:34:23 CDT)
- Re: removing water from dcd file (Tue Mar 18 2014 - 08:55:15 CDT)
- Re: Unwrapping a trajectory with H2O (Tue Mar 18 2014 - 01:10:34 CDT)
- Re: radial pair distribution function (Wed Mar 12 2014 - 00:35:52 CDT)
- Re: Segmentation fault (Tue Mar 11 2014 - 11:42:18 CDT)
- Re: Changing bond numbers (Sun Mar 09 2014 - 03:37:28 CDT)
- Re: Writing new coordinates to file. (Mon Mar 03 2014 - 16:04:14 CST)
- Re: rlwrap: No match. (Mon Mar 03 2014 - 08:32:39 CST)
- Re: rlwrap: No match. (Mon Mar 03 2014 - 08:15:26 CST)
- Re: Issues using VMD 1.91. with CUDA on Mac OSX 10.9.1 (Sun Mar 02 2014 - 15:20:48 CST)
- Re: Update Plugin (Tue Feb 25 2014 - 07:49:58 CST)
- Re: Update Plugin (Tue Feb 25 2014 - 07:51:59 CST)
- Re: Update Plugin (Tue Feb 25 2014 - 06:54:45 CST)
- Re: Update Plugin (Tue Feb 25 2014 - 06:57:20 CST)
- Re: Update Plugin (Tue Feb 25 2014 - 05:56:22 CST)
- Re: Simplest file format that includes atom color? (Mon Feb 17 2014 - 06:45:42 CST)
- Re: How upgrade a molfile plugin? (Sun Feb 16 2014 - 13:54:46 CST)
- Re: Tachyon question (Sun Feb 16 2014 - 10:39:41 CST)
- Re: deleting trajectory paths (Wed Feb 12 2014 - 20:45:14 CST)
- Re: Modulus atom selection (Wed Feb 12 2014 - 17:01:55 CST)
- Re: Installation of VMD topotools (Tue Feb 11 2014 - 13:05:06 CST)
- Re: VMD can't read 1OXY (Mon Feb 10 2014 - 22:20:25 CST)
- Re: Script commands that control the display of periodic images (Sat Feb 08 2014 - 22:52:38 CST)
- Re: measure dihedral angle for all the loaded pdb files (Fri Feb 07 2014 - 11:07:01 CST)
- Re: loading .xtc file (Thu Feb 06 2014 - 21:17:52 CST)
- Re: porcupine plot (Wed Feb 05 2014 - 09:13:31 CST)
- Re: Re: VTF (Tue Feb 04 2014 - 10:29:13 CST)
- Re: SScache performance; fast secondary structure assignment (Tue Feb 04 2014 - 07:44:58 CST)
- Re: Re: VTF (Mon Feb 03 2014 - 13:21:47 CST)
- Re: wrapper for VMD to read compressed .xz files (Fri Jan 31 2014 - 17:48:58 CST)
- Re: psfgen error for Argon atoms (Mon Jan 27 2014 - 11:05:02 CST)
- Re: Crash with molfile plugin when doing "Load data into molecule" (Fri Jan 24 2014 - 05:26:53 CST)
- Re: select and save every X atom (Tue Jan 21 2014 - 15:55:02 CST)
- Re: Question about measure cluster (Mon Jan 20 2014 - 10:39:45 CST)
- Re: Question about measure cluster (Mon Jan 20 2014 - 09:18:45 CST)
- Re: Question about measure cluster (Mon Jan 20 2014 - 06:48:35 CST)
- Re: Bond order cut-off value (Fri Jan 17 2014 - 11:59:07 CST)
- Re: Bond order cut-off value (Thu Jan 16 2014 - 19:35:23 CST)
- Re: merging multiple structures (Wed Jan 15 2014 - 14:45:38 CST)
- Re: RDF calculation (Mon Jan 13 2014 - 19:43:21 CST)
- Re: strange problems adding extra bonds to interactive simulations (Thu Jan 09 2014 - 21:50:21 CST)
- Re: RDF Normalization (Wed Jan 08 2014 - 20:28:28 CST)
- Re: RDF Normalization (Mon Jan 06 2014 - 16:23:10 CST)
- Re: VMD's NAMD GUI (Sun Dec 29 2013 - 03:47:35 CST)
- Re: why tutorial cannot be played? (Fri Dec 27 2013 - 15:19:55 CST)
- Re: Problem while installing VMD (Wed Dec 25 2013 - 03:02:35 CST)
- Re: VMD's NAMD GUI (Wed Dec 25 2013 - 02:58:43 CST)
- Re: constructing a .tpr (Tue Dec 24 2013 - 12:04:09 CST)
- Re: constructing a .tpr (Tue Dec 24 2013 - 05:49:49 CST)
- Re: constructing a .tpr (Tue Dec 24 2013 - 04:29:10 CST)
- Re: Define bond length (Mon Dec 16 2013 - 12:37:37 CST)
- Re: AMD vs. nvidia support (Thu Dec 12 2013 - 04:32:46 CST)
- Re: Atomic trajectory to COM trajectory, (Wed Dec 11 2013 - 23:53:59 CST)
- Re: AMD vs. nvidia support (Thu Dec 12 2013 - 00:04:44 CST)
- Re: generated pdb file via vmd (Wed Dec 11 2013 - 07:21:06 CST)
- Re: how can we improve it in VMD? (Tue Dec 10 2013 - 04:03:40 CST)
- Re: Atomic trajectory to COM trajectory, (Mon Dec 09 2013 - 13:09:22 CST)
- Re: Atomic trajectory to COM trajectory, (Mon Dec 09 2013 - 10:21:08 CST)
- Re: Atomic trajectory to COM trajectory, (Mon Dec 09 2013 - 08:32:15 CST)
- Re: Change transparency along a trajectory (Mon Dec 09 2013 - 08:13:35 CST)
- Re: Fwd: dcd file uploading problem (Thu Dec 05 2013 - 22:56:17 CST)
- Re: RE£º hydrogen bond cutoff value (Tue Dec 03 2013 - 01:48:13 CST)
- Re: hydrogen bond cutoff value (Mon Dec 02 2013 - 23:31:28 CST)
- Re: atoms selection/special characters (Fri Nov 29 2013 - 20:43:33 CST)
- Re: atoms selection/special characters (Fri Nov 29 2013 - 19:17:08 CST)
- Re: Why are all carbon atoms lumped into C in the Name category in the colors dialog? (Fri Nov 29 2013 - 19:13:50 CST)
- Re: loading pdb files from multiple directories (Fri Nov 29 2013 - 05:59:58 CST)
- Re: ugly font in linux/xubuntu-13.10 (Sat Nov 23 2013 - 04:10:08 CST)
- Re: namd-l: pre residues and ligands interaction (Thu Nov 21 2013 - 06:55:04 CST)
- Re: Tachyon generation of dat files only (Thu Nov 14 2013 - 08:59:48 CST)
- Re: Interactive MD and Tcl (Thu Nov 07 2013 - 16:34:13 CST)
- Re: Re: Volmap (Mon Nov 04 2013 - 08:51:50 CST)
- Re: Re: Newbie question - Labeling a residue (Mon Nov 04 2013 - 08:21:26 CST)
- Re: Re: Volmap (Mon Nov 04 2013 - 07:31:29 CST)
- Re: Re: Newbie question - Labeling a residue (Mon Nov 04 2013 - 07:23:52 CST)
- Re: Re: Newbie question - Labeling a residue (Mon Nov 04 2013 - 07:21:25 CST)
- Re: Re: Volmap (Mon Nov 04 2013 - 06:24:14 CST)
- Re: The radius of sphere representing an atom shown as vdw (Mon Nov 04 2013 - 00:50:49 CST)
- Re: sugar cluster analysis (Sat Nov 02 2013 - 01:27:01 CDT)
- Re: Problems with external Tachyon Renderer (Sat Nov 02 2013 - 01:21:02 CDT)
- Re: volume analysis in vmd (Thu Oct 31 2013 - 11:00:24 CDT)
- Re: Creating custom molecule in VMD scripting (Tue Oct 29 2013 - 05:36:28 CDT)
- Re: Cluster plug (Tue Oct 22 2013 - 16:55:40 CDT)
- Re: loading trajectory (Tue Oct 22 2013 - 05:32:03 CDT)
- Re: Volarea (Fri Oct 18 2013 - 08:35:35 CDT)
- Re: topotools question (Thu Oct 17 2013 - 16:57:57 CDT)
- Re: Installing VMD with PYTHON support (Thu Oct 10 2013 - 08:17:40 CDT)
- Re: Installing VMD with PYTHON support (Thu Oct 10 2013 - 08:05:12 CDT)
- Re: clipping plane (Wed Oct 09 2013 - 15:51:15 CDT)
- Re: clipping plane (Wed Oct 09 2013 - 15:19:52 CDT)
- Re: create and operate a point in space (Wed Oct 09 2013 - 06:29:51 CDT)
- Re: Finding particles that are close (Tue Oct 08 2013 - 04:21:45 CDT)
- Re: viewing bond between two hydrogens on a water molecule (Mon Oct 07 2013 - 10:25:03 CDT)
- Re: GLSL rendering problems on MAC OS 10.8.5 (Intel Graphics Card) (Fri Oct 04 2013 - 00:33:13 CDT)
- Re: Measuring angle between two domains? (Thu Oct 03 2013 - 11:37:49 CDT)
- Re: convert dcd file to xyz (Wed Oct 02 2013 - 13:13:18 CDT)
- Re: µªÎ`: How to show section contour of volumetric data (Tue Oct 01 2013 - 02:58:10 CDT)
- Re: How to show section contour of volumetric data (Tue Oct 01 2013 - 02:21:04 CDT)
- Re: get resisue names from atom index number (Mon Sep 30 2013 - 03:20:01 CDT)
- Re: Force field tool kit - missing close brackets-vmd version 1.9.2 (Mon Sep 30 2013 - 02:47:21 CDT)
- Re: need your hep about IR Spectrum Plugin (Sun Sep 29 2013 - 09:31:10 CDT)
- Re: get resisue names from atom index number (Sun Sep 29 2013 - 09:27:28 CDT)
- Re: User defined command order (Sat Sep 28 2013 - 04:27:12 CDT)
- Re: rendering (Thu Sep 26 2013 - 15:13:03 CDT)
- Re: non-orthorhombic PBCs (Thu Sep 26 2013 - 00:56:36 CDT)
- Re: Making a trajectory movie from frames. (Tue Sep 24 2013 - 11:10:33 CDT)
- Re: Incompatible cubefiles (G09revD.01 cubegen) (Tue Sep 24 2013 - 07:00:35 CDT)
- Re: Incompatible cubefiles (G09revD.01 cubegen) (Tue Sep 24 2013 - 04:59:00 CDT)
- Re: Incompatible cubefiles (G09revD.01 cubegen) (Tue Sep 24 2013 - 02:37:55 CDT)
- Re: draw a time bar for a trajectory (Mon Sep 23 2013 - 11:13:35 CDT)
- Re: water cluster analysis? (Sun Sep 22 2013 - 13:55:35 CDT)
- Re: water cluster analysis? (Sun Sep 22 2013 - 10:27:02 CDT)
- Re: Open VMD from a remote host (Wed Sep 18 2013 - 14:48:11 CDT)
- Re: remove hydrogen atoms from psf file (Wed Sep 18 2013 - 09:48:34 CDT)
- Re: remove hydrogen atoms from psf file (Wed Sep 18 2013 - 03:22:51 CDT)
- Re: data analysis script help (Tue Sep 17 2013 - 08:18:57 CDT)
- Re: Problems uploading new molecule (Wed Sep 11 2013 - 05:20:36 CDT)
- Re: Problems uploading new molecule (Wed Sep 11 2013 - 04:02:51 CDT)
- Re: Problem with VMD's depth cueing and 3DConnexion SpaceNavigator (Tue Sep 10 2013 - 08:03:49 CDT)
- Re: water cluster size analysis (Fri Sep 06 2013 - 08:16:06 CDT)
- Re: mol2 file format & displaying atom connectivities (Fri Sep 06 2013 - 07:43:12 CDT)
- Re: Autobond Criterion (Fri Sep 06 2013 - 05:09:23 CDT)
- Re: Add a gap in my simulation (Thu Sep 05 2013 - 13:38:51 CDT)
- Re: Add a gap in my simulation (Thu Sep 05 2013 - 14:42:28 CDT)
- Re: atom selection from multiple molecules (Mon Sep 02 2013 - 11:13:31 CDT)
- Re: psf file (Sat Aug 31 2013 - 09:00:12 CDT)
- Re: Question regarding color schemes on crystals and grain boundaries (Sat Aug 31 2013 - 06:37:12 CDT)
- Re: .VMD state file does not load properly (Wed Aug 28 2013 - 11:09:28 CDT)
- Re: .VMD state file does not load properly (Wed Aug 28 2013 - 07:45:20 CDT)
- Re: .VMD state file does not load properly (Wed Aug 28 2013 - 04:52:20 CDT)
- Re: .VMD state file does not load properly (Wed Aug 28 2013 - 05:05:07 CDT)
- Re: compiling VMD -- confused failure (Tue Aug 27 2013 - 14:20:24 CDT)
- Re: trouble compiling/setting up VMD (Mon Aug 26 2013 - 19:57:36 CDT)
- Re: VMD script (Sat Aug 24 2013 - 08:43:56 CDT)
- Re: unable to load .xtc files on VMD 1.8.7 (Wed Aug 21 2013 - 19:46:26 CDT)
- Re: Re: VRPN driver for Novint Falcon haptic device available - Looking for Testers (Sat Aug 17 2013 - 09:05:43 CDT)
- Re: how to use measure cluster and clustering plugin of VMD? (Fri Aug 16 2013 - 08:33:48 CDT)
- Re: everything grey with glsl (Sat Aug 10 2013 - 13:57:18 CDT)
- Re: Considering special bonds not all of bonds, (Wed Aug 07 2013 - 13:44:04 CDT)
- Re: Considering special bonds not all of bonds, (Wed Aug 07 2013 - 09:10:43 CDT)
- Re: extracting grid points from an isosurface (Tue Aug 06 2013 - 16:39:57 CDT)
- Re: Loading new molecule without changing view? (Tue Aug 06 2013 - 07:33:01 CDT)
- Re: Loading new molecule without changing view? (Tue Aug 06 2013 - 06:09:49 CDT)
- Re: extracting grid points from an isosurface (Tue Aug 06 2013 - 06:05:11 CDT)
- Re: Animations using VMD: (Tue Aug 06 2013 - 06:02:42 CDT)
- Re: Display CCP4 density map around selection only (Sun Aug 04 2013 - 23:11:02 CDT)
- Re: Bond error (Sun Aug 04 2013 - 23:20:35 CDT)
- Re: Bond error (Sun Aug 04 2013 - 03:21:21 CDT)
- Re: Bond error (Sat Aug 03 2013 - 15:03:40 CDT)
- Re: BUG in VMD dx reader plugin (Thu Aug 01 2013 - 05:05:03 CDT)
- Re: BUG in VMD dx reader plugin (Thu Aug 01 2013 - 05:18:59 CDT)
- Re: BUG in VMD dx reader plugin (Thu Aug 01 2013 - 05:06:09 CDT)
- Re: Problems when using specden package in VMD (Thu Aug 01 2013 - 02:19:44 CDT)
- Re: Problems when using specden package in VMD (Thu Aug 01 2013 - 01:36:01 CDT)
- Re: Problems when using specden package in VMD (Thu Aug 01 2013 - 01:59:16 CDT)
- Re: logging in vmd (Tue Jul 30 2013 - 07:28:33 CDT)
- Re: Leap Motion (Tue Jul 30 2013 - 04:13:53 CDT)
- Re: How to import .lammpstrj files using LAMMPS plugin (Mon Jul 29 2013 - 01:17:40 CDT)
- new VMD plugin for reading LAMMPS dumps with variable number of atoms (Thu Jul 25 2013 - 07:43:34 CDT)
- Re: catdcd a vmd extension? (Tue Jul 23 2013 - 13:09:00 CDT)
- Re: density of system (Sun Jul 21 2013 - 16:08:49 CDT)
- Re: Dynamic number of atoms visualization (Sat Jul 20 2013 - 07:46:18 CDT)
- Re: Dynamic number of atoms visualization (Sat Jul 20 2013 - 06:42:50 CDT)
- Re: simulating proteins with missing resdiues (Fri Jul 19 2013 - 11:56:29 CDT)
- Re: combine .pdb files to make movie (Fri Jul 19 2013 - 07:25:37 CDT)
- CatDCD windows binaries (Fri Jul 19 2013 - 04:56:00 CDT)
- Re: VMD mismatch between CUDA runtime and GPU driver (Thu Jul 18 2013 - 03:31:33 CDT)
- Re: problems about atoms display in certain region (Wed Jul 17 2013 - 23:04:53 CDT)
- Re: script for size distribution (Wed Jul 17 2013 - 02:26:41 CDT)
- Re: Combine volmap occupancy maps (Wed Jul 17 2013 - 02:31:04 CDT)
- Re: logging in vmd (Mon Jul 15 2013 - 01:31:47 CDT)
- Re: logging in vmd (Sun Jul 14 2013 - 23:31:32 CDT)
- Re: manipulation of atomselections (Fri Jul 05 2013 - 17:00:17 CDT)
- Re: two Molecules in one pdb and psf (Fri Jul 05 2013 - 07:14:28 CDT)
- Re: Re: VRPN driver for Novint Falcon haptic device available - Looking for Testers (Wed Jul 03 2013 - 23:44:18 CDT)
- Re: Trouble with the mergepdbs.tcl script (Wed Jul 03 2013 - 10:46:47 CDT)
- Re: Merge Structur (Wed Jul 03 2013 - 10:01:48 CDT)
- Re: atom indices from x y z coordinates (Wed Jul 03 2013 - 03:56:14 CDT)
- Re: Box boundaries displaying (Mon Jul 01 2013 - 11:08:23 CDT)
- Re: variable particle size (Sat Jun 29 2013 - 09:59:54 CDT)
- Re: Reusing the psf file (Sat Jun 29 2013 - 02:06:10 CDT)
- Re: setting bonds so that they are saved in DMS format output (Fri Jun 28 2013 - 22:23:31 CDT)
- Re: Visualise variable atoms (Thu Jun 27 2013 - 02:52:57 CDT)
- Re: variable atoms visualization (Thu Jun 27 2013 - 01:15:49 CDT)
- Re: question concerning measure gofr (Tue Jun 25 2013 - 12:01:22 CDT)
- Re: How to save 2 gro file in 1 gro file? (Sun Jun 23 2013 - 12:22:58 CDT)
- Re: How to save 2 gro file in 1 gro file? (Sun Jun 23 2013 - 09:08:14 CDT)
- Re: graphics: not enough parameters (Sat Jun 15 2013 - 16:39:42 CDT)
- Re: variable particle size (Fri Jun 14 2013 - 00:21:33 CDT)
- Re: error: too many open files (Wed Jun 12 2013 - 21:22:53 CDT)
- Re: Fw: protein schematic representaton (Wed Jun 12 2013 - 05:33:17 CDT)
- Re: multiple vector in smd (Mon Jun 10 2013 - 23:55:51 CDT)
- Re: best method for showing metal nanoparticle and protein in vmd (Sat Jun 08 2013 - 12:48:45 CDT)
- Re: Dihedrals (Wed Jun 05 2013 - 10:42:43 CDT)
- Re: Dihedrals (Wed Jun 05 2013 - 09:37:22 CDT)
- Re: Dihedrals (Wed Jun 05 2013 - 09:03:00 CDT)
- Re: Change atom color dynamically. (Wed Jun 05 2013 - 03:14:02 CDT)
- Re: Calculation of VAF using signalproc plugin (Wed Jun 05 2013 - 00:40:52 CDT)
- Re: Calculation of VAF using signalproc plugin (Mon Jun 03 2013 - 03:16:35 CDT)
- Re: not work "selection atoms" for trajectory of dl_poly (Sat Jun 01 2013 - 11:05:38 CDT)
- Re: How to place the origin point at the position of an atom? (Fri May 31 2013 - 03:11:16 CDT)
- Re: why does VMD load dcd file so slowly? (Sun May 26 2013 - 01:24:16 CDT)
- Re: Remove overlapping solvent molecules (Thu May 23 2013 - 08:37:09 CDT)
- Re: Formatting labels in script (Fri May 17 2013 - 05:22:43 CDT)
- Re: Error when compiling plugins: tcl.h not found (Tue May 14 2013 - 12:48:29 CDT)
- Re: visualizing dynamic charge (Tue May 14 2013 - 11:59:37 CDT)
- Re: visualizing dynamic charge (Tue May 14 2013 - 02:38:00 CDT)
- Re: molinfo top get filename, dialogue vs. "mol new" (Thu May 09 2013 - 10:41:28 CDT)
- Re: molinfo top get filename, dialogue vs. "mol new" (Thu May 09 2013 - 09:21:27 CDT)
- Re: number of atoms changes on loading .cms file (Fri Apr 26 2013 - 02:50:10 CDT)
- Re: (Thu Apr 25 2013 - 07:29:54 CDT)
- Re: (Thu Apr 25 2013 - 06:40:58 CDT)
- Re: differing particle numbers in each frame (Tue Apr 23 2013 - 05:58:58 CDT)
- Re: Re: dock (Tue Apr 23 2013 - 04:22:26 CDT)
- Re: problem in saving the output (Tue Apr 23 2013 - 03:17:05 CDT)
- Re: mol options first and last (Mon Apr 22 2013 - 14:44:47 CDT)
- Re: HEME acting unplanar (Mon Apr 22 2013 - 04:48:09 CDT)
- Re: how to calculate binding free energy and contribution of individual residue? (Mon Apr 22 2013 - 03:35:20 CDT)
- Re: problem of pbc command (Mon Apr 22 2013 - 02:48:33 CDT)
- Re: how to write pbc option in python? (Mon Apr 22 2013 - 02:50:40 CDT)
- Re: ellipsoidal particles (Mon Apr 22 2013 - 02:42:08 CDT)
- Re: ellipsoidal particles (Sun Apr 21 2013 - 11:24:15 CDT)
- Re: pdb -arge magnitude coordinates (Sat Apr 20 2013 - 12:57:38 CDT)
- Re: how vmd return actual vector for given atom (Thu Apr 18 2013 - 11:47:28 CDT)
- Re: problem about displaying hbond in periodic box (Tue Apr 16 2013 - 04:41:53 CDT)
- Re: generate nanotube other than CNT (Mon Apr 15 2013 - 04:33:04 CDT)
- Re: Improper parameters for CNT (Mon Apr 15 2013 - 03:19:26 CDT)
- Re: generate nanotube other than CNT (Mon Apr 15 2013 - 03:31:34 CDT)
- Re: Improper parameters for CNT (Mon Apr 15 2013 - 03:17:05 CDT)
- Re: bug in xsfplugin [patch included] (Thu Apr 11 2013 - 11:59:11 CDT)
- Re: bug in xsfplugin [patch included] (Thu Apr 11 2013 - 08:18:59 CDT)
- Re: average structure generation from trajectory (Thu Apr 11 2013 - 03:16:30 CDT)
- Re: put the water box in a grid and traverse for the atoms in each grid (Thu Apr 11 2013 - 03:20:26 CDT)
- Re: Placing a peptide between two points (Thu Apr 11 2013 - 00:41:14 CDT)
- Re: is there a way to measure the long axis of a protein or angle between domains in VMD (Wed Apr 10 2013 - 03:35:46 CDT)
- Re: fftk source code (Wed Apr 10 2013 - 03:08:35 CDT)
- Re: Writing povray files from a VMD trajectory (Tue Apr 09 2013 - 15:16:47 CDT)
- Re: moving center of protien to another new center x,y,z (Sun Apr 07 2013 - 11:17:13 CDT)
- Re: Disable display resetview (Thu Apr 04 2013 - 02:17:46 CDT)
- Re: generate nanotube other than CNT (Tue Apr 02 2013 - 07:20:55 CDT)
- Re: Issue in Cal. Bonded and Scan Torsion in fftk (Tue Apr 02 2013 - 02:06:50 CDT)
- Re: vmd-I: remove water, protein from a dcd (Thu Mar 28 2013 - 17:42:06 CDT)
- Re: How to generate average structure from trajectory using VMD (Tue Mar 26 2013 - 08:06:15 CDT)
- Re: Tethering, or restraining, part of a molecule during MD playback (Mon Mar 25 2013 - 01:42:46 CDT)
- Re: Topo tools: can't use non-numeric string as operand of "+" (Fri Mar 22 2013 - 09:35:19 CDT)
- Re: delete segments from dcd file (Tue Mar 19 2013 - 02:13:32 CDT)
- Re: gofr between center of mass of a functional group and solvent (Tue Mar 19 2013 - 02:17:00 CDT)
- Re: cp: cannot stat `../LINUXAMD64/vmd_LINUXAMD64': No such file or directory (Mon Mar 18 2013 - 11:00:26 CDT)
- Re: dx file format (Mon Mar 11 2013 - 23:30:27 CDT)
- Re: transparent material: set different opacity (Fri Mar 08 2013 - 09:06:06 CST)
- Re: Radial pair distribution function (Fri Mar 01 2013 - 09:39:35 CST)
- Re: gofr with PBC (Fri Mar 01 2013 - 09:34:00 CST)
- Re: FPR monitor+glasses (Fri Feb 22 2013 - 08:18:12 CST)
- Re: Atom serial numbers in array format (Thu Feb 21 2013 - 06:38:45 CST)
- Re: about visualization in VMD (Thu Feb 21 2013 - 06:41:45 CST)
- Re: Atom serial numbers in array format (Thu Feb 21 2013 - 04:43:08 CST)
- Re: How to save coordinates of periodic systems (Wed Feb 20 2013 - 09:34:47 CST)
- Re: rotate a selection of a molecule and write rotated coordinates (Wed Feb 20 2013 - 04:03:54 CST)
- Re: rotate a selection of a molecule and write rotated coordinates (Tue Feb 19 2013 - 10:07:23 CST)
- Re: Surface won't close (Mon Feb 18 2013 - 10:37:26 CST)
- Re: Spring script not working (Mon Feb 18 2013 - 08:57:09 CST)
- Re: Problem related to the save trajectory (Mon Feb 18 2013 - 03:44:27 CST)
- Re: Problem related to the save trajectory (Mon Feb 18 2013 - 02:31:13 CST)
- Re: Problem related to the save trajectory (Mon Feb 18 2013 - 02:15:10 CST)
- Re: Licorice in transparent surface visualisation (Fri Feb 15 2013 - 09:43:11 CST)
- Re: Dynamic bonds for amorphous silicon carbide? (Fri Feb 15 2013 - 05:20:31 CST)
- Re: draw structure with xyz coordinates (Mon Feb 11 2013 - 11:06:47 CST)
- Re: differing particle numbers in each frame (Fri Feb 08 2013 - 07:53:07 CST)
- Re: Unable to re-install vmd (Mon Feb 04 2013 - 11:43:50 CST)
- Re: making movies in vmd (Fri Feb 01 2013 - 02:46:25 CST)
- Re: how to configure VMD plugin location? (Tue Jan 29 2013 - 04:08:18 CST)
- Re: how to configure VMD plugin location? (Tue Jan 29 2013 - 02:32:45 CST)
- Re: cannot open vmd (Fri Jan 25 2013 - 02:28:15 CST)
- Re: about inorganic builder and define variable (Fri Jan 18 2013 - 04:27:40 CST)
- Re: CG- CNT (Sat Jan 12 2013 - 10:02:04 CST)
- Re: How to read every second frame with bigdcd (Thu Jan 03 2013 - 12:33:40 CST)
- Re: How to get the coordinate of periodic images (Sat Dec 22 2012 - 09:50:51 CST)
- Re: Gromacs index file (Wed Dec 19 2012 - 03:52:49 CST)
- Re: visualizing multiframe trajectory simultaneously with multimolecule (Mon Dec 17 2012 - 10:37:43 CST)
- Re: combine.tcl (Mon Dec 17 2012 - 10:30:47 CST)
- Re: visualizing multiframe trajectory simultaneously with multimolecule (Sat Dec 15 2012 - 01:07:21 CST)
- Re: delete of some molecules (Sat Dec 15 2012 - 01:10:25 CST)
- Re: visualizing multiframe trajectory simultaneously with multimolecule (Thu Dec 13 2012 - 12:53:11 CST)
- Re: problem with ascribing data to the user field (Thu Dec 13 2012 - 06:30:54 CST)
- Re: VMD 1.9.1 core dumps (CentOS-5 x86_64) nvidia drivers: 304.64/4x GTX 680 (Mon Dec 10 2012 - 10:22:49 CST)
- Re: Default XML format (Fri Dec 07 2012 - 14:10:03 CST)
- Re: Use Movie Maker Plugin in Script (Thu Dec 06 2012 - 07:02:33 CST)
- Re: uninstall of previous version (Thu Dec 06 2012 - 03:44:21 CST)
- Re: invalid command name "dict" (Thu Dec 06 2012 - 02:29:59 CST)
- Re: Full-Screen display (Tue Dec 04 2012 - 09:47:31 CST)
- Re: Full-Screen display (Tue Dec 04 2012 - 08:54:23 CST)
- Re: A problem about atomselect command in a script (Tue Dec 04 2012 - 02:32:54 CST)
- Re: RDF (Fri Nov 30 2012 - 13:34:45 CST)
- Re: delete the most recent atomselect? (Thu Nov 29 2012 - 15:42:33 CST)
- Re: How do I make sure the normals value of trinorms? (Thu Nov 29 2012 - 08:36:17 CST)
- Re: not very helpful documentation (Wed Nov 28 2012 - 10:40:12 CST)
- Re: (Tue Nov 27 2012 - 16:06:29 CST)
- Re: compiled failed (Mon Nov 26 2012 - 15:41:09 CST)
- Re: python script failed (Mon Nov 26 2012 - 05:52:09 CST)
- Re: pbc box problem (Thu Nov 15 2012 - 02:45:25 CST)
- Re: Units of bond distance in vmd (Thu Nov 08 2012 - 12:20:34 CST)
- Re: vmd cause linux system freezes randomly (Thu Nov 08 2012 - 00:15:21 CST)
- Re: periodic images of molecule containing custom graphics (Wed Nov 07 2012 - 06:37:38 CST)
- Re: vmd crashes during gromacs trr loading (Wed Nov 07 2012 - 03:14:28 CST)
- Re: 3rd party tools- vmd (Tue Nov 06 2012 - 13:42:13 CST)
- Re: Solvating protein in water sucrose solution (Tue Nov 06 2012 - 13:47:56 CST)
- Workshop on Scientific Software Development at ICTP in Trieste (Thu Nov 01 2012 - 09:39:46 CDT)
- Re: Re: control the spacing between the dashes in the hydrogen bonding between two atoms (Tue Oct 30 2012 - 08:59:22 CDT)
- Re: IMD with Novint Falcon (Tue Oct 30 2012 - 08:10:18 CDT)
- Re: Command line representation (Mon Oct 29 2012 - 07:51:16 CDT)
- Re: Colouring by velocity component in VMD (Mon Oct 29 2012 - 07:18:10 CDT)
- Re: IMD with Novint Falcon (Fri Oct 26 2012 - 08:22:00 CDT)
- Re: Error in reading data file (Tue Oct 23 2012 - 10:08:15 CDT)
- Re: Error in reading data file (Tue Oct 23 2012 - 09:56:49 CDT)
- Re: Re: how to make separate molecule whole? (Sun Oct 21 2012 - 23:20:57 CDT)
- Re: how to make separate molecule whole? (Sun Oct 21 2012 - 11:06:32 CDT)
- Re: Visualizing phonon displacement patterns from axsf format forces? (Sun Oct 21 2012 - 02:49:55 CDT)
- Re: how to put command line arguments in tcl script (Thu Oct 18 2012 - 15:42:14 CDT)
- Re: Graphic card (Wed Oct 17 2012 - 09:34:06 CDT)
- Re: coloring atoms based on max bond length; Need help with bond retrieval (Tue Oct 16 2012 - 10:33:57 CDT)
- Re: coloring atoms based on max bond length; Need help with bond retrieval (Mon Oct 15 2012 - 14:12:33 CDT)
- Re: VRPN driver for Novint Falcon haptic device available - Looking for Testers (Sun Oct 14 2012 - 13:31:12 CDT)
- Re: compiling VMD with gcc 4.7 (Thu Oct 04 2012 - 08:30:36 CDT)
- Re: Radius of gyration from Big DCD (Fri Sep 28 2012 - 10:50:36 CDT)
- Re: Get objects from precompiled VMD? (Thu Sep 27 2012 - 06:11:16 CDT)
- Re: Big DCD file help (Tue Sep 25 2012 - 12:54:09 CDT)
- Re: Big DCD file help (Tue Sep 25 2012 - 11:10:26 CDT)
- Re: Lammps simulation (Mon Sep 24 2012 - 12:47:11 CDT)
- Re: VMD in Linux, assigning a variable using awk (Thu Sep 20 2012 - 14:40:52 CDT)
- Re: compiling vmd with g++-4.6 on ubuntu (Thu Sep 20 2012 - 11:24:29 CDT)
- Re: Use of topotools (Thu Sep 20 2012 - 07:50:35 CDT)
- Re: How to create strong bond between atoms in VMD (Thu Sep 20 2012 - 07:03:07 CDT)
- Re: Determining the Size of my Molecule. . (Sun Sep 16 2012 - 17:10:21 CDT)
- Re: tutorial 2 (Thu Sep 13 2012 - 04:18:16 CDT)
- Re: problem loading LAMMPS trajectory using VMD (Thu Sep 13 2012 - 02:23:08 CDT)
- Re: Question about reflecting wall in NAMD (Fri Aug 31 2012 - 10:17:55 CDT)
- Re: Possible handle leak in 'measure gofr' VMD 1.9.1 Windows (no cuda) (Sun Aug 26 2012 - 10:44:48 CDT)
- Re: Possible handle leak in 'measure gofr' VMD 1.9.1 Windows (no cuda) (Sun Aug 26 2012 - 08:05:00 CDT)
- Re: The err happens when movie maker Renderer POV-Ray (Thu Aug 23 2012 - 04:07:30 CDT)
- Re: RDF COM (Thu Aug 23 2012 - 02:47:02 CDT)
- (no subject) (Wed Aug 22 2012 - 06:17:50 CDT)
- Re: The err happens when movie maker Renderer POV-Ray (Wed Aug 22 2012 - 04:58:30 CDT)
- Re: writing a psf with bonds (Mon Aug 20 2012 - 15:15:31 CDT)
- Re: Scripting API: are arguments to representation types documented somewhere? (Mon Aug 20 2012 - 07:15:52 CDT)
- Re: how to get interaction energy (Wed Aug 15 2012 - 08:37:02 CDT)
- Re: how to get interaction energy (Wed Aug 15 2012 - 06:53:16 CDT)
- Re: Cartesian coordinates to polar coordinates (Wed Aug 15 2012 - 01:50:57 CDT)
- Re: creating a modified pdb/psf file (Tue Aug 14 2012 - 07:25:42 CDT)
- Re: Failure getting correct charge on the system (Mon Aug 13 2012 - 04:45:16 CDT)
- Re: Failure getting correct charge on the system (Mon Aug 13 2012 - 03:37:08 CDT)
- Re: long bonds in surface structure is not shown in vmd !? (Sat Aug 11 2012 - 23:28:48 CDT)
- Re: Re: how add new plugin to vmd (Sat Aug 11 2012 - 17:23:25 CDT)
- Re: Re: how add new plugin to vmd (Sat Aug 11 2012 - 08:10:46 CDT)
- Re: how add new plugin to vmd (Fri Aug 10 2012 - 16:27:00 CDT)
- Re: Convert CHARMM psf to X-PLOR (Fri Aug 10 2012 - 14:48:01 CDT)
- Re: Convert CHARMM psf to X-PLOR (Fri Aug 10 2012 - 10:43:03 CDT)
- Re: SASA Algorithm?? (Fri Aug 10 2012 - 06:42:54 CDT)
- Re: convert dcd to coordinate, each frame, conserving the identity (Fri Aug 10 2012 - 03:13:23 CDT)
- Re: how to write topology for Metal in protein (Fri Aug 10 2012 - 02:07:38 CDT)
- Re: Selecting based on parameters from another file (Fri Aug 10 2012 - 02:08:02 CDT)
- Re: B-factor plugin (Thu Aug 09 2012 - 15:50:47 CDT)
- Re: unique residue names (Thu Aug 09 2012 - 11:12:39 CDT)
- Re: connect a spring between all the atoms present in pdb structure (Sat Aug 04 2012 - 13:20:05 CDT)
- Re: namd-l: How to create psf for graphene (Sat Aug 04 2012 - 13:28:04 CDT)
- Re: namd-l: connect a spring between all the atoms present in pdb structure (Sat Aug 04 2012 - 13:21:27 CDT)
- Re: (Thu Aug 02 2012 - 05:11:39 CDT)
- Re: how to generate .pdb file of graphene in VMD(nanotube builder) (Wed Aug 01 2012 - 06:20:08 CDT)
- Re: Python plans (Fri Jul 27 2012 - 02:39:48 CDT)
- Re: vmd 1.9.1 Centos (Wed Jul 25 2012 - 03:20:26 CDT)
- Re: (Tue Jul 24 2012 - 11:10:42 CDT)
- Re: converting Desmond trajectory and energy file to gromacs (Tue Jul 24 2012 - 06:22:00 CDT)
- Re: (Mon Jul 23 2012 - 12:46:16 CDT)
- Re: Problem with Reading GROMACS file in VMD (Mon Jul 23 2012 - 12:42:50 CDT)
- Re: Problem with Reading GROMACS file in VMD (Sun Jul 22 2012 - 23:46:35 CDT)
- Re: VMD's superposition algorithm (Thu Jul 19 2012 - 07:28:09 CDT)
- Re: VMD's superposition algorithm (Thu Jul 19 2012 - 06:55:12 CDT)
- Re: constant velocity for carbon nanotubes (Thu Jul 19 2012 - 02:15:07 CDT)
- Re: periodic bonds in vmd (Tue Jul 17 2012 - 14:27:39 CDT)
- Re: H-H dynamic bonds (Tue Jul 17 2012 - 11:22:07 CDT)
- Re: IMD selections (Mon Jul 16 2012 - 11:25:49 CDT)
- Re: how to change color of the one type of atom (Fri Jul 13 2012 - 09:05:31 CDT)
- Re: vmd installation problem (Thu Jul 12 2012 - 03:52:04 CDT)
- Re: namd-l: Re: vmd installation problem (Thu Jul 12 2012 - 01:53:15 CDT)
- Re: Distance constraints (Fri Jul 06 2012 - 23:05:45 CDT)
- Re: Building unit cell from asymmetric unit (Thu Jul 05 2012 - 01:50:28 CDT)
- Re: about analysis plugin (Wed Jul 04 2012 - 11:09:07 CDT)
- Re: difficulty in viewing AMBER mdcrd files (Mon Jul 02 2012 - 12:56:46 CDT)
- Re: VMD selection: change atom size across various frames (Mon Jul 02 2012 - 05:10:50 CDT)
- Re: scripting bond labeling (Sat Jun 30 2012 - 10:32:04 CDT)
- Re: VMD selection: change atom size across various frames (Fri Jun 29 2012 - 10:26:27 CDT)
- Re: problem with pbc wrap (Thu Jun 28 2012 - 17:09:09 CDT)
- Re: Force Field ToolKit and QM codes other than Gaussian (Mon Jun 25 2012 - 05:07:47 CDT)
- Re: dump to vmd (Sun Jun 24 2012 - 06:44:01 CDT)
- Re: PMEpot plugin (Tue Jun 19 2012 - 13:06:38 CDT)
- Re: fix the viewing angles (Mon Jun 18 2012 - 06:27:10 CDT)
- Re: Changing the color of atoms of a particular name (Sun Jun 17 2012 - 06:45:40 CDT)
- Re: unwrapping long trajectories (Thu Jun 14 2012 - 13:51:02 CDT)
- Re: The "gopython" is wrong on the Lunux VMD1.9.1 (Thu Jun 14 2012 - 07:48:04 CDT)
- Re: VMD 1.9 installation on linux (Wed Jun 13 2012 - 20:06:28 CDT)
- Re: scripting bond labeling (Wed Jun 13 2012 - 17:47:25 CDT)
- Re: VMD 1.9 installation on linux (Wed Jun 13 2012 - 09:00:11 CDT)
- Re: Problems with analysis tools (Wed Jun 13 2012 - 08:11:41 CDT)
- Re: Problems with analysis tools (Wed Jun 13 2012 - 08:08:17 CDT)
- Re: The "gopython" is wrong on the Lunux VMD1.9.1 (Wed Jun 13 2012 - 05:50:48 CDT)
- Re: Finding the Number of Chains Present via Scripting (Fri Jun 08 2012 - 12:10:36 CDT)
- Re: Segmentation fault (core dumped) (Thu Jun 07 2012 - 08:42:51 CDT)
- Re: Segmentation fault (core dumped) (Wed Jun 06 2012 - 08:19:58 CDT)
- Re: Segmentation fault (core dumped) (Tue Jun 05 2012 - 10:09:48 CDT)
- Re: Strange results when visualizing .trr trajectory (Sat Jun 02 2012 - 12:38:42 CDT)
- Re: Drawing an ellipsoid (Thu May 31 2012 - 21:14:54 CDT)
- Re: Drawing an ellipsoid (Thu May 31 2012 - 10:35:17 CDT)
- Re: Problem in making IMD connection (Thu May 31 2012 - 07:14:35 CDT)
- anybody interested in running VMD in parallel (without recompiling)? (Wed May 30 2012 - 19:40:45 CDT)
- Re: Another thought related to drawing dipole moment vectors (Sat May 26 2012 - 16:22:55 CDT)
- Re: Using Dipole Moment Watcher with Gromacs configurations and trajectories (Sat May 26 2012 - 16:19:26 CDT)
- Re: Movie making with smoothed trajectories (Thu May 24 2012 - 12:03:04 CDT)
- Re: TR: VMD atomselect with cartesian reference (Thu May 24 2012 - 09:13:04 CDT)
- Re: vmd on Ubuntu: tcl howto (Wed May 23 2012 - 07:09:28 CDT)
- Re: RMSF and bigdcd (Tue May 22 2012 - 18:53:22 CDT)
- Re: libGLU.so missing? (Fri May 18 2012 - 19:53:59 CDT)
- Re: file splitting (Thu May 17 2012 - 11:11:00 CDT)
- Re: panel missing! (Thu May 17 2012 - 10:16:40 CDT)
- Re: file splitting (Thu May 17 2012 - 07:34:47 CDT)
- Re: how to calculate PBC box volume in VMD? (Thu May 17 2012 - 02:31:06 CDT)
- Re: panel missing! (Wed May 16 2012 - 12:23:18 CDT)
- Re: Making only a subset of atoms transparent (or otherwise non-emphasized) (Tue May 15 2012 - 13:38:17 CDT)
- Re: APBS for small molecules (Tue May 15 2012 - 09:22:02 CDT)
- Re: APBS for small molecules (Tue May 15 2012 - 00:41:56 CDT)
- Re: Loop for (Thu May 10 2012 - 22:06:41 CDT)
- Re: Loop for (Thu May 10 2012 - 20:00:51 CDT)
- Re: VMD1.9.1 is crashing my system (Thu May 10 2012 - 17:19:50 CDT)
- Re: PBC missed in Amber MD (Thu May 10 2012 - 13:43:31 CDT)
- Re: flashing the VMD (Thu May 10 2012 - 10:49:11 CDT)
- Re: PBC missed in Amber MD (Thu May 10 2012 - 09:05:04 CDT)
- Re: flashing the VMD (Thu May 10 2012 - 08:41:00 CDT)
- Re: flashing the VMD (Wed May 09 2012 - 11:01:54 CDT)
- Re: flashing the VMD (Tue May 08 2012 - 16:26:26 CDT)
- Re: flashing the VMD (Tue May 08 2012 - 16:22:57 CDT)
- Re: flashing the VMD (Tue May 08 2012 - 09:18:17 CDT)
- Re: counting specific atom types (Tue May 08 2012 - 09:24:20 CDT)
- Re: flashing the VMD (Tue May 08 2012 - 09:09:27 CDT)
- Re: diffusion coefficient plug-in in VMD (Tue May 08 2012 - 08:12:35 CDT)
- Re: flasshing the VMD (Tue May 08 2012 - 08:16:53 CDT)
- Re: flasshing the VMD (Mon May 07 2012 - 22:10:30 CDT)
- Re: strange coloring (Mon May 07 2012 - 16:05:49 CDT)
- Re: .trr files slow to load (Mon May 07 2012 - 12:55:52 CDT)
- Re: %-sign shortcut for mouse->force->atom not working (Sun May 06 2012 - 14:01:37 CDT)
- Re: Make "Load all at once" the default? Adding representations? (Tue May 01 2012 - 19:13:11 CDT)
- Re: Problem with moving protein for all frames (Tue May 01 2012 - 17:04:37 CDT)
- Re: Make "Load all at once" the default? Adding representations? (Tue May 01 2012 - 16:54:49 CDT)
- Re: helical content script (Tue May 01 2012 - 07:28:05 CDT)
- Re: 3D density in the specific part of the simulation box (Tue May 01 2012 - 07:34:55 CDT)
- Re: visualization of HOMO&LUMO in vmd (Tue May 01 2012 - 07:31:29 CDT)
- Re: how to use the AutoIMD "Tool control" panel. (Mon Apr 30 2012 - 12:34:07 CDT)
- Re: writing pair/bond/angle/dihedral information for lammps input (Sun Apr 29 2012 - 23:52:25 CDT)
- Re: writing pair/bond/angle/dihedral information for lammps input (Sun Apr 29 2012 - 18:18:24 CDT)
- Re: measure gofr script (Sat Apr 28 2012 - 12:33:09 CDT)
- Re: measure gofr script (Sat Apr 28 2012 - 10:11:58 CDT)
- Re: water mean residence time (Fri Apr 27 2012 - 18:30:21 CDT)
- Re: Problem with generating psf using CGENFF (Thu Apr 26 2012 - 12:41:38 CDT)
- Re: H-H dynamic bonds (Mon Apr 23 2012 - 18:10:58 CDT)
- Re: openGL x,y position (Sun Apr 22 2012 - 22:12:58 CDT)
- Re: openGL x,y position (Sun Apr 22 2012 - 21:46:14 CDT)
- Re: Re: Movie Plugin (Sun Apr 22 2012 - 12:32:41 CDT)
- Re: HOOMD problems (Fri Apr 20 2012 - 20:19:43 CDT)
- Re: gofr limit, Kirkwood-Buff integrals (Fri Apr 20 2012 - 17:50:26 CDT)
- Re: HOOMD problems (Fri Apr 20 2012 - 16:37:56 CDT)
- Re: gofr limit, Kirkwood-Buff integrals (Fri Apr 20 2012 - 14:11:28 CDT)
- Re: Valence bond force field in NAMD (Thu Apr 19 2012 - 12:53:26 CDT)
- Re: Misfunction of some plugins if compiled (Wed Apr 18 2012 - 21:18:53 CDT)
- Re: Units of Isovalue Slider in Isovalue Drawing Method (Wed Apr 18 2012 - 21:10:24 CDT)
- Re: Saving coordinates that meet selection criteria for each frame (Tue Apr 17 2012 - 19:20:56 CDT)
- Re: Is it possible to save the position and angle of the camera for future VMD sessions? (Fri Apr 13 2012 - 18:57:22 CDT)
- Re: Default representation style in command line (Fri Apr 13 2012 - 07:21:39 CDT)
- Re: Drawing a high resolution transparent or translucent sphere (Wed Apr 11 2012 - 23:45:18 CDT)
- Re: saving dcd file different if by script or by interactive mode (Tue Apr 10 2012 - 18:16:03 CDT)
- Re: topotools writelammps data (Tue Apr 10 2012 - 18:15:16 CDT)
- Re: VMD QUESTION( Movie making ) (Mon Apr 09 2012 - 17:45:21 CDT)
- Re: IMD - remove forces on mouse release (Sun Apr 08 2012 - 14:12:19 CDT)
- Re: using min. image. conven. for transport properties (Wed Apr 04 2012 - 09:13:37 CDT)
- Re: Auto Bead Display Size using topotools (Mon Apr 02 2012 - 15:59:06 CDT)
- Re: python error? (Mon Apr 02 2012 - 13:48:02 CDT)
- Re: Printing Coordinates with Tcl/Tk (Fri Mar 30 2012 - 13:38:57 CDT)
- Re: Plotting of Co-ordinates on VMD (Fri Mar 30 2012 - 12:49:51 CDT)
- Re: bondsrecalc question (Fri Mar 30 2012 - 12:46:52 CDT)
- Re: Dynamically displaying the length of hydrogen bonds (Fri Mar 30 2012 - 12:44:35 CDT)
- Re: Is there any way to stop the display of bonds for bonded atoms on opposite sides of a periodic boundary without unwrapping? (Fri Mar 30 2012 - 08:13:09 CDT)
- Re: secondary structure calculation (Thu Mar 29 2012 - 08:01:38 CDT)
- Re: kill source'd tcl script (Wed Mar 28 2012 - 08:50:02 CDT)
- Re: secondary structure calculation (Tue Mar 27 2012 - 15:26:26 CDT)
- Re: starting tkcon (Wed Mar 21 2012 - 11:20:36 CDT)
- Re: Define "color Element" through rgb values (Mon Mar 19 2012 - 12:55:31 CDT)
- Re: Desmond Trajectory Files on the fly in VMD (Tue Mar 13 2012 - 08:56:45 CDT)
- Re: Drawing the simulation box from a Gromacs trajectory (Mon Mar 12 2012 - 14:30:23 CDT)
- Re: make movies with user-defined script (Fri Mar 09 2012 - 19:35:32 CST)
- Re: VMD Display Error - Detected X11 'Composite' extension (Thu Mar 08 2012 - 21:06:08 CST)
- Re: Individual components of RMSD? (Thu Mar 08 2012 - 13:07:49 CST)
- Re: Memory used by VMD is much less than installed (Wed Mar 07 2012 - 06:34:44 CST)
- Re: information regarding tcl script for cell volume changing with each frame (Sat Mar 03 2012 - 17:25:43 CST)
- Re: information regarding tcl script for cell volume changing with each frame (Sat Mar 03 2012 - 14:45:14 CST)
- Re: Calculating RDF from xyz file (Thu Mar 01 2012 - 17:36:46 CST)
- Re: Adsorption VMD Tcl script error (Wed Feb 29 2012 - 16:56:31 CST)
- Re: How to change the python include and linkage path in configure script (Mon Feb 27 2012 - 13:33:18 CST)
- Re: Plugins use after compilation question (Mon Feb 27 2012 - 13:30:49 CST)
- Re: From Vmd to lammps data file (Mon Feb 27 2012 - 09:19:31 CST)
- Re: From Vmd to lammps data file (Mon Feb 27 2012 - 08:07:24 CST)
- Re: [request] Best practices for rendering frames and making movies (Tue Feb 21 2012 - 18:29:19 CST)
- Re: .xyz bond (Mon Feb 20 2012 - 06:07:02 CST)
- Re: Distance between center of mass of two amino acid residues. (Sun Feb 19 2012 - 14:43:17 CST)
- Re: Distance between center of mass of two amino acid residues. (Sun Feb 19 2012 - 11:37:25 CST)
- Re: quicksurf and PBC (Sat Feb 18 2012 - 10:57:01 CST)
- Re: trajector@VMD (Fri Feb 17 2012 - 09:38:26 CST)
- Re: append glow lights to a VMD/Tachyon scene (Fri Feb 17 2012 - 08:11:53 CST)
- Re: Create multiple tcl interpreter child instances within VMD to run several scripts at once (Thu Feb 16 2012 - 12:46:48 CST)
- Re: Hbonds Analysis (Wed Feb 15 2012 - 18:14:24 CST)
- Re: Hbonds Analysis (Tue Feb 14 2012 - 15:36:13 CST)
- Re: radial distribution funtion (Mon Feb 13 2012 - 21:59:32 CST)
- Re: Timestep (Mon Feb 13 2012 - 16:57:22 CST)
- Re: radial distribution funtion (Mon Feb 13 2012 - 16:21:16 CST)
- Re: PROPKA doesn't work in recent VMD1.9.1 (Sun Feb 12 2012 - 09:47:21 CST)
- Re: charges in VMD 1.9 vs. VMD 1.8.7 (Fri Feb 10 2012 - 08:38:12 CST)
- Re: radial distribution function (Thu Feb 09 2012 - 21:09:54 CST)
- Re: charge visualization (Tue Feb 07 2012 - 19:49:17 CST)
- Re: Use variable in atomselect command (Tue Feb 07 2012 - 16:15:55 CST)
- Re: Configure VMD while GROMACS Installation (Tue Feb 07 2012 - 05:52:22 CST)
- Re: Tcl script error (Mon Feb 06 2012 - 11:54:35 CST)
- Re: PSFGEN and Reading Bonds from PDB Files (Mon Feb 06 2012 - 11:52:27 CST)
- Re: Tcl script error (Mon Feb 06 2012 - 12:02:47 CST)
- Re: Tcl script error (Mon Feb 06 2012 - 11:46:43 CST)
- Re: PSFGEN and Reading Bonds from PDB Files (Sun Feb 05 2012 - 15:36:29 CST)
- Re: The spheres become oval, getting close to the screen borders (Sun Feb 05 2012 - 11:07:34 CST)
- Re: create images in vmd (Fri Feb 03 2012 - 06:34:53 CST)
- Re: how to display the full molecule when use "within" option? (Fri Feb 03 2012 - 06:32:34 CST)
- Re: NewRibbons/NewCartoon problem due to missing CUDA ? (Thu Feb 02 2012 - 07:52:24 CST)
- Re: namd-l: Gromacs analysis tools for Namd output (Wed Feb 01 2012 - 11:48:47 CST)
- Re: Rmsd script with arguments (Tue Jan 31 2012 - 15:55:06 CST)
- Re: NewRibbons/NewCartoon problem due to missing CUDA ? (Tue Jan 31 2012 - 07:18:10 CST)
- Re: Quantitative meaning of volmap isosurface (Tue Jan 31 2012 - 07:25:02 CST)
- Re: how to fix structural alignment pdbs (Tue Jan 31 2012 - 07:22:44 CST)
- Re: how to configure Tachyon image render size? (Mon Jan 30 2012 - 15:46:42 CST)
- Re: problem with new plugin installation. (Sat Jan 28 2012 - 10:33:50 CST)
- Re: Cutting a sphere with a specified radius along a trajectory (Fri Jan 27 2012 - 17:24:23 CST)
- Re: package ::struct::set not available (Thu Jan 26 2012 - 09:40:06 CST)
- Re: VMD 1.9.1 beta 2 to be posted tonight... (Thu Jan 26 2012 - 06:52:27 CST)
- Re: unit cell volume is zero (Wed Jan 25 2012 - 16:03:04 CST)
- Re: Re: atomselect counting (Wed Jan 25 2012 - 14:46:05 CST)
- Re: atomselect counting (Wed Jan 25 2012 - 09:12:16 CST)
- Re: Topotools - limit to size of system it can be used for? (Tue Jan 24 2012 - 08:46:25 CST)
- Re: Topotools - limit to size of system it can be used for? (Tue Jan 24 2012 - 07:13:27 CST)
- Re: ERROR) measure gofr: bad frame range given. max (Mon Jan 23 2012 - 16:25:37 CST)
- Re: ImportError: cannot import name AtomSel (Mon Jan 23 2012 - 16:33:29 CST)
- Re: ERROR) measure gofr: bad frame range given. max (Mon Jan 23 2012 - 14:13:02 CST)
- Re: ERROR) measure gofr: bad frame range given. max (Mon Jan 23 2012 - 12:51:41 CST)
- Re: ERROR) measure gofr: bad frame range given. max (Mon Jan 23 2012 - 11:53:04 CST)
- Re: ERROR) measure gofr: bad frame range given. max (Mon Jan 23 2012 - 11:55:22 CST)
- Re: ERROR) measure gofr: bad frame range given. max (Mon Jan 23 2012 - 09:29:37 CST)
- Re: VMD and Centos 6 (Sun Jan 22 2012 - 10:19:06 CST)
- Re: ionic radii of sodium and chloride (Fri Jan 20 2012 - 20:17:22 CST)
- Re: ionic radii of sodium and chloride (Fri Jan 20 2012 - 11:03:06 CST)
- Re: ionic radii of sodium and chloride (Thu Jan 19 2012 - 21:12:49 CST)
- Re: Generating a psf file using VMD (Thu Jan 19 2012 - 17:55:01 CST)
- Re: Re: CUDA driver for Mac OS X 10.7 on Late 2008 13 inch Macbook with NVIDA GeForce 9400M 256 MB ? (Thu Jan 19 2012 - 13:55:04 CST)
- Re: rendering question (Thu Jan 19 2012 - 11:55:22 CST)
- Re: Haptic devices for IMD (Wed Jan 18 2012 - 11:24:19 CST)
- Re: New "surf" calculations in VMD 1.9.1 beta (Wed Jan 18 2012 - 08:00:54 CST)
- Re: Using threads in VMD's tcl (Tue Jan 17 2012 - 17:17:25 CST)
- Re: Question regarding HBond analysis (Tue Jan 17 2012 - 13:19:21 CST)
- Re: Using threads in VMD's tcl (Tue Jan 17 2012 - 11:05:20 CST)
- Re: Question regarding HBond analysis (Mon Jan 16 2012 - 18:13:55 CST)
- Re: Problems in setting up low pH systems (Wed Jan 11 2012 - 21:26:28 CST)
- Re: vmd-density-profile (Sat Jan 07 2012 - 10:23:44 CST)
- Re: method for user-defined coloring (Fri Jan 06 2012 - 12:44:15 CST)
- Re: select whole residues (Tue Jan 03 2012 - 18:39:05 CST)
- Re: represent water molecules (Mon Jan 02 2012 - 13:19:41 CST)
- Re: external field application (Mon Jan 02 2012 - 12:21:06 CST)
- Re: represent water molecules (Mon Jan 02 2012 - 11:42:41 CST)
- Re: external field application (Sun Jan 01 2012 - 11:11:24 CST)
- Re: using xtc file to generate pdb's (Tue Dec 27 2011 - 17:32:59 CST)
- Re: paratool CHARMM style charges (Tue Dec 27 2011 - 09:46:32 CST)
- Re: Change Color Scale (Wed Dec 21 2011 - 15:04:07 CST)
- Re: Ionization (Wed Dec 21 2011 - 08:25:16 CST)
- Re: Assign velocities so I can color by velocity (Mon Dec 19 2011 - 12:32:34 CST)
- Re: vmd-l DynamicBond between two given type of atoms (Mon Dec 19 2011 - 12:08:37 CST)
- Re: Assign velocities so I can color by velocity (Mon Dec 19 2011 - 12:05:45 CST)
- Re: Solvating with Nonaqueous Solvent (Thu Dec 15 2011 - 16:38:26 CST)
- Re: Solvating with Nonaqueous Solvent (Tue Dec 13 2011 - 14:16:12 CST)
- Re: package MDEnergy (Tue Dec 13 2011 - 13:44:01 CST)
- Re: Povray renders labels always centered (Mon Dec 12 2011 - 10:08:49 CST)
- Re: Tachyon render problem (Sun Dec 11 2011 - 18:09:43 CST)
- Re: Tachyon render problem (Fri Dec 09 2011 - 09:55:22 CST)
- Re: TCL strangeness (Thu Dec 08 2011 - 22:37:16 CST)
- Re: Script for Angular Distribution Function? (Wed Dec 07 2011 - 10:48:47 CST)
- Re: topology and parameter files for H2 and O2 (Tue Dec 06 2011 - 07:46:33 CST)
- Re: out-of-order writegmx with topotools 1.2 (Mon Dec 05 2011 - 00:07:18 CST)
- Re: Rendering long and high-quality movies from VMD (Sun Dec 04 2011 - 23:19:35 CST)
- Re: Rendering long and high-quality movies from VMD (Sun Dec 04 2011 - 23:27:48 CST)
- Re: out-of-order writegmx with topotools 1.2 (Sat Dec 03 2011 - 18:18:38 CST)
- Re: Viewing System of Molecules where coordinates are in text file. (Thu Dec 01 2011 - 22:28:12 CST)
- Re: convertind dcd to xyz file (Tue Nov 29 2011 - 17:43:05 CST)
- Re: Can Catdcd Write Out Periodic Cell Size Information? (Mon Nov 28 2011 - 17:13:02 CST)
- Re: Can Catdcd Write Out Periodic Cell Size Information? (Mon Nov 28 2011 - 11:45:47 CST)
- Re: VMD never finishes reading vis. state file, stalls and hoggs CPU (Mon Nov 28 2011 - 10:21:20 CST)
- Re: vmd solvate (Sun Nov 27 2011 - 15:00:26 CST)
- Re: tcl script (Fri Nov 25 2011 - 14:52:32 CST)
- Re: tcl script (Fri Nov 25 2011 - 13:16:32 CST)
- Re: VMD never finishes reading vis. state file, stalls and hoggs CPU (Fri Nov 25 2011 - 09:38:01 CST)
- Re: how to convert Desmond trajectories into PDB in text mode? (Thu Nov 24 2011 - 14:48:44 CST)
- Re: How to save Automatic psf builder script (Thu Nov 24 2011 - 14:45:59 CST)
- Re: Change coordinates (Thu Nov 24 2011 - 14:42:53 CST)
- Re: POPE CHARMM36 generations error. (Thu Nov 24 2011 - 14:46:47 CST)
- Re: movie out of principal component analysis (Tue Nov 22 2011 - 08:10:39 CST)
- Re: bash scripts quits after few frames (Tue Nov 22 2011 - 06:20:24 CST)
- Re: compile VMD 1.9 with FLTK 1.3 (Mon Nov 21 2011 - 08:37:31 CST)
- Re: Maximum length of an extended peptide? (Tue Nov 15 2011 - 22:57:45 CST)
- Re: Maximum length of an extended peptide? (Tue Nov 15 2011 - 19:55:57 CST)
- Re: pbc wrap (Mon Nov 14 2011 - 09:57:06 CST)
- Re: how to place polymers on carbon nanotube surface (Fri Nov 11 2011 - 13:27:35 CST)
- Re: topotools (Fri Nov 11 2011 - 10:14:23 CST)
- Re: Re: Save "Visulaization State" from within Tk Console (Fri Nov 11 2011 - 08:57:13 CST)
- Re: Save "Visulaization State" from within Tk Console (Fri Nov 11 2011 - 08:41:38 CST)
- Re: topotools (Fri Nov 11 2011 - 07:27:27 CST)
- Re: UPDATE OCCUPANCY (Fri Nov 11 2011 - 07:34:53 CST)
- Re: Couldn't locate ppmtompeg (Thu Nov 10 2011 - 15:47:31 CST)
- Re: pbwithin selection (Thu Nov 10 2011 - 09:27:47 CST)
- Re: How to parse very large trajectories? (Wed Nov 09 2011 - 15:44:30 CST)
- Re: Suppress "Info)" messages (Mon Nov 07 2011 - 13:15:19 CST)
- Re: tcl procedure to set data (Sun Nov 06 2011 - 20:31:00 CST)
- Re: lipid bilayer thickness (Sun Nov 06 2011 - 06:14:50 CST)
- Re: Batch image creation (Fri Nov 04 2011 - 18:07:41 CDT)
- Re: find avgstruct (Fri Nov 04 2011 - 07:29:32 CDT)
- Re: radius of gyration (Wed Nov 02 2011 - 15:49:19 CDT)
- Re: VRPN-ICMS conflict with NVidia driver (Tue Nov 01 2011 - 19:08:07 CDT)
- Re: Use of RBCG to convert multiple frames from atomistic trajectory to Coarse grained (Tue Nov 01 2011 - 17:09:50 CDT)
- Re: Finding resname without using atomselect? (Tue Nov 01 2011 - 16:50:51 CDT)
- Re: VRPN-ICMS conflict with NVidia driver (Tue Nov 01 2011 - 08:15:36 CDT)
- Re: haptic devices VMD/NAMD/IMD (Mon Oct 31 2011 - 16:55:56 CDT)
- Re: Dynamic lines (Mon Oct 31 2011 - 14:32:47 CDT)
- Re: Is it possible to automatically label all bonds? (Mon Oct 31 2011 - 08:10:08 CDT)
- Re: Run a variable through VMD Tk/Tcl console .vmdrc file (Sun Oct 30 2011 - 10:04:09 CDT)
- Re: Is it possible to automatically label all bonds? (Thu Oct 27 2011 - 12:42:02 CDT)
- Re: Selecting Atoms within a Volume, Manipulating Volumetric Data (Tue Oct 25 2011 - 08:03:13 CDT)
- Re: superimposing groups of three atoms (Fri Oct 21 2011 - 13:07:16 CDT)
- Re: coloring bonds on the same segments differently from those between segments (Thu Oct 20 2011 - 20:10:23 CDT)
- Re: angle calculation trajectory (Tue Oct 18 2011 - 13:22:15 CDT)
- Re: atomselect and macro (Sat Oct 15 2011 - 17:33:49 CDT)
- Re: Problem building POPE membrane with plugin using CHARMM36 (Fri Oct 14 2011 - 13:38:52 CDT)
- Re: Error running IED with VMD (Fri Oct 14 2011 - 10:09:16 CDT)
- Re: Installing VMD on Debian Linux (Fri Oct 14 2011 - 07:47:38 CDT)
- Re: How to select whole residues when at least one atom is within a specific distance (Thu Oct 13 2011 - 14:37:24 CDT)
- Re: topotools (Wed Oct 12 2011 - 16:46:59 CDT)
- Re: amber traj to pqr - radii error (Mon Oct 10 2011 - 13:40:51 CDT)
- Re: GPU choice for large systems (Sun Oct 02 2011 - 14:34:39 CDT)
- Re: GPU choice for large systems (Sat Oct 01 2011 - 08:53:36 CDT)
- Re: methanol_solvent box (Sat Oct 01 2011 - 08:31:05 CDT)
- Re: GPU choice for large systems (Sat Oct 01 2011 - 07:58:19 CDT)
- Re: methanol_solvent box (Sat Oct 01 2011 - 07:08:44 CDT)
- Re: VMD with LAMMPS trjaectory - help? (Thu Sep 29 2011 - 10:08:37 CDT)
- Re: Re: vmd topotools 1.2 (Thu Sep 29 2011 - 08:16:39 CDT)
- Re: VMD meets Andy Warhol/Campbell's Soup on display wall (Thu Sep 29 2011 - 08:22:26 CDT)
- Re: VMD with LAMMPS trjaectory - help? (Wed Sep 28 2011 - 19:27:16 CDT)
- Re: VMD meets Andy Warhol/Campbell's Soup on display wall (Wed Sep 28 2011 - 19:46:03 CDT)
- Re: vmd topotools 1.2 error (Wed Sep 28 2011 - 10:01:43 CDT)
- Re: vmd topotools 1.2 error (Wed Sep 28 2011 - 09:06:59 CDT)
- Re: Associating .crd file extension with COR Plugin (Wed Sep 28 2011 - 08:51:38 CDT)
- Re: question on "Recompile VMD with larger index types" (Wed Sep 28 2011 - 05:44:13 CDT)
- Re: problem of exceeding max atom number (Tue Sep 27 2011 - 13:41:45 CDT)
- Re: Re: Selecting a laptop for VMD and NAMD (was: CUDA cores seen by VMD on GT540M) (Tue Sep 27 2011 - 10:36:20 CDT)
- Re: convert .coor to pdb (Mon Sep 26 2011 - 07:04:11 CDT)
- Re: RDF related problems (Sat Sep 24 2011 - 16:19:21 CDT)
- Re: Locked files in Windows 7 (Thu Sep 22 2011 - 07:49:47 CDT)
- Re: NetCDF plugin (Tue Sep 20 2011 - 18:59:11 CDT)
- Re: select each element of array (Tue Sep 20 2011 - 07:20:43 CDT)
- Re: Problem with measuring dihedrals (Tue Sep 20 2011 - 04:55:10 CDT)
- Re: select each element of array (Mon Sep 19 2011 - 20:18:35 CDT)
- Re: RMSD heatmapper -plugin (Mon Sep 19 2011 - 12:49:40 CDT)
- Re: select each element of array (Mon Sep 19 2011 - 12:10:44 CDT)
- Re: Adding water in protein (Mon Sep 19 2011 - 07:01:15 CDT)
- Re: topotools readvarxyz (Mon Sep 19 2011 - 07:03:25 CDT)
- Re: bug in Hbond Option (Mon Sep 19 2011 - 06:51:38 CDT)
- RE: RDF calculation for production steps (Thu Sep 15 2011 - 10:38:16 CDT)
- Re: LINK or PACTH command in VMD (Wed Sep 14 2011 - 13:38:40 CDT)
- Re: Does Paratool support CgenFF? (Wed Sep 14 2011 - 09:37:26 CDT)
- Re: RDF calculation for production steps (Tue Sep 13 2011 - 23:51:17 CDT)
- Re: Showing and Calculating the amount of water molecules inside carbon nanotube (Tue Sep 13 2011 - 23:54:39 CDT)
- Re: linux issues (Mon Sep 12 2011 - 12:03:04 CDT)
- Re: Displaying residues on chain A within X of chain B (Fri Sep 09 2011 - 20:27:25 CDT)
- Re: Displaying residues on chain A within X of chain B (Fri Sep 09 2011 - 17:51:33 CDT)
- Re: output values in my script (Thu Sep 08 2011 - 19:51:54 CDT)
- Re: Visualizing Trajectory file: .pdb or .xyz (Wed Sep 07 2011 - 18:11:44 CDT)
- Re: Visualizing Trajectory file: .pdb or .xyz (Wed Sep 07 2011 - 14:55:10 CDT)
- Re: draw intersection volume between two spheres (Wed Sep 07 2011 - 10:35:43 CDT)
- Re: VMD align to principal axis (Tue Sep 06 2011 - 23:31:11 CDT)
- Re: define water cavity using atom selection in graphical representations window (Tue Sep 06 2011 - 09:28:45 CDT)
- Re: define water cavity using atom selection in graphical representations window (Tue Sep 06 2011 - 05:11:00 CDT)
- Re: define water cavity using atom selection in graphical representations window (Tue Sep 06 2011 - 05:31:23 CDT)
- Re: plugin (Mon Sep 05 2011 - 14:37:19 CDT)
- Re: Density Profile in VMD (Mon Sep 05 2011 - 08:39:31 CDT)
- Re: Radial distribution function (Sat Sep 03 2011 - 16:25:05 CDT)
- Re: How to read pdbqt file? (Sat Sep 03 2011 - 15:53:58 CDT)
- Re: Radial distribution function (Sat Sep 03 2011 - 11:20:33 CDT)
- Re: Movie maker in VMD (Fri Sep 02 2011 - 12:14:32 CDT)
- Re: Fw: Fw: Hbond in VMD (Wed Aug 31 2011 - 15:56:52 CDT)
- Re: loading a trajectory where particles aren't conservd (Wed Aug 31 2011 - 15:42:14 CDT)
- Re: Fw: Hbond in VMD (Wed Aug 31 2011 - 13:27:21 CDT)
- Re: Fw: Hbond in VMD (Wed Aug 31 2011 - 13:16:11 CDT)
- Re: Saving ionized.psf from add ions plug in of VMD (Wed Aug 31 2011 - 11:34:08 CDT)
- Re: CUDA cores seen by VMD on GT540M (Wed Aug 31 2011 - 10:17:39 CDT)
- Re: Hbond in VMD (Wed Aug 31 2011 - 07:45:45 CDT)
- Re: VMD display residues (Wed Aug 31 2011 - 06:22:04 CDT)
- Re: VMD display residues (Tue Aug 30 2011 - 13:19:46 CDT)
- Re: Fw: Lammps Output data format (Tue Aug 30 2011 - 12:45:15 CDT)
- Re: VMD movie (Tue Aug 30 2011 - 12:22:29 CDT)
- Re: VMD movie (Tue Aug 30 2011 - 11:28:37 CDT)
- Re: Lammps Output data format (Tue Aug 30 2011 - 10:54:19 CDT)
- Re: loading a trajectory where particles aren't conservd (Mon Aug 29 2011 - 17:26:22 CDT)
- Re: Lammps Output data format (Mon Aug 29 2011 - 13:20:02 CDT)
- Re: 3d viz? (Mon Aug 29 2011 - 10:37:24 CDT)
- Re: how to load Orient package in VMD (Wed Aug 24 2011 - 16:57:50 CDT)
- Re: how to load Orient package in VMD (Wed Aug 24 2011 - 16:47:49 CDT)
- Re: Mailing list problems (Wed Aug 24 2011 - 15:57:59 CDT)
- Re: visualizing unrealistic bonds (Tue Aug 23 2011 - 10:18:00 CDT)
- Re: making movie (Tue Aug 23 2011 - 09:59:59 CDT)
- Re: RMSD calculator extension (Tue Aug 23 2011 - 09:48:38 CDT)
- Re: Problem with psfgen (Tue Aug 23 2011 - 09:33:39 CDT)
- Re: visualizing unrealistic bonds (Tue Aug 23 2011 - 09:30:52 CDT)
- Re: Re: Wrap PBC inside unit cellâ€ (Tue Aug 23 2011 - 09:27:20 CDT)
- Re: making movie (Tue Aug 23 2011 - 09:28:57 CDT)
- Re: Wrap PBC inside unit cellâ€ (Tue Aug 23 2011 - 09:26:09 CDT)
- Re: Turning Label Info output off in vmd console (Fri Aug 19 2011 - 18:14:30 CDT)
- Re: Turning Label Info output off in vmd console (Thu Aug 18 2011 - 19:28:04 CDT)
- Re: How can I draw secondary structures if I only have the carbon alpha coordinates (Thu Aug 18 2011 - 13:27:42 CDT)
- Re: Re: namd-l: MMTools (Wed Aug 17 2011 - 20:28:28 CDT)
- Re: namd-l: MMTools (Wed Aug 17 2011 - 10:15:50 CDT)
- Re: changing label format with some arithmetic (Wed Aug 17 2011 - 10:13:09 CDT)
- Re: visualizing unrealistic bonds (Mon Aug 15 2011 - 12:07:13 CDT)
- Re: Re: Solvating a Protein in VMD using NON STANDARD SOLVENT (Sun Aug 14 2011 - 00:09:28 CDT)
- Re: Re: Solvating a Protein in VMD using NON STANDARD SOLVENT (Sat Aug 13 2011 - 08:47:57 CDT)
- Re: Re: Solvating a Protein in VMD using NON STANDARD SOLVENT (Sat Aug 13 2011 - 08:22:08 CDT)
- Re: package require help (Fri Aug 12 2011 - 03:51:27 CDT)
- Re: rmsf (Fri Aug 12 2011 - 03:52:10 CDT)
- Re: Vmd Problem (Thu Aug 11 2011 - 16:35:56 CDT)
- Re: Update selection every frame command (Thu Aug 11 2011 - 07:23:04 CDT)
- Re: Molefacture - VMD agreement (Thu Aug 11 2011 - 00:14:01 CDT)
- Re: namd-l: Solvation in VMD using Non Standard Solvent System (Wed Aug 10 2011 - 07:47:35 CDT)
- Re: TCL and Plugins (Tue Aug 09 2011 - 13:48:48 CDT)
- Re: script (Mon Aug 08 2011 - 22:37:15 CDT)
- Re: xtc plugin writing ability (Fri Aug 05 2011 - 09:09:00 CDT)
- Re: specden - IR spectral density calculator plugin (Thu Aug 04 2011 - 13:49:06 CDT)
- Re: viewing dcd files (Thu Aug 04 2011 - 13:44:33 CDT)
- Re: about psf file generation (Tue Aug 02 2011 - 07:43:29 CDT)
- Re: moveby command (Sun Jul 31 2011 - 09:50:29 CDT)
- Re: different number of atoms in each frame of the trajectory file (Fri Jul 29 2011 - 18:05:32 CDT)
- Re: Nvidia quadro Fx1300 problem (Fri Jul 29 2011 - 10:39:19 CDT)
- Re: How to save image in SVG format? (Tue Jul 26 2011 - 01:36:14 CDT)
- Re: Question about eval (Mon Jul 25 2011 - 14:33:37 CDT)
- Re: Understand a script (Mon Jul 25 2011 - 10:50:47 CDT)
- Re: Understand a script (Mon Jul 25 2011 - 10:23:31 CDT)
- Re: Avoid vmd closing with script (Mon Jul 25 2011 - 09:31:45 CDT)
- Re: namd-l: how to generate transparent figures? (Mon Jul 25 2011 - 03:48:10 CDT)
- Re: shades of licorice representation (Wed Jul 20 2011 - 08:57:58 CDT)
- Re: shades of licorice representation (Tue Jul 19 2011 - 10:02:52 CDT)
- Re: shades of licorice representation (Tue Jul 19 2011 - 08:44:13 CDT)
- Re: Hydration dynamics:Phrase selection problem in vmd (Mon Jul 18 2011 - 09:40:28 CDT)
- Re: Problem of installing VMD 1.8.3 on Fedora14 (Sun Jul 17 2011 - 16:52:34 CDT)
- Re: [lammps-users] Initial configurations / topology for LAMMPS (Thu Jul 14 2011 - 15:29:08 CDT)
- Re: How to change the VMD working Directory (Thu Jul 14 2011 - 09:58:26 CDT)
- Re: Add user output to DCD trajectories (Thu Jul 14 2011 - 09:23:45 CDT)
- Re: how to draw different set of points for different frames in a trajectory my script does not work (Tue Jul 12 2011 - 15:17:50 CDT)
- Re: script (Tue Jul 12 2011 - 11:58:55 CDT)
- Re: Retrieving Cremer-Pople parameters (Tue Jul 12 2011 - 09:03:56 CDT)
- Re: PBCwrap tools (Sun Jul 10 2011 - 11:38:26 CDT)
- Re: PBCwrap tools (Sun Jul 10 2011 - 05:34:09 CDT)
- Re: stereo anaglyph rendering (Sun Jul 10 2011 - 05:36:00 CDT)
- Re: PBCwrap tools (Sat Jul 09 2011 - 18:33:24 CDT)
- Re: import selection in array for script (Fri Jul 08 2011 - 15:04:46 CDT)
- Re: how to draw different set of points for different frames in a trajectory my script does not work (Fri Jul 08 2011 - 11:20:11 CDT)
- Re: how to draw different set of points for different frames in a trajectory my script does not work (Fri Jul 08 2011 - 08:31:17 CDT)
- Re: Re: Problem with for loop. (Thu Jul 07 2011 - 16:59:46 CDT)
- Re: script (Wed Jul 06 2011 - 19:01:31 CDT)
- Re: Re: Problem with for loop. (Wed Jul 06 2011 - 10:57:44 CDT)
- Re: Problem with for loop. (Wed Jul 06 2011 - 10:26:10 CDT)
- Re: Distance between atoms in frame (Tue Jul 05 2011 - 20:10:04 CDT)
- Re: Computer hangs on trying to launch VMD CUDA (Tue Jul 05 2011 - 15:08:03 CDT)
- Re: contacts and pbc (Sun Jul 03 2011 - 11:21:39 CDT)
- Re: Problem with loop. it s not going to the next peptide (Fri Jul 01 2011 - 17:06:25 CDT)
- Re: catdcd and velocity dcd file (Fri Jul 01 2011 - 10:45:16 CDT)
- Re: Display Multiple Bond Order (Wed Jun 29 2011 - 12:41:50 CDT)
- Re: About psf file (Wed Jun 29 2011 - 08:31:02 CDT)
- Re: Installation problem -Solvate (Wed Jun 29 2011 - 05:25:15 CDT)
- Re: Total Dipole Moment (Tue Jun 28 2011 - 20:02:59 CDT)
- Re: Total Dipole Moment (Tue Jun 28 2011 - 20:11:47 CDT)
- Re: Normalization of RDFs in gofr plugin (Tue Jun 28 2011 - 18:08:31 CDT)
- Re: Normalization of RDFs in gofr plugin (Tue Jun 28 2011 - 13:06:49 CDT)
- Re: Bond between two hydrogen atoms (Tue Jun 28 2011 - 12:56:11 CDT)
- Re: Changing representations on a per-atom per-timestep basis (Tue Jun 28 2011 - 12:14:19 CDT)
- Re: Re: best fit lines through two selections per each molecule ( I have 80 molecules) and the angle with another vector for each molecule (Tue Jun 28 2011 - 09:55:40 CDT)
- Re: VMD-I: rsmd calculation (Tue Jun 28 2011 - 09:53:26 CDT)
- Re: Total Dipole Moment (Tue Jun 28 2011 - 09:48:33 CDT)
- Re: color trajectory using specific values rather than color scale (Mon Jun 27 2011 - 10:32:51 CDT)
- Re: protein-water RDF (Mon Jun 27 2011 - 09:08:35 CDT)
- Re: not to display atoms in certain region (Fri Jun 24 2011 - 16:09:33 CDT)
- Re: align axes (Thu Jun 23 2011 - 13:42:44 CDT)
- Re: APBS installation problem (Wed Jun 22 2011 - 13:17:30 CDT)
- Re: Rotating a non-coordinate file (Wed Jun 22 2011 - 05:56:04 CDT)
- Re: invisible files in windows (Wed Jun 15 2011 - 17:37:36 CDT)
- Re: water is forming bonds between hydrogens (Wed Jun 15 2011 - 10:38:26 CDT)
- Re: rdf for specific group of atoms (Wed Jun 15 2011 - 09:14:46 CDT)
- Re: color sidechains differently (Tue Jun 14 2011 - 22:21:07 CDT)
- Re: Vmd vs QUANTA (Tue Jun 14 2011 - 04:55:11 CDT)
- Re: VolMap Tool Question (Mon Jun 13 2011 - 14:31:47 CDT)
- Re: showperiodic - not self? (Mon Jun 13 2011 - 12:51:04 CDT)
- Re: simulation in Nitrogen box (Sat Jun 11 2011 - 10:21:45 CDT)
- Re: topotools {.top} for Gromacs {.tpr} generation (Tue Jun 07 2011 - 15:24:30 CDT)
- Re: Problem with Starting vmd after Debian System Upgrade (Tue Jun 07 2011 - 12:19:42 CDT)
- Re: saving dcd with less frames (Tue Jun 07 2011 - 05:08:17 CDT)
- Re: Dipole Moment Monitoring (Mon Jun 06 2011 - 21:45:08 CDT)
- Re: topotools {.top} for Gromacs {.tpr} generation (Mon Jun 06 2011 - 19:14:57 CDT)
- Re: topotools {.top} for Gromacs {.tpr} generation (Mon Jun 06 2011 - 18:26:46 CDT)
- Re: For loops decelerate (Mon Jun 06 2011 - 16:36:31 CDT)
- Re: Tachyon post-render commands under Win-XP (Mon Jun 06 2011 - 09:25:14 CDT)
- Re: For loops decelerate (Fri Jun 03 2011 - 14:19:12 CDT)
- Re: For loops decelerate (Fri Jun 03 2011 - 13:57:27 CDT)
- Re: For loops decelerate (Thu Jun 02 2011 - 06:27:04 CDT)
- Re: charge information for the PMEpot plugin (Wed Jun 01 2011 - 12:25:04 CDT)
- Re: .gro format to .pqr format (Wed Jun 01 2011 - 10:52:24 CDT)
- Re: [lammps-users] using topotools to view lammps output (Wed Jun 01 2011 - 08:48:04 CDT)
- Re: problem with bigdcd rmsd calculaton output (Mon May 30 2011 - 23:16:30 CDT)
- Re: Issue with NAMD/VMD tutorial (Mon May 30 2011 - 14:49:19 CDT)
- Re: Issue with NAMD/VMD tutorial (Mon May 30 2011 - 13:15:58 CDT)
- Re: Protein cavities (Sun May 29 2011 - 17:31:44 CDT)
- Re: Save Coordinates for Multiple Loads (Sun May 29 2011 - 10:17:22 CDT)
- Re: Protein cavities (Sun May 29 2011 - 03:17:08 CDT)
- Re: use variable in atomselect (Fri May 27 2011 - 17:05:16 CDT)
- Re: measure fit - wrong alignment (Thu May 26 2011 - 13:17:43 CDT)
- Re: Mean value of el. potential ? (Wed May 25 2011 - 19:51:55 CDT)
- Re: surface of an atomic property (Wed May 25 2011 - 14:01:44 CDT)
- Re: trying to combine closewater.tcl with bigdcd.tcl error frame 3 out of range for molecule 0 (Wed May 25 2011 - 05:35:42 CDT)
- Re: trying to combine closewater.tcl with bigdcd.tcl error frame 3 out of range for molecule 0 (Tue May 24 2011 - 14:08:26 CDT)
- Re: trying to combine closewater.tcl with bigdcd.tcl error frame 3 out of range for molecule 0 (Tue May 24 2011 - 12:14:39 CDT)
- Re: size for render (Tue May 24 2011 - 06:47:25 CDT)
- Re: vmd calculating wrong number of frames in xtc file using molinfo numframes ? (Mon May 23 2011 - 11:11:52 CDT)
- Re: Non-cuda version of VMD on Linux? (Sun May 22 2011 - 05:17:34 CDT)
- Re: color atom by stress (Sat May 21 2011 - 16:25:18 CDT)
- Re: Displaying protein AND ligand from an amber trajectory (Fri May 20 2011 - 09:07:14 CDT)
- Re: Aligning two proteins of varying atom numbers (Fri May 20 2011 - 05:47:18 CDT)
- Re: Aligning two proteins of varying atom numbers (Thu May 19 2011 - 11:17:37 CDT)
- Re: run and close vmd with bash script? (Wed May 18 2011 - 10:42:53 CDT)
- Re: run and close vmd with bash script? (Wed May 18 2011 - 08:23:49 CDT)
- Re: Do psf generated by psfgen and psf produced by "$sel writepsf" function in VMD have different impact on MD simulation using NAMD? (Tue May 17 2011 - 09:44:26 CDT)
- Re: convert prmtop to psf (Tue May 17 2011 - 05:56:15 CDT)
- Re: sharing atoms (Mon May 16 2011 - 09:43:13 CDT)
- Re: PhD position in Computational Structural Biology at MPI Muenster (Sun May 15 2011 - 16:47:40 CDT)
- Re: PhD position in Computational Structural Biology at MPI Muenster (Sun May 15 2011 - 11:51:22 CDT)
- Re: Compiling plugins without netcdf support returns an error. (Thu May 12 2011 - 19:40:17 CDT)
- RE: Atom ID/Color change with timesteps (Thu May 12 2011 - 16:21:21 CDT)
- Re: Compiling plugins without netcdf support returns an error. (Thu May 12 2011 - 15:56:52 CDT)
- Re: Large positive non-integer charge (Thu May 12 2011 - 13:56:44 CDT)
- Re: Atom ID/Color change with timesteps (Thu May 12 2011 - 13:54:23 CDT)
- Re: Atom ID/Color change with timesteps (Wed May 11 2011 - 19:58:38 CDT)
- Re: Slice through molecule (Wed May 11 2011 - 09:16:40 CDT)
- Re: changing the color of Sn atom (Wed May 11 2011 - 08:37:46 CDT)
- Re: save coordinate POSCAR (Tue May 10 2011 - 13:50:39 CDT)
- Re: save coordinate POSCAR (Tue May 10 2011 - 13:30:03 CDT)
- Re: bad window parameter (Tue May 10 2011 - 10:39:44 CDT)
- Re: Re: Calculating RMSD on two sets of points (Tue May 10 2011 - 10:43:51 CDT)
- Re: plotting spin density (Thu May 05 2011 - 22:45:20 CDT)
- Re: Cartoons and secondary structure prediction (Tue May 03 2011 - 07:05:39 CDT)
- Re: SASA calculation using periodic images? (Tue May 03 2011 - 07:10:56 CDT)
- Re: Reconstruction of XST data from DCD data (Sun May 01 2011 - 20:15:06 CDT)
- Re: psfgen: error processing bonds (Sun May 01 2011 - 16:20:45 CDT)
- Re: X & Y co-ordinate data (Sun May 01 2011 - 12:12:09 CDT)
- Re: question regarding H-bond calculation (Sun May 01 2011 - 11:32:09 CDT)
- Re: psfgen: error processing bonds (Sat Apr 30 2011 - 10:45:17 CDT)
- Re: Save molecule in pdb format (Sat Apr 30 2011 - 04:42:15 CDT)
- Re: psfgen: error processing bonds (Fri Apr 29 2011 - 15:11:54 CDT)
- Re: Questions about trajectory files obtained from LAMMPS Molecular dynamics with Reax Force field (Fri Apr 29 2011 - 08:36:01 CDT)
- Re: psfgen: error processing bonds (Fri Apr 29 2011 - 08:40:55 CDT)
- Re: hello (Thu Apr 28 2011 - 10:01:18 CDT)
- Re: running plugin from the command line (Wed Apr 27 2011 - 15:34:10 CDT)
- Re: making a movie (Tue Apr 26 2011 - 18:36:48 CDT)
- Re: generating .xsc files using periodic information (Tue Apr 26 2011 - 11:31:28 CDT)
- Re: Generating Topo Bond Data from LAMMPS Data File (Wed Apr 20 2011 - 11:17:34 CDT)
- Re: Simple Question regarding psf generation (Tue Apr 19 2011 - 09:24:57 CDT)
- Re: waters selection (Mon Apr 18 2011 - 16:20:51 CDT)
- Re: compiling on LINUXAMD64 problem (Sun Apr 17 2011 - 11:16:56 CDT)
- Re: compiling on LINUXAMD64 problem (Sun Apr 17 2011 - 08:51:28 CDT)
- Re: compiling on LINUXAMD64 problem (Sun Apr 17 2011 - 08:34:54 CDT)
- Re: compiling on LINUXAMD64 problem (Sun Apr 17 2011 - 08:16:45 CDT)
- Re: compiling on LINUXAMD64 problem (Sun Apr 17 2011 - 03:26:32 CDT)
- Re: Re: using vmd to view gromacs trajectory (Thu Apr 14 2011 - 11:43:36 CDT)
- Re: Tcl plugin development and debugging (Tue Apr 12 2011 - 12:05:24 CDT)
- Re: Tcl plugin development and debugging (Tue Apr 12 2011 - 11:38:34 CDT)
- Re: Tcl plugin development and debugging (Tue Apr 12 2011 - 10:38:19 CDT)
- Re: Tcl plugin development and debugging (Tue Apr 12 2011 - 10:56:17 CDT)
- Re: trajectory generation using gaussian cube files (Mon Apr 11 2011 - 16:47:48 CDT)
- Re: box vectores in .trr (Sat Apr 09 2011 - 15:17:23 CDT)
- Re: Water Models (Sat Apr 02 2011 - 05:34:38 CDT)
- Re: How to create bonds in VMD? (Fri Apr 01 2011 - 11:59:54 CDT)
- Re: viewing trajectory (Tue Mar 29 2011 - 19:32:41 CDT)
- Re: Save Coordinates Question ... (Fri Mar 25 2011 - 13:04:44 CDT)
- Re: measure dipole (Fri Mar 25 2011 - 09:14:47 CDT)
- Re: measure dipole (Thu Mar 24 2011 - 13:53:10 CDT)
- Re: How can I operate on multiple .pdb structures in a list (Wed Mar 23 2011 - 19:43:49 CDT)
- Re: ANALYZING DESMOND OUTPUT IN VMD (Sun Mar 20 2011 - 15:49:12 CDT)
- Re: "non-grid" volumetric data (Sat Mar 19 2011 - 17:53:16 CDT)
- Re: "non-grid" volumetric data (Sat Mar 19 2011 - 04:32:27 CDT)
- Re: Linkage problem when compiling fortran bindings for VMD molfile plugins (Fri Mar 18 2011 - 11:14:31 CDT)
- Re: MSD calculation from VMD RMSD plugin. (Wed Mar 16 2011 - 14:23:30 CDT)
- Re: pdb file with different number of molecules (Wed Mar 16 2011 - 13:20:42 CDT)
- Re: MSD calculation from VMD RMSD plugin. (Wed Mar 16 2011 - 10:54:41 CDT)
- Re: Linkage problem when compiling fortran bindings for VMD molfile plugins (Mon Mar 14 2011 - 18:08:53 CDT)
- Re: Linkage problem when compiling fortran bindings for VMD molfile plugins (Mon Mar 14 2011 - 13:43:28 CDT)
- Re: zero box vector (Sun Mar 13 2011 - 11:49:26 CDT)
- Re: zero box vector (Sat Mar 12 2011 - 05:20:48 CST)
- Re: tcl script (Fri Mar 11 2011 - 11:49:39 CST)
- Re: 2 Issues in VMD 1.9 beta3 (Fri Mar 11 2011 - 08:14:02 CST)
- Re: problem on making a movie (Fri Mar 11 2011 - 05:58:33 CST)
- Re: Not calculate bonds by default. (Thu Mar 10 2011 - 19:08:44 CST)
- Re: zero box vector (Thu Mar 10 2011 - 12:37:31 CST)
- Re: Triclinic boxes in VMD using the LAMMPS file format (Thu Mar 10 2011 - 09:44:13 CST)
- Re: Triclinic boxes in VMD using the LAMMPS file format (Thu Mar 10 2011 - 08:18:03 CST)
- Re: tcl script (Wed Mar 09 2011 - 09:41:31 CST)
- Re: Extra bond in TIP3 water (Wed Mar 09 2011 - 06:04:00 CST)
- Re: how to make default background color to white (Wed Mar 09 2011 - 04:31:00 CST)
- Re: ERROR (Wed Mar 09 2011 - 04:17:56 CST)
- Re: how to make default background color to white (Tue Mar 08 2011 - 10:45:40 CST)
- Re: measure energy elect vs. NAMDenergy (Tue Mar 08 2011 - 06:23:07 CST)
- Re: Android support (Sun Mar 06 2011 - 12:38:38 CST)
- Re: view temperature, forces and velocities (Sat Mar 05 2011 - 12:27:23 CST)
- Re: Error in coordinate information of PDB file after merging (Wed Mar 02 2011 - 10:39:01 CST)
- Re: VMD.RC Question (Tue Mar 01 2011 - 16:51:49 CST)
- Re: Compiling Fortran bindings for the VMD molfile plugins (Tue Mar 01 2011 - 12:33:03 CST)
- Re: Compiling Fortran bindings for the VMD molfile plugins (Tue Mar 01 2011 - 11:23:36 CST)
- Re: Pot.dx files (Sat Feb 26 2011 - 17:29:50 CST)
- Re: Pot.dx files (Sat Feb 26 2011 - 15:50:57 CST)
- Re: Server for structural models of the unfolded state of proteins (Fri Feb 25 2011 - 19:48:08 CST)
- Re: lindex related question (Fri Feb 25 2011 - 16:11:42 CST)
- Re: lindex related question (Fri Feb 25 2011 - 15:49:48 CST)
- Re: Adding bonds between many metal atoms (Fri Feb 25 2011 - 10:33:27 CST)
- Re: Using the MovieMaker (Thu Feb 24 2011 - 16:57:19 CST)
- Re: Incorrect results from 'measure dipole -masscenter' (Wed Feb 23 2011 - 09:12:37 CST)
- Re: how to write out the dcd file by vmd python command? (Tue Feb 22 2011 - 07:19:28 CST)
- Re: Drawing using variables (Mon Feb 21 2011 - 17:14:58 CST)
- Re: VMD Volmap ILS Error & Orient Function (Mon Feb 21 2011 - 15:17:52 CST)
- Re: memory leak 1.8.7 and 1.9b1 (Mon Feb 21 2011 - 10:10:41 CST)
- Re: ParaTool (Sun Feb 20 2011 - 12:25:46 CST)
- Re: atoms selection (Sun Feb 20 2011 - 12:18:56 CST)
- Re: VMD Volmap ILS Error & Orient Function (Sun Feb 20 2011 - 12:32:15 CST)
- Re: Application Error while use of Auto PSF Builder (Sun Feb 20 2011 - 09:42:19 CST)
- Re: scripts CGTools (Fri Feb 18 2011 - 07:25:44 CST)
- Re: VMD Volmap ILS Error & Orient Function (Thu Feb 17 2011 - 13:54:49 CST)
- Re: VMD 1.9 beta 1 posted for download... (Thu Feb 17 2011 - 10:15:08 CST)
- Re: Dynamically updating water colors for each frame of a trajectory (Wed Feb 16 2011 - 18:01:35 CST)
- Re: latest vmd (Sat Feb 12 2011 - 19:06:57 CST)
- Re: setting different bond length for different atom pair (Fri Feb 11 2011 - 13:00:56 CST)
- Re: multiple topology files and resetpsf (Tue Feb 08 2011 - 16:38:35 CST)
- Re: Displaying an overlay of multiple structures with VMD (Tue Feb 08 2011 - 16:28:23 CST)
- Re: VMD Volmap ILS Error (Tue Feb 08 2011 - 16:25:00 CST)
- Re: Multiseq in text mode (Mon Feb 07 2011 - 19:33:48 CST)
- Re: VMD Volmap ILS Error (Mon Feb 07 2011 - 19:25:54 CST)
- Re: graphical representations over a number of molecule files (Sun Feb 06 2011 - 15:43:12 CST)
- Re: Re: convert prmtop to psf (Wed Feb 02 2011 - 15:45:16 CST)
- Re: Re: convert prmtop to psf (Wed Feb 02 2011 - 09:26:32 CST)
- Re: Re: USING IED for essential dynamics in VMD (Tue Feb 01 2011 - 19:34:30 CST)
- Re: Re: convert prmtop to psf (Tue Feb 01 2011 - 17:41:31 CST)
- Re: water molecule count (Tue Feb 01 2011 - 11:33:34 CST)
- Re: How to use VMD script "PorcupinePlot.tcl" (Mon Jan 31 2011 - 11:59:50 CST)
- Re: CG Builder (Sun Jan 30 2011 - 08:54:59 CST)
- Re: CG Builder (Sun Jan 30 2011 - 05:53:54 CST)
- Re: Re: Trouble rendering tranparent atoms with Tachyon (Fri Jan 28 2011 - 09:56:06 CST)
- Re: illegal stereo mode (Fri Jan 28 2011 - 09:23:45 CST)
- Re: vrml2 output crashes VTK/Paraview (Thu Jan 27 2011 - 20:05:25 CST)
- RE: How can I add bonds ? (Thu Jan 27 2011 - 14:49:19 CST)
- Re: removing all water molecules (Thu Jan 27 2011 - 08:28:46 CST)
- Re: Slower FPS in dual monitor systems? (Thu Jan 27 2011 - 08:17:19 CST)
- Re: removing all water molecules (Thu Jan 27 2011 - 08:08:27 CST)
- Re: Question regarding g(r) utility (Wed Jan 26 2011 - 18:35:47 CST)
- Re: How can I add bonds ? (Wed Jan 26 2011 - 10:02:42 CST)
- Re: duplicate frames / slow down movie (Tue Jan 25 2011 - 08:55:42 CST)
- Re: Secondary Structure of alkane polymers (Mon Jan 24 2011 - 21:27:07 CST)
- Re: Secondary Structure of alkane polymers (Mon Jan 24 2011 - 16:42:43 CST)
- Re: How can I add bonds ? (Mon Jan 24 2011 - 09:58:19 CST)
- Re: Displaying Bead and Bonds (Wed Jan 19 2011 - 14:30:29 CST)
- Re: Where can I download VMD alpha version (Sat Jan 15 2011 - 10:45:14 CST)
- Re: volumetric trajectory (Fri Jan 14 2011 - 12:49:50 CST)
- Re: VTF trajectory from coarse grained ESPReSo simulations. Visualization in Windows. (Wed Jan 12 2011 - 11:40:12 CST)
- Re: namd energy plugin error: toplevel (Tue Jan 11 2011 - 09:22:22 CST)
- Re: volumetric trajectory (Mon Jan 10 2011 - 17:29:39 CST)
- Re: vmd with 3d vision (Fri Jan 07 2011 - 16:59:21 CST)
- Re: vmd with 3d vision (Fri Jan 07 2011 - 16:50:24 CST)
- Re: vmd with 3d vision (Fri Jan 07 2011 - 16:34:33 CST)
- Re: vmd with 3d vision (Fri Jan 07 2011 - 16:20:40 CST)
- Re: Binary request (Fri Jan 07 2011 - 08:15:18 CST)
- Re: Binary request (Fri Jan 07 2011 - 09:01:48 CST)
- Re: Re: How to show dynamic bonds? (Thu Jan 06 2011 - 08:27:52 CST)
- Re: orientation of protein molecule (Wed Jan 05 2011 - 19:17:55 CST)
- Re: VMD 1.8.7 and lammpsplugin.so error (Wed Jan 05 2011 - 16:48:16 CST)
- Re: How to show dynamic bonds? (Tue Jan 04 2011 - 09:28:39 CST)
- Re: (Mon Jan 03 2011 - 05:04:23 CST)
- Re: error in the conversion of dcd to pdb files (Mon Jan 03 2011 - 04:58:45 CST)
- Re: the IR spetra calculation module - from MD trajectory (Sat Jan 01 2011 - 16:09:04 CST)
- Re: error in the conversion of dcd to pdb files (Fri Dec 31 2010 - 04:54:08 CST)
- Re: Volmap Tool: Angular or spatial correlation function around a center molecule (Thu Dec 30 2010 - 14:53:56 CST)
- Re: MOE and NAMD (Thu Dec 30 2010 - 14:43:20 CST)
- Re: psfgen or autopsf (Sun Dec 26 2010 - 09:25:08 CST)
- Re: conversion of gromacs trajectory file (xtc) to amber trajectory file (mdcrd) (Sat Dec 25 2010 - 11:20:06 CST)
- Re: Bad Length and GLXBadLargeRequest errors (Thu Dec 23 2010 - 04:01:03 CST)
- Re: Installing vmd-1.8.7 on LINUXAMD64 (Tue Dec 21 2010 - 08:49:30 CST)
- Re: selection of amino acids with certain distance each others (Sun Dec 19 2010 - 13:59:02 CST)
- Re: xterm (Sat Dec 18 2010 - 04:42:42 CST)
- Re: Save Atom Selection to DCD (Thu Dec 16 2010 - 04:29:53 CST)
- Re: Rv: Re: Phonon spectrum and VACF (Tue Dec 14 2010 - 13:08:07 CST)
- Re: Adsorption and diffusion (Tue Dec 14 2010 - 04:21:44 CST)
- Re: how to measure some constants (Tue Dec 14 2010 - 04:13:41 CST)
- Re: load of information on B factor as independent file (Tue Dec 14 2010 - 02:33:54 CST)
- Re: HBONDS bug? (Tue Dec 14 2010 - 02:36:38 CST)
- Re: automatic PSF builder (Mon Dec 13 2010 - 04:03:50 CST)
- Re: color change on atoms selected using mouse (Thu Dec 09 2010 - 11:04:44 CST)
- Re: Plotting potential energy (Thu Dec 09 2010 - 05:27:57 CST)
- Re: Phonon spectrum and VACF (Thu Dec 09 2010 - 05:26:13 CST)
- Re: surface representation question (Thu Dec 09 2010 - 02:46:16 CST)
- Re: RE : Plot the value of the current frame in the Progress Bar for elapsed Time (Thu Dec 02 2010 - 13:44:37 CST)
- Re: Plot the value of the current frame in the Progress Bar for elapsed Time (Thu Dec 02 2010 - 10:47:31 CST)
- Re: generating lipid membrane psf file (Thu Dec 02 2010 - 10:39:53 CST)
- Re: Output of forces (Thu Dec 02 2010 - 04:29:05 CST)
- Re: VASP crystal structure visualisation (Fri Nov 26 2010 - 16:11:41 CST)
- Re: VASP crystal structure visualisation (Thu Nov 25 2010 - 17:10:04 CST)
- Re: how to display bond btw backbone atom and sidechain atom (Wed Nov 24 2010 - 06:07:32 CST)
- Re: Test Graphic card performance using VMD as benchmark (Fri Nov 19 2010 - 15:50:23 CST)
- Re: .xsf triclinic cell contents (Fri Nov 19 2010 - 14:49:31 CST)
- Re: rgyr calculation problem (Fri Nov 19 2010 - 13:35:45 CST)
- Re: tcl script problem using -dispdev text .. (Fri Nov 19 2010 - 06:27:46 CST)
- Re: radial distribution function from the center of mass (Thu Nov 18 2010 - 20:27:55 CST)
- Re: radial distribution function from the center of mass (Thu Nov 18 2010 - 20:20:18 CST)
- Re: .xsf triclinic cell contents (Thu Nov 18 2010 - 15:41:28 CST)
- Re: does vmd allow change in volume (Thu Nov 18 2010 - 14:34:29 CST)
- Re: tcl script problem using -dispdev text .. (Thu Nov 18 2010 - 08:28:41 CST)
- Re: missing operator at _@_in expression "$i _@_$n" (Wed Nov 17 2010 - 10:39:07 CST)
- Re: atom selection in vmd (Wed Nov 17 2010 - 09:56:35 CST)
- Re: Rendering .dat files created from Movie Maker using Tachyon (Tue Nov 16 2010 - 10:43:38 CST)
- Re: Headtracking software (Tue Nov 16 2010 - 10:48:32 CST)
- Re: question on color assignment on trajectories (Mon Nov 15 2010 - 22:06:45 CST)
- Re: Water molecules within a definite radius (Mon Nov 15 2010 - 18:34:23 CST)
- Re: Background gradient in image (Mon Nov 15 2010 - 16:48:25 CST)
- Re: Water molecules within a definite radius (Mon Nov 15 2010 - 16:22:49 CST)
- Interactive MD driver/controller software no longer in beta (Fri Nov 12 2010 - 09:41:59 CST)
- Re: rgyr calculation problem (Wed Nov 10 2010 - 12:40:40 CST)
- Re: rgyr calculation problem (Wed Nov 10 2010 - 11:12:06 CST)
- Re: dynamic atom selection (Tue Nov 09 2010 - 11:06:31 CST)
- RE: Graphics card for VMD, number of atoms, file format (Tue Nov 09 2010 - 10:51:32 CST)
- Re: dynamic atom selection (Tue Nov 09 2010 - 08:10:49 CST)
- Re: 3D protein visualization (Mon Nov 08 2010 - 13:22:50 CST)
- Re: Graphics card for VMD, number of atoms, file format (Mon Nov 08 2010 - 12:38:46 CST)
- Re: regarding merging of protein and a ligand (Sat Nov 06 2010 - 16:54:53 CDT)
- Re: rgyr calculation problem (Fri Nov 05 2010 - 17:09:31 CDT)
- Re: VMD text mode/unwrap (Tue Nov 02 2010 - 08:43:42 CDT)
- Re: psf format (Sun Oct 31 2010 - 13:54:12 CDT)
- Re: Contour plots for XYZ format (Sat Oct 30 2010 - 19:17:46 CDT)
- Re: Contour plots for XYZ format (Sat Oct 30 2010 - 10:56:04 CDT)
- Re: menus unresponsive in ubuntu 10.10 (Sat Oct 30 2010 - 10:58:17 CDT)
- Re: Where to download Hbond plugin (Sat Oct 30 2010 - 11:01:01 CDT)
- Re: Reading MatStudio/ LAMMPS structures to VMD (Fri Oct 29 2010 - 11:37:11 CDT)
- Re: Possible bug in freeing global selections (Thu Oct 28 2010 - 13:11:30 CDT)
- Re: Possible bug in freeing global selections (Thu Oct 28 2010 - 09:22:13 CDT)
- Re: Reading MatStudio/ LAMMPS structures to VMD (Tue Oct 26 2010 - 09:43:48 CDT)
- Re: Reading MatStudio/ LAMMPS structures to VMD (Sun Oct 24 2010 - 17:02:38 CDT)
- Re: problem at convert single trajectory frame to pdb (Tue Oct 19 2010 - 22:04:44 CDT)
- Re: problem at convert single trajectory frame to pdb (Tue Oct 19 2010 - 12:53:31 CDT)
- Re: Vega ZZ DCD trajectory crashes VMD (Tue Oct 19 2010 - 11:02:34 CDT)
- Re: Novint Falcon (Tue Oct 19 2010 - 08:19:49 CDT)
- Re: Best way for model post processing? (Mon Oct 18 2010 - 12:11:55 CDT)
- Re: psf format (Sun Oct 17 2010 - 13:36:34 CDT)
- Re: Memory leak with "mol modselect" and index (Sun Oct 17 2010 - 13:29:22 CDT)
- Re: Bond Colors (Thu Oct 14 2010 - 11:58:09 CDT)
- Re: Bond Colors (Wed Oct 13 2010 - 12:38:18 CDT)
- Re: Bond Colors (Wed Oct 13 2010 - 09:41:00 CDT)
- Re: IED 2.02 and VMD 1.8.7 (Wed Oct 13 2010 - 09:23:19 CDT)
- Re: How to stop a script (eg : source myscript.tcl) ? (Mon Oct 11 2010 - 09:23:14 CDT)
- Re: trouble with measure hbonds (Mon Oct 04 2010 - 16:02:13 CDT)
- Re: IR Spectra plugin (Wed Sep 29 2010 - 12:03:13 CDT)
- Re: missing atoms (Mon Sep 27 2010 - 10:29:25 CDT)
- Re: protein breaks into parts after converting trajectory file to pdb file (Mon Sep 27 2010 - 10:32:58 CDT)
- Re: ppmtompeg (Wed Sep 22 2010 - 10:54:35 CDT)
- Re: vmd_pdb file format (Fri Sep 17 2010 - 12:35:27 CDT)
- Re: maximum trajectory size? (Thu Sep 16 2010 - 16:12:11 CDT)
- Re: compile vmd (Wed Sep 15 2010 - 13:09:28 CDT)
- Re: Draw a box cell for a crystal (Wed Sep 15 2010 - 08:15:50 CDT)
- Re: compile windows binary in linux (Mon Sep 13 2010 - 15:13:13 CDT)
- Re: Visualization problem with aromatic bromo atom? (Sun Sep 12 2010 - 14:59:54 CDT)
- (no subject) (Sun Sep 12 2010 - 12:33:25 CDT)
- Re: Hydrogen bond angle (Fri Aug 27 2010 - 09:41:22 CDT)
- Re: DCD Based on a parameter (Thu Aug 26 2010 - 11:11:07 CDT)
- Re: converting old LAMMPS ASCII dumps (Tue Aug 24 2010 - 09:48:26 CDT)
- Re: Structure won't move after loading trajectory (Mon Aug 23 2010 - 20:39:30 CDT)
- Re: converting old LAMMPS ASCII dumps (Mon Aug 23 2010 - 20:04:32 CDT)
- Re: OSX 10.6 support? (Mon Aug 23 2010 - 17:28:21 CDT)
- Re: RMSF calculation: residue wise (Fri Aug 20 2010 - 12:13:21 CDT)
- Re: VMD plus Phantom (Wed Aug 18 2010 - 14:13:53 CDT)
- Re: tcl script (Wed Aug 18 2010 - 04:01:00 CDT)
- Re: RSMD of coarse grained molecules (Mon Aug 16 2010 - 22:21:50 CDT)
- Re: VMD 3D movies rendering (Mon Aug 16 2010 - 08:40:36 CDT)
- Re: where can I download Tachyon version 0.98.10 ? (Sun Aug 15 2010 - 04:28:42 CDT)
- Re: where can I download Tachyon version 0.98.10 ? (Sat Aug 14 2010 - 08:19:12 CDT)
- Re: cant connect Novint Falcon with VMD (Fri Aug 13 2010 - 14:30:28 CDT)
- Re: VMD questions about animating residue distance lines and contact maps (Fri Aug 13 2010 - 11:12:55 CDT)
- Re: cant connect Novint Falcon with VMD (Fri Aug 13 2010 - 00:03:51 CDT)
- Re: About Atom Index Order (Thu Aug 12 2010 - 18:20:52 CDT)
- Re: cant connect Novint Falcon with VMD (Thu Aug 12 2010 - 14:22:13 CDT)
- Re: cant connect Novint Falcon with VMD (Thu Aug 12 2010 - 14:37:14 CDT)
- Re: About Atom Index Order (Thu Aug 12 2010 - 04:52:38 CDT)
- Re: About Atom Index Order (Wed Aug 11 2010 - 22:01:11 CDT)
- Re: Problem Material Studio/VMD (Wed Aug 11 2010 - 04:26:56 CDT)
- Re: Solvate plug-in (Tue Aug 10 2010 - 23:28:11 CDT)
- Re: Writing Python Plugins properly (Tue Aug 10 2010 - 21:38:07 CDT)
- Re: Superimpose protein - plot water position - visualize water pathway (Sat Aug 07 2010 - 20:42:05 CDT)
- Re: NAMD energy plugin (Thu Aug 05 2010 - 08:53:18 CDT)
- Re: povray rendering help (Fri Jul 30 2010 - 08:41:35 CDT)
- Re: "can not find channel named ... (Wed Jul 28 2010 - 06:55:13 CDT)
- Re: PC suitable for visualisation of large systems, maximum namuber of atoms in a .pdb file (Wed Jul 21 2010 - 09:09:19 CDT)
- Re: PC suitable for visualisation of large systems, maximum namuber of atoms in a .pdb file (Wed Jul 21 2010 - 08:11:34 CDT)
- Re: trajectory sort by RMSD or other (Tue Jul 20 2010 - 17:17:33 CDT)
- Re: trajectory sort by RMSD or other (Tue Jul 20 2010 - 13:04:57 CDT)
- Re: Adding other online PDB data bases to VMD (Fri Jul 16 2010 - 19:58:22 CDT)
- Re: making a movie of an unusual trajectory (Fri Jul 16 2010 - 13:05:49 CDT)
- Re: making a movie of an unusual trajectory (Fri Jul 16 2010 - 12:47:26 CDT)
- Re: Graphics Representation - Drawing methods (Tue Jul 13 2010 - 18:08:18 CDT)
- Re: VMD cuda (Mon Jul 12 2010 - 16:50:26 CDT)
- Re: Autoionize does not neutralize the system (Tue Jul 06 2010 - 16:01:03 CDT)
- Re: Autoionize does not neutralize the system (Tue Jul 06 2010 - 09:49:19 CDT)
- Re: color charmm dcd by kinetic energy (Mon Jul 05 2010 - 17:02:53 CDT)
- Re: contact map (Mon Jul 05 2010 - 11:47:31 CDT)
- Re: Conversion of DCD trajectories to AMBER ones ? (Mon Jul 05 2010 - 05:54:16 CDT)
- Re: Re: convert prmtop to psf (Tue Jun 22 2010 - 14:01:36 CDT)
- Re: OpenGL Display slow/freeze (Tue Jun 22 2010 - 08:45:15 CDT)
- Re: vmd on Microsoft 2000 and Phantom (Tue Jun 22 2010 - 08:48:53 CDT)
- Re: OpenGL Display slow/freeze (Mon Jun 21 2010 - 22:52:13 CDT)
- Re: Re: convert prmtop to psf (Mon Jun 21 2010 - 17:25:22 CDT)
- Re: structure file for big molecules (Sun Jun 20 2010 - 18:55:39 CDT)
- Re: namdenergy: writepdb failed (Sun Jun 20 2010 - 08:25:03 CDT)
- Re: Hydrophobic interaction (Fri Jun 18 2010 - 08:10:23 CDT)
- Re: Hydrophobic interaction (Fri Jun 18 2010 - 08:25:36 CDT)
- Re: visualize trajectories from lammps parallel results (Thu Jun 17 2010 - 15:34:31 CDT)
- Re: Color by velocity (speed?) (Wed Jun 16 2010 - 13:01:21 CDT)
- Re: particular set of xyz coordinates in PDB causes seg fault (Tue Jun 15 2010 - 15:02:45 CDT)
- Re: particular set of xyz coordinates in PDB causes seg fault (Tue Jun 15 2010 - 12:56:50 CDT)
- Re: topotools (Tue Jun 15 2010 - 12:00:00 CDT)
- Re: topotools (Tue Jun 15 2010 - 11:31:40 CDT)
- Re: top2psf.tcl (Tue Jun 15 2010 - 10:31:42 CDT)
- Re: top2psf.tcl (Tue Jun 15 2010 - 08:59:42 CDT)
- Re: top2psf.tcl (Tue Jun 15 2010 - 08:29:32 CDT)
- Re: top2psf.tcl (Sun Jun 13 2010 - 07:19:12 CDT)
- Re: Problems with Linux install... (Wed Jun 09 2010 - 21:26:53 CDT)
- Re: Rending to png format using tachyon or otherwise ? (Wed Jun 09 2010 - 13:08:57 CDT)
- Re: topotools and Partial charges (Wed Jun 09 2010 - 11:49:55 CDT)
- Re: about vmd solvation plugin (Wed Jun 09 2010 - 07:11:11 CDT)
- Re: about vmd solvation plugin (Sat Jun 05 2010 - 19:32:54 CDT)
- Re: Re: Problems with Linux install... (Fri Jun 04 2010 - 14:18:40 CDT)
- Re: Trouble compiling from source - Mac OS X (Fri Jun 04 2010 - 13:11:08 CDT)
- Re: about ".cpmd" format (Fri Jun 04 2010 - 00:50:48 CDT)
- Re: about paratool (Thu Jun 03 2010 - 04:59:08 CDT)
- Re: Interaction Energy (Wed Jun 02 2010 - 17:00:48 CDT)
- Re: Visualize intersection of overlapping spheres? (Wed Jun 02 2010 - 13:46:02 CDT)
- Re: Compiling without graphics (Tue Jun 01 2010 - 21:55:58 CDT)
- Re: RMSD Trajectory Tool (Tue Jun 01 2010 - 22:02:36 CDT)
- Re: RDF and Coordination Number (Fri May 28 2010 - 08:52:10 CDT)
- Re: Modelling program that does hydrogen adjust (Fri May 28 2010 - 08:30:34 CDT)
- Re: Residue Number Assignment by VMD (Fri May 28 2010 - 08:24:45 CDT)
- Re: radial distribution function problem (Wed May 26 2010 - 11:26:30 CDT)
- Re: monomer transposes boundary box (Tue May 25 2010 - 08:29:22 CDT)
- Re: monomer transposes boundary box (Tue May 25 2010 - 08:16:51 CDT)
- Re: monomer transposes boundary box (Tue May 25 2010 - 08:35:22 CDT)
- Re: Tachyon 0.9.10 and recommende version of cuda? (Mon May 24 2010 - 07:45:24 CDT)
- Re: LAMMPS Trajectory (Sun May 23 2010 - 17:24:08 CDT)
- Re: Atom Selection for RDF (Sat May 22 2010 - 12:46:48 CDT)
- Re: Atom Selection for RDF (Sat May 22 2010 - 10:25:06 CDT)
- Re: Frames-Movie (Wed May 19 2010 - 14:39:12 CDT)
- Re: Cutting a bond (Wed May 19 2010 - 14:33:01 CDT)
- Re: Adding an atom to the existing pdb (Wed May 19 2010 - 06:36:59 CDT)
- Re: compile error (Tue May 18 2010 - 06:27:22 CDT)
- Re: Radial distribution function: "y" axis (Mon May 17 2010 - 17:13:23 CDT)
- Re: Radial distribution function: "y" axis (Sun May 16 2010 - 14:01:26 CDT)
- Re: append pdb (Sun May 16 2010 - 11:00:52 CDT)
- Re: Xrequest in VMD (Wed May 12 2010 - 06:44:02 CDT)
- Re: Selecting CUDA devices in VMD 1.8.7 (Tue May 11 2010 - 20:08:25 CDT)
- Re: Selecting CUDA devices in VMD 1.8.7 (Tue May 11 2010 - 19:19:21 CDT)
- Re: units of "measure dipole" (Tue May 11 2010 - 16:23:51 CDT)
- Re: units of "measure dipole" (Tue May 11 2010 - 15:53:29 CDT)
- Re: units of "measure dipole" (Tue May 11 2010 - 15:29:59 CDT)
- Re: namd-l: Atom movement within a range of Z value (Tue May 11 2010 - 15:27:44 CDT)
- Re: LAMMPS trajectory file (Mon May 10 2010 - 23:25:23 CDT)
- Re: Creating AVI movies (Mon May 10 2010 - 08:21:13 CDT)
- Re: Stereoscopic visualization (Sun May 09 2010 - 14:12:14 CDT)
- Re: Stereoscopic visualization (Sun May 09 2010 - 11:58:13 CDT)
- Re: adding atomselections? (Sat May 08 2010 - 19:34:30 CDT)
- Re: selecting from different molecules simultaneously (Thu May 06 2010 - 19:55:33 CDT)
- Re: G(r) tcl script not including intramolecular correlations (Thu May 06 2010 - 19:46:26 CDT)
- Re: selecting from different molecules simultaneously (Wed May 05 2010 - 21:39:54 CDT)
- Re: animation with variable number/names of atoms (Tue May 04 2010 - 07:40:37 CDT)
- Re: animation with variable number/names of atoms (Mon May 03 2010 - 16:47:05 CDT)
- Re: ellipsoidal particles (Sun May 02 2010 - 15:08:54 CDT)
- Re: choice of VDW radius (Fri Apr 30 2010 - 08:34:36 CDT)
- Re: paratools charmm partial charges (Fri Apr 30 2010 - 08:38:27 CDT)
- Re: Paratools Question (Wed Apr 28 2010 - 23:47:45 CDT)
- Re: topotools (Wed Apr 28 2010 - 15:30:47 CDT)
- Re: topotools (Wed Apr 28 2010 - 10:37:36 CDT)
- Re: topotools (Wed Apr 28 2010 - 04:46:11 CDT)
- Re: Is nvidia 3D Vision + quadro working in linux (Tue Apr 27 2010 - 18:20:38 CDT)
- Re: Run Python Scripts in VMD on Mac OS X (Tue Apr 27 2010 - 08:38:32 CDT)
- Re: representation question (Mon Apr 26 2010 - 15:09:17 CDT)
- Re: Conversion of GAMESS Quantum MD trajectory file (Mon Apr 26 2010 - 15:01:16 CDT)
- VRPN driver for Novint Falcon haptic device available - Looking for Testers (Fri Apr 23 2010 - 15:59:34 CDT)
- Re: Coloring atoms based on timeframe range? (Thu Apr 22 2010 - 10:11:05 CDT)
- Re: vmd does not read pqr file correct, vmd parse chain information incorrect. (Tue Apr 20 2010 - 19:18:09 CDT)
- Re: Problem with vmd and pqr file (Sun Apr 18 2010 - 18:50:33 CDT)
- Re: Problem with vmd and pqr file (Sun Apr 18 2010 - 11:14:01 CDT)
- Re: Colouring atoms named with the same first letter (Fri Apr 16 2010 - 12:03:24 CDT)
- Re: recognizing TCL variables in a matrix argument (Thu Apr 15 2010 - 19:45:15 CDT)
- Re: how to download & install QMTool plugin (Wed Apr 14 2010 - 10:42:52 CDT)
- Re: calculate side-chain dihedral/torsion angles (Mon Apr 12 2010 - 08:58:28 CDT)
- Re: calculate side-chain dihedral/torsion angles (Mon Apr 12 2010 - 08:08:08 CDT)
- Re: calculate side-chain dihedral/torsion angles (Mon Apr 12 2010 - 05:43:37 CDT)
- Re: DynamicBonding (Fri Apr 09 2010 - 15:43:03 CDT)
- Re: DynamicBonding (Fri Apr 09 2010 - 15:23:38 CDT)
- Re: Turn off initial VMD animation and "menu tkcon on" problem (Fri Apr 09 2010 - 08:37:36 CDT)
- Re: build dependency (Fri Apr 09 2010 - 04:37:59 CDT)
- Re: question about vmd use (Fri Apr 09 2010 - 04:42:49 CDT)
- Re: center of unit cell (Thu Apr 08 2010 - 11:13:45 CDT)
- Re: Way to change ColorScale Method to single color gradient? (Wed Apr 07 2010 - 08:43:19 CDT)
- Re: Way to change ColorScale Method to single color gradient? (Wed Apr 07 2010 - 06:08:23 CDT)
- Re: Generating nanotubes psf file (Mon Apr 05 2010 - 16:05:34 CDT)
- Re: Generating nanotubes psf file (Mon Apr 05 2010 - 14:30:21 CDT)
- Re: Generating nanotubes psf file (Mon Apr 05 2010 - 11:56:07 CDT)
- Re: Generating nanotubes psf file (Mon Apr 05 2010 - 09:52:55 CDT)
- Re: [Help] cross-sections (Sun Apr 04 2010 - 05:27:44 CDT)
- Re: Creating length dependent coloured bonds in VMD (Tue Mar 30 2010 - 15:12:28 CDT)
- Re: problem with ied and vmd,ImportError: liblapack.so.3: cannot open shared object file: No such file or directory (Thu Mar 25 2010 - 10:49:09 CDT)
- Re: problem with ied and vmd,ImportError: liblapack.so.3: cannot open shared object file: No such file or directory (Thu Mar 25 2010 - 06:01:48 CDT)
- Re: Visualisation of VTF trajectories using VMD under Windows ? (Wed Mar 24 2010 - 12:04:45 CDT)
- Re: implicit solvent (Tue Mar 23 2010 - 12:00:04 CDT)
- Re: writepdb using selection form different molecules (Mon Mar 22 2010 - 13:16:43 CDT)
- Re: Running IMD interactivelly under the shell (Thu Mar 18 2010 - 17:56:52 CDT)
- Re: Running IMD interactivelly under the shell (Thu Mar 18 2010 - 16:54:42 CDT)
- Re: was: Selecting Cl- Na; now: redefining key words in VMD (Wed Mar 17 2010 - 17:20:02 CDT)
- Re: CGenFF atom types (Sun Mar 14 2010 - 21:19:30 CDT)
- Re: running ILS under Windows 7 (Sun Mar 14 2010 - 14:11:16 CDT)
- Re: Fwd: trajectory_path.tcl queries (Sun Mar 14 2010 - 10:10:02 CDT)
- Re: Topotools1.0 (Sat Mar 13 2010 - 14:03:22 CST)
- Re: Patch for Three or More monomers (Fri Mar 12 2010 - 11:32:10 CST)
- Re: water molecules around proteins (Fri Mar 12 2010 - 09:20:07 CST)
- Re: MergeStructs Plugin in text mode (Fri Mar 12 2010 - 09:11:24 CST)
- Re: water molecules around proteins (Thu Mar 11 2010 - 11:51:01 CST)
- Re: water molecules around proteins (Wed Mar 10 2010 - 17:41:03 CST)
- Re: Problems with "animate next" inside for-loops (Wed Mar 10 2010 - 17:23:04 CST)
- Re: MergeStructs Plugin in text mode (Wed Mar 10 2010 - 07:57:38 CST)
- Re: Isosurface wraps in PME Electrostatics calc'n (Tue Mar 09 2010 - 14:59:13 CST)
- Re: MergeStructs Plugin in text mode (Tue Mar 09 2010 - 13:24:49 CST)
- Re: analyzing gromacs trajectory (.trr) with VMD (Tue Mar 09 2010 - 04:47:13 CST)
- Re: trajectory_path.tcl queries (Sun Mar 07 2010 - 10:53:39 CST)
- Re: CUDA issues (Thu Mar 04 2010 - 13:16:58 CST)
- Re: Problem with New cartoon representation (Mon Mar 01 2010 - 03:33:05 CST)
- Re: Rotating user-defined graphics? (Fri Feb 26 2010 - 13:24:30 CST)
- Re: about command measure dipole (Wed Feb 24 2010 - 13:22:51 CST)
- Re: a problem in visualizing dump files with vmd (Tue Feb 23 2010 - 05:44:27 CST)
- Re: Numeric Library of Python for VMD 1.8.7 (Wed Feb 17 2010 - 23:36:39 CST)
- Re: slowing down movie maker (Wed Feb 17 2010 - 21:24:14 CST)
- Re: get view direction (Tue Feb 16 2010 - 06:21:23 CST)
- Re: xyz file and VASP CHGCAR file do not overlap (Mon Feb 15 2010 - 11:22:28 CST)
- Re: running namd2 on Mac PPC cluster (Sun Feb 14 2010 - 15:16:22 CST)
- Re: top_all22_prot.inp & par_all22_prot.inp (Sun Feb 14 2010 - 13:06:20 CST)
- Re: Retrieving an atom and its coordinates (Sat Feb 13 2010 - 17:20:59 CST)
- Re: psfgen generates 0 atom .psf file (Fri Feb 12 2010 - 22:52:25 CST)
- Re: xyz file and VASP CHGCAR file do not overlap (Fri Feb 12 2010 - 15:00:45 CST)
- Re: RMSD trajectory tools (Fri Feb 12 2010 - 07:20:42 CST)
- Re: Boolean operators and the new atomsel type (Wed Feb 10 2010 - 14:35:37 CST)
- RE: Blank thumbnails and non-working snapshots (Tue Feb 09 2010 - 08:24:14 CST)
- Re: Blank thumbnails and non-working snapshots (Mon Feb 08 2010 - 11:47:35 CST)
- Re: problem with generating PSF file for guanine based molecule (Sun Feb 07 2010 - 14:05:19 CST)
- Re: molecular dipole moment (Thu Feb 04 2010 - 05:11:59 CST)
- Re: VMD script: save coordinates problem (Mon Feb 01 2010 - 21:10:15 CST)
- Re: running LAMMPS output via VMD (Mon Feb 01 2010 - 07:37:44 CST)
- Re: Number of H bond formation in VMD (Fri Jan 29 2010 - 09:18:32 CST)
- Re: About Paratool (Wed Jan 27 2010 - 04:48:11 CST)
- Re: Number of Hydrogen Bonds among Water an Protein (Tue Jan 26 2010 - 15:39:18 CST)
- Re: VMD version 1.8.7 (LINUX OpenGL, CUDA) on UBUNTU 9.10 (Mon Jan 25 2010 - 16:08:58 CST)
- Re: Number of Hydrogen Bonds among Water an Protein (Mon Jan 25 2010 - 08:55:05 CST)
- Re: Graphics card for molecular graphics (Sun Jan 24 2010 - 13:09:26 CST)
- Re: bad text display in tk console (ubuntu 8.04 VMD 1.8.7 linux 32 bit) (Wed Jan 20 2010 - 11:42:57 CST)
- Re: How to display real time when reading trr file? (Wed Jan 20 2010 - 05:06:06 CST)
- Re: masure distance trajectory - delete variable (Sun Jan 17 2010 - 11:54:03 CST)
- Re: Topotools plugin: guessimpropers? (Fri Jan 15 2010 - 22:36:14 CST)
- Re: Topotools plugin: guessimpropers? (Fri Jan 15 2010 - 18:12:12 CST)
- Re: bad text display in tk console (ubuntu 8.04 VMD 1.8.7 linux 32 bit) (Fri Jan 15 2010 - 12:11:21 CST)
- Re: Topotools plugin: guessimpropers? (Fri Jan 15 2010 - 09:10:27 CST)
- Re: labeling bonds between two atoms (Thu Jan 14 2010 - 17:17:35 CST)
- Re: Topotools plugin: guessimpropers? (Wed Jan 13 2010 - 11:08:36 CST)
- Re: Topotools plugin: guessimpropers? (Wed Jan 13 2010 - 09:19:16 CST)
- Re: HOOMD plugin (Tue Jan 12 2010 - 13:11:32 CST)
- Re: PME isosurface not superimposed on protein (Mon Jan 11 2010 - 16:59:59 CST)
- Re: vmd installation in linux (Fri Jan 08 2010 - 10:35:48 CST)
- Re: vmd installation in linux (Fri Jan 08 2010 - 08:27:06 CST)
- Re: allowing negative 'resid' numbers in selection strings (Fri Jan 08 2010 - 08:49:01 CST)
- Re: VMD lammps plugin: a possible bug (Fri Jan 08 2010 - 08:19:15 CST)
- Re: vmd 1.8.7 getting the terminal free (Fri Jan 08 2010 - 08:03:21 CST)
- Re: vmd 1.8.7 getting the terminal free (Fri Jan 08 2010 - 06:26:43 CST)
- Re: vmd 1.8.7 getting the terminal free (Fri Jan 08 2010 - 06:25:40 CST)
- Re: VMD lammps plugin: a possible bug (Thu Jan 07 2010 - 12:03:23 CST)
- Re: VMD hangs up with a file size ~ 1.2 GB ? (Thu Jan 07 2010 - 06:04:14 CST)
- Re: VMD hangs up with a file size ~ 1.2 GB ? (Thu Jan 07 2010 - 05:55:29 CST)
- Re: VMD hangs up with a file size ~ 1.2 GB ? (Wed Jan 06 2010 - 22:22:56 CST)
- Re: VMD hangs up with a file size ~ 1.2 GB ? (Wed Jan 06 2010 - 10:48:28 CST)
- Re: VMD hangs up with a file size ~ 1.2 GB ? (Wed Jan 06 2010 - 07:41:05 CST)
- Re: (Tue Jan 05 2010 - 08:12:16 CST)
- Re: vmd installation in linux (Sun Jan 03 2010 - 05:23:58 CST)
- Re: Re: Re: Re: Superposition of Multiple Trajectory Timesteps (Sat Jan 02 2010 - 16:24:07 CST)
- Re: About the criterion of H bond (Sat Jan 02 2010 - 03:33:38 CST)
- Re: Re: Re: Superposition of Multiple Trajectory Timesteps (Fri Jan 01 2010 - 10:16:38 CST)
- Re: Re: Superposition of Multiple Trajectory Timesteps (Thu Dec 31 2009 - 10:57:08 CST)
- Re: Superposition of Multiple Trajectory Timesteps (Thu Dec 31 2009 - 08:08:03 CST)
- Re: IMD in VMD (Wed Dec 30 2009 - 00:58:00 CST)
- Re: UNIT CELL (Tue Dec 29 2009 - 10:37:59 CST)
- Re: vmd 1.8.7 - console window fullscreen (Fri Dec 25 2009 - 02:23:27 CST)
- Re: installation problem (Wed Dec 23 2009 - 14:30:56 CST)
- Re: installation problem (Wed Dec 23 2009 - 02:14:47 CST)
- Re: rdf curve (Tue Dec 22 2009 - 09:08:20 CST)
- Re: superimposed structure (Sun Dec 20 2009 - 09:55:04 CST)
- Re: pbc wrap center on protein (Sat Dec 19 2009 - 14:45:59 CST)
- Re: Graphics card for VMD (Tue Dec 15 2009 - 12:26:08 CST)
- Re: superimposed structure (Tue Dec 15 2009 - 09:34:12 CST)
- Re: hbonds.tcl selection problem in command-line (Tue Dec 15 2009 - 06:17:46 CST)
- Re: Counting number of water molecules (Wed Dec 09 2009 - 17:32:07 CST)
- Re: Re: vmd 1.8.7 on Intel 64 bit: segmentation fault (Tue Dec 08 2009 - 16:53:15 CST)
- Re: Broken bonds in trajectory due to pbc (Tue Dec 08 2009 - 16:32:01 CST)
- Re: building VMD is tricky -please help (Tue Dec 01 2009 - 18:31:54 CST)
- Re: Cant start IED (Tue Dec 01 2009 - 07:26:44 CST)
- Re: coloring by difference in beta factors (Tue Dec 01 2009 - 07:30:43 CST)
- Re: Polyhedra with two selections? (Mon Nov 30 2009 - 05:10:54 CST)
- Re: Color by position behavior (Sun Nov 29 2009 - 03:47:08 CST)
- Re: problems with CG protein-lipidbilayer-water system (Sat Nov 21 2009 - 16:54:04 CST)
- Re: aquire coordinates from the points of the solvent representation (Fri Nov 20 2009 - 13:23:11 CST)
- Re: solvate error (Thu Nov 19 2009 - 12:29:08 CST)
- Re: xzy format and ResType (Tue Nov 17 2009 - 14:40:46 CST)
- Re: polymer bead spring model file format (Tue Nov 17 2009 - 12:40:49 CST)
- Re: PBCTools-problem getting unitcell parameters (Thu Nov 12 2009 - 20:25:30 CST)
- Re: problems displaying newcartoon representation (Thu Nov 12 2009 - 12:09:16 CST)
- Re: bad_alloc error (Wed Nov 11 2009 - 10:43:34 CST)
- plugin for reading (and writing) trajectories with a varying number of atoms (Fri Nov 06 2009 - 14:51:02 CST)
- Re: running under Shell using VMD (Tue Nov 03 2009 - 21:43:33 CST)
- Re: RBCG bead diameter (Sat Oct 31 2009 - 14:42:05 CDT)
- Re: using NAMD with SPC water (Sat Oct 31 2009 - 14:23:13 CDT)
- Re: namd-l: abnormal water surface after nvt and npt for POPC membrane (Wed Oct 28 2009 - 10:55:16 CDT)
- Re: Unable to find Stride output file: /usr/tmp/... (Tue Oct 27 2009 - 13:18:17 CDT)
- Re: Tachyon Rendering (Tue Oct 27 2009 - 11:23:48 CDT)
- Re: using NAMD with SPC water (Mon Oct 26 2009 - 10:42:13 CDT)
- Re: using NAMD with SPC water (Mon Oct 26 2009 - 10:08:08 CDT)
- Re: using NAMD with SPC water (Mon Oct 26 2009 - 08:48:24 CDT)
- Re: VMD and Intel X3100 GPU (Sat Oct 24 2009 - 17:28:33 CDT)
- Re: Input File Format (Wed Oct 21 2009 - 14:52:05 CDT)
- Re: bond connectivity not displayed in VMD (Wed Oct 21 2009 - 12:58:15 CDT)
- Re: questions (Wed Oct 21 2009 - 13:03:57 CDT)
- Re: Atom sorting according to resid (Wed Oct 21 2009 - 11:21:58 CDT)
- Re: Translating an atom along a specific direction and saving the pdb files (Tue Oct 20 2009 - 10:38:17 CDT)
- Re: X server is not capable of displaying double RGB images with a Z buffer (Tue Oct 20 2009 - 10:40:59 CDT)
- Re: NAMD can't malloc() error (Mon Oct 19 2009 - 13:29:20 CDT)
- Re: Arbitrary values of isosurface (Mon Oct 19 2009 - 08:58:17 CDT)
- Re: paratool: unable to load optimized geometry (Mon Oct 19 2009 - 08:51:46 CDT)
- Re: Calculate Free Volume? (Mon Oct 19 2009 - 08:59:32 CDT)
- Re: Re: Water Sphere Solvation (Sun Oct 18 2009 - 09:25:30 CDT)
- Re: Question about running tcl/tk script without graphic interface (vmd option -dispdev none ...) (Fri Oct 16 2009 - 18:25:07 CDT)
- Re: Problems with selecting atoms for representations (Tue Oct 13 2009 - 11:29:09 CDT)
- Re: writing gromacs .trr format with nonorthorhomic cells (Tue Oct 13 2009 - 08:59:59 CDT)
- Re: colour residues (Mon Oct 12 2009 - 19:05:13 CDT)
- Re: covalently bonded atoms (Mon Oct 12 2009 - 12:41:31 CDT)
- Re: format of pdb file (Mon Oct 12 2009 - 10:10:06 CDT)
- Re: catdcd (Mon Oct 12 2009 - 10:43:42 CDT)
- Re: Load struture form memory (Mon Oct 12 2009 - 08:35:22 CDT)
- Re: Lipid Membrane (Mon Oct 12 2009 - 08:39:20 CDT)
- RE: how to display the periodic box in VMD (Thu Oct 08 2009 - 14:30:27 CDT)
- Re: how to display the periodic box in VMD (Wed Oct 07 2009 - 18:39:55 CDT)
- Re: Bond representation of coarse grained molecules (Wed Oct 07 2009 - 09:39:42 CDT)
- Re: How to translate my diffused protein back to COM? (Mon Oct 05 2009 - 20:31:13 CDT)
- Re: Tracking atoms automatically (Mon Oct 05 2009 - 13:24:17 CDT)
- Re: distance of two center of mass (Mon Oct 05 2009 - 06:04:33 CDT)
- Re: Breaking a trajectory into separate files with tcl (Mon Oct 05 2009 - 01:41:49 CDT)
- Re: Problems with Stride (Fri Oct 02 2009 - 13:06:45 CDT)
- Re: Reading output of quantum packages and plotting orbitals (Fri Oct 02 2009 - 11:52:09 CDT)
- Re: how to load an external file to user field (Thu Oct 01 2009 - 16:12:41 CDT)
- Re: Reading output of quantum packages and plotting orbitals (Wed Sep 30 2009 - 17:38:26 CDT)
- Re: H_Bonds (Mon Sep 28 2009 - 14:16:12 CDT)
- Re: text timer in vmd animations (Mon Sep 28 2009 - 10:40:38 CDT)
- Re: Return value of a vector (Mon Sep 28 2009 - 09:35:25 CDT)
- Re: user field (Mon Sep 28 2009 - 09:28:03 CDT)
- Re: text timer in vmd animations (Mon Sep 28 2009 - 09:30:19 CDT)
- Re: ERROR) Error reading bond information. (Fri Sep 25 2009 - 12:16:30 CDT)
- Re: ERROR) Error reading bond information. (Fri Sep 25 2009 - 10:02:52 CDT)
- Re: ERROR) Error reading bond information. (Fri Sep 25 2009 - 09:11:49 CDT)
- Re: ERROR) Error reading bond information. (Fri Sep 25 2009 - 07:55:47 CDT)
- Re: Frame creation (Fri Sep 25 2009 - 05:14:03 CDT)
- Re: Velocity Auto Correlation (Thu Sep 24 2009 - 21:49:01 CDT)
- Re: Velocity Auto Correlation (Thu Sep 24 2009 - 09:30:33 CDT)
- Re: Frame creation (Thu Sep 24 2009 - 10:13:16 CDT)
- Re: atom selection (Mon Sep 21 2009 - 14:22:08 CDT)
- Re: Resize window from TCL (Mon Sep 21 2009 - 13:08:14 CDT)
- Re: automated loading (Mon Sep 21 2009 - 11:18:17 CDT)
- Re: problem with density map obtained by volmap (Sun Sep 20 2009 - 13:44:03 CDT)
- Re: Question about PSF generation (Sun Sep 20 2009 - 13:34:12 CDT)
- Re: Velocity Auto Correlation (Sat Sep 19 2009 - 10:14:22 CDT)
- Re: water molecules around proteins (Sat Sep 19 2009 - 09:55:57 CDT)
- Re: Velocity Auto Correlation (Fri Sep 18 2009 - 16:18:44 CDT)
- Re: Velocity Auto Correlation (Fri Sep 18 2009 - 15:36:45 CDT)
- Re: Reading new amber prmtop formats. (Wed Sep 16 2009 - 13:28:37 CDT)
- Re: PSF for AMBER top + crd files (Tue Sep 15 2009 - 17:10:32 CDT)
- Re: Segmentation fault on linux Fedora 11 (Mon Sep 14 2009 - 14:45:02 CDT)
- Re: get coordinates (Sat Sep 12 2009 - 13:01:35 CDT)
- Re: psf for CNT? (Wed Sep 09 2009 - 10:46:49 CDT)
- Re: VMD on Suse 11.1 w/ NVIDIA dies. (Wed Sep 09 2009 - 09:17:55 CDT)
- Re: Bond representation of coarse grained molecules (Sat Sep 05 2009 - 14:45:59 CDT)
- Re: VMD on Suse 11.1 w/ NVIDIA dies. (Sat Sep 05 2009 - 14:33:34 CDT)
- Re: Script error (Tue Sep 01 2009 - 12:55:26 CDT)
- Re: User field (Fri Aug 28 2009 - 16:14:00 CDT)
- Re: viewing MOs (Fri Aug 28 2009 - 10:29:57 CDT)
- Re: tinkerxyz (Tue Aug 25 2009 - 21:21:28 CDT)
- Re: problem with 1.8.7 installation (Tue Aug 25 2009 - 06:43:51 CDT)
- Re: Color bar (Thu Aug 20 2009 - 17:28:26 CDT)
- Re: Pyhton Mode (Thu Aug 20 2009 - 08:10:51 CDT)
- Re: Render command not executed (Wed Aug 19 2009 - 04:30:36 CDT)
- Re: Turn off the autobond feature in VMD (Wed Aug 12 2009 - 09:40:08 CDT)
- Re: Periodic Bonding (Wed Aug 12 2009 - 09:42:00 CDT)
- Re: Why the win_version of vmd1.86 can not change to python interpreter? (Sat Aug 01 2009 - 09:30:12 CDT)
- Re: vmd Linux 64 (Fri Jul 31 2009 - 07:50:20 CDT)
- Re: visualization problem (Fri Jul 31 2009 - 07:44:29 CDT)
- Re: Stripping out H20 (Sun Jul 26 2009 - 20:09:45 CDT)
- Re: File to benchmark a new GPU system (Sun Jul 26 2009 - 20:07:37 CDT)
- Re: PDB COORDINATES (Sun Jul 26 2009 - 19:59:55 CDT)
- Re: Stripping out H20 (Sun Jul 26 2009 - 18:47:33 CDT)
- Re: File to benchmark a new GPU system (Sun Jul 26 2009 - 18:22:59 CDT)
- Re: question about atomselect and periodic condition (Fri Jul 24 2009 - 09:17:13 CDT)
- Re: time-averaged RMSD per residue (Fri Jul 24 2009 - 09:19:52 CDT)
- Re: Problem: VMD 1.8.7 beta 5 does not launch on AIX (Fri Jul 24 2009 - 09:22:09 CDT)
- Re: drawing bond for coarse grained model (Thu Jul 23 2009 - 14:06:53 CDT)
- Re: Problem: volumetric data coloring fails on AIX5_64 with GXT6500 OpenGL renderer (Thu Jul 23 2009 - 12:29:49 CDT)
- Re: Problem: volumetric data coloring fails on AIX5_64 with GXT6500 OpenGL renderer (Thu Jul 23 2009 - 11:23:34 CDT)
- Re: Disable the set output (Thu Jul 23 2009 - 07:45:34 CDT)
- Re: error using Molecule.save() (vmd python) (Tue Jul 21 2009 - 08:43:21 CDT)
- Re: IMD interface for VASP (Mon Jul 20 2009 - 19:03:45 CDT)
- Re: Problem: volumetric data coloring fails on AIX5_64 with GXT6500 OpenGL renderer (Mon Jul 20 2009 - 15:43:56 CDT)
- Re: Problem: volumetric data coloring fails on AIX5_64 with GXT6500 OpenGL renderer (Mon Jul 20 2009 - 11:36:28 CDT)
- Re: VMD 1.8.7 installation problem (Mon Jul 20 2009 - 08:49:00 CDT)
- Re: File conversion for from Amber to Charmm (Mon Jul 20 2009 - 08:54:41 CDT)
- Re: Re PSF file generation (Mon Jul 20 2009 - 08:49:33 CDT)
- Re: Problem With Psfgen again (Fri Jul 17 2009 - 14:37:13 CDT)
- Re: File conversion for from Amber to Charmm (Fri Jul 17 2009 - 10:14:24 CDT)
- Re: error after changing of PYTHONPATH variable (Fri Jul 17 2009 - 09:16:22 CDT)
- Re: error after changing of PYTHONPATH variable (Fri Jul 17 2009 - 08:22:13 CDT)
- Re: File conversion for from Amber to Charmm (Fri Jul 17 2009 - 07:23:35 CDT)
- Re: Problems with psfgen (Thu Jul 16 2009 - 17:30:59 CDT)
- Re: make movie w/ VMD in SUSE environment (Thu Jul 16 2009 - 11:40:03 CDT)
- Re: A problem on PBC (Thu Jul 16 2009 - 11:56:57 CDT)
- Re: ied and gypython (Thu Jul 16 2009 - 09:22:39 CDT)
- Re: python and vmd (Wed Jul 15 2009 - 07:46:20 CDT)
- Re: getting other variables out of LAMMPS ascii dump files (Tue Jul 14 2009 - 18:00:35 CDT)
- Re: getting other variables out of LAMMPS ascii dump files (Mon Jul 13 2009 - 14:21:03 CDT)
- Re: How to make a selection in atomselect using an element in a list? (Wed Jul 08 2009 - 11:17:14 CDT)
- Re: namd-l: Re: Hardware for NAMD / VMD machine (Mon Jul 06 2009 - 16:46:40 CDT)
- Re: NAMDenergy: problems on changing VMD version/platform (Sun Jul 05 2009 - 13:58:50 CDT)
- Re: NAMDenergy: problems on changing VMD version/platform (Sat Jul 04 2009 - 11:54:50 CDT)
- Re: namd-l: Hardware for NAMD / VMD machine (Fri Jul 03 2009 - 11:56:08 CDT)
- Re: Curious about analytical capabilities of VMD (Fri Jul 03 2009 - 11:04:53 CDT)
- Re: Manunlly Assign Secondary Structure (May Not Be Realistic) (Thu Jul 02 2009 - 14:42:30 CDT)
- Re: superimposing proteins based on a few residues (Wed Jul 01 2009 - 17:13:25 CDT)
- Re: Coloring atoms by a general scalar (Wed Jul 01 2009 - 08:12:52 CDT)
- Re: Some VMD questions (Tue Jun 30 2009 - 13:56:02 CDT)
- Re: Coloring atoms by a general scalar (Tue Jun 30 2009 - 12:53:26 CDT)
- Re: Funny tcl/tk script behavior.... (Tue Jun 30 2009 - 09:48:45 CDT)
- Re: atom name can not exceed four characters in pdb and psf? (Mon Jun 29 2009 - 22:32:22 CDT)
- GPGPU Programming summer school at University of Tennessee, Aug 10-14. (Mon Jun 29 2009 - 14:44:15 CDT)
- Re: running vmd on computer node (Mon Jun 29 2009 - 13:46:51 CDT)
- Re: Curious about analytical capabilities of VMD (Mon Jun 29 2009 - 08:51:01 CDT)
- Re: Curious about analytical capabilities of VMD (Fri Jun 26 2009 - 07:09:06 CDT)
- Re: Rejecting plugin... (Wed Jun 24 2009 - 14:30:15 CDT)
- Re: vmd error message in Fedora 11 (Wed Jun 24 2009 - 12:07:24 CDT)
- bigdcd v3 available. testers needed. (Wed Jun 24 2009 - 09:07:14 CDT)
- Re: alignment (Fri Jun 19 2009 - 10:56:09 CDT)
- Re: "Re: ABINIT plugin ready for testing: can read GEO and DEN files. (Thu Jun 18 2009 - 11:13:59 CDT)
- Re: Re: ABINIT plugin ready for testing: can read GEO and DEN files. (Wed Jun 17 2009 - 12:01:30 CDT)
- Re: Re: ABINIT plugin ready for testing: can read GEO and DEN files. (Tue Jun 16 2009 - 22:59:20 CDT)
- Re: Re: ABINIT plugin ready for testing: can read GEO and DEN files. (Tue Jun 16 2009 - 07:31:03 CDT)
- Re: "Save coordinates..." silently overwrites existing files... (Mon Jun 15 2009 - 11:29:10 CDT)
- Re: Memory allocation problem (Mon Jun 15 2009 - 10:00:02 CDT)
- Re: ABINIT plugin ready for testing: can read GEO and DEN files. (Mon Jun 15 2009 - 10:18:34 CDT)
- Re: Ho to save exactly the screen structure? (Mon Jun 15 2009 - 10:20:28 CDT)
- Re: vmdnumpy for IED... (Sun Jun 14 2009 - 18:23:41 CDT)
- Re: Ho to save exactly the screen structure? (Sun Jun 14 2009 - 16:58:32 CDT)
- RE: Re: [lammps-users] LAMMPS to VMD: lmp2vmd tool (Sat Jun 13 2009 - 17:00:27 CDT)
- Re: Tcl commands and X11 (Fri Jun 12 2009 - 13:26:59 CDT)
- Re: FW: Unable to render electrostatic potential cube files with most non-HF densities (Thu Jun 11 2009 - 09:19:21 CDT)
- Re: Transparency settings (Wed Jun 10 2009 - 09:38:57 CDT)
- RE: Re: [lammps-users] LAMMPS to VMD: lmp2vmd tool (Wed Jun 10 2009 - 08:36:44 CDT)
- Re: plugin: can I load volumetric data as frames (i.e. timesteps)? (Wed Jun 10 2009 - 08:16:58 CDT)
- Re: disulphide bond formation (Fri Jun 05 2009 - 10:45:12 CDT)
- Re: vmd 1.8.7 - problems loading vmd state file (Fri Jun 05 2009 - 11:09:59 CDT)
- debugging tool for atomselect (Thu Jun 04 2009 - 17:05:10 CDT)
- Re: Energy (Wed Jun 03 2009 - 22:29:45 CDT)
- Re: Memory Problem with tcl/tk script...(2) (Wed Jun 03 2009 - 13:57:40 CDT)
- Re: vmd 1.8.7 - problems loading vmd state file (Wed Jun 03 2009 - 08:16:06 CDT)
- Re: adding atoms to empty molecules (Tue Jun 02 2009 - 09:22:43 CDT)
- Re: Memory Problem with tcl/tk script... (Tue Jun 02 2009 - 09:27:22 CDT)
- Re: Macbook and VMD Tk windows (Fri May 29 2009 - 08:07:21 CDT)
- Re: VMD crash (Thu May 28 2009 - 19:46:33 CDT)
- Re: VMD crash (Thu May 28 2009 - 19:05:48 CDT)
- Re: [lammps-users] LAMMPS to VMD: lmp2vmd tool (Thu May 28 2009 - 10:31:42 CDT)
- Re: problem with dispdev (Wed May 27 2009 - 16:20:37 CDT)
- Re: main window missing? (Wed May 27 2009 - 16:01:33 CDT)
- Re: Isosurface and Fieldlines Not rendered in colour (Tue May 26 2009 - 08:44:49 CDT)
- Re: default colors (Mon May 25 2009 - 16:10:47 CDT)
- bigdcd are related issues. was: Re: VMD 1.8.7 beta 3 posted for download... (Mon May 25 2009 - 11:42:59 CDT)
- Re: Plugin: molfile_plugin_t filename_extension; problem and bug... (Mon May 25 2009 - 09:52:04 CDT)
- Re: Re: abinit plugin for VMD not yet tried? (Mon May 25 2009 - 10:05:30 CDT)
- Re: VMD 1.8.7 beta 3 posted for download... (Sun May 24 2009 - 19:52:41 CDT)
- Re: How to compute excluded volume using volmap? (Sun May 24 2009 - 14:32:20 CDT)
- Re: VMD crashes in VolumeSlice representation (Sun May 24 2009 - 13:49:41 CDT)
- Re: "Determine file type" list is far too long... (Sun May 24 2009 - 11:40:33 CDT)
- Re: Problem in loading data (Sun May 24 2009 - 11:08:09 CDT)
- Re: "Determine file type" list is far too long... (Sun May 24 2009 - 08:52:35 CDT)
- Re: Re: abinit plugin for VMD not yet tried? (Sun May 24 2009 - 08:38:11 CDT)
- Re: Question3 about introducing variables in "mol selection..." (Fri May 22 2009 - 17:09:08 CDT)
- Re: Question2 about introducing variables in "mol selection..." (Fri May 22 2009 - 16:10:24 CDT)
- Re: Question about introducing variables in "mol selection..." (Fri May 22 2009 - 11:34:03 CDT)
- Re: pdb file generated not readable by tleap (Fri May 22 2009 - 10:08:06 CDT)
- Re: abinit plugin for VMD not yet tried? (Fri May 22 2009 - 10:05:14 CDT)
- Re: bonds in .psf file (Thu May 21 2009 - 12:48:40 CDT)
- Re: angles and dihedrals in .psf file (Thu May 21 2009 - 11:28:15 CDT)
- Re: Adding two separate pdb files: Lipid Bilayer's with Protein's (Wed May 20 2009 - 16:34:45 CDT)
- Re: pdb file generated not readable by tleap (Wed May 20 2009 - 16:28:54 CDT)
- Re: Distance between COM for 2 chains for each frame of trajectory (Wed May 20 2009 - 14:05:27 CDT)
- Re: Distance between COM for 2 chains for each frame of trajectory (Wed May 20 2009 - 12:09:39 CDT)
- Re: how to load a state from the command line (Wed May 20 2009 - 09:51:47 CDT)
- Re: default colors (Wed May 20 2009 - 09:38:40 CDT)
- Re: VMD 1.8.7b3 and desktop effects on Fedora 10 (Wed May 20 2009 - 08:43:16 CDT)
- Re: Request for change in gaussian cube reader (Tue May 19 2009 - 14:32:10 CDT)
- Re: VMD 1.8.7 beta 3 posted for download... (Mon May 18 2009 - 20:29:44 CDT)
- Re: VMD as a python module (Mon May 18 2009 - 09:27:16 CDT)
- Re: vmd / python / f10 (Sun May 17 2009 - 08:37:47 CDT)
- Re: namdenergy missing for -dispdev none (vmd 1.8.6) (Fri May 15 2009 - 13:27:22 CDT)
- Re: Change requested in lammps plugin for VMD (Fri May 15 2009 - 12:32:48 CDT)
- Re: adding bonds with the mouse and writing psf (Fri May 15 2009 - 10:28:59 CDT)
- Re: How to color atom by charge (Thu May 14 2009 - 07:01:32 CDT)
- Re: Color problem. (Wed May 13 2009 - 17:45:44 CDT)
- Re: Can bonds radius be controlled by tcl command? (Wed May 13 2009 - 17:55:17 CDT)
- Re: Sphere representaion with radius from pdb field "occupancy" or "temp. fac" (Wed May 13 2009 - 05:56:32 CDT)
- Re: How to compute excluded volume using volmap? (Tue May 12 2009 - 08:47:43 CDT)
- Re: selecting waters (Mon May 11 2009 - 13:11:50 CDT)
- Re: calculate charges of the binding site residues with psfgen (Sun May 10 2009 - 07:00:29 CDT)
- Re: Thiol on gold (Fri May 08 2009 - 10:17:49 CDT)
- Re: vmd-read data from lammps (Thu May 07 2009 - 21:22:51 CDT)
- Re: Display not updated when using move() from Python in VMD 1.8.6 (Thu May 07 2009 - 10:45:00 CDT)
- Re: Display not updated when using move() from Python in VMD 1.8.6 (Thu May 07 2009 - 09:44:06 CDT)
- Re: Display not updated when using move() from Python in VMD 1.8.6 (Wed May 06 2009 - 18:18:54 CDT)
- Re: VMD 1.8.7beta1 doesn't close OpenGL window (Tue May 05 2009 - 08:26:03 CDT)
- Re: selecting ribose atoms? (Fri May 01 2009 - 19:48:34 CDT)
- Re: Size of a protein (Wed Apr 29 2009 - 16:50:25 CDT)
- Re: hydrogen bonds tcl script (Tue Apr 28 2009 - 10:17:26 CDT)
- Re: Can the CG model built from VMD be used as an Input of NAMD,GROMACS and any other MD program? (Tue Apr 28 2009 - 08:32:24 CDT)
- Re: Manipulating dcd using script in VMD (Tue Apr 28 2009 - 08:24:04 CDT)
- Re: graphics for publication (Fri Apr 24 2009 - 11:26:58 CDT)
- Re: Error processing bonds (Fri Apr 24 2009 - 08:42:34 CDT)
- Re: local packing density around a chemical group (say, a methyl group or a side chain) (Thu Apr 23 2009 - 11:27:20 CDT)
- Re: Select atoms using coordinates (Thu Apr 23 2009 - 08:48:57 CDT)
- Re: installed plugin won't show up next time (Thu Apr 23 2009 - 08:45:51 CDT)
- Re: sys.argv, python and VMD (Wed Apr 22 2009 - 10:42:58 CDT)
- Re: Secondary Structure Depiction (Tue Apr 21 2009 - 14:07:41 CDT)
- Re: Secondary Structure Depiction (Tue Apr 21 2009 - 11:23:10 CDT)
- Re: pbctools on alpha version (Sat Apr 18 2009 - 10:11:47 CDT)
- Re: Possible bug in vmd 1.8.7 alpha? (Sat Apr 18 2009 - 10:15:24 CDT)
- Re: display all frames simultaneously (Thu Apr 16 2009 - 22:11:12 CDT)
- Re: Problem in finding the HBonds (Wed Apr 15 2009 - 07:56:52 CDT)
- Re: (Tue Apr 14 2009 - 07:25:54 CDT)
- Re: install plugin: problems with vmd_install_extension (Fri Apr 10 2009 - 10:13:57 CDT)
- Re: install plugin: problems with vmd_install_extension (Fri Apr 10 2009 - 09:10:13 CDT)
- Re: within, used with pbcwrap (Fri Apr 10 2009 - 09:03:36 CDT)
- Re: about TkConsole (Tue Apr 07 2009 - 21:32:40 CDT)
- Re: about TkConsole (Tue Apr 07 2009 - 12:58:48 CDT)
- Re: OS X intel binary problem (Sun Apr 05 2009 - 09:48:37 CDT)
- Re: too many bonds (Sun Apr 05 2009 - 08:57:59 CDT)
- Re: OS X intel binary problem (Sun Apr 05 2009 - 09:05:07 CDT)
- Re: Problem with autoionize ? (Thu Apr 02 2009 - 11:46:33 CDT)
- Re: Problem with autoionize ? (Thu Apr 02 2009 - 09:25:33 CDT)
- Re: How to add heme to dowser plugin? (Mon Mar 30 2009 - 20:24:24 CDT)
- Re: openGL library (Thu Mar 26 2009 - 20:20:31 CDT)
- Re: howto select stain reveal map (Thu Mar 26 2009 - 06:41:07 CDT)
- Re: how to block psfgen warning messages (Wed Mar 25 2009 - 17:17:19 CDT)
- Re: merging atomselection (Wed Mar 25 2009 - 17:20:45 CDT)
- Re: Command line argument (Wed Mar 25 2009 - 10:57:22 CDT)
- Re: vmd_plot (Wed Mar 25 2009 - 07:47:14 CDT)
- Re: building VMD on LINUX (Tue Mar 17 2009 - 08:58:38 CDT)
- Re: rlwrap bug in Ubuntu (Sun Mar 15 2009 - 15:14:45 CDT)
- Re: rlwrap bug in Ubuntu (Sun Mar 15 2009 - 09:32:49 CDT)
- Re: regarding draw_arrow.tcl (Fri Mar 13 2009 - 09:51:23 CDT)
- Re: regarding draw_arrow.tcl (Wed Mar 11 2009 - 11:30:30 CDT)
- Re: How to use " segment " in tcl script. (Wed Mar 11 2009 - 10:15:05 CDT)
- Re: obj export (Tue Mar 10 2009 - 10:25:07 CDT)
- Re: obj export (Tue Mar 10 2009 - 09:24:01 CDT)
- Re: charmm binary ele. pot. (Mon Mar 09 2009 - 13:59:25 CDT)
- <please insert a decent subject here next time, thanks> (Mon Mar 09 2009 - 12:08:49 CDT)
- Re: charmm binary ele. pot. (Mon Mar 09 2009 - 11:57:21 CDT)
- Re: correlation (Sun Mar 08 2009 - 10:33:03 CDT)
- Re: problem with Dowser (Sat Mar 07 2009 - 20:18:42 CST)
- Re: Display issue on VMD for Linux (Wed Mar 04 2009 - 21:55:04 CST)
- Re: Problem in IMD with Compiled VMD (Wed Mar 04 2009 - 08:55:24 CST)
- Re: OpenGL Window (Wed Mar 04 2009 - 07:55:24 CST)
- Re: select atoms (Mon Mar 02 2009 - 20:24:55 CST)
- Re: Help: Installation Problem (Sat Feb 28 2009 - 07:45:27 CST)
- Re: wrong bonds during loading pdb file(protein plus lipids) (Fri Feb 27 2009 - 22:01:19 CST)
- Re: wrong bonds during loading pdb file(protein plus lipids) (Fri Feb 27 2009 - 20:47:32 CST)
- Re: (Fri Feb 27 2009 - 14:48:42 CST)
- Re: Displaying local water molecules throughout trajectory (Thu Feb 26 2009 - 15:20:50 CST)
- Re: Help: Installation Problem (Thu Feb 26 2009 - 10:57:30 CST)
- Re: embed VMD in web page (Wed Feb 25 2009 - 12:03:34 CST)
- Re: question about "measure dihed" with COM points (Tue Feb 24 2009 - 19:51:15 CST)
- Re: Adding a Water Box (Mon Feb 23 2009 - 19:00:55 CST)
- Re: Can you show me an example of the .xyz file that is used to calculate the IR spectrum (Mon Feb 23 2009 - 14:46:18 CST)
- Re: passing arguments to a vmd script which is executed using play or source (Mon Feb 23 2009 - 10:20:55 CST)
- Re: passing arguments to a vmd script which is executed using play or source (Mon Feb 23 2009 - 09:15:44 CST)
- Re: passing arguments to a vmd script which is executed using play or source (Mon Feb 23 2009 - 09:08:58 CST)
- Re: a way to create a nice image (Sun Feb 22 2009 - 11:16:17 CST)
- Re: a way to create a nice image (Sat Feb 21 2009 - 11:03:44 CST)
- Re: transparent background (Fri Feb 20 2009 - 14:39:17 CST)
- Re: converting trajectory files with catdcd in command line (Fri Feb 20 2009 - 08:02:38 CST)
- Re: "pbcwithin" keyword (Thu Feb 19 2009 - 11:00:48 CST)
- Re: change cylinder surface properties (Mon Feb 16 2009 - 18:29:11 CST)
- Re: error messages "*** glibc detected *** free(): invalid pointer" (Mon Feb 16 2009 - 12:26:19 CST)
- Re: installation (Sun Feb 15 2009 - 12:46:34 CST)
- Re: problem (Wed Feb 11 2009 - 09:01:42 CST)
- Re: Flow Fields (Tue Feb 10 2009 - 16:53:19 CST)
- Re: How to specify processors for running VMD on a cluster? (Tue Feb 10 2009 - 15:35:46 CST)
- Re: How to specify processors for running VMD on a cluster? (Tue Feb 10 2009 - 12:24:58 CST)
- Re: multiplot : integration of undrawing command (?) (Sun Feb 08 2009 - 23:48:49 CST)
- Re: Progress Bar for the Elapsed Time: rendering problem (Thu Feb 05 2009 - 17:23:40 CST)
- Re: trajectory path script (Thu Feb 05 2009 - 11:39:06 CST)
- Re: property iterate over a range (representation / draw style) (Tue Feb 03 2009 - 12:10:49 CST)
- Re: deleting specific residues or atoms (Tue Feb 03 2009 - 10:55:28 CST)
- Re: scriptable way to add hydrogens (Sat Jan 31 2009 - 17:35:53 CST)
- Re: how to set color parameters differently for different molecules (Thu Jan 29 2009 - 20:35:35 CST)
- Re: VMD & NAMD atoms naming convention? (Tue Jan 27 2009 - 08:35:34 CST)
- Re: get a PDB file from DCD file (Tue Jan 27 2009 - 08:42:18 CST)
- Re: Re: How to change title of display window? (Mon Jan 26 2009 - 12:13:13 CST)
- Re: Re: How to change title of display window? (Sun Jan 25 2009 - 21:08:18 CST)
- Re: how to set color parameters differently for different molecules (Sun Jan 25 2009 - 13:18:10 CST)
- Re: accessing bonds angles dihedrals etc lists after PSF file is read into VMD (Fri Jan 23 2009 - 16:20:30 CST)
- Re: VMD not loading in Suse 11.1 (Fri Jan 23 2009 - 09:04:18 CST)
- Re: Breaking Bonds in VMD (Tue Jan 20 2009 - 17:21:16 CST)
- Re: Test builds of VMD 1.8.7 using Tcl/Tk 8.5.x... (Tue Jan 20 2009 - 17:31:19 CST)
- Re: Problems with tcl/tk 8.5 (Tue Jan 20 2009 - 08:53:02 CST)
- Re: VMD plugin for Desmond (Tue Jan 20 2009 - 08:58:24 CST)
- Re: VMD window transparent in Opensuse 11.1 ATI system (Tue Jan 20 2009 - 08:56:12 CST)
- Re: Fwd: Tcl script (Tue Jan 20 2009 - 08:49:21 CST)
- Re: Download the newest version of VMD (Mon Jan 19 2009 - 10:09:33 CST)
- Re: XYZ trajectory with different atom types? (Fri Jan 16 2009 - 14:00:00 CST)
- Re: Data fields in vmd (Thu Jan 15 2009 - 14:10:26 CST)
- Re: Understanding topology files? (Thu Jan 15 2009 - 14:06:16 CST)
- Re: Data fields in vmd (Wed Jan 14 2009 - 14:56:10 CST)
- Re: updating DCD frames in python (Wed Jan 14 2009 - 11:11:45 CST)
- Re: center of mass (Mon Jan 12 2009 - 14:37:05 CST)
- Re: 4x4 trafo matrices to get "homo-two-protein-complex" (Mon Jan 12 2009 - 14:32:27 CST)
- Re: VMD for Linux (Mon Jan 12 2009 - 09:11:00 CST)
- Re: 4x4 trafo matrices to get "homo-two-protein-complex" (Mon Jan 12 2009 - 09:05:41 CST)
- Re: : about complexing protein and ligand! (Mon Jan 12 2009 - 08:54:21 CST)
- Re: odd render problems with Vista (Sun Jan 11 2009 - 14:37:10 CST)
- Re: odd render problems with Vista (Sun Jan 11 2009 - 14:27:58 CST)
- Re: putting a set of selections in a list or an array (Sun Jan 11 2009 - 13:53:41 CST)
- Re: cube file question (Fri Jan 09 2009 - 08:23:16 CST)
- Re: Functional Groups (Fri Jan 09 2009 - 08:16:12 CST)
- Re: measure rmsf - command (step argument) (Wed Jan 07 2009 - 10:44:18 CST)
- Re: Large dcd file (Tue Jan 06 2009 - 19:04:46 CST)
- Re: Large dcd file (Tue Jan 06 2009 - 19:01:25 CST)
- Re: eliminate atoms from psf and pdb files (Tue Jan 06 2009 - 12:33:37 CST)
- Re: changing bond color (Tue Jan 06 2009 - 12:30:19 CST)
- Re: tcl scripts in parallel in VMD? (Tue Jan 06 2009 - 10:06:25 CST)
- Re: list of all the file type keywords for "mol load"? (Mon Jan 05 2009 - 10:44:03 CST)
- Re: I need a bid trajectory please!!! (Fri Dec 26 2008 - 14:20:38 CST)
- Re: Space distribution functions (Fri Dec 26 2008 - 14:15:58 CST)
- Re: beta column format in PDB (Wed Dec 24 2008 - 15:53:27 CST)
- Re: beta column format in PDB (Wed Dec 24 2008 - 14:33:53 CST)
- Re: CHARMM to AMBER trajectory conversion (Fri Dec 19 2008 - 09:56:01 CST)
- Re: QM Geometry optimization (Wed Dec 17 2008 - 13:53:09 CST)
- Re: QM Geometry optimization (Wed Dec 17 2008 - 09:23:33 CST)
- Re: the exact definition of the keyword "radius" of the atom selection (Sat Dec 13 2008 - 16:37:11 CST)
- Re: To find the residues on each side of the protein (Wed Dec 03 2008 - 05:17:48 CST)
- Re: memory leak found (Tue Dec 02 2008 - 12:58:25 CST)
- Re: Rotation of molecules (Tue Dec 02 2008 - 11:29:25 CST)
- Re: memory leak found (Tue Dec 02 2008 - 11:23:28 CST)
- Re: transparent or translucent backgrond for images (Sun Nov 30 2008 - 05:37:01 CST)
- Re: how to prevent view reset on data load (Sun Nov 30 2008 - 05:46:45 CST)
- Re: tcl fscript or Removeing protein flucutation (Wed Nov 26 2008 - 10:24:18 CST)
- Re: Other color scales than the predefined ones? (Wed Nov 26 2008 - 10:21:02 CST)
- Re: Movie of a xyz trajectory (Wed Nov 26 2008 - 05:12:34 CST)
- Re: view only parts of the loaded volumetric data (Fri Nov 21 2008 - 05:01:21 CST)
- Re: Loading .vel file in VMD (Fri Nov 21 2008 - 03:45:39 CST)
- Re: question (Thu Nov 20 2008 - 11:55:59 CST)
- Re: running a script (Thu Nov 20 2008 - 11:54:38 CST)
- Re: representation ColorID in Tcl (Wed Nov 19 2008 - 12:24:51 CST)
- Re: General question about the memory usage of VMD (Mon Nov 17 2008 - 14:31:02 CST)
- Re: how to run catdcd from within a proc (Mon Nov 17 2008 - 12:48:52 CST)
- Re: wavefront and VMD (Mon Nov 17 2008 - 09:12:55 CST)
- Re: movie (Sun Nov 09 2008 - 11:56:35 CST)
- Re: Sequentially numbering atom names in pdb file (Wed Nov 05 2008 - 16:24:57 CST)
- Re: [Fwd: problems with manipulating control switches on VMS main menu] (Fri Oct 31 2008 - 18:05:46 CDT)
- Re: Per-frame 'graphics'? (Fri Oct 31 2008 - 16:59:44 CDT)
- Re: reading multiples molecules. (Wed Oct 29 2008 - 11:07:55 CDT)
- Re: reading multiples molecules. (Wed Oct 29 2008 - 10:14:50 CDT)
- Re: Render surface colored by electrostatic potential (Tue Oct 28 2008 - 14:03:47 CDT)
- Re: move matrix definition (Tue Oct 28 2008 - 12:14:13 CDT)
- Re: using the beta and occupancy columns as state variables (Tue Oct 28 2008 - 09:17:03 CDT)
- Re: reading multiples molecules. (Tue Oct 28 2008 - 09:20:54 CDT)
- Re: A question about the namd energy plugin of VMD (Sun Oct 26 2008 - 13:12:06 CDT)
- Re: PBCtools verison 2.3: how to obtain it? (Fri Oct 24 2008 - 10:32:16 CDT)
- Re: advanced selections (or explicit pair list) for measure gofr ? (Fri Oct 24 2008 - 10:31:13 CDT)
- Re: independent stereo display (Thu Oct 23 2008 - 14:15:13 CDT)
- Re: dcd format (Wed Oct 22 2008 - 15:59:08 CDT)
- Re: dcd format (Wed Oct 22 2008 - 14:17:22 CDT)
- RE: dcd format (Wed Oct 22 2008 - 12:49:56 CDT)
- Re: fitting structure to map generated by Volmap (Wed Oct 22 2008 - 10:38:15 CDT)
- Re: fitting structure to map generated by Volmap (Tue Oct 21 2008 - 15:53:07 CDT)
- Re: fitting structure to map generated by Volmap (Tue Oct 21 2008 - 14:53:57 CDT)
- Re: fitting structure to map generated by Volmap (Tue Oct 21 2008 - 09:01:22 CDT)
- Re: feature request (Sun Oct 19 2008 - 13:26:42 CDT)
- Re: Catdcd? (Thu Oct 16 2008 - 13:23:14 CDT)
- RE: Problem in text mode (Thu Oct 16 2008 - 09:53:50 CDT)
- Re: saving trajectories from the command line (Thu Oct 16 2008 - 09:11:17 CDT)
- Re: velocity calculations (Wed Oct 15 2008 - 11:20:33 CDT)
- Re: Deleting frames / molecules does not free up memory! (Tue Oct 14 2008 - 11:13:11 CDT)
- Re: why atomselection "protein" can not choose all the protein atoms with different alternate locations? (Mon Oct 13 2008 - 18:23:35 CDT)
- Re: How to specify color based on dihedral angle? (Mon Oct 13 2008 - 14:25:11 CDT)
- Re: CHARMM TO AMBER FORMAT CONVERT (Sun Oct 12 2008 - 19:26:18 CDT)
- Re: intersurf in vmd (Sat Oct 11 2008 - 18:44:10 CDT)
- Re: STRIDE analysis of beta-sheets in VMD (Fri Oct 10 2008 - 16:50:59 CDT)
- Re: Density distribution plots (Fri Oct 10 2008 - 16:26:20 CDT)
- Re: Question about the Main Menu window display (Fri Oct 10 2008 - 14:47:28 CDT)
- Re: loading python (Fri Oct 10 2008 - 11:37:28 CDT)
- Re: loading python (Thu Oct 09 2008 - 16:31:13 CDT)
- Re: Density distribution plots (Thu Oct 09 2008 - 14:14:57 CDT)
- Re: Fw: VMD 1.8.6 for UBUNTU 8.04LTS (Wed Oct 08 2008 - 20:57:54 CDT)
- Re: pbctools usage (Wed Oct 08 2008 - 10:23:44 CDT)
- Re: lipid tail selection (Mon Oct 06 2008 - 09:18:15 CDT)
- Re: atom type (Thu Oct 02 2008 - 13:16:47 CDT)
- Re: volumetric maps (Thu Oct 02 2008 - 10:57:45 CDT)
- Re: (Sun Sep 28 2008 - 13:15:18 CDT)
- Re: visualisation problem with bonds and PBC (Fri Sep 26 2008 - 11:46:39 CDT)
- Re: viewing an embryo (Tue Sep 23 2008 - 15:10:02 CDT)
- Re: trouble with running vmd after installation , machine gets hung (Sun Sep 21 2008 - 03:13:41 CDT)
- Re: trouble with running vmd after installation , machine gets hung (Fri Sep 19 2008 - 06:05:42 CDT)
- Re: Alias histidine residue (Sat Sep 13 2008 - 09:09:31 CDT)
- Re: Rendering problem (Fri Sep 12 2008 - 01:25:43 CDT)
- Re: long bonds (Wed Sep 10 2008 - 10:23:18 CDT)
- Re: saving charges (Mon Sep 08 2008 - 14:13:46 CDT)
- Re: Superimposition: atomselect for reverse topology (Sun Sep 07 2008 - 14:09:44 CDT)
- Re: generate psf structure (Sun Sep 07 2008 - 13:50:39 CDT)
- Re: how to draw the bonds in VMD? (Sun Sep 07 2008 - 13:41:30 CDT)
- Re: Running without interface (Thu Sep 04 2008 - 12:06:44 CDT)
- Re: newbie issues (Tue Sep 02 2008 - 14:10:19 CDT)
- Re: Merge psf and pdb (Tue Sep 02 2008 - 10:46:07 CDT)
- Re: Merge psf and pdb (Tue Sep 02 2008 - 08:15:39 CDT)
- Re: TXT program editor (Thu Aug 28 2008 - 17:51:39 CDT)
- Re: TXT program editor (Thu Aug 28 2008 - 15:50:21 CDT)
- Re: namd-l: diffusion coefficient from rmsd (Wed Aug 27 2008 - 22:39:52 CDT)
- Re: resid of water that is hydrogen bonded (Mon Aug 25 2008 - 14:56:41 CDT)
- Re: measure gofr - how is g(r) normalised? (Mon Aug 25 2008 - 15:14:35 CDT)
- Re: Failure to open PDB files (Mon Aug 25 2008 - 14:52:38 CDT)
- Re: Trouble updating frames in script (Tue Aug 19 2008 - 15:14:42 CDT)
- Re: Trouble updating frames in script (Tue Aug 19 2008 - 13:06:44 CDT)
- Re: how to call dssp in a script (Mon Aug 18 2008 - 10:42:14 CDT)
- Re: Question about trace vmd_frame(molid) (Fri Aug 15 2008 - 13:55:54 CDT)
- Re: Question about trace vmd_frame(molid) (Fri Aug 15 2008 - 12:12:03 CDT)
- Re: LAMMPS Trajectory Bond Specification (Thu Aug 14 2008 - 16:24:13 CDT)
- Re: protein-water hydrogen bonds (Tue Aug 12 2008 - 10:53:35 CDT)
- Re: protein-water hydrogen bonds (Tue Aug 12 2008 - 10:37:45 CDT)
- Re: rdf for big systems (Mon Aug 11 2008 - 13:35:11 CDT)
- Re: save selected residues (Mon Aug 11 2008 - 11:01:48 CDT)
- Re: problem controlling orientation of the simulation box drawn by pbctools (Sun Aug 10 2008 - 11:11:34 CDT)
- Re: save selected residues (Sun Aug 10 2008 - 09:48:15 CDT)
- Re: How to embed 3-D image into powerpoint (Mon Aug 04 2008 - 15:57:41 CDT)
- Re: problem using pbc wrap: broken molecule (Fri Aug 01 2008 - 16:29:59 CDT)
- Re: problem using pbc wrap: broken molecule (Fri Aug 01 2008 - 10:00:18 CDT)
- Re: vmd-rmsd-color-tool (Fri Aug 01 2008 - 09:27:35 CDT)
- Re: ionize with VMD a TOP file (Fri Aug 01 2008 - 09:28:58 CDT)
- Re: Gromacs reading: Why scaling?? (Thu Jul 31 2008 - 19:51:10 CDT)
- Re: Gromacs reading: Why scaling?? (Thu Jul 31 2008 - 19:11:11 CDT)
- Re: VMD with amber rst7 and parm7 files (Thu Jul 31 2008 - 09:02:29 CDT)
- Re: g(r) (Thu Jul 31 2008 - 08:57:34 CDT)
- Re: Vmd on Fedora 9 (Wed Jul 30 2008 - 15:24:29 CDT)
- Re: g(r) (Wed Jul 30 2008 - 14:31:55 CDT)
- Re: Vmd on Fedora 9 (Wed Jul 30 2008 - 12:18:11 CDT)
- Re: Selecting atoms that have real SASA greater than 0, Not using "Surface" (Tue Jul 29 2008 - 20:40:30 CDT)
- Re: Re: periodic boundary conditions (yes, i read the tutorials) (Mon Jul 28 2008 - 20:44:41 CDT)
- Re: solvating protein, fixed residue (Mon Jul 28 2008 - 13:52:42 CDT)
- Re: solvation and box size (Mon Jul 28 2008 - 06:30:07 CDT)
- Re: Python for OS X (Sat Jul 26 2008 - 12:56:18 CDT)
- Re: questions relating to VolMapTool (Wed Jul 23 2008 - 06:30:55 CDT)
- Re: Selecting the sides of a benzene ring (Wed Jul 23 2008 - 06:36:25 CDT)
- Re: rdf for big systems (Tue Jul 22 2008 - 19:09:09 CDT)
- Re: rdf for big systems (Tue Jul 22 2008 - 17:06:30 CDT)
- Re: Creating a VMD movie from a Tcl script (Tue Jul 22 2008 - 15:59:42 CDT)
- Re: vecsub command (Tue Jul 22 2008 - 11:48:31 CDT)
- Re: Selecting the sides of a benzene ring (Tue Jul 22 2008 - 11:45:54 CDT)
- Re: Periodic image and transformation matrix (Mon Jul 21 2008 - 19:50:24 CDT)
- Re: Missing angles and dihedrals (Mon Jul 21 2008 - 19:31:48 CDT)
- Re: Creating a VMD movie from a Tcl script (Mon Jul 21 2008 - 14:13:59 CDT)
- Re: Creating a VMD movie from a Tcl script (Mon Jul 21 2008 - 14:09:46 CDT)
- Re: Creating a VMD movie from a Tcl script (Mon Jul 21 2008 - 12:01:22 CDT)
- Re: real coordinates (Fri Jul 18 2008 - 12:08:25 CDT)
- Re: Tetrahedral representation (Wed Jul 16 2008 - 18:24:09 CDT)
- Re: Problem writing trajectory to "crd" (Amber) format? (Wed Jul 16 2008 - 09:31:59 CDT)
- Re: problem with correct visualization of residues (Tue Jul 15 2008 - 13:39:06 CDT)
- Re: problem with correct visualization of residues (Tue Jul 15 2008 - 13:21:57 CDT)
- Re: Fwd: PDB Bonds versus "distance" bonds (Tue Jul 15 2008 - 11:20:53 CDT)
- Re: speed of movie (Sun Jul 13 2008 - 15:49:02 CDT)
- Re: pick atom id script (Fri Jul 11 2008 - 09:37:49 CDT)
- Re: trajectory to xyz file. (Mon Jul 07 2008 - 15:11:30 CDT)
- Re: Dihedrale angles in VMD (Thu Jul 03 2008 - 12:24:16 CDT)
- Re: Loading Problem (Thu Jul 03 2008 - 12:28:18 CDT)
- Re: The maximal size which can be displayed by VMD? (Wed Jul 02 2008 - 16:36:57 CDT)
- Re: VMDMODULATERIBBON or sausage representation (Tue Jul 01 2008 - 14:07:42 CDT)
- Re: Mac OSX crash with bus error/segmentation fault upon loading pdb/dcd (Mon Jun 30 2008 - 13:17:20 CDT)
- Re: Error using namdstat.tcl script (Mon Jun 30 2008 - 11:42:26 CDT)
- Re: Problem of Movie Maker Plugin (Sat Jun 28 2008 - 11:19:02 CDT)
- Re: how to make a movie of 2 or more trajectories (Fri Jun 27 2008 - 20:57:18 CDT)
- Re: mutate by D-residues... (Fri Jun 27 2008 - 20:47:58 CDT)
- Re: select cylindrical slab (Fri Jun 27 2008 - 12:51:26 CDT)
- Re: Compiling from source on Mac OS X 10.5 (Fri Jun 27 2008 - 14:23:44 CDT)
- Re: Compiling from source on Mac OS X 10.5 (Fri Jun 27 2008 - 13:54:36 CDT)
- Re: vmd shuts itself down (Fri Jun 27 2008 - 09:23:12 CDT)
- Re: How to delete anwanted waters in a special area ? (Wed Jun 25 2008 - 11:51:29 CDT)
- Re: How to visualize iron and chlorine properly. (Mon Jun 23 2008 - 10:13:41 CDT)
- Re: Re: Re: PSF works in NAMD but not in VMD (Mon Jun 23 2008 - 10:18:33 CDT)
- Re: Inquiry concerning the plugin "Inorganic builder" (Mon Jun 23 2008 - 10:11:04 CDT)
- Re: how to export into postscript with MultiPlot in tcl mode? (Mon Jun 23 2008 - 10:03:21 CDT)
- Re: Re: PSF works in NAMD but not in VMD (Fri Jun 20 2008 - 09:57:37 CDT)
- Re: displaying hydrogen bonds when hydrogens are not available (Thu Jun 19 2008 - 09:31:53 CDT)
- Re: About occupancy volume maps (Thu Jun 19 2008 - 05:20:24 CDT)
- Re: Labelling Coordinates (not Atoms) (Wed Jun 18 2008 - 18:43:57 CDT)
- Re: render "color by volume" (Tue Jun 17 2008 - 18:34:28 CDT)
- Re: specify a rtf file when generating a psf file. (Tue Jun 17 2008 - 14:50:55 CDT)
- Re: render "color by volume" (Tue Jun 17 2008 - 14:51:28 CDT)
- Re: opening gromacs .gro file gives warning messsage and does not display the molecule (Tue Jun 17 2008 - 09:11:03 CDT)
- Re: Question: Too many arguments (Mon Jun 16 2008 - 09:45:36 CDT)
- Re: User defined charges with PMEpot (Fri Jun 13 2008 - 07:34:42 CDT)
- Re: User defined charges with PMEpot (Thu Jun 12 2008 - 22:24:15 CDT)
- Re: problem loading trajectory in VMD under windows XP (Tue Jun 10 2008 - 20:21:24 CDT)
- Re: IED on MacOSX 10.3.9 (Tue Jun 10 2008 - 07:03:30 CDT)
- Re: Image rendering using pov-ray (Mon Jun 09 2008 - 21:34:57 CDT)
- Re: Image rendering using pov-ray (Mon Jun 09 2008 - 21:30:35 CDT)
- Re: Dipole moment? (Sat Jun 07 2008 - 12:47:19 CDT)
- Re: Total list of Tcl features (Sat Jun 07 2008 - 09:41:05 CDT)
- Re: Total list of Tcl features (Sat Jun 07 2008 - 10:21:27 CDT)
- Re: Solvation (Fri Jun 06 2008 - 09:04:27 CDT)
- Re: Long file paths in Mac OS 10.5.3 (Wed Jun 04 2008 - 16:17:25 CDT)
- Re: Create atom selection from list of integers (Mon Jun 02 2008 - 11:08:16 CDT)
- Re: silly rmsd script doesn' t work ... (Fri May 30 2008 - 07:49:45 CDT)
- Re: Exceeded maximum number of bonds (Thu May 29 2008 - 13:54:24 CDT)
- Re: [lammps-users] MDAnalysis (slightly OT) (Tue May 27 2008 - 12:54:41 CDT)
- Re: IMD per TCL (Tue May 27 2008 - 04:39:51 CDT)
- Re: Label on Movie (Mon May 26 2008 - 14:06:52 CDT)
- Re: Label on Movie (Mon May 26 2008 - 12:02:08 CDT)
- Re: mass weighted rms fit (Sun May 25 2008 - 11:20:56 CDT)
- Re: How to discard certain atoms (Sun May 25 2008 - 07:59:23 CDT)
- Re: Measure gofr with large DCD files (Possibly use bigdcd ???) (Fri May 23 2008 - 18:59:33 CDT)
- Re: Movies using Cygwin's ImageMagick? (Thu May 22 2008 - 09:33:30 CDT)
- Re: Crystal water (Thu May 22 2008 - 05:23:24 CDT)
- Re: scale trajectory coords (Wed May 21 2008 - 22:58:01 CDT)
- Re: your mail (Wed May 21 2008 - 09:17:12 CDT)
- Re: Using NAMD Energy Plugin (Tue May 20 2008 - 07:42:39 CDT)
- Re: plot residues without hydrogen atoms (Tue May 20 2008 - 07:40:19 CDT)
- Re: Color of bond betwen atoms with different colors (Fri May 16 2008 - 16:35:50 CDT)
- Re: Slow tcl/tk script for trajectory analysis (Fri May 16 2008 - 14:46:11 CDT)
- Re: Draw in a new layer problems (Fri May 16 2008 - 10:48:12 CDT)
- Re: membrane builder (Tue May 13 2008 - 17:31:47 CDT)
- Re: Bond lengths from PDB and PSF (Mon May 12 2008 - 17:32:55 CDT)
- Re: 'within' command in VMD (Sun May 11 2008 - 13:22:18 CDT)
- Re: Recompile VMD with larger index types (Sun May 11 2008 - 11:18:17 CDT)
- Re: 'within' command in VMD (Sun May 11 2008 - 03:35:53 CDT)
- Re: Recompile VMD with larger index types (Sat May 10 2008 - 10:19:36 CDT)
- bigdcd v2.0 testers needed... (Wed May 07 2008 - 15:21:47 CDT)
- Re: Writepdb with Solvation Box (Tue May 06 2008 - 13:25:34 CDT)
- Re: memorry problem (Fri May 02 2008 - 15:04:02 CDT)
- Re: problem using pbc wrap (Tue Apr 29 2008 - 06:49:20 CDT)
- Re: Can not enter text in VMD plugin window (Fri Apr 25 2008 - 21:52:12 CDT)
- Re: Rendering Labels with Tachyon (Thu Apr 24 2008 - 17:29:10 CDT)
- Re: Rendering Labels with Tachyon (Thu Apr 24 2008 - 14:45:02 CDT)
- Re: problem with "within" command of VMD (Thu Apr 24 2008 - 08:43:19 CDT)
- Re: resolution screen in Linux (Thu Apr 24 2008 - 08:15:59 CDT)
- Re: measure distance (Wed Apr 23 2008 - 09:04:00 CDT)
- Re: memorry problem (Wed Apr 23 2008 - 06:58:42 CDT)
- Re: bug in the g(r) evaluation? (Tue Apr 22 2008 - 14:32:07 CDT)
- Re: bug in the g(r) evaluation? (Tue Apr 22 2008 - 10:10:35 CDT)
- Re: warnings during plugin build (Tue Apr 22 2008 - 05:39:59 CDT)
- RE: warnings during plugin build (Mon Apr 21 2008 - 18:45:50 CDT)
- RE: warnings during plugin build (Sun Apr 20 2008 - 13:33:29 CDT)
- RE: warnings during plugin build (Sat Apr 19 2008 - 18:40:41 CDT)
- Re: warnings during plugin build (Sat Apr 19 2008 - 09:21:04 CDT)
- Re: RMSD between two structures without the same number of atoms (Fri Apr 18 2008 - 09:20:29 CDT)
- Re: PPMTOMPEG Quality (Thu Apr 17 2008 - 16:23:34 CDT)
- Re: atomselect (Thu Apr 17 2008 - 11:07:27 CDT)
- Re: measure hbonds between protein and water - problem with periodic boundary conditions (Thu Apr 17 2008 - 04:52:29 CDT)
- Re: Trajectory title (Wed Apr 16 2008 - 11:06:05 CDT)
- Re: Timer in VMD (Tue Apr 15 2008 - 18:58:46 CDT)
- Re: catDCD (Mon Apr 14 2008 - 12:08:34 CDT)
- Re: compilation with python 2.5 and file permissions from the CVS repository (Mon Apr 14 2008 - 05:16:19 CDT)
- RE: compilation with python 2.5 and file permissions from the CVS repository (Sun Apr 13 2008 - 15:00:12 CDT)
- Re: compilation with python 2.5 and file permissions from the CVS repository (Sun Apr 13 2008 - 12:58:26 CDT)
- Re: change residue name and write a trajectory file (Thu Apr 10 2008 - 18:19:12 CDT)
- Re: some questions about the RDF plugin (Mon Apr 07 2008 - 16:01:54 CDT)
- Re: some questions about the RDF plugin (Mon Apr 07 2008 - 15:32:29 CDT)
- Re: Insall Problem VMD Linux 1.8.6 Part II! (Sun Apr 06 2008 - 23:50:58 CDT)
- Re: Install problem VMD Linux 1.8.6 (Sun Apr 06 2008 - 20:21:11 CDT)
- Re: About Tcl command (Sun Apr 06 2008 - 00:58:40 CDT)
- Re: How to read specific DCD frames directly in Fortran? (Sat Apr 05 2008 - 18:08:23 CDT)
- Re: Topology file (Fri Apr 04 2008 - 11:52:27 CDT)
- Re: Compiling VMD under Windows XP (Tue Apr 01 2008 - 06:06:22 CDT)
- Re: Compiling VMD under Windows XP (Mon Mar 31 2008 - 21:47:02 CDT)
- Re: using cvs under Windows XP (Mon Mar 31 2008 - 09:37:54 CDT)
- Re: porcupine plot (Mon Mar 31 2008 - 04:01:53 CDT)
- Re: Problems with PDB file format in VMD (Thu Mar 27 2008 - 20:42:45 CDT)
- Re: Tcl 8.5.x in upcoming versions of VMD... (Thu Mar 27 2008 - 18:14:23 CDT)
- Re: Tcl 8.5.x in upcoming versions of VMD... (Thu Mar 27 2008 - 17:32:20 CDT)
- Re: How to see the original Origin (0,0,0, coordinate) of a system (Thu Mar 27 2008 - 11:57:58 CDT)
- Re: problem with pbc (Thu Mar 27 2008 - 07:26:05 CDT)
- Re: Can VMD show the interactions between different structure part? (Thu Mar 27 2008 - 06:43:41 CDT)
- Re: problem with pbc (Thu Mar 27 2008 - 06:06:17 CDT)
- Re: Can VMD show the interactions between different structure part? (Wed Mar 26 2008 - 23:19:40 CDT)
- Re: problem with pbc (Wed Mar 26 2008 - 16:38:07 CDT)
- Re: Can we get secondary structure from PDB files? (Wed Mar 26 2008 - 06:15:42 CDT)
- Re: time correlation function (Tue Mar 25 2008 - 22:56:27 CDT)
- Re: VMD tutorial for working with solid crystals (Tue Mar 25 2008 - 13:38:06 CDT)
- RE: script to read dcd frame-at-a-time & write a selection (Mon Mar 24 2008 - 20:07:35 CDT)
- RE: script to read dcd frame-at-a-time & write a selection (Mon Mar 24 2008 - 19:53:36 CDT)
- RE: script to read dcd frame-at-a-time & write a selection (Mon Mar 24 2008 - 19:22:30 CDT)
- Re: script to read dcd frame-at-a-time & write a selection (Mon Mar 24 2008 - 17:43:28 CDT)
- Re: atoms with changing colors (Thu Mar 20 2008 - 17:05:53 CDT)
- Re: RMSD calc (Thu Mar 20 2008 - 05:37:31 CDT)
- Re: Calculating the Tilt Angle of a non-helical peptide (Wed Mar 19 2008 - 21:52:58 CDT)
- Re: Calculating the Tilt Angle of a non-helical peptide (Wed Mar 19 2008 - 21:07:06 CDT)
- Re: Build a VMD forum? (Wed Mar 19 2008 - 16:08:27 CDT)
- Re: Radial Density (Wed Mar 19 2008 - 11:48:49 CDT)
- Re: dipole (Wed Mar 19 2008 - 07:32:17 CDT)
- Re: Diffusion Constant (Wed Mar 19 2008 - 06:09:56 CDT)
- Re: Diffusion Constant (Tue Mar 18 2008 - 22:59:53 CDT)
- Re: Display bond breaking (Tue Mar 18 2008 - 22:25:27 CDT)
- Re: DLPOLY HISTORY FILE in VMD (Tue Mar 18 2008 - 11:23:31 CDT)
- RE: closewater.tcl (Mon Mar 17 2008 - 16:02:02 CDT)
- Re: GLSL lost (Mon Mar 17 2008 - 13:59:35 CDT)
- RE: different numbers of frames even though... (Fri Mar 14 2008 - 13:05:03 CDT)
- Re: different numbers of frames even though... (Fri Mar 14 2008 - 09:49:00 CDT)
- Re: ramaplot (Fri Mar 14 2008 - 09:37:41 CDT)
- Re: Does VMD support to draw a velocity field diagram? (Thu Mar 13 2008 - 18:03:54 CDT)
- Re: snapshot not compatible with -dispdev text? (Mon Mar 10 2008 - 17:35:52 CDT)
- Re: Automatically zoom so that the protein fill the display (Mon Mar 10 2008 - 13:50:50 CDT)
- Re: pbc join (Sun Mar 09 2008 - 23:57:35 CDT)
- Re: radial density over one frame (Sun Mar 09 2008 - 15:49:17 CDT)
- Re: compile problem for VMD1.8.6: OpenGLRenderer.C (Sat Mar 08 2008 - 20:51:50 CST)
- Re: calculate volume (Sat Mar 08 2008 - 12:29:19 CST)
- Re: how to make smooth movies ? (Fri Mar 07 2008 - 10:40:59 CST)
- Re: Using RMSDTT in a script and aligning volume data (Fri Mar 07 2008 - 10:23:46 CST)
- Re: H2 bond distances calculation n displaying image (Fri Mar 07 2008 - 10:16:05 CST)
- Re: RMSD trajectory Tool (Thu Mar 06 2008 - 07:48:05 CST)
- Re: radial distribution function and number integrals (Wed Mar 05 2008 - 21:54:46 CST)
- Re: radial distribution function and number integrals (Wed Mar 05 2008 - 16:34:14 CST)
- Re: running vmd in parallel (Wed Mar 05 2008 - 12:37:02 CST)
- Re: radial distribution function and number integrals (Wed Mar 05 2008 - 12:45:36 CST)
- Re: VMD languaje information (Tue Mar 04 2008 - 11:57:08 CST)
- Re: missing basic tutorials for VMD scripting? (Sat Mar 01 2008 - 06:49:32 CST)
- Re: unusual bond between the cysteine and arginine residue during the simulation (Fri Feb 29 2008 - 13:47:55 CST)
- Re: no convergence in align (Fri Feb 29 2008 - 09:25:23 CST)
- Re: periodic images for trajectory (Wed Feb 27 2008 - 05:07:04 CST)
- Re: Compute force between two atoms (Tue Feb 26 2008 - 21:42:48 CST)
- Re: more on lammps and VMD coordinates (Tue Feb 26 2008 - 12:08:13 CST)
- Re: control drawing method (Mon Feb 25 2008 - 14:51:57 CST)
- Re: How to get rubber-like surface with Tachyon renderer (Mon Feb 25 2008 - 11:21:09 CST)
- Re: classify and compute the forces between two atoms (Mon Feb 25 2008 - 10:08:44 CST)
- Re: How to get rubber-like surface with Tachyon renderer (Mon Feb 25 2008 - 10:13:33 CST)
- Re: Changing a structure of macromolecule with VMD (Sun Feb 24 2008 - 11:36:04 CST)
- Re: visualizing disulphide bonds (Sun Feb 24 2008 - 06:21:41 CST)
- Re: Ramachandran plot tcl script (Sat Feb 23 2008 - 17:17:38 CST)
- Re: Residue replacement question] (Sat Feb 23 2008 - 17:29:35 CST)
- Re: vmd snapshots without display (Fri Feb 22 2008 - 11:41:19 CST)
- Re: movie generation without runtime frame show (Fri Feb 22 2008 - 06:54:42 CST)
- Re: monitor helicity change (Thu Feb 21 2008 - 22:40:02 CST)
- Re: VASP CHGCAR (Thu Feb 21 2008 - 17:18:50 CST)
- Re: VASP CHGCAR (Thu Feb 21 2008 - 15:35:07 CST)
- Re: couldn't fork child process: not enough memory (Thu Feb 21 2008 - 15:28:16 CST)
- Re: defining bonds (Thu Feb 21 2008 - 15:17:50 CST)
- Re: gromacs trajectory files (Thu Feb 21 2008 - 06:58:52 CST)
- Re: Selection in VMD Graphical representation (Wed Feb 20 2008 - 12:05:29 CST)
- Re: how to set molinfo from python (Tue Feb 19 2008 - 10:49:17 CST)
- Re: tcl script memory problem - NOT in atomselect (Tue Feb 19 2008 - 07:35:20 CST)
- Re: VMD limitation for loading large trajectory file (Fri Feb 15 2008 - 17:00:40 CST)
- Re: Unable to see VDW , CPK representations (Fri Feb 15 2008 - 16:51:34 CST)
- Re: display of periodic DCD information/PBCTOOL (Fri Feb 15 2008 - 12:22:40 CST)
- Re: Volume data formats (Thu Feb 14 2008 - 12:23:56 CST)
- Re: FieldLines (Tue Feb 12 2008 - 09:53:36 CST)
- Re: installation problem vmd 1.8.6 on fedora 3 (Sat Feb 09 2008 - 07:57:27 CST)
- Re: heuristic bond computation (Fri Feb 08 2008 - 08:03:31 CST)
- Re: heuristic bond computation (Thu Feb 07 2008 - 22:16:18 CST)
- Re: vmd maxAtom (Thu Feb 07 2008 - 05:58:14 CST)
- Re: vmd maxAtom (Wed Feb 06 2008 - 10:47:56 CST)
- Re: merge pdb (Wed Feb 06 2008 - 10:41:43 CST)
- Re: namd help? (Tue Feb 05 2008 - 12:54:36 CST)
- Re: Displaying Counter Alongside Animation (Tue Feb 05 2008 - 03:23:44 CST)
- Re: Question about geometrical figures (Fri Feb 01 2008 - 11:28:35 CST)
- Re: Rdf from a specific point (Fri Feb 01 2008 - 11:48:12 CST)
- Re: question about 'measure bond' (Fri Feb 01 2008 - 09:46:30 CST)
- Re: Rdf from a specific point (Fri Feb 01 2008 - 08:55:39 CST)
- Re: animation of an atom diffusion inside a bulk crystal (Fri Feb 01 2008 - 05:01:33 CST)
- Re: Percentage Helicity calculation in VMD (Thu Jan 31 2008 - 23:37:28 CST)
- Re: Sasa script in python returns "Runtime error" (Wed Jan 30 2008 - 10:24:55 CST)
- Re: Sasa script in python returns "Runtime error" (Wed Jan 30 2008 - 10:28:57 CST)
- Re: Sasa script in python returns "Runtime error" (Wed Jan 30 2008 - 09:01:21 CST)
- Re: Sasa script in python returns "Runtime error" (Tue Jan 29 2008 - 11:19:17 CST)
- Re: your mail (Mon Jan 28 2008 - 19:36:38 CST)
- Re: where is the "move" procedure in the toturial (Mon Jan 28 2008 - 09:08:25 CST)
- Re: VMD 1.8.6, XTC format on Mac OS X 10.5.1 (Sat Jan 26 2008 - 13:29:35 CST)
- Re: MSVC Projects Corrupt and Missing (Thu Jan 24 2008 - 22:42:47 CST)
- Re: proximity of residues (Wed Jan 23 2008 - 04:56:19 CST)
- Re: proximity of residues (Wed Jan 23 2008 - 03:49:49 CST)
- Re: delatom "no segment..." (Tue Jan 22 2008 - 05:49:32 CST)
- Re: SSE from the protein sequence (Mon Jan 21 2008 - 09:53:10 CST)
- Re: visualizing a simple polymer chain via VMD (Wed Jan 16 2008 - 12:58:17 CST)
- Re: visualizing a simple polymer chain via VMD (Wed Jan 16 2008 - 12:26:08 CST)
- Re: replace molecule? (Wed Jan 16 2008 - 11:02:32 CST)
- Re: how to load a molecule in pdb format and save in mol2 format in batch mode (Mon Jan 14 2008 - 03:39:58 CST)
- Re: Export VMD graphics to POV-Ray (Fri Jan 11 2008 - 11:59:04 CST)
- Re: Is there any way to diagonalize a 3x3 matrix in VMD,.......... (Wed Jan 09 2008 - 14:54:33 CST)
- Re: connectivity problem (Wed Jan 09 2008 - 10:09:35 CST)
- Re: How to choose part of the volume data for isosurface visualization? (Tue Jan 08 2008 - 11:37:29 CST)
- Re: Question about Gromacs box size in VMD..... (Thu Jan 03 2008 - 08:24:07 CST)
- Re: select atoms between molecules (Wed Jan 02 2008 - 11:46:13 CST)
- Re: Selecting water molecules within 5 ang in a trajectory( generated by amber). (Wed Dec 26 2007 - 14:12:05 CST)
- Re: VMD movie from XYZ coordinate if file has two type of atoms] (Tue Dec 11 2007 - 21:50:14 CST)
- Re: helical construction (Mon Dec 10 2007 - 15:26:30 CST)
- Re: Finding the length of multiple small molecules (Sat Dec 08 2007 - 16:03:07 CST)
- Re: Re: problem with the new cartoon representation mode (Sat Dec 08 2007 - 16:08:22 CST)
- Re: problem with the new cartoon representation mode (Sat Dec 08 2007 - 14:37:00 CST)
- Re: Finding the length of multiple small molecules (Fri Dec 07 2007 - 14:19:47 CST)
- Re: drawing trajectory of a molecule (Fri Dec 07 2007 - 09:20:28 CST)
- Re: Making movies in VMD (Wed Dec 05 2007 - 19:45:54 CST)
- Re: Making movies in VMD (Wed Dec 05 2007 - 19:16:40 CST)
- Re: Render Snapshot from the Tcl console (jpg gif format) (Sun Dec 02 2007 - 20:34:21 CST)
- Re: Timeline viewer (Sat Dec 01 2007 - 18:33:58 CST)
- Re: Timeline viewer (Fri Nov 30 2007 - 15:31:56 CST)
- Re: Command to change background to gradient (Fri Nov 30 2007 - 06:15:44 CST)
- Re: Intersurf and interface residues (Thu Nov 29 2007 - 04:08:08 CST)
- Re: Suspected SpamFR:RE: cave (Mon Nov 26 2007 - 04:28:18 CST)
- RE: cave (Sun Nov 25 2007 - 12:58:47 CST)
- Re: Hydrophobicity plots in VMD (Sun Nov 25 2007 - 12:49:29 CST)
- Re: Delete overlapping residues (Sat Nov 24 2007 - 17:30:22 CST)
- Re: Trying to get VMD to run locally while logged into a remote machine (Wed Nov 21 2007 - 16:35:50 CST)
- Re: Calculate density (Wed Nov 21 2007 - 14:20:15 CST)
- Re: gui RMSD vs text RMSD calcs differ b/c ddiff backbone atom definitions (Sat Nov 17 2007 - 00:11:54 CST)
- Re: vmd 1.8.6 doesn't run on Fedora Core 7 EMT64 (Fri Nov 16 2007 - 23:56:37 CST)
- Re: combine.tcl membrane plugin (Thu Nov 15 2007 - 22:47:21 CST)
- Re: combine.tcl membrane plugin (Thu Nov 15 2007 - 03:33:31 CST)
- RE: OpenGL Display (Wed Nov 14 2007 - 23:53:07 CST)
- Re: combine.tcl membrane plugin (Wed Nov 14 2007 - 20:40:06 CST)
- Re: installed vmd_LINUXIA64 but recieve error : /usr/local/vmd/vmd_LINUX: command not found (Wed Nov 14 2007 - 20:34:06 CST)
- Re: OpenGL Display (Wed Nov 14 2007 - 04:09:40 CST)
- Re: Dynamic bonds and H2 molecules. (Wed Nov 14 2007 - 04:07:00 CST)
- Re: installed vmd_LINUXIA64 but recieve error : /usr/local/vmd/vmd_LINUX: command not found (Tue Nov 13 2007 - 23:50:04 CST)
- Re: problem with colouring the surface with electroststic potential (Tue Nov 13 2007 - 02:15:54 CST)
- Re: stride binaries for windows XP OS (Tue Nov 13 2007 - 02:27:33 CST)
- Re: problems with atomselect: missing selection (Mon Nov 12 2007 - 06:38:01 CST)
- Re: Generatin PSF for alkanes (Sun Nov 11 2007 - 00:54:50 CST)
- Re: merging two pdb files (Thu Nov 08 2007 - 21:55:17 CST)
- Re: merging two pdb files (Thu Nov 08 2007 - 21:50:10 CST)
- Re: molfile reader plugin woes (Thu Nov 08 2007 - 06:44:28 CST)
- Re: merging two pdb files (Thu Nov 08 2007 - 06:39:05 CST)
- Re: cloning a molecule (Mon Nov 05 2007 - 00:35:27 CST)
- Re: NAMD trajectories in VMD (Fri Oct 26 2007 - 12:22:32 CDT)
- Re: Color by Volume on an Intel 945GM (Sat Oct 20 2007 - 15:44:39 CDT)
- Re: how to remove chain id ? (Sat Oct 20 2007 - 14:00:02 CDT)
- Re: how to remove chain id ? (Sat Oct 20 2007 - 08:33:05 CDT)
- Re: Extracting IR spectra from trajectories (Fri Oct 19 2007 - 15:30:50 CDT)
- Re: Is catdcd running on Windows? (Wed Oct 17 2007 - 06:34:45 CDT)
- Re: Problems Opening Large .dx File (Mon Oct 15 2007 - 15:56:28 CDT)
- Re: setting unit cell dimensions (Mon Oct 15 2007 - 03:54:49 CDT)
- Re: VMD access using XWIN32 or X-Deep (Fri Oct 12 2007 - 14:08:30 CDT)
- Re: Cube Files - proportion of the electron density (Tue Oct 09 2007 - 16:40:25 CDT)
- Re: You are right. That's the problem. (Mon Oct 08 2007 - 12:10:07 CDT)
- Re: Normal VMD crashed when pdb load but Debug mode works (Mon Oct 08 2007 - 11:41:09 CDT)
- Re: the representation of within 10 angstrom of a specific point (Sun Oct 07 2007 - 23:48:36 CDT)
- Re: Cube Files - proportion of the electron density (Sun Oct 07 2007 - 18:14:00 CDT)
- Re: NAMDENERGY analysis (Thu Oct 04 2007 - 15:34:32 CDT)
- Re: Installation and running on VMD on Debian Testing System (Wed Oct 03 2007 - 12:42:25 CDT)
- Re: hbonds (how to count) (Wed Oct 03 2007 - 06:29:53 CDT)
- Re: Storing multiple values in the user field (Fri Sep 28 2007 - 16:17:09 CDT)
- behavior of "mol addfile first/last" with non-integer frame numbers (Thu Sep 27 2007 - 19:35:40 CDT)
- Re: atom index number (Thu Sep 27 2007 - 02:42:42 CDT)
- Re: Time series for SASA calculation: (Wed Sep 26 2007 - 20:01:35 CDT)
- Re: residue selection: conflict between resid and residue (Fri Sep 21 2007 - 17:08:32 CDT)
- Re: residue selection: conflict between resid and residue (Fri Sep 21 2007 - 13:15:29 CDT)
- Re: output of distances between atoms or coordinates (Thu Sep 20 2007 - 10:20:08 CDT)
- Re: sidechain correlated motions (Thu Sep 20 2007 - 09:42:59 CDT)
- Re: change the representation of certain atoms which pass a geometric criterion during a movie (Tue Sep 18 2007 - 08:34:29 CDT)
- Re: VMD text mode version (Fri Sep 14 2007 - 10:09:50 CDT)
- Re: Questions abt VMD plugins (Fri Sep 14 2007 - 10:06:06 CDT)
- Re: secondary structure colors in timeline plugin (Fri Sep 14 2007 - 07:46:50 CDT)
- Re: VMD on Playstation 3 (Fri Sep 14 2007 - 07:39:16 CDT)
- Re: Problems with a multiple orbital cube file (Fri Sep 14 2007 - 07:32:14 CDT)
- Re: VMD Images and Movies Tutorial: Working With Trajectories (Thu Sep 13 2007 - 09:04:08 CDT)
- Re: GLSL rendering mode is NOT available (Mon Sep 10 2007 - 09:28:37 CDT)
- Re: Further angle question (Sat Sep 08 2007 - 20:37:28 CDT)
- Re: vmdbasename: Undefined variable (Sat Sep 08 2007 - 20:39:56 CDT)
- Re: Computing angles (Fri Sep 07 2007 - 17:27:26 CDT)
- Re: is it possible to skip frame when using bigdcd (Fri Sep 07 2007 - 07:56:23 CDT)
- Re: the console window is automatically closed without any error messages (Thu Sep 06 2007 - 12:50:08 CDT)
- Re: Solvate package (Wed Sep 05 2007 - 14:05:45 CDT)
- Re: regular expression in Tcl (Tue Sep 04 2007 - 09:12:58 CDT)
- Re: advanced python console (Tue Sep 04 2007 - 09:18:34 CDT)
- Re: Problem with saving coordinate (Fri Aug 31 2007 - 00:17:25 CDT)
- Re: numbonds (Tue Aug 28 2007 - 12:05:46 CDT)
- Re: automating graphic representations (Fri Aug 24 2007 - 13:08:44 CDT)
- Re: Selection within VMD (Wed Aug 22 2007 - 14:12:59 CDT)
- Re: automating graphic representations (Wed Aug 22 2007 - 13:33:03 CDT)
- Re: Selecting the N-closest Waters (Tue Aug 21 2007 - 20:35:16 CDT)
- Re: Selecting the N-closest Waters (Tue Aug 21 2007 - 18:23:55 CDT)
- Re: Selecting the N-closest Waters (Tue Aug 21 2007 - 19:26:57 CDT)
- Re: How to load packages from tcllib into VMD (Tue Aug 21 2007 - 08:13:00 CDT)
- Re: How to load packages from tcllib into VMD (Mon Aug 20 2007 - 18:43:53 CDT)
- Re: Changing the Index values of a molecule (the differenece between gro and pdb files) (Wed Aug 15 2007 - 12:51:30 CDT)
- Re: Very peculiar problem with bigdcd if not running interactively (post moved over from namd forum) (Wed Aug 15 2007 - 10:47:46 CDT)
- Re: Installing VMD to work with MSMS (Tue Aug 14 2007 - 11:31:49 CDT)
- Re: Re: help with badwater script (Mon Aug 13 2007 - 19:08:30 CDT)
- Re: Running a vmd tcl script in the background (Mon Aug 13 2007 - 19:11:53 CDT)
- Re: problem regarding stride (Mon Aug 13 2007 - 11:06:48 CDT)
- Re: VMD plugin error src/webpdbplugin.c (Sun Aug 12 2007 - 18:06:37 CDT)
- Re: gmake invalid option --c install (Sat Aug 11 2007 - 13:46:01 CDT)
- Re: problem regarding stride (Sat Aug 11 2007 - 12:51:55 CDT)
- Re: gmake invalid option --c install (Sat Aug 11 2007 - 11:38:48 CDT)
- RE: bilayer thickness in simulation of POPC membranes (Sat Aug 11 2007 - 11:33:51 CDT)
- Re: how to make user input during runtime of a tcl program using TkConsole? (Fri Aug 10 2007 - 10:20:47 CDT)
- Re: Corrupt cpmd-vmd.pdf File? (Thu Aug 09 2007 - 16:39:02 CDT)
- Re: radial density (Thu Aug 09 2007 - 09:23:39 CDT)
- Re: Writing MolFile plugin for CIF (Wed Aug 08 2007 - 09:40:14 CDT)
- Re: within and exwithin macro (Tue Aug 07 2007 - 15:18:02 CDT)
- Re: CNT Analysis (Tue Aug 07 2007 - 08:54:06 CDT)
- Re: within and exwithin macro (Tue Aug 07 2007 - 08:46:49 CDT)
- Re: within and exwithin macro (Tue Aug 07 2007 - 08:26:18 CDT)
- Re: a problem with installation (to generate the Makefile ) (Tue Aug 07 2007 - 08:15:36 CDT)
- Re: Automatic PSF Builder Help (Mon Aug 06 2007 - 11:29:16 CDT)
- Re: chloroform box (Sun Aug 05 2007 - 12:35:15 CDT)
- Re: Loading files into already-running version of VMD from command prompt (Sat Aug 04 2007 - 16:04:31 CDT)
- Re: chloroform box (Sat Aug 04 2007 - 11:38:10 CDT)
- Re: save state fails (Thu Aug 02 2007 - 10:40:25 CDT)
- Re: eigen values (Thu Aug 02 2007 - 11:51:00 CDT)
- Re: coloring selected chains and residues (Mon Jul 30 2007 - 19:00:55 CDT)
- Re: Tachyon doesn't take into account ColorID (Mon Jul 30 2007 - 14:17:13 CDT)
- Re: PBC problem in gofr (Mon Jul 30 2007 - 08:57:10 CDT)
- Re: can't add packages (Sat Jul 28 2007 - 17:32:46 CDT)
- Re: orientation of hexahedrons parallelepipeds unit cells relative to x,y axes (Sat Jul 28 2007 - 17:24:08 CDT)
- Re: frame number input in tcl and direct mol graph display update (II) (Fri Jul 27 2007 - 13:56:05 CDT)
- Re: Wrap only whole molecules (Fri Jul 27 2007 - 13:26:06 CDT)
- Re: nonstandard solvate + cyclic peptides in explicit DMSO box + gofr (Thu Jul 26 2007 - 11:48:08 CDT)
- Re: deposition simulation from lammps (Thu Jul 26 2007 - 12:53:39 CDT)
- Re: Boundry Dimensions for Solvation (Thu Jul 26 2007 - 11:41:04 CDT)
- Re: how to wrap trajectory into truncated octahedral box (Thu Jul 26 2007 - 11:50:43 CDT)
- Re: ntermolecular atomselection (Thu Jul 26 2007 - 11:35:46 CDT)
- Re: how to run VMD on IBM machines (Wed Jul 25 2007 - 11:04:02 CDT)
- Re: Reading a pdbqt file (generated from AutoDock) (Fri Jul 20 2007 - 00:02:24 CDT)
- Re: Writing out .dcd for discontinous frames (Thu Jul 19 2007 - 06:14:19 CDT)
- Re: Setting modstyle volumeslice options via tk console (Wed Jul 18 2007 - 16:27:47 CDT)
- Re: Language definitions - \usepackage{listings} (Tue Jul 17 2007 - 07:11:54 CDT)
- Re: Regarding APBS calculation in VMD (Tue Jul 17 2007 - 07:43:04 CDT)
- Re: Re: missing cell length on DCD (Sat Jul 14 2007 - 11:42:08 CDT)
- Re: RDF calculations (Fri Jul 13 2007 - 17:38:35 CDT)
- Re: how to save a list in a file (Fri Jul 13 2007 - 13:04:16 CDT)
- Re: exporting xyz file (Thu Jul 12 2007 - 10:37:40 CDT)
- Re: frame number input in tcl and direct mol graph display update (Thu Jul 12 2007 - 10:03:43 CDT)
- Re: exporting xyz file (Thu Jul 12 2007 - 09:58:32 CDT)
- Re: shifting of the origin (Wed Jul 11 2007 - 10:49:47 CDT)
- Re: shifting of the origin (Wed Jul 11 2007 - 09:22:41 CDT)
- Re: displaying velocity from dlpoly history (Tue Jul 10 2007 - 15:07:16 CDT)
- Re: atomselect (Tue Jul 10 2007 - 08:49:38 CDT)
- Re: Using multiple CPUS (Mon Jul 09 2007 - 14:12:00 CDT)
- Re: need help (Mon Jul 09 2007 - 09:25:03 CDT)
- Re: vmd crashes on startup (Fri Jul 06 2007 - 12:51:55 CDT)
- Re: command line dcd to trr? (Fri Jul 06 2007 - 08:26:37 CDT)
- Re: Divide by Zero Error , but can't find the zero! (Thu Jul 05 2007 - 14:53:16 CDT)
- Re: calculation limit of gofr? (Thu Jul 05 2007 - 09:47:43 CDT)
- Re: Video card query (Thu Jul 05 2007 - 09:42:37 CDT)
- Re: Broken tube drawing method? (Thu Jul 05 2007 - 09:24:39 CDT)
- Re: vmd crashes on startup (Wed Jul 04 2007 - 15:55:33 CDT)
- Re: How to display boundary crossing bonds? (Wed Jul 04 2007 - 11:51:57 CDT)
- Re: developing plugins to vmd in python (Tue Jul 03 2007 - 09:25:33 CDT)
- Re: how to calculate hydrogen bond? (Sun Jul 01 2007 - 21:34:56 CDT)
- Re: vmd and amber (Thu Jun 28 2007 - 16:14:49 CDT)
- Re: get charge (Thu Jun 28 2007 - 12:27:43 CDT)
- Re: generate surface figure (Thu Jun 28 2007 - 12:25:30 CDT)
- Re: parallel capabilities (Tue Jun 26 2007 - 16:24:22 CDT)
- Re: parallel capabilities (Tue Jun 26 2007 - 14:14:27 CDT)
- redefining macros vs. update of selections (Mon Jun 25 2007 - 19:28:53 CDT)
- Re: Using VMD just to plot some coordinates from a mathematical/geometrical model (Sat Jun 23 2007 - 09:23:20 CDT)
- Re: Text/Labels on ray tracing external renderer (Fri Jun 22 2007 - 14:26:00 CDT)
- Re: VMD 1.8.6 Not Responding! (Thu Jun 21 2007 - 10:37:44 CDT)
- Re: Script to rendering ANISOU records in VMD (Tue Jun 19 2007 - 22:08:55 CDT)
- Re: VMD 1.8.6 Not Responding! (Mon Jun 18 2007 - 09:49:47 CDT)
- Re: use animatepdbs.tcl to include APBS potential maps (Mon Jun 11 2007 - 11:22:01 CDT)
- Re: use animatepdbs.tcl to include APBS potential maps (Sun Jun 10 2007 - 15:00:58 CDT)
- Re: Python Module (Fri Jun 08 2007 - 08:35:04 CDT)
- Re: release memory in TCL (Thu Jun 07 2007 - 18:59:10 CDT)
- Re: Python Module (Thu Jun 07 2007 - 17:50:14 CDT)
- Re: release memory in TCL (Thu Jun 07 2007 - 17:46:50 CDT)
- Re: traj not visualized but pdb is visualized (Thu Jun 07 2007 - 08:29:33 CDT)
- Re: .xyz file, namelist index too large error (Wed Jun 06 2007 - 19:00:56 CDT)
- Re: release memory in TCL (Wed Jun 06 2007 - 16:35:17 CDT)
- Re: Measuring hbonds between selections from different molecules (Tue Jun 05 2007 - 20:09:49 CDT)
- Re: Measuring hbonds between selections from different molecules (Tue Jun 05 2007 - 19:41:24 CDT)
- Re: Fwd: vmd installation Linux Debian i386 (Tue Jun 05 2007 - 17:43:49 CDT)
- Re: Fwd: Linux installation issue (Tue Jun 05 2007 - 10:00:17 CDT)
- Re: VMD-Main window doesn't load after change in .vmdrc (Mon Jun 04 2007 - 20:12:25 CDT)
- Re: Distance measurement via measure bond (Mon Jun 04 2007 - 10:26:18 CDT)
- Re: parameters file of POPC (Mon Jun 04 2007 - 09:17:02 CDT)
- Re: Installing VMD 1.8.6 (Mon Jun 04 2007 - 08:03:30 CDT)
- Re: Using regular expressions on tcl atomselection (Thu May 31 2007 - 17:17:25 CDT)
- Re: lipid Scd order parameter for a large bilayer (1440 lipids) with a changing bilayer normal (ie. bilayer undulations) (Wed May 30 2007 - 14:14:08 CDT)
- Re: pqr files---- (Tue May 29 2007 - 18:49:38 CDT)
- Re: Installation Error Involving TLC (Mon May 28 2007 - 15:36:40 CDT)
- Re: Problem with bondsrecalc (Mon May 28 2007 - 13:17:22 CDT)
- Re: How to use remote GLSL rendering capabilities? (Mon May 28 2007 - 10:51:07 CDT)
- Re: help on trajectory density map (Mon May 28 2007 - 10:40:12 CDT)
- Re: Fwd: Linux installation issue (Sat May 26 2007 - 15:41:24 CDT)
- Re: Fwd: Linux installation issue (Sat May 26 2007 - 15:36:40 CDT)
- Re: Linux installation issue (Sat May 26 2007 - 15:32:59 CDT)
- Re: problem with installing VMD on a LINUX cluster (Fri May 25 2007 - 17:00:20 CDT)
- Re: Installation Error Involving TLC (Fri May 25 2007 - 13:23:11 CDT)
- Re: (Fri May 25 2007 - 11:00:48 CDT)
- Re: fortran/tcl (Fri May 25 2007 - 10:55:50 CDT)
- Re: How to use remote GLSL rendering capabilities? (Thu May 24 2007 - 17:38:36 CDT)
- Re: VMD installation (Thu May 24 2007 - 16:13:53 CDT)
- Re: Displaying the periodic box ... (Thu May 24 2007 - 09:19:44 CDT)
- Re: questions about developing a plugin (Thu May 24 2007 - 08:19:04 CDT)
- Re: questions about developing a plugin (Thu May 24 2007 - 08:02:33 CDT)
- Re: questions about developing a plugin (Wed May 23 2007 - 16:19:17 CDT)
- Re: Customized radii (Tue May 22 2007 - 12:56:58 CDT)
- Re: show atom number in xyz file (Tue May 22 2007 - 07:33:34 CDT)
- Re: vmd movies in powerpoint (Sun May 20 2007 - 12:23:32 CDT)
- Re: help on writing a tcl script (Sat May 19 2007 - 12:28:29 CDT)
- Re: help on writing a tcl script (Fri May 18 2007 - 11:22:27 CDT)
- Re: Questions on VMD (Thu May 17 2007 - 16:32:05 CDT)
- Re: how to make a movie using Principal Component Analysis (Wed May 16 2007 - 20:16:00 CDT)
- Re: question about making movies (Wed May 16 2007 - 13:39:13 CDT)
- Re: a gas box (Tue May 15 2007 - 08:22:16 CDT)
- Re: GLSL rendering problems (??) (Mon May 14 2007 - 13:03:49 CDT)
- Re: GLSL rendering problems (??) (Mon May 14 2007 - 11:04:34 CDT)
- Re: how to caculate the hydrogen bonds occupancy? (Sun May 13 2007 - 14:46:04 CDT)
- Re: files for air (Fri May 11 2007 - 07:46:23 CDT)
- Re: Fwd: vmd first installation (Fri May 11 2007 - 07:21:43 CDT)
- Re: Consider fluctuating volume for density (Thu May 10 2007 - 09:45:04 CDT)
- Re: a air box (Thu May 10 2007 - 09:22:45 CDT)
- Re: Problem loading pdb file on VMD (Wed May 09 2007 - 19:21:40 CDT)
- Re: Problem loading pdb file on VMD (Wed May 09 2007 - 17:43:45 CDT)
- Re: Fwd: vmd first installation (Wed May 09 2007 - 16:41:10 CDT)
- Re: pbcunwrap, DL_POLY v 3 (Wed May 09 2007 - 07:42:23 CDT)
- Re: Problem loading pdb file on VMD (Wed May 09 2007 - 07:38:54 CDT)
- Re: Problem loading pdb file on VMD (Wed May 09 2007 - 07:37:56 CDT)
- Re: color by frame? (Mon May 07 2007 - 08:47:16 CDT)
- Re: problem using bigdcd.tcl script does not run beyond the first frame no error reported (Mon May 07 2007 - 08:36:50 CDT)
- Re: How to align a protein normal to lipid bilayer (Fri May 04 2007 - 08:53:30 CDT)
- Re: (Thu May 03 2007 - 17:00:48 CDT)
- Re: vmd-1:how to merge two proteins (receptor & ligand) (Thu May 03 2007 - 16:01:46 CDT)
- Re: dumb movie maker question (Thu May 03 2007 - 10:16:10 CDT)
- Re: a water box containing only the absorbent heads of (Thu May 03 2007 - 07:44:05 CDT)
- Re: Problem with periodic condition (Mon Apr 30 2007 - 15:47:12 CDT)
- Re: Visualization and reading problems (Sun Apr 29 2007 - 13:41:54 CDT)
- Re: increase light under depth cueing (Sun Apr 29 2007 - 12:43:19 CDT)
- Re: increase light under depth cueing (Sat Apr 28 2007 - 17:45:36 CDT)
- Re: Problem with periodic condition (Sat Apr 28 2007 - 16:15:06 CDT)
- Re: Problem with periodic condition (Fri Apr 27 2007 - 14:42:33 CDT)
- Re: Dynamic 'Determine file type' list in main menu !?! (Fri Apr 27 2007 - 09:02:09 CDT)
- Re: H-bonds (Tue Apr 24 2007 - 11:28:31 CDT)
- Re: Variable number of atoms in xyz file (Tue Apr 24 2007 - 09:21:45 CDT)
- Re: About openning a file to write in callback function (Mon Apr 23 2007 - 14:00:35 CDT)
- Re: Misunderstanding about SASA (Sat Apr 21 2007 - 17:31:53 CDT)
- Announcement: QM/MM Workshop (Thu Apr 19 2007 - 09:14:50 CDT)
- Re: tcl variable withing variable name (Thu Apr 19 2007 - 08:30:34 CDT)
- Re: vmd can't start up after being installed in linux (Tue Apr 17 2007 - 22:01:27 CDT)
- Re: RE: "which files to make a spatial grid?" => Bug for list command? (Tue Apr 17 2007 - 07:25:11 CDT)
- Re: .xyz to .dcd using catdcd (Mon Apr 16 2007 - 19:51:35 CDT)
- Re: which files to make a spatial grid? (Mon Apr 16 2007 - 19:46:08 CDT)
- Re: writing coordinates of a selection only (Mon Apr 16 2007 - 18:42:26 CDT)
- Re: winvmd error during calculation (Sat Apr 14 2007 - 09:10:39 CDT)
- Re: VMD installation (Fri Apr 13 2007 - 09:40:07 CDT)
- Re: problem using NAMD trajectory in charmm 32-bit, 64-bit etc. (yes, I posted this on charmm lists too) (Tue Apr 03 2007 - 09:20:25 CDT)
- Re: doubts in movie making using vmd. (Wed Mar 28 2007 - 21:47:12 CDT)
- Re: rdf using gui (Tue Mar 27 2007 - 16:44:09 CDT)
- Re: dynamic bonding (Tue Mar 27 2007 - 15:48:22 CDT)
- Re: mol load and mol addfile (Mon Mar 26 2007 - 16:33:51 CDT)
- Re: Re: windows version of VMD (Sun Mar 25 2007 - 16:46:41 CDT)
- Re: Re: Scripting problem with h-bond listing (Sun Mar 18 2007 - 15:03:09 CDT)
- Re: question about gofr (Sat Mar 17 2007 - 15:48:44 CDT)
- Re: read the pdb file using VMD (Tue Mar 06 2007 - 01:30:16 CST)
- Re: reading charmm files (Mon Mar 05 2007 - 11:56:34 CST)
- Re: reading charmm files (Mon Mar 05 2007 - 08:27:12 CST)
- Re: New Molecule (or Load Data) resets viewpoint of Display. Why? (Mon Mar 05 2007 - 05:24:25 CST)
- Re: vmd/gaussian cubes (Fri Mar 02 2007 - 11:48:20 CST)
- Re: Atomselection in NAMDENERGY (Fri Mar 02 2007 - 08:31:54 CST)
- Re: Updating atomselection from frame to frame (Fri Mar 02 2007 - 08:27:07 CST)
- Re: Calculating dipole moment of protein (Fri Mar 02 2007 - 07:41:25 CST)
- Re: Updating atomselection from frame to frame (Fri Mar 02 2007 - 07:32:00 CST)
- Re: Colouring Atoms according to the centro-symmetric parameter (Thu Mar 01 2007 - 13:45:36 CST)
- Re: calculation of free energy between lipid membrane and protein (Thu Mar 01 2007 - 11:40:00 CST)
- Re: multiple dx frames (Wed Feb 28 2007 - 14:42:34 CST)
- Re: Calculate VolMap for every frame by a script (Tue Feb 27 2007 - 17:25:16 CST)
- Re: VMD open GL Display problem (Tue Feb 27 2007 - 11:43:12 CST)
- Re: Re: bug report in VMD 1.8.5 (Mon Feb 26 2007 - 17:26:38 CST)
- Re: Question about RDF of VMD (Sat Feb 24 2007 - 21:25:14 CST)
- Re: "get {x y z}" returns single value (Fri Feb 23 2007 - 11:10:04 CST)
- Re: transparent background in vmd (Fri Feb 23 2007 - 10:49:56 CST)
- Re: Number of Frames in VMD (Fri Feb 23 2007 - 09:05:15 CST)
- Re: cube file: coordinates rotated (Thu Feb 22 2007 - 09:07:28 CST)
- Re: Re: namd-l: Nanopore simulation (Wed Feb 21 2007 - 12:06:08 CST)
- Re: Isosurface rendering (Wed Feb 21 2007 - 11:54:12 CST)
- Re: Isosurface rendering (Wed Feb 21 2007 - 09:44:21 CST)
- Re: generating (Tue Feb 20 2007 - 14:45:27 CST)
- Re: generating (Tue Feb 20 2007 - 09:05:44 CST)
- Re: TCl question: preventing STDOUT (Thu Feb 15 2007 - 06:37:36 CST)
- Re: atomselection: number of residues (Sun Feb 11 2007 - 13:41:08 CST)
- Re: hot keys & save state (Sun Feb 11 2007 - 13:06:08 CST)
- Re: VMD-1.8.5: GLSL & NVidia troubles + fixed previous Spaceball problem (Sun Feb 11 2007 - 12:51:06 CST)
- Re: load in multiple files once (Fri Feb 09 2007 - 16:30:00 CST)
- Re: Saving work in VMD--this seems ridiculously difficult! (Fri Feb 09 2007 - 10:52:01 CST)
- Re: file "top_all22_prot.inp" (Wed Feb 07 2007 - 09:49:39 CST)
- Re: Regarding com file error (Mon Feb 05 2007 - 12:20:12 CST)
- Re: Saving mutli-molecule structures in VMD (e.g., for building membranes) (Mon Feb 05 2007 - 12:09:15 CST)
- Re: Units for Measure Dipole (Mon Feb 05 2007 - 12:04:12 CST)
- Re: Error while running scripts: terminate called after throwing an instance of 'std::bad_alloc' (Sat Feb 03 2007 - 06:31:49 CST)
- Re: Units for Measure Dipole (Fri Feb 02 2007 - 18:28:15 CST)
- Re: Atomselect on several molecules (Fri Feb 02 2007 - 13:36:13 CST)
- Re: Atomselect on several molecules (Fri Feb 02 2007 - 11:19:06 CST)
- Re: sending arguments to tcl (Thu Feb 01 2007 - 15:55:30 CST)
- Re: Compute the angle between a vector and the largest inertia axis (Tue Jan 30 2007 - 11:16:32 CST)
- RE: Delete frames in a script (Tue Jan 30 2007 - 11:13:14 CST)
- Re: Re: Add transparent plane to molecular structure (Tue Jan 30 2007 - 11:04:27 CST)
- Re: Add transparent plane to molecular structure (Mon Jan 29 2007 - 21:31:50 CST)
- Re: an old...old..old..question (Mon Jan 29 2007 - 18:33:14 CST)
- Re: history in tcl/tk script (Mon Jan 29 2007 - 09:12:13 CST)
- Re: history in tcl/tk script (Fri Jan 26 2007 - 10:39:02 CST)
- Re: wildcards in atomselect command (Fri Jan 26 2007 - 10:03:14 CST)
- Re: Installing VMD on a PC (Wed Jan 24 2007 - 19:49:17 CST)
- Re: question on spin density (Wed Jan 24 2007 - 17:14:53 CST)
- RE: measure XYZ dimensions of a system (Wed Jan 24 2007 - 13:52:43 CST)
- Re: measure XYZ dimensions of a system (Wed Jan 24 2007 - 12:13:42 CST)
- Re: vector (Wed Jan 24 2007 - 10:26:55 CST)
- Re: hingefind (Tue Jan 23 2007 - 11:23:17 CST)
- Re: hingefind (Mon Jan 22 2007 - 19:27:05 CST)
- Re: renumbering residues after deletion of atoms (Thu Jan 18 2007 - 11:51:48 CST)
- Re: scripts in windows version (Wed Jan 17 2007 - 14:47:48 CST)
- Re: [Fwd: Re: create new topology file for new molecule] (Wed Jan 10 2007 - 08:39:17 CST)
- Re: Why does lipid move out of water box (Tue Jan 09 2007 - 14:13:08 CST)
- Re: Unaligned access to ... (Mon Jan 08 2007 - 19:10:39 CST)
- Re: Anyone have catdcd-4.0 for BlueGene? (Mon Jan 08 2007 - 16:36:38 CST)
- Re: error message using gofr (Fri Jan 05 2007 - 18:09:22 CST)
- Re: Save coordinates from MD simulation (Thu Jan 04 2007 - 11:46:39 CST)
- Re: Install and Configure Problems (Wed Jan 03 2007 - 09:43:38 CST)
- Re: VMD 1.8.5 installed. The graphics flashed and disappeared after installation. (Tue Dec 19 2006 - 14:15:00 CST)
- Re: electrostatic potential (Wed Dec 13 2006 - 15:11:27 CST)
- Re: Getting coordinates (Tue Dec 05 2006 - 16:37:00 CST)
- Re: duration of video mpeg (Sun Dec 03 2006 - 16:31:58 CST)
- Re: duration of video mpeg (Sun Dec 03 2006 - 09:39:28 CST)
- RE: radius of the curvature (Wed Nov 29 2006 - 12:31:59 CST)
- Re: radius of the curvature (Tue Nov 28 2006 - 16:08:29 CST)
- Re: CAve Question (Mon Nov 27 2006 - 18:47:22 CST)
- Re: movie making (Thu Nov 23 2006 - 15:36:32 CST)
- Re: Installing VMD Windows version on 64-bit Windows Environment (Wed Nov 22 2006 - 09:19:03 CST)
- Re: vector summation (Wed Nov 22 2006 - 09:13:45 CST)
- Re: Running a script using text mode (Tue Nov 21 2006 - 12:18:02 CST)
- Re: changing the representation of a vector (Fri Nov 17 2006 - 11:02:42 CST)
- Re: Change properties of representations - batch mode (Fri Nov 17 2006 - 10:47:02 CST)
- Re: how to extract atom information? (Thu Nov 16 2006 - 21:32:41 CST)
- Re: how to extract atom information? (Thu Nov 16 2006 - 20:08:01 CST)
- Re: Plotting Number of Hbonds and % Helicity with Time (Sat Nov 11 2006 - 18:57:25 CST)
- Re: Command line troubles (Sat Nov 11 2006 - 17:48:00 CST)
- Re: VMD installation problem (Fri Nov 10 2006 - 11:19:24 CST)
- Re: VMD - unable to create OpenGL (Tue Nov 07 2006 - 08:37:37 CST)
- Re: How to delete selected atoms from a molecule (Mon Nov 06 2006 - 09:30:58 CST)
- Re: installation problem (Tue Oct 31 2006 - 18:32:13 CST)
- Re: VMD - ATI video card (Tue Oct 31 2006 - 13:47:10 CST)
- Re: Reading box info. from PQR file (Mon Oct 30 2006 - 10:54:13 CST)
- Re: problem about "mol load psf md.pdf pdb md.pdb" (Wed Oct 25 2006 - 06:19:41 CDT)
- Re: adding selections (Fri Oct 20 2006 - 14:03:56 CDT)
- Re: CPK Graphical Representation (Fri Oct 20 2006 - 11:48:23 CDT)
- Re: How to use vector calculation ??? (Fri Oct 20 2006 - 10:45:11 CDT)
- Re: CPK Graphical Representation (Fri Oct 20 2006 - 10:40:46 CDT)
- Re: Using VMDPLUGIN_register_tcl (Wed Oct 18 2006 - 11:49:55 CDT)
- Re: update of atom selection at each step for trajectories (Wed Oct 18 2006 - 12:09:04 CDT)
- Re: electrostatic map render problem (Wed Oct 18 2006 - 11:56:21 CDT)
- Re: Using VMDPLUGIN_register_tcl (Wed Oct 18 2006 - 11:52:36 CDT)
- Re: Re: Volumetric data: Periodic expansion does not work; why? (Tue Oct 17 2006 - 11:08:49 CDT)
- Re: RPM spec file (Tue Oct 17 2006 - 11:04:37 CDT)
- Re: Volumetric data: Periodic expansion does not work; why? (Fri Oct 13 2006 - 11:15:36 CDT)
- Re: gofr (Wed Oct 11 2006 - 14:46:15 CDT)
- Re: Missing main menu (Mon Oct 09 2006 - 13:56:52 CDT)
- Re: Access to bond information inside a VMD plugin... (Mon Oct 09 2006 - 12:14:55 CDT)
- Re: Question about measure gofr (Fri Oct 06 2006 - 12:54:58 CDT)
- Re: problem viewing cube files (Thu Oct 05 2006 - 10:51:17 CDT)
- Re: problem viewing cube files (Wed Oct 04 2006 - 08:26:45 CDT)
- Re: problem running pgn script file (Tue Oct 03 2006 - 11:11:45 CDT)
- Re: Connectivity lost when loading second pdb (Tue Oct 03 2006 - 08:07:39 CDT)
- Re: sequential multiple structures (Fri Sep 29 2006 - 07:25:23 CDT)
- Re: problem using saltbr plugin in text mode (Wed Sep 27 2006 - 14:00:28 CDT)
- Re: VMD Prompt (Wed Sep 27 2006 - 13:20:46 CDT)
- Re: 1.8.5: VASP plugin not correct (Tue Sep 26 2006 - 09:33:45 CDT)
- Re: What unit system does VMD use? (Mon Sep 25 2006 - 12:00:07 CDT)
- Re: 1.8.5: VASP plugin not correct (Mon Sep 25 2006 - 11:44:23 CDT)
- Re: visualizing charges (Mon Sep 25 2006 - 10:01:46 CDT)
- Re: 1.8.5: VASP plugin not correct (Mon Sep 25 2006 - 08:45:26 CDT)
- Re: measure angle between three points in space (Sun Sep 24 2006 - 10:40:06 CDT)
- Re: What unit system does VMD use? (Sat Sep 23 2006 - 21:03:01 CDT)
- Re: What unit system does VMD use? (Fri Sep 22 2006 - 18:29:23 CDT)
- Re: visualizing charges (Fri Sep 22 2006 - 14:18:16 CDT)
- Re: What unit system does VMD use? (Thu Sep 21 2006 - 19:41:58 CDT)
- Re: Paratool Problem (Thu Sep 21 2006 - 14:42:15 CDT)
- Re: VMD won't make mpg out of my trajectory (Wed Sep 20 2006 - 15:12:13 CDT)
- Re: VMD won't make mpg out of my trajectory (Wed Sep 20 2006 - 14:00:56 CDT)
- Re: measure bond length? (Tue Sep 19 2006 - 12:03:23 CDT)
- Re: rmsf (Tue Sep 19 2006 - 11:07:26 CDT)
- Re: problem with -args in text mode (Mon Sep 18 2006 - 14:19:28 CDT)
- Re: problem with -args in text mode (Fri Sep 15 2006 - 23:34:41 CDT)
- Re: DPPC Bilayer Size (Thu Sep 14 2006 - 18:26:45 CDT)
- Re: manually defining bonds, setting atom colors (Thu Sep 14 2006 - 16:39:36 CDT)
- Re: Finding residues involved in Hbonds. (Thu Sep 14 2006 - 13:12:56 CDT)
- Re: drawing of direction vectors for conformational transition (Thu Sep 14 2006 - 11:25:47 CDT)
- Re: puts format (Wed Sep 13 2006 - 16:43:31 CDT)
- Re: rdf plugin in vmd 1.85 (Wed Sep 13 2006 - 14:24:10 CDT)
- Re: drawing of direction vectors for conformational transition (Wed Sep 13 2006 - 14:18:03 CDT)
- Re: antialiasing (Wed Sep 13 2006 - 14:10:30 CDT)
- Re: antialiasing (Wed Sep 13 2006 - 13:56:38 CDT)
- Re: saving charges in the B column (Fri Sep 08 2006 - 19:27:52 CDT)
- Re: protein in membrane (Fri Sep 08 2006 - 18:12:02 CDT)
- Re: Min. Image Convention after Translation & Rotation (Fri Sep 08 2006 - 14:00:58 CDT)
- Re: dipole moment (Fri Sep 08 2006 - 12:13:29 CDT)
- Re: dipole moment (Fri Sep 08 2006 - 12:10:54 CDT)
- Re: How to use bigdcd in vmd batch mode? (Fri Sep 08 2006 - 12:04:35 CDT)
- Re: Min. Image Convention after Translation & Rotation (Thu Sep 07 2006 - 20:08:45 CDT)
- Re: pass variables from the shell to VMD (Thu Sep 07 2006 - 11:51:01 CDT)
- Re: slicing (Wed Sep 06 2006 - 11:46:23 CDT)
- Re: dynamical list of atoms (Wed Sep 06 2006 - 10:54:30 CDT)
- Re: imposing period boundary conditions in a simulation with a crystal (Wed Sep 06 2006 - 09:23:39 CDT)
- Re: Matrix inverse (Tue Sep 05 2006 - 18:39:22 CDT)
- Re: Matrix inverse (Tue Sep 05 2006 - 18:18:10 CDT)
- Re: imposing period boundary conditions in a simulation with a crystal (Tue Sep 05 2006 - 12:00:19 CDT)
- Re: Warning: poorly guessed coordinates using PsfGen (Tue Sep 05 2006 - 10:53:35 CDT)
- Re: qsub (torque/maui) and vmd (Mon Sep 04 2006 - 14:00:38 CDT)
- Re: radial pair distribution function: molecule/water? (Mon Sep 04 2006 - 12:14:28 CDT)
- Re: qsub (torque/maui) and vmd (Mon Sep 04 2006 - 11:18:05 CDT)
- Re: looking for VMD draw scripts. (Fri Sep 01 2006 - 16:52:51 CDT)
- looking for VMD draw scripts. (Fri Sep 01 2006 - 15:34:59 CDT)
- Re: output file format (Fri Sep 01 2006 - 15:01:50 CDT)
- Re: Where did I put those angles? (Thu Aug 31 2006 - 17:51:43 CDT)
- Re: problem with vecsub, help with Tcl Script (Thu Aug 31 2006 - 12:59:32 CDT)
- Re: output file format (Thu Aug 31 2006 - 10:52:13 CDT)
- Re: Counting H-bonds from a dcd file (Tue Aug 29 2006 - 19:16:19 CDT)
- Re: Counting H-bonds from a dcd file (Tue Aug 29 2006 - 17:42:56 CDT)
- Re: A error of " transforming dcd into pdb " (Tue Aug 29 2006 - 11:55:49 CDT)
- Re: loading gzipped trajectories into vmd (Tue Aug 29 2006 - 11:09:10 CDT)
- Re: Problem with vmdsphere.frag shader (Mon Aug 28 2006 - 12:32:16 CDT)
- Re: water numbering (Mon Aug 28 2006 - 11:41:53 CDT)
- Re: gyration radius for a trajectory (Fri Aug 25 2006 - 09:40:54 CDT)
- Re: animated gif option in VMD for Windows. (Thu Aug 24 2006 - 14:45:53 CDT)
- Re: Unexpected End-of-file? (Wed Aug 23 2006 - 23:59:52 CDT)
- Re: PRODRG generated .gro file (Tue Aug 22 2006 - 21:51:42 CDT)
- Re: problems with autoionize (Tue Aug 22 2006 - 18:10:54 CDT)
- Re: (Tue Aug 22 2006 - 07:46:27 CDT)
- Re: Load (Thu Aug 17 2006 - 14:12:56 CDT)
- Re: Question About Tcl variables (Wed Aug 16 2006 - 19:36:28 CDT)
- Re: visualization code (Thu Aug 10 2006 - 00:00:11 CDT)
- Re: Which VMD executible to use? (Tue Aug 08 2006 - 10:54:22 CDT)
- Re: water model used for the waterbox in VMD (Tue Aug 08 2006 - 09:22:13 CDT)
- Re: To display only certain regions of the .dx map in VMD (Mon Aug 07 2006 - 13:35:43 CDT)
- Re: Atom selection based on arbitrary columns in the pdb file (Sat Aug 05 2006 - 12:05:51 CDT)
- Re: select only border of the water box (Fri Aug 04 2006 - 07:01:53 CDT)
- Re: Cannot run IED! :( (Thu Aug 03 2006 - 10:37:14 CDT)
- Re: VASP plugins (Thu Aug 03 2006 - 09:42:01 CDT)
- Re: Altering Definition of Molecular Coloring Method (Tue Aug 01 2006 - 07:29:44 CDT)
- Re: rendering..... (Mon Jul 31 2006 - 17:58:57 CDT)
- Re: Re: RDF.tcl (Fri Jul 28 2006 - 17:28:49 CDT)
- Re: where is option "Image Smoothing"? (Wed Jul 26 2006 - 06:31:32 CDT)
- Re: Rendering surfaces from PLT files (Mon Jul 24 2006 - 11:43:42 CDT)
- Re: Rendering surfaces from PLT files (Sun Jul 23 2006 - 00:30:08 CDT)
- Re: some parameters for TIP3P (Fri Jul 21 2006 - 18:25:19 CDT)
- Re: some parameters for TIP3P (Fri Jul 21 2006 - 16:38:07 CDT)
- Re: Mesa rendering (Thu Jul 20 2006 - 08:27:31 CDT)
- Re: "Unable to create OpenGL window" (Tue Jul 18 2006 - 15:41:35 CDT)
- Re: residue no. greater than 9999 in pdb files created with VMD (Wed Jul 12 2006 - 11:42:42 CDT)
- Re: please, give me a tip (Tue Jul 11 2006 - 11:24:20 CDT)
- Re: lammps and vmd (Tue Jul 11 2006 - 11:21:19 CDT)
- Re: movies on a mac (Mon Jul 03 2006 - 11:30:24 CDT)
- Re: Volume slices of Gaussian Cube Files: Color scale (Thu Jun 29 2006 - 17:50:24 CDT)
- Re: Correlated motion (Wed Jun 28 2006 - 14:51:52 CDT)
- Re: How to color the atoms based on the stress (Wed Jun 28 2006 - 05:46:21 CDT)
- Re: VMD crashed due to: vmd_LINUXAMD64: indirect_vertex_array.c:659: emit_DrawArrays_old: Assertion `elements_per_request >= count' failed (Tue Jun 27 2006 - 22:17:01 CDT)
- Re: VMD crashed due to: vmd_LINUXAMD64: indirect_vertex_array.c:659: emit_DrawArrays_old: Assertion `elements_per_request >= count' failed (Tue Jun 27 2006 - 19:53:00 CDT)
- Re: Tcl commands on Mac (Mon Jun 26 2006 - 18:32:57 CDT)
- Re: GLSL Compile Error (VMD 1.8.4, Nvidia Driver 8762) (Mon Jun 26 2006 - 06:28:22 CDT)
- Re: bond information in psf file (Sat Jun 24 2006 - 22:51:13 CDT)
- Re: animate with varying atom numbers (Sat Jun 10 2006 - 04:55:47 CDT)
- Re: color protein based on an event during a trajectory (Wed Jun 07 2006 - 23:24:40 CDT)
- Re: how to make movies from HISTORY file (Wed Jun 07 2006 - 07:01:03 CDT)
- Re: Compilation (Thu May 25 2006 - 05:20:42 CDT)
- RE: change default drawing and coloring method (Thu May 25 2006 - 05:06:12 CDT)
- Re: color by charge (can colors be changed?) (Thu May 25 2006 - 05:02:29 CDT)
- RE: Gaussian Cube file with VMD (Tue May 23 2006 - 15:34:04 CDT)
- Re: change default drawing and coloring method (Mon May 22 2006 - 23:29:51 CDT)
- Re: Gaussian Cube file with VMD (Mon May 22 2006 - 23:25:18 CDT)
- Re: bug in membrane plugin (Mon May 15 2006 - 13:44:00 CDT)
- Re: Plugin compilation (Mon May 15 2006 - 13:07:50 CDT)
- Re: secondary structure assignment (Mon May 15 2006 - 04:52:05 CDT)
- Re: How to select water near a certain residue if it is outside of the water box? (Sat May 13 2006 - 18:11:27 CDT)
- Re: high resolution images (Thu May 11 2006 - 18:18:10 CDT)
- Re: renderman output? (Wed May 10 2006 - 19:37:19 CDT)
- Re: Fwd: How to pick up the lost periodic information? (Mon May 08 2006 - 11:46:49 CDT)
- Re: plotting x y z data (Thu May 04 2006 - 07:01:39 CDT)
- Re: search path and naming conventions for custom TCL scripts (Wed May 03 2006 - 10:29:29 CDT)
- Re: coordinates of an atom (Tue May 02 2006 - 11:22:22 CDT)
- Re: hiding and renaming of graphical objects (Fri Apr 28 2006 - 12:32:59 CDT)
- Re: VMD-L: how to select water molecules between two residues in a trajectory. (Mon Apr 17 2006 - 11:33:38 CDT)
- Re: VMD-L: how to select water molecules between two residues in a trajectory. (Mon Apr 17 2006 - 10:50:38 CDT)
- Re: VMD-L: how to select water molecules between two residues in a trajectory. (Sat Apr 15 2006 - 20:31:11 CDT)
- Re: distances (Tue Apr 11 2006 - 14:11:13 CDT)
- Re: WARNING: Coordinates will be rotated to comply ... (Tue Apr 04 2006 - 14:26:01 CDT)
- Re: extracting values from a dx file (Thu Mar 23 2006 - 20:22:21 CST)
- Re: Strange GLSL rendering (Tue Mar 14 2006 - 09:12:33 CST)
- Re: VMD script (Tue Mar 14 2006 - 08:20:53 CST)
- Re: VMD script (Mon Mar 13 2006 - 18:40:14 CST)
- Re: Convert an ascii matrix to an image (Sat Mar 11 2006 - 16:25:18 CST)
- Re: pbc and vmd (Tue Mar 07 2006 - 09:55:27 CST)
- Re: pbc and vmd (Mon Mar 06 2006 - 01:01:20 CST)
- Re: color scale data range (Mon Feb 27 2006 - 08:20:34 CST)
- Re: Mapping electronic potential to surface (Thu Feb 23 2006 - 22:47:20 CST)
- Re: Mapping electronic potential to surface (Thu Feb 23 2006 - 00:55:53 CST)
- Re: Problem installation on RedHat (Tue Feb 21 2006 - 01:10:52 CST)
- Re: Problem with Hg, H (Mon Feb 20 2006 - 19:13:49 CST)
- Re: vmd 1.8.b does not start up (Thu Feb 16 2006 - 22:11:29 CST)
- fortran bindings for molfile library (Wed Feb 15 2006 - 09:31:54 CST)
- Re: Problem with VMD 'animate' command (Sun Feb 12 2006 - 20:00:46 CST)
- Re: uncompress files in tcl script (Thu Feb 09 2006 - 12:20:44 CST)
- Re: vmd-1.8.4b10/Linux amd64 only libstdc++.so.6 dependancy (Thu Feb 09 2006 - 06:16:54 CST)
- Re: analysis script causes vmd to crash (Thu Feb 02 2006 - 22:03:15 CST)
- Re: Can't load a large dcd? (Thu Jan 26 2006 - 07:09:22 CST)
- Re: Can't load a large dcd? (Wed Jan 25 2006 - 10:52:41 CST)
- Re: Changing Graphical Representations (Wed Jan 25 2006 - 06:53:15 CST)
- Re: Changing Default Settings for VMD Main Window (Thu Jan 19 2006 - 08:02:47 CST)
- Re: [vmd] max number of molecules on mac (Tue Jan 17 2006 - 06:32:23 CST)
- Re: Trouble installing VMD (Tue Jan 10 2006 - 23:37:14 CST)
- Re: loading a new molecule without changing the view (Fri Jan 06 2006 - 14:05:40 CST)
- Re: animate transparency (Fri Jan 06 2006 - 07:07:43 CST)
- Re: Building a sphere of atoms around a chosen atom (Tue Jan 03 2006 - 05:03:53 CST)
- Re: changing default sec struct colors (Mon Jan 02 2006 - 16:12:46 CST)
- Re: installation problem on solaris 9 (Sat Dec 31 2005 - 09:42:53 CST)
- Re: breaking a big dcd file (Tue Dec 20 2005 - 18:58:28 CST)
- Re: message in the console (Mon Dec 19 2005 - 14:59:27 CST)
- Re: hbonds count (Wed Nov 30 2005 - 09:22:16 CST)
- Re: How to efficiently update a surface (Tue Nov 29 2005 - 13:11:17 CST)
- Re: Changing colors (Mon Nov 28 2005 - 14:56:54 CST)
- Re: s-s bond in vmd not visualized (Wed Nov 23 2005 - 11:31:57 CST)
- Re: calculate rmsd in a loop:feedback [sorry if you get it twice] (Fri Nov 18 2005 - 08:54:02 CST)
- Re: calculate rmsd in a loop:feedback [sorry if you get it twice] (Thu Nov 17 2005 - 06:20:35 CST)
- Re: load two or more molecuoles at one time (Wed Nov 16 2005 - 16:21:35 CST)
- illegal mouse mode (Fri Nov 11 2005 - 13:33:13 CST)
- Re: psfgen vs. x-plor (Wed Nov 09 2005 - 02:12:36 CST)
- Re: IRIX6 build from CVS (Tue Nov 08 2005 - 07:01:51 CST)
- Re: saving macros (Wed Nov 02 2005 - 08:43:58 CST)
- Re: Cannot load Gromos96 trajectory file (attached) (Mon Oct 17 2005 - 19:37:14 CDT)
- Re: making a movie (Thu Oct 13 2005 - 10:49:25 CDT)
- Re: binning data for each frame and coordinate (Wed Oct 12 2005 - 13:34:37 CDT)
- Re: Import gromos output file into VMD without format conversion? (Thu Sep 22 2005 - 07:32:55 CDT)
- Re: problem with coloring surface by electrostatic potential (Tue Sep 20 2005 - 14:17:54 CDT)
- Re: counting selected atoms---selection time series (Thu Sep 01 2005 - 01:16:43 CDT)
- Re: Problems with AMBER trajectories (MOVIE!) and crd-files (Tue Aug 30 2005 - 13:43:29 CDT)
- Re: VMD fails to run (Sun Aug 21 2005 - 06:05:53 CDT)
- Re: residue numbering TCL versus PDB (Fri Jul 29 2005 - 02:13:59 CDT)
- Re: tcl syntax problem (Wed Jul 27 2005 - 15:09:23 CDT)
- Re: residue numbering TCL versus PDB (Wed Jul 27 2005 - 07:36:48 CDT)
- Re: VMD running slow (Mon Jul 25 2005 - 15:18:27 CDT)
- Re: Coloring by BETA not updating per frame (Sun Jul 24 2005 - 02:29:44 CDT)
- Re: exclude residues (Thu Jun 30 2005 - 15:54:32 CDT)
- Re: do not compute/draw bonds? (Thu Jun 23 2005 - 12:26:44 CDT)
- Re: phi and psi information (Thu Jun 23 2005 - 04:09:59 CDT)
- Re: VMD 1.8.4 test builds, 32-bit and 64-bit AIX5... (Thu Jun 23 2005 - 02:34:26 CDT)
- Re: Script for automated selection (Mon Jun 20 2005 - 12:58:41 CDT)
- Re: namd-l: Re: multiple automated calls to NAMD (Fri Jun 10 2005 - 02:17:32 CDT)
- Re: multiple automated calls to NAMD (Thu Jun 09 2005 - 02:38:35 CDT)
- Re: Change representation default from lines to points (Thu Jun 02 2005 - 10:08:24 CDT)
- Re: loading amber file (Wed Jun 01 2005 - 01:32:33 CDT)
- Re: Open diff pdbs with diff # of atoms? (Sat May 14 2005 - 02:04:23 CDT)
- RE: Rama plot (Tue May 10 2005 - 01:53:57 CDT)
- Re: writing DCD files (Fri May 06 2005 - 07:00:05 CDT)
- RE: color the surface with electrostatic potential value (Thu Apr 28 2005 - 01:12:24 CDT)
- Re: Re:Re:missing bond problem (Wed Apr 27 2005 - 10:01:50 CDT)
- Re: bond missimg (Mon Apr 25 2005 - 08:47:20 CDT)
- Re: Sphere size (Sat Apr 23 2005 - 06:22:25 CDT)
- Re: dcd large files, charmm-VMD (Fri Apr 22 2005 - 11:53:25 CDT)
- Re: compressed trajectory support (Mon Apr 18 2005 - 12:47:01 CDT)
- Re: compressed trajectory support (Mon Apr 18 2005 - 10:38:14 CDT)
- Re: "Draw" different things in different frames (Sun Apr 17 2005 - 03:07:11 CDT)
- Re: a question about get the coordinates in vector form (Fri Apr 15 2005 - 16:19:25 CDT)
- Re: CA-CA distances in a trayectory (Thu Apr 14 2005 - 09:07:57 CDT)
- Re: Customizing VMD Sessions (Thu Apr 14 2005 - 08:45:00 CDT)
- Re: Customizing VMD Sessions (Thu Apr 14 2005 - 05:39:38 CDT)
- Re: only vmd console (Wed Apr 13 2005 - 04:43:07 CDT)
- Re: mpg image speed (Mon Apr 11 2005 - 17:08:05 CDT)
- Re: vmd movie maker (Sun Apr 03 2005 - 03:11:22 CDT)
- Re: about adding ions to an ion channel pore (Fri Apr 01 2005 - 01:46:50 CST)
- Re: Maximum numbers of atoms (Wed Mar 30 2005 - 05:06:49 CST)
- Re: GRD file format (Wed Mar 23 2005 - 01:33:31 CST)
- Re: GRD file format (Tue Mar 22 2005 - 13:15:35 CST)
- Re: vmd installation in rehdat7.3 (Tue Mar 22 2005 - 02:01:52 CST)
- Re: VMD, NAMD and Interactive Essential Dynamics (IED) (Mon Mar 21 2005 - 12:22:52 CST)
- Re: install 1.8.3 on RHEL4 (Fri Mar 18 2005 - 15:45:06 CST)
- Re: VMD, NAMD and Interactive Essential Dynamics (IED) (Wed Feb 23 2005 - 14:29:22 CST)
- Re: Catching error info before it shuts down ... (Fri Feb 18 2005 - 03:39:48 CST)
- Re: determining vdw, elec, and others (Thu Feb 17 2005 - 03:43:21 CST)
- Re: Defining Bonds in .xyz file format (Wed Feb 16 2005 - 06:09:46 CST)
- Re: How to image molecules back into a PBC box? (Wed Feb 16 2005 - 06:02:17 CST)
- Re: slowing the movie animation (Mon Feb 14 2005 - 03:45:59 CST)
- Re: Distance calculation in TkConsole (Thu Feb 10 2005 - 07:44:33 CST)
- Re: volume shading in 1.8.3b1 ? (Mon Feb 07 2005 - 14:27:53 CST)
- Re: using gimp for converting jpg, tga ... images to high quality eps files (Mon Feb 07 2005 - 06:31:44 CST)
- Re: using gimp for converting jpg, tga ... images to high quality eps files (Sat Feb 05 2005 - 04:58:35 CST)
- Re: variable atom count in XYZ multiframe trajectory (Tue Feb 01 2005 - 13:59:08 CST)
- Re: Re: vmd not starting up on Fedora core 3 linux , nVidia quadro 980 XGL, nVidia 6629 driver (Tue Jan 11 2005 - 10:50:57 CST)
- Re: Periodic box display feature suggestion (Mon Jan 10 2005 - 15:00:47 CST)
- Re: Cluster Analysis given a dcd trajectory (Sat Jan 08 2005 - 13:28:55 CST)
- Re: vmd not starting up on Fedora core 3 linux , nVidia quadro 980 XGL, nVidia 6629 driver (Fri Jan 07 2005 - 07:20:17 CST)
- Re: vmd not starting up on Fedora core 3 linux , nVidia quadro 980 XGL, nVidia 6629 driver (Fri Jan 07 2005 - 06:37:21 CST)
- Re: vmd not starting up on Fedora core 3 linux , nVidia quadro 980 XGL, nVidia 6629 driver (Fri Jan 07 2005 - 05:40:13 CST)
- Re: vmd not starting up on Fedora core 3 linux , nVidia quadro 980 XGL, nVidia 6629 driver (Thu Jan 06 2005 - 09:42:26 CST)
- Re: pdb files (Wed Jan 05 2005 - 02:39:13 CST)
- Re: how to represent H-bonds between chain A and chain B using VMD (Wed Jan 05 2005 - 02:29:52 CST)
- Re: pdb files (Tue Jan 04 2005 - 14:02:50 CST)
- Re: pdb files (Tue Jan 04 2005 - 01:33:53 CST)
- Re: Re: your mail (Tue Jan 04 2005 - 01:25:10 CST)
- Re: ERROR) Failed to create Surf atom radii input file (Tue Dec 28 2004 - 10:14:27 CST)
- Re: ERROR) Failed to create Surf atom radii input file (Tue Dec 28 2004 - 08:37:37 CST)
- Re: DynamicBonds representation (Thu Dec 16 2004 - 13:04:27 CST)
- Re: getbonds for H-bonds request (Mon Nov 08 2004 - 13:31:35 CST)
- Re: Selection of atoms and bond specific to MD snapshot (Sat Nov 06 2004 - 15:12:35 CST)
- Re: VMD scripting questions (Fri Oct 29 2004 - 08:26:48 CDT)
- Re: vmd customization (Thu Oct 28 2004 - 07:30:57 CDT)
- Re: save states with relative directory structure (Wed Oct 20 2004 - 11:15:27 CDT)
- Re: Changing color of a given atom (Wed Oct 13 2004 - 00:52:36 CDT)
- Re: Specifying distances for bond cutoffs? (Wed Oct 13 2004 - 00:46:39 CDT)
- Re: Basic VMD questions... (Sun Oct 10 2004 - 03:20:16 CDT)
- Re: Basic VMD questions... (Fri Oct 08 2004 - 02:17:34 CDT)
- Re: measuring h-bonds (Fri Sep 17 2004 - 01:16:45 CDT)
- Re: measuring h-bond distances (Sun Sep 12 2004 - 06:18:27 CDT)
- Re: torsion angle (Mon Sep 06 2004 - 09:28:52 CDT)
- Re: Periodic display problem (Wed Aug 25 2004 - 01:52:26 CDT)
- Re: Periodic display problem (Tue Aug 24 2004 - 09:56:02 CDT)
- Re: Trajectory Files (Sun Aug 08 2004 - 13:36:35 CDT)
- Re: reading structure *.xyz (Tue Jul 20 2004 - 17:39:02 CDT)
- Re: loading .gz trajectory files (Tue Jul 20 2004 - 17:12:47 CDT)
- Re: Unit cell coordinates and radial distribution functions (Tue Jul 20 2004 - 01:29:03 CDT)
- visualization of electroly solvation shells (Mon Jul 19 2004 - 04:09:34 CDT)
- Re: Box of non-polar solvent (Fri Jul 16 2004 - 11:59:45 CDT)
- Re: Updated Bonding Connectivity each frame (Tue Jul 13 2004 - 15:28:17 CDT)
- Re: element Si (Fri Jul 09 2004 - 12:11:46 CDT)
- Re: width for triangle (Wed Jul 07 2004 - 09:06:32 CDT)
- Re: periodic display and space group and VMD (Tue Jul 06 2004 - 14:18:34 CDT)
- Re: your mail (Wed Jun 30 2004 - 16:39:38 CDT)
- Re: Average coordinates (Thu Jun 24 2004 - 23:48:36 CDT)
- Re: mpeg doesn't run on media player (Thu Jun 24 2004 - 23:27:22 CDT)
- Re: visualizing trr files (Fri Jun 18 2004 - 13:46:13 CDT)
- Re: Need a few testers for Linux version of VMD 1.8.3... (Fri Jun 11 2004 - 15:17:13 CDT)
- Re: CUBIC box of system (Thu Jun 03 2004 - 12:44:37 CDT)
- Re: display of electron density maps (Thu Jun 03 2004 - 11:50:29 CDT)
- Re: CUBIC box of system (Thu Jun 03 2004 - 07:22:09 CDT)
- Re: animating an iso-surface (Wed May 26 2004 - 15:48:49 CDT)
- Re: draw lines (Wed May 26 2004 - 01:01:05 CDT)
- Re: Iso-surfaces, VolumeSlices and tracing with VMD 1.8.2 (Mon May 24 2004 - 12:44:03 CDT)
- Re: Non-protein Multiple-Frame File (Mon May 24 2004 - 08:59:05 CDT)
- Re: changing the representation of all loaded molecules (Thu May 20 2004 - 13:35:08 CDT)
- Re: changing the representation of all loaded molecules (Thu May 20 2004 - 02:34:14 CDT)
- Re: Dynamic selection of residues in a trajectory (Wed May 19 2004 - 08:45:05 CDT)
- Re: some visualization challenges (Mon May 17 2004 - 15:07:43 CDT)
- some visualization challenges (Sun May 16 2004 - 14:03:11 CDT)
- Re: Surface rendering crashes PC (Tue May 11 2004 - 10:05:08 CDT)
- Re: variable atom number and dynamic bonds (Wed May 05 2004 - 13:22:24 CDT)
- Re: Coloring with an XYZ file (Wed May 05 2004 - 01:28:00 CDT)
- Re: error with top2psf (Wed Apr 21 2004 - 15:47:17 CDT)
- Re: xyz plugin (Tue Apr 20 2004 - 01:55:15 CDT)
- Re: xyz aluminium connectivity questions (Tue Apr 13 2004 - 11:27:30 CDT)
- Re: Centering of the view on one atom (Wed Mar 31 2004 - 14:12:51 CST)
- Re: Copying a selection (Mon Mar 22 2004 - 12:56:30 CST)
- Re: gziped files (Tue Mar 09 2004 - 06:19:39 CST)
- Re: waters within hydrophobic pore of protein (Mon Mar 01 2004 - 02:20:19 CST)
- Re: Hydrogen Bond Energy (Thu Feb 26 2004 - 03:46:52 CST)
- Re: tcl question (Sat Feb 07 2004 - 08:13:33 CST)
- Re: Spatial Distributionb Functions (Thu Feb 05 2004 - 04:12:31 CST)
- Re: PBC (Tue Jan 06 2004 - 16:49:44 CST)
- Re: PBC (Tue Jan 06 2004 - 12:19:50 CST)
- Announce: CPMD VMD visualization tutorial (Thu Dec 18 2003 - 13:25:56 CST)
- Re: DCD unit cell data (Thu Oct 16 2003 - 04:59:29 CDT)
- Re: saving bond-length information (Thu Sep 11 2003 - 06:36:48 CDT)
- Re: Graphics workstation and Xenon problems with VMD? (Wed Aug 27 2003 - 10:19:44 CDT)
- Re: Reg: No. of Frames (Mon Jul 28 2003 - 13:33:51 CDT)
- Re: Reg: No. of Frames (Mon Jul 28 2003 - 02:13:51 CDT)
AYTUG TUNCEL
- NAMD to Amber (Thu Apr 06 2006 - 08:46:10 CDT)
AyÅŸe Ã–zlem Aykut
- glycerol (Tue Oct 20 2009 - 03:13:57 CDT)
- B factor calculation (Tue Nov 04 2008 - 10:51:24 CST)
Ayþe Özlem Sezerman
- VMD open GL Display problem (Tue Feb 27 2007 - 06:52:19 CST)
Aziz, John
- Generating a PSF for a Non-protien (Mon Mar 01 2010 - 08:27:10 CST)
B
- Re: Merge Structure changes coordinates to 0 (Wed Nov 11 2020 - 19:40:09 CST)
B $B6Q
- (no subject) (Mon Feb 16 2004 - 19:44:43 CST)
B. Bennion
- Re: centering seection on screen (Thu Apr 17 2003 - 09:50:32 CDT)
- getting heavy atom contacts (Thu Mar 20 2003 - 12:40:59 CST)
- atomselect (Tue Mar 18 2003 - 16:03:05 CST)
- Re: Pls help me to render files with only traces of proteins! (Thu Feb 06 2003 - 13:23:01 CST)
- Re: Pls help me to render files with only traces of proteins! (Wed Feb 05 2003 - 21:13:34 CST)
- Re: compiling vmd... (Tue Jan 28 2003 - 10:09:33 CST)
- Re: rendering from VMD (Tue Dec 17 2002 - 15:56:45 CST)
- Re: rendering from VMD (Tue Dec 17 2002 - 14:36:07 CST)
- Building VMD on windows 2000 (Mon Dec 16 2002 - 15:35:51 CST)
- Re: CRD problems and CRD to DCD conversion (Wed Nov 13 2002 - 15:48:57 CST)
- helices in coil (Tue Oct 29 2002 - 18:24:13 CST)
- Re: core dump when launching vmd1.8a21 (Thu Oct 24 2002 - 20:30:05 CDT)
- Re: question on prmtop & prmcrd from leap (amber) (Fri Oct 18 2002 - 18:13:43 CDT)
- Re: molden xyz movie (Fri Oct 11 2002 - 00:40:52 CDT)
- Re: molden xyz movie (Thu Oct 10 2002 - 18:22:59 CDT)
- residue rotation within single pdb file (Sun Jul 07 2002 - 02:27:32 CDT)
- Plugin testing (Thu Jun 06 2002 - 12:07:05 CDT)
- Re: opengl libraries (Tue Nov 27 2001 - 15:18:45 CST)
- opengl libraries (Mon Nov 26 2001 - 12:23:49 CST)
- compiling problems (Mon Nov 26 2001 - 11:35:50 CST)
- Making UIobjects (Thu Oct 25 2001 - 11:13:27 CDT)
- Re: new user animation question (Thu Oct 04 2001 - 10:37:32 CDT)
- Re: new user animation question (Thu Oct 04 2001 - 00:47:08 CDT)
- Coloring Sections of Peptides (Wed May 16 2001 - 15:26:01 CDT)
- Re: Some newbie questions (Fri Apr 20 2001 - 10:40:20 CDT)
- animation and reps (Sat Mar 31 2001 - 01:40:43 CST)
- Molecule rotation (Thu Mar 08 2001 - 12:16:46 CST)
- removing unwanted residues (Thu Aug 31 2000 - 11:57:00 CDT)
- Re: animation (Wed Aug 30 2000 - 11:47:25 CDT)
- hbond calculations (Tue Aug 29 2000 - 10:49:16 CDT)
- PDB file output (Tue Jul 25 2000 - 11:59:40 CDT)
B.D Allen
- Re: CoordinateTransformation (Sun Sep 03 2006 - 20:38:38 CDT)
- Re: VMD & FC 4.0 (Wed Jul 13 2005 - 16:30:12 CDT)
- Iso-surfaces, VolumeSlices and tracing with VMD 1.8.2 (Mon May 24 2004 - 10:09:22 CDT)
B.M.B. Vanschouwen
- Reconstruction of XST data from DCD data (Sun May 01 2011 - 19:29:03 CDT)
- Displaying an overlay of multiple structures with VMD (Tue Feb 08 2011 - 09:19:45 CST)
- How to use VMD script "PorcupinePlot.tcl" (Mon Jan 31 2011 - 10:46:55 CST)
Babban Mia
- Re: Re: Solvating a Protein in VMD using NON STANDARD SOLVENT (Sat Aug 13 2011 - 21:39:41 CDT)
- Re: Re: Solvating a Protein in VMD using NON STANDARD SOLVENT (Sat Aug 13 2011 - 21:15:32 CDT)
- Re: Re: Solvating a Protein in VMD using NON STANDARD SOLVENT (Sat Aug 13 2011 - 08:42:09 CDT)
- Re: Solvating a Protein in VMD using NON STANDARD SOLVENT (Sat Aug 13 2011 - 07:10:18 CDT)
- .COOR TO PDB FILE (Sat Aug 13 2011 - 01:11:48 CDT)
- Solvation in VMD using Non Standard Solvent System (Wed Aug 10 2011 - 07:35:32 CDT)
- Solvate a Protein for Explicit Solvent MD (Tue Aug 09 2011 - 04:16:03 CDT)
Bachir Aoun
- Re: export trajectory all frames coordinates to numpy array (Fri Jul 25 2014 - 10:34:43 CDT)
- Re: export trajectory all frames coordinates to numpy array (Thu Jul 24 2014 - 17:13:27 CDT)
- Re: export trajectory all frames coordinates to numpy array (Thu Jul 24 2014 - 16:33:06 CDT)
- export trajectory all frames coordinates to numpy array (Thu Jul 24 2014 - 13:58:49 CDT)
Badmos, Sakiru
- Viewing Isosurface from g_spatial on VMD (Mon Jan 23 2017 - 13:04:44 CST)
Bahaa Mostafa
- namdenergy plugin, selection field (Wed Jan 14 2015 - 23:56:13 CST)
- Re: non-bonded interactions (Sun Dec 28 2014 - 00:39:47 CST)
- Re: non-bonded interactions (Wed Dec 24 2014 - 23:42:56 CST)
- non-bonded interactions (Wed Dec 24 2014 - 02:54:43 CST)
Bailey, Steven
- VTF (Thu Jul 18 2013 - 08:35:28 CDT)
Bakary N'tji Diallo
- running TCL script (Tue Sep 14 2021 - 04:19:12 CDT)
- Transform structure to (Tue Oct 08 2019 - 01:20:35 CDT)
Baker, Joseph
- reading chain labels from amber prmtop (Fri Sep 08 2023 - 07:15:42 CDT)
Bala subramanian
- Re: viewing pca output (Fri May 02 2008 - 06:16:00 CDT)
- viewing pca output (Thu Apr 24 2008 - 08:09:43 CDT)
balas002_at_bama.ua.edu
- Re: Making movies (Wed Jun 30 2004 - 12:26:26 CDT)
- Re: Making movies (Tue Jun 29 2004 - 14:21:22 CDT)
- Re: Making movies (Tue Jun 29 2004 - 10:37:40 CDT)
- Re: Making movies (Mon Jun 28 2004 - 15:48:17 CDT)
- Re: Making movies (Mon Jun 28 2004 - 14:40:14 CDT)
- Re: Making movies (Wed Jun 23 2004 - 10:54:32 CDT)
- Making movies (Tue Jun 22 2004 - 16:15:27 CDT)
Balazs Jojart
- Re: How to read pdbqt file? (Sun Sep 04 2011 - 01:41:08 CDT)
- Re: Orienting a Protein (Fri Aug 12 2011 - 18:57:22 CDT)
- Re: setenv: Too many arguments (Sat Oct 16 2010 - 00:53:21 CDT)
- setenv: Too many arguments (Fri Oct 15 2010 - 16:34:52 CDT)
- Re: Selecting AMBER ions Cl- and Na+ using VMD (Wed Mar 17 2010 - 13:29:27 CDT)
- Re: masure distance trajectory - delete variable (Sun Jan 17 2010 - 13:20:20 CST)
- masure distance trajectory - delete variable (Sun Jan 17 2010 - 05:11:07 CST)
- Re: pbc wrap center on protein (Sat Dec 19 2009 - 14:56:22 CST)
- pbc wrap center on protein (Sat Dec 19 2009 - 12:16:22 CST)
- Re: helix axes (Tue Mar 31 2009 - 14:28:40 CDT)
- Re: Re: periodic boundary conditions (yes, i read the tutorials) (Tue Jul 29 2008 - 01:21:17 CDT)
BALCZIAK, LOUIS
- Merging multiple PDB files (Mon Jun 15 2015 - 13:24:49 CDT)
Balu, Radhakrishnan (Cont, ARL/WMRD)
- RE: Making movies in VMD (UNCLASSIFIED) (Thu Dec 06 2007 - 15:28:03 CST)
- (UNCLASSIFIED) (Tue Nov 27 2007 - 09:18:18 CST)
Bamidele Adisa
- removing surrounding water molecules (Fri Feb 13 2004 - 16:03:15 CST)
Ban Arn
- Volarea command line options (Wed Mar 22 2017 - 14:33:37 CDT)
- Re: porcupine plot (Wed Feb 05 2014 - 10:19:39 CST)
- Re: Hole program for vmd hole tcl script (Wed Nov 21 2012 - 08:19:48 CST)
- Re: Hole program for vmd hole tcl script (Wed Nov 21 2012 - 04:19:09 CST)
- Hole program for vmd hole tcl script (Tue Nov 20 2012 - 08:59:20 CST)
- 3rd party tools- vmd (Tue Nov 06 2012 - 11:46:59 CST)
- adding 3rdparty plugins in VMD-1.9.1 (Fri Oct 05 2012 - 07:00:11 CDT)
- Re: Running ProcupinePlot script (Mon Jun 25 2012 - 04:16:28 CDT)
- Re: Running ProcupinePlot script (Fri Jun 22 2012 - 12:30:56 CDT)
- Re: Running ProcupinePlot script (Fri Jun 22 2012 - 12:04:04 CDT)
- Re: Running ProcupinePlot script (Fri Jun 22 2012 - 11:54:15 CDT)
- Re: Running ProcupinePlot script (Fri Jun 22 2012 - 11:53:33 CDT)
- Running ProcupinePlot script (Fri Jun 22 2012 - 10:01:38 CDT)
- VMD NMWiz plugin (Thu Jun 21 2012 - 11:16:08 CDT)
- Re: helical content script (Tue May 01 2012 - 09:23:52 CDT)
- helical content script (Tue May 01 2012 - 05:55:51 CDT)
- Re: Hydrophobic mismatch script (Mon Apr 23 2012 - 05:29:34 CDT)
- Hydrophobic mismatch script (Mon Apr 23 2012 - 04:08:28 CDT)
- Re: Re: Thickness of bilayer script (Fri Apr 20 2012 - 05:30:38 CDT)
- lipid order parameter (Mon Apr 16 2012 - 05:16:31 CDT)
- Lipid order paramaeter script (Thu Apr 05 2012 - 04:35:52 CDT)
- Re: secondary structure calculation (Thu Mar 29 2012 - 05:05:38 CDT)
- Re: secondary structure calculation (Wed Mar 28 2012 - 04:47:27 CDT)
- secondary structure calculation (Tue Mar 27 2012 - 11:55:24 CDT)
- Input selection as xyz co-ordinates (Wed Feb 22 2012 - 09:09:33 CST)
- SASA -tcl script (Tue Feb 21 2012 - 12:36:07 CST)
- Re: Tcl script error (Thu Feb 09 2012 - 16:17:48 CST)
- Re: Tcl script error (Wed Feb 08 2012 - 15:59:22 CST)
- Re: Tcl script error (Mon Feb 06 2012 - 11:57:57 CST)
- Re: Tcl script error (Mon Feb 06 2012 - 12:05:49 CST)
- Re: Tcl script error (Mon Feb 06 2012 - 11:28:12 CST)
- Re: Tcl script error (Mon Feb 06 2012 - 11:12:12 CST)
- Tcl script error (Mon Feb 06 2012 - 10:50:14 CST)
- floating error - tcl script (Fri Feb 03 2012 - 04:51:11 CST)
- Re: Error while running steered MD script (Fri Feb 03 2012 - 03:07:34 CST)
- Re: Error while running steered MD script (Thu Feb 02 2012 - 17:29:02 CST)
- Error while running steered MD script (Thu Feb 02 2012 - 10:24:18 CST)
- Calculation of ligand displacement Vs time (Mon Jan 30 2012 - 03:53:27 CST)
- vmd ligand fluctuation analysis (Fri Dec 16 2011 - 09:28:41 CST)
- Binding site similarity (Mon Dec 05 2011 - 09:51:55 CST)
- tcl script (Fri Nov 25 2011 - 12:16:47 CST)
- Re: radius of gyration (Wed Nov 02 2011 - 16:02:45 CDT)
- radius of gyration (Wed Nov 02 2011 - 14:41:09 CDT)
- Re: VMD display residues (Wed Aug 31 2011 - 04:28:35 CDT)
- VMD display residues (Tue Aug 30 2011 - 12:14:35 CDT)
- Re: VMD movie (Tue Aug 30 2011 - 12:10:26 CDT)
- VMD movie (Tue Aug 30 2011 - 10:31:58 CDT)
- Water in binding site (Mon Aug 29 2011 - 04:47:53 CDT)
- Re: Aligning two proteins of varying atom numbers (Sun May 22 2011 - 16:25:11 CDT)
- Re: Aligning two proteins of varying atom numbers (Fri May 20 2011 - 09:04:53 CDT)
- Re: Aligning two proteins of varying atom numbers (Fri May 20 2011 - 06:37:47 CDT)
- Re: Aligning two proteins of varying atom numbers (Fri May 20 2011 - 04:23:12 CDT)
- Re: Aligning two proteins of varying atom numbers (Thu May 19 2011 - 11:37:40 CDT)
- Aligning two proteins of varying atom numbers (Thu May 19 2011 - 10:43:10 CDT)
- X & Y co-ordinate data (Sun May 01 2011 - 11:27:39 CDT)
- 2D Contour plot (Wed Apr 06 2011 - 05:06:09 CDT)
- Re: script for projection of c-alpha atom cordinates on xy plane (Tue Mar 22 2011 - 05:00:42 CDT)
- Re: script for projection of c-alpha atom cordinates on xy plane (Mon Mar 21 2011 - 10:37:03 CDT)
- script for projection of c-alpha atom cordinates on xy plane (Fri Mar 18 2011 - 12:58:19 CDT)
- Re: tcl script (Fri Mar 11 2011 - 11:15:51 CST)
- tcl script (Fri Mar 11 2011 - 09:06:00 CST)
- Re: Helix motions (Wed Feb 09 2011 - 10:50:45 CST)
- Helix motions (Mon Feb 07 2011 - 05:29:31 CST)
- CA distance command (Thu Feb 03 2011 - 08:16:14 CST)
- Re: water molecule count (Tue Feb 01 2011 - 10:25:52 CST)
- water molecule count (Tue Feb 01 2011 - 08:56:55 CST)
- Side-chain Dihedrals (Tue Feb 01 2011 - 05:07:19 CST)
- Water mediated hydrogen bond - VMD script (Tue Oct 26 2010 - 13:31:42 CDT)
- Water-mediated hydrogen bonds (Tue Sep 28 2010 - 04:19:30 CDT)
- Hydrogen bonds (Tue Sep 21 2010 - 11:17:10 CDT)
- 2D RMSD matrix plot (Fri Jul 30 2010 - 05:52:02 CDT)
- Dihedrals Angle (Wed Jul 28 2010 - 11:43:47 CDT)
- Re: 2D rmsd matrix plot for C-alpha atoms (Wed Jul 28 2010 - 07:55:33 CDT)
- Re: 2D rmsd matrix plot for C-alpha atoms (Wed Jul 28 2010 - 08:01:54 CDT)
- Re: 2D rmsd matrix plot for C-alpha atoms (Wed Jul 28 2010 - 07:45:52 CDT)
- 2D rmsd matrix plot for C-alpha atoms (Wed Jul 28 2010 - 05:50:21 CDT)
- 2D rmsd plot for C-alpha atoms (Tue Jul 27 2010 - 10:55:48 CDT)
- Re: Hydrophobic interaction (Fri Jun 18 2010 - 08:18:23 CDT)
- Hydrophobic interaction (Fri Jun 18 2010 - 07:30:45 CDT)
- Hydrophobic interaction (Fri Jun 18 2010 - 06:53:37 CDT)
- Hydrophobic interaction (Fri Jun 18 2010 - 05:59:43 CDT)
- Re: Interaction Energy (Wed Jun 02 2010 - 16:17:14 CDT)
- Re: Interaction Energy (Wed Jun 02 2010 - 11:35:57 CDT)
- Interaction Energy (Wed Jun 02 2010 - 07:29:38 CDT)
BAN,YOUNG MIN
- Bond representation of coarse grained molecules (Wed Sep 02 2009 - 16:52:23 CDT)
Bankf of the West
- eTimeBanker Bill Pay Service (Wed Aug 24 2005 - 11:02:50 CDT)
Baofu Qiao
- Re: Bond representation of coarse grained molecules (Wed Oct 07 2009 - 02:21:14 CDT)
baogen duan
- load two or more molecuoles at one time (Tue Nov 15 2005 - 21:42:53 CST)
- add a new file to vmd1.8.3 on linux(FC4) (Sun Oct 30 2005 - 21:50:22 CST)
- add a new file type to VMD on linux(FC4) (Thu Oct 27 2005 - 22:32:59 CDT)
- Hello! (Sat Oct 08 2005 - 05:54:54 CDT)
- Hello! (Mon Sep 26 2005 - 08:52:05 CDT)
Baoqiang Cao
- write pdb and psf with missing segments in original pdb file (Tue Sep 27 2005 - 21:10:07 CDT)
- an inconsistance between psf file and coor file after equilibration (Sun May 22 2005 - 22:28:16 CDT)
Barbault Florent
- inorganic builder (Wed Jun 07 2017 - 03:31:16 CDT)
- problem with 1.8.7 installation (Tue Aug 25 2009 - 04:50:41 CDT)
- Re: problem (Fri Feb 13 2009 - 05:24:39 CST)
- problem (Wed Feb 11 2009 - 02:41:52 CST)
barrett
- Apple VMD not showing gro file properly (Tue Feb 10 2004 - 07:56:50 CST)
- RE: movie making in batch mode (Fri Feb 06 2004 - 04:57:01 CST)
- movie making in batch mode (Tue Dec 16 2003 - 10:07:33 CST)
- RE: python: packages not found also... (Mon Sep 08 2003 - 05:44:12 CDT)
- RE: python: cannot find library (Thu Aug 07 2003 - 03:28:12 CDT)
- python: cannot find library (Wed Aug 06 2003 - 04:53:06 CDT)
Barry Bickmore
- trajectory analysis (Wed Sep 23 2009 - 11:39:08 CDT)
- bonds across periodic boundaries (Tue Oct 16 2007 - 08:53:09 CDT)
Barry Isralewitz
- Re: unable to animate alanine.dcd (Sat Dec 06 1997 - 07:30:28 CST)
- Re: M1 Mac menu issues (Fri Jan 05 2024 - 16:29:08 CST)
- VMD for macOS - easy install with new code-signed versions (Fri Dec 01 2023 - 17:29:19 CST)
- Re: alter crosshair appearance (Fri Jun 22 2018 - 13:18:31 CDT)
- Re: Obtaining VMD view matrices for tcl script (Wed Feb 21 2018 - 13:55:31 CST)
- Re: VMD interface and TkConsole font (Fri Dec 08 2017 - 15:36:09 CST)
- Re: Accessing Mapped Drive Files on iMac (Fri May 12 2017 - 14:11:13 CDT)
- Re: Accessing Mapped Drive Files on iMac (Fri May 12 2017 - 12:01:17 CDT)
- Re: Re: Alpha-RMSD (Thu May 28 2015 - 17:29:54 CDT)
- Re: Heat mapper (Mon Oct 08 2012 - 13:09:39 CDT)
- Re: Support for Retina displays? (Sun Sep 30 2012 - 12:08:42 CDT)
- Re: what's the Letter in figure caption meaning of TIME-LINE 2nd structure present? (Mon May 07 2012 - 12:32:42 CDT)
- Re: Plotting of Co-ordinates on VMD (Fri Mar 30 2012 - 14:25:06 CDT)
- Re: secondary structure calculation (Tue Mar 27 2012 - 12:44:38 CDT)
- Re: VMD Contact map through time (Wed Feb 08 2012 - 16:47:22 CST)
- Re: Visualizing Timeline (tml) data w/o having to load trajectories (Thu Oct 27 2011 - 13:25:08 CDT)
- Re: time line (Wed Mar 16 2011 - 15:03:45 CDT)
- Re: contact map for Protein-DNA interaction (Mon Jul 12 2010 - 13:50:25 CDT)
- Re: your mail (Tue Jan 02 2007 - 12:21:16 CST)
- Re: [jrodgers78@gmail.com: outputing secondary structure from timeline] (Mon Jan 23 2006 - 15:16:42 CST)
- Re: aligntool (Thu Feb 13 2003 - 19:33:38 CST)
- Re: Animating Trajectories/NAMD Output files (Wed May 08 2002 - 11:37:05 CDT)
- Re: Animating Trajectories/NAMD Output files (Wed May 08 2002 - 11:01:26 CDT)
- Re: Animating Trajectories/NAMD Output files (Tue May 07 2002 - 22:15:21 CDT)
- Re: secondary structure (Tue Dec 11 2001 - 11:46:33 CST)
- Re: making a movie of trajectory file animation (Thu Nov 08 2001 - 15:51:55 CST)
- Re: fixing a molecule (Wed Aug 01 2001 - 17:40:06 CDT)
- Announce: ZoomSeq -- sequence browser for VMD (Thu Dec 28 2000 - 14:54:20 CST)
- Re: povray images allways perspective? (Thu Dec 14 2000 - 11:02:29 CST)
- Re: CCL:program for viewing MD (Mon Oct 23 2000 - 11:55:02 CDT)
- Re: Using VMD to edit dynamics output (Mon Oct 02 2000 - 01:07:39 CDT)
- Re: Prachi Singh's mail (Mon Jun 05 2000 - 16:19:59 CDT)
Bart Bruininks
- Custom selection variable (Tue Aug 08 2023 - 09:12:23 CDT)
- Coloring/material of ply files (Tue Nov 15 2022 - 09:29:59 CST)
- Re: VRAM memory piling up OPTIX 1.9.4a42 rendering consecutive frames (Tue Jun 16 2020 - 07:29:14 CDT)
- Re: VRAM memory piling up OPTIX 1.9.4a42 rendering consecutive frames (Wed Jun 10 2020 - 11:07:58 CDT)
- Re: VRAM memory piling up OPTIX 1.9.4a42 rendering consecutive frames (Wed Jun 10 2020 - 08:37:09 CDT)
- Re: Black screen OPTIX interactive rendering (Wed Jun 10 2020 - 08:20:49 CDT)
- VRAM memory piling up OPTIX 1.9.4a42 rendering consecutive frames (Wed Jun 10 2020 - 08:05:10 CDT)
- Black screen OPTIX interactive rendering (Wed Jun 10 2020 - 05:22:39 CDT)
- Re: resname X and pbwithin resname X excluding intramolecular (Sat Jun 06 2020 - 14:47:30 CDT)
- resname X and pbwithin resname X excluding intramolecular (Fri Jun 05 2020 - 08:14:43 CDT)
- Re: Files not written during OptiX ray tracing (Fri Dec 13 2019 - 05:01:18 CST)
- Re: Loading large trajectories using multiple threads/direct calls? (Thu Dec 05 2019 - 17:06:26 CST)
- Re: Loading large trajectories using multiple threads/direct calls? (Thu Dec 05 2019 - 11:00:50 CST)
- Files not written during OptiX ray tracing (Thu Dec 05 2019 - 10:56:54 CST)
- Loading large trajectories using multiple threads/direct calls? (Thu Dec 05 2019 - 05:54:10 CST)
- Adaptive real time selection and coloring in default display (Thu Jun 27 2019 - 10:05:11 CDT)
- Some bugs and questions about the 1.9.4a29 version (Mon Apr 29 2019 - 03:57:59 CDT)
- Rasterized default display rendering vs ray-tracing (interactive) (Wed Apr 17 2019 - 06:02:46 CDT)
Bartek Dobrzelecki
- Labels (atom type, partial charge) (Thu Jul 17 2003 - 06:00:22 CDT)
Basak Isin
- Reference to SASA calculation in VMD (Tue Oct 18 2005 - 10:12:24 CDT)
Basanta Acharya
- Re: Vmd uninstallation and reinstallation (Tue Oct 06 2020 - 21:43:56 CDT)
- shifting of ions from +z to -z in a single frame(1ps) (Tue Oct 06 2020 - 21:39:01 CDT)
- TCL force script (Thu Oct 01 2020 - 02:29:01 CDT)
- Regarding arsorite files (Tue Sep 15 2020 - 06:59:12 CDT)
Basheer Subei
- Re: Oculus Rift (Sun Nov 02 2014 - 15:26:31 CST)
- Re: Autoi::sod2pot problem in "Modeling Nanopores for Sequencing DNA" tutorial (Fri Aug 15 2014 - 14:07:12 CDT)
- Autoi::sod2pot problem in "Modeling Nanopores for Sequencing DNA" tutorial (Fri Aug 15 2014 - 13:45:20 CDT)
Bashir
- XYZ (Thu Dec 01 2016 - 10:52:03 CST)
- Psf format (Sat Aug 16 2014 - 12:28:49 CDT)
Bashir Fotouhi
- Re: vmd-1.9.1 linux installation problem (Mon Jul 21 2014 - 02:23:59 CDT)
- Graphene (Sat Jul 12 2014 - 04:55:12 CDT)
Bassam Haddad
- FFTK Parameterization of Halogenated Molecule (Thu May 05 2022 - 11:24:24 CDT)
- Re: FFTK segmentation fault when guessing charge groups (Fri Dec 03 2021 - 07:09:39 CST)
- FFTK segmentation fault when guessing charge groups (Fri Dec 03 2021 - 02:35:30 CST)
- Re: FFTK - ORCA (Thu Sep 30 2021 - 11:07:34 CDT)
- Re: FFTK - ORCA (Tue Sep 28 2021 - 15:21:28 CDT)
- Re: FFTK - ORCA (Tue Sep 21 2021 - 10:34:26 CDT)
- Re: FFTK - ORCA (Sat Sep 18 2021 - 11:02:25 CDT)
- FFTK - ORCA (Mon Sep 13 2021 - 04:41:40 CDT)
- Re: Manipulating volumes in VMD (Fri Dec 18 2020 - 13:21:00 CST)
- Manipulating volumes in VMD (Thu Dec 10 2020 - 16:18:23 CST)
- Re: VMD Align command (Mon Oct 19 2020 - 17:07:54 CDT)
- Re: Error in PSFGEN (Mon Oct 19 2020 - 15:45:28 CDT)
- Re: Error in PSFGEN (Mon Oct 19 2020 - 12:38:16 CDT)
- Re: Error in PSFGEN (Wed Oct 14 2020 - 20:22:12 CDT)
- Error in PSFGEN (Wed Oct 14 2020 - 18:15:45 CDT)
- Re: Unusual coordinates in PDB files exracted from dcd file (Sun Sep 20 2020 - 17:21:56 CDT)
- Re: Create Binding Pocket of Every PDB File In A Directory Using TCL Scripts and Atomselect Command protein and within 4 of resname LIG (Mon Jul 20 2020 - 13:31:24 CDT)
- Re: Create Binding Pocket of Every PDB File In A Directory Using TCL Scripts and Atomselect Command protein and within 4 of resname LIG (Mon Jul 20 2020 - 12:58:36 CDT)
- Re: analyzing amino acids forming pore constrictions in a channel protein (Tue Jun 02 2020 - 12:33:03 CDT)
- Re: analyzing amino acids forming pore constrictions in a channel protein (Tue Jun 02 2020 - 11:44:55 CDT)
- Re: Minmax command (Sun Mar 01 2020 - 12:09:38 CST)
- Re: voltool mask usage (Sat Feb 08 2020 - 03:10:55 CST)
- Re: lammps data file simulation box center and VMD origin (Wed Oct 02 2019 - 11:18:32 CDT)
- Re: Scripting with volumes (Fri Jul 26 2019 - 15:19:02 CDT)
- Scripting with volumes (Thu Jul 25 2019 - 16:45:32 CDT)
- Re: Merging two proteins (Mon Jun 17 2019 - 15:50:19 CDT)
- Re: User-defined coloring (Thu Jun 06 2019 - 15:41:21 CDT)
- Re: Issues with Tcl script for MD Prep (Tue May 28 2019 - 14:29:05 CDT)
- Re: Centering an atom over the length of a trajectory (Tue Feb 26 2019 - 16:25:15 CST)
- Re: Centering an atom over the length of a trajectory (Tue Feb 26 2019 - 16:30:29 CST)
- Re: extracting 1-D data from a volumetric file (Thu Feb 21 2019 - 16:02:08 CST)
- extracting 1-D data from a volumetric file (Thu Feb 21 2019 - 12:47:04 CST)
Baumert, Uwe Dr.rer.nat.
- VMD 1.8.7 beta5 probs with NVIDIA Quadro FX3450/4000 graphic card (Mon Jun 22 2009 - 04:18:54 CDT)
baxy
- inserting protein into membrane (Thu May 17 2007 - 08:39:58 CDT)
- Sequences and BLAST searching (Wed Nov 15 2006 - 06:51:22 CST)
- Sequences and BLAST searching (Wed Nov 15 2006 - 06:47:08 CST)
bbickmore_at_comcast.net
- setting unit cell dimensions (Sun Oct 14 2007 - 23:07:50 CDT)
Beat Meier
- vmd freezes for certain files on MacOs 10.10.4 (Thu Aug 13 2015 - 02:17:10 CDT)
- custom color on surface plot (Thu Apr 10 2014 - 09:09:05 CDT)
- manually change secondary structure (Fri Feb 21 2014 - 07:46:02 CST)
Behnam Ghalami
- Re: VMD does not display bonds (Fri Nov 09 2018 - 13:27:27 CST)
- VMD does not display bonds (Wed Nov 07 2018 - 02:26:03 CST)
Behrmann, Elmar
- Dowser-plugin with RNA (Wed Oct 16 2013 - 07:36:12 CDT)
Ben Chern
- Re: Using namdenergy in batch mode to compute dihedral energies (Sun Apr 13 2008 - 20:49:26 CDT)
- Re: Compiling VMD under Windows XP (Thu Apr 03 2008 - 07:14:22 CDT)
- Re: Compiling VMD under Windows XP (Tue Apr 01 2008 - 20:26:36 CDT)
- Re: Compiling VMD under Windows XP (Tue Apr 01 2008 - 01:33:34 CDT)
- Re: Compiling VMD under Windows XP (Mon Mar 31 2008 - 21:39:41 CDT)
- Re: using cvs under Windows XP (Mon Mar 31 2008 - 10:21:11 CDT)
- using cvs under Windows XP (Mon Mar 31 2008 - 08:31:31 CDT)
- Compiling VMD under Windows XP (Mon Mar 31 2008 - 04:13:38 CDT)
- Re: Can VMD show the interactions between different structure part? (Thu Mar 27 2008 - 20:26:13 CDT)
- Re: Can VMD show the interactions between different structure part? (Thu Mar 27 2008 - 06:35:56 CDT)
- Can VMD show the interactions between different structure part? (Wed Mar 26 2008 - 22:20:57 CDT)
- Re: Can we get secondary structure from PDB files? (Wed Mar 26 2008 - 22:12:12 CDT)
- Re: Can we get secondary structure from PDB files? (Wed Mar 26 2008 - 20:44:00 CDT)
- Can we get secondary structure from PDB files? (Wed Mar 26 2008 - 04:02:04 CDT)
Ben Cornett
- 1.6.1 hotkey problem (Wed May 02 2001 - 13:05:47 CDT)
- Re: SGI O2 stereo problems (Thu Mar 09 2000 - 12:13:20 CST)
Ben Cossins
- Re: Install of VMD on amazon linux2 NICE DCV server (Sun Nov 14 2021 - 13:29:37 CST)
- Install of VMD on amazon linux2 NICE DCV server (Sat Nov 06 2021 - 10:56:34 CDT)
Ben Eisenbraun
- Re: Mac and cmd line (Mon Aug 24 2009 - 15:50:58 CDT)
Ben Hall
- Unusual visualisations (Wed Feb 01 2012 - 09:54:01 CST)
- Quantitative meaning of volmap isosurface (Tue Jan 31 2012 - 06:01:20 CST)
Ben Hanson
- RE: topo guessatom (Tue Feb 10 2015 - 09:25:05 CST)
- RE: topo guessatom (Tue Feb 10 2015 - 08:22:02 CST)
- topo guessatom (Mon Feb 09 2015 - 12:03:14 CST)
Ben Lowe
- Re: Rendering with Tachyon GPU enabled (TachyonLOptiXInternal) with options (Tue Nov 15 2016 - 12:44:53 CST)
- Rendering with Tachyon GPU enabled (TachyonLOptiXInternal) with options (Fri Nov 11 2016 - 11:32:47 CST)
Ben Roberts
- Re: TCL strangeness (Thu Dec 08 2011 - 21:17:45 CST)
- Re: TCL strangeness (Thu Dec 08 2011 - 20:07:16 CST)
- Re: Error encountered when quitting VMD on the Mac (Wed Oct 13 2010 - 12:39:07 CDT)
- Re: Error encountered when quitting VMD on the Mac (Mon Sep 13 2010 - 21:12:37 CDT)
- Error encountered when quitting VMD on the Mac (Mon Sep 13 2010 - 16:55:53 CDT)
- Closing filehandles in vmd tcl script (Thu Jan 20 2005 - 21:05:51 CST)
- Re: Unit cell coordinates and radial distribution functions (Thu Jul 22 2004 - 20:27:18 CDT)
- Unit cell coordinates and radial distribution functions (Mon Jul 19 2004 - 21:12:38 CDT)
Ben Rodriguez
- Saving coordinates that meet selection criteria for each frame (Tue Apr 17 2012 - 18:28:43 CDT)
- VMD 1.8.7 and NVIDIA 256.35 driver problems (CUDA issue?) (Thu Jun 24 2010 - 14:29:18 CDT)
- Is nvidia 3D Vision + quadro working in linux (Tue Apr 27 2010 - 17:16:48 CDT)
- Displaying local water molecules throughout trajectory (Thu Feb 26 2009 - 14:47:26 CST)
- Unrecognized Chains in VMD for tetrameric protein (Thu Feb 19 2009 - 18:14:55 CST)
- Calculating pocket volume (Thu Aug 28 2008 - 16:37:55 CDT)
Ben Rousseau
- Loading .vel files into vmd (Wed Dec 02 2015 - 11:42:00 CST)
Benedetta Sampoli Benitez
- PBC wrap with an octahedral water box (Wed Jan 27 2021 - 11:44:46 CST)
Beniamino Sciacca
- problem with vmd (Tue Mar 28 2006 - 13:44:37 CST)
Benj FitzPatrick
- Re: VMD-1.9.1 and TC/TK-8.6 break analysis g(r) and IR Spectral Density Calculator (Wed Feb 27 2013 - 17:32:20 CST)
- VMD-1.9.1 and TC/TK-8.6 break analysis g(r) and IR Spectral Density Calculator (Thu Jan 17 2013 - 14:47:11 CST)
Benjamin Bouvier
- Binary VMD buid for Linux, text mode only (Wed Mar 03 2010 - 09:26:20 CST)
- Re: Principle Component Analysis of Protein PDB Structures (Mon Feb 22 2010 - 14:43:40 CST)
- Re: problem of installing vmd 1.8.7 on Mac osx 10.4.11 (Wed Feb 17 2010 - 10:50:33 CST)
- HOOMD plugin (Tue Jan 12 2010 - 11:04:08 CST)
- Re: vmd mailing list (Fri Oct 16 2009 - 03:46:43 CDT)
- Re: model protein chain not displayed properly (Mon Sep 28 2009 - 14:54:09 CDT)
- Re: namd-l: how to write a command to close vmd in shell script? (Mon Aug 10 2009 - 03:07:38 CDT)
- Re: VMD and X forwarding to MacOS 10.5.7 (Fri Jun 12 2009 - 11:33:47 CDT)
- Re: VMD and X forwarding to MacOS 10.5.7 (Fri Jun 12 2009 - 10:45:37 CDT)
- Re: VMD and X forwarding to MacOS 10.5.7 (Fri Jun 12 2009 - 10:28:17 CDT)
- VMD and X forwarding to MacOS 10.5.7 (Fri Jun 12 2009 - 09:48:29 CDT)
- Re: get a PDB file from DCD file (Tue Jan 27 2009 - 09:49:51 CST)
- Re: odd render problems with Vista (Sun Jan 11 2009 - 14:20:04 CST)
- Re: script that reacts on movement of frameslider in vmd main (Mon Dec 01 2008 - 09:28:55 CST)
- Re: Per-frame 'graphics'? (Fri Oct 31 2008 - 13:36:24 CDT)
- Per-frame 'graphics'? (Fri Oct 31 2008 - 10:46:03 CDT)
- Re: reading multiples molecules. (Tue Oct 28 2008 - 06:15:45 CDT)
- Re: Improving VMD performance on Linux? (Mon Oct 20 2008 - 06:05:26 CDT)
- Re: Deleting frames / molecules does not free up memory! (Tue Oct 14 2008 - 11:34:44 CDT)
- Deleting frames / molecules does not free up memory! (Tue Oct 14 2008 - 10:26:55 CDT)
- Re: 3DConnexion SpaceNavigator in 1.8.7alpha30 on OS X (Wed Jul 30 2008 - 10:36:17 CDT)
- 3DConnexion SpaceNavigator in 1.8.7alpha30 on OS X (Wed Jul 30 2008 - 09:37:32 CDT)
Benjamin Cowen
- Writing Lammps data file (Sat Apr 04 2015 - 21:46:30 CDT)
- Re: Bond error (Sun Aug 04 2013 - 18:07:39 CDT)
- Re: Bond error (Sat Aug 03 2013 - 16:07:17 CDT)
- Bond error (Fri Aug 02 2013 - 15:25:37 CDT)
- Macromolecule? (Tue Jul 02 2013 - 18:38:55 CDT)
Benjamin Goldsteen
- Re: Solutions for stereo - is CRT technology dead? (Mon May 22 2006 - 11:15:44 CDT)
- Re: Choice of a Linux machine for VMD and high-end computing (Wed Apr 06 2005 - 16:58:07 CDT)
- Re: stereo for XP and Linux (Wed Jan 12 2005 - 18:04:44 CST)
- Re: msms and vmd on amd athlon64. (Mon Mar 15 2004 - 14:18:16 CST)
- Re: color problem with Ati Fire GL E1 (Wed Mar 03 2004 - 22:23:31 CST)
- Re: vmd crashes after startup... (Wed Dec 03 2003 - 22:46:17 CST)
- Fwd: Re: graphics card (Sun Nov 30 2003 - 19:02:23 CST)
- Re: VMD 1.8.1 MacOSX running very slow on new G4 1 GHz Powerbook (Sun Nov 09 2003 - 20:49:02 CST)
Benjamin Hall
- Re: Quantitative meaning of volmap isosurface (Tue Jan 31 2012 - 07:32:50 CST)
- Re: For loops decelerate (Mon Jun 06 2011 - 16:28:31 CDT)
- Re: For loops decelerate (Fri Jun 03 2011 - 11:23:25 CDT)
- For loops decelerate (Thu Jun 02 2011 - 03:39:02 CDT)
- Re: Batch mode on Mac OS 10.5.3 (Wed Jun 04 2008 - 08:26:23 CDT)
- Batch mode on Mac OS 10.5.3 (Tue Jun 03 2008 - 05:16:52 CDT)
- Measuring fit exclusively in 1 plane (Thu May 01 2008 - 04:59:04 CDT)
- Re: Re: porcupine plot (Thu Apr 03 2008 - 12:00:11 CDT)
- Re: porcupine plot (Wed Apr 02 2008 - 17:30:49 CDT)
Benjamin Hill
- changing molid number (Mon Jul 04 2016 - 16:02:27 CDT)
Benjamin Joseph Coscia
- .gro files written with python script not displayed until strange modification (Thu Feb 02 2017 - 14:51:44 CST)
Benjamin Kaduk
- Re: Out of memory when loading 700 MB trajectory file (Fri Sep 11 2015 - 11:59:13 CDT)
- Re: Drawing circles and tooltips. (Fri Feb 28 2014 - 23:22:48 CST)
- Re: Drawing circles and tooltips. (Fri Feb 28 2014 - 21:57:36 CST)
- Re: vmd in Debian (Thu Sep 12 2013 - 18:19:33 CDT)
- Re: Coloring lots of Groups (Thu Dec 06 2012 - 13:48:37 CST)
- Re: Q-chem MD output with VMD? (Wed Sep 19 2012 - 09:07:18 CDT)
- lib/stride/README (Mon Mar 19 2012 - 21:57:22 CDT)
- plugins/hesstrans/Makefile recurses on CXXFLAGS (Mon Mar 19 2012 - 21:42:36 CDT)
Benjamin SCHWARZ
- loading a new molecule without changing the view (Fri Jan 06 2006 - 08:01:05 CST)
Benjamin Stauch
- parallel VMD (Tue Sep 16 2008 - 07:47:16 CDT)
Benjamin.Haberl_at_physik.uni-muenchen.de
- MDFF with two symmetry groups (Tue May 17 2016 - 14:48:19 CDT)
Bennion, Brian
- DMARC settings (Tue Feb 04 2025 - 13:01:38 CST)
- retaining HETAM and conect records in pdb files (Fri Sep 13 2024 - 17:14:37 CDT)
- Re: altloc pdb entries (Thu Aug 15 2024 - 00:33:18 CDT)
- altloc pdb entries (Tue Aug 13 2024 - 19:47:41 CDT)
- Re: selecting first instance of a ligand from several in pdb file (Mon Jul 29 2024 - 13:49:39 CDT)
- selecting first instance of a ligand from several in pdb file (Sat Jul 27 2024 - 18:10:43 CDT)
- Re: unable to open VMD as normal (Tue Feb 06 2024 - 17:42:31 CST)
- RE: unable to open VMD as normal (Tue Feb 06 2024 - 11:57:41 CST)
- Re: Trajectory Smoothing and length of hydrogen bonds (Thu May 11 2023 - 16:52:32 CDT)
- Re: ChatGPT knows basic VMD scripting... (Mon Feb 13 2023 - 11:28:20 CST)
- Re: QMMM Update (Fri Oct 21 2022 - 14:44:12 CDT)
- support for gromacs topology files (Wed Nov 24 2021 - 14:20:11 CST)
- Re: Switching from MP2 in FFTK? (Fri Mar 26 2021 - 13:19:52 CDT)
- Re: PDB Format (Thu Dec 17 2020 - 22:44:26 CST)
- adding modified residue into psf file from pdb (Mon Jan 13 2020 - 17:20:32 CST)
- Re: How to calculate water density. (Mon Jun 17 2019 - 14:38:04 CDT)
- Re: How to calculate water density. (Mon Jun 17 2019 - 10:44:55 CDT)
- RE: VMD Text Mode (Thu Mar 07 2019 - 19:07:49 CST)
- Re: tcl script to pull pdb file from tgz (Fri Jun 22 2018 - 11:19:24 CDT)
- Vmd tcl versions (Mon Jun 18 2018 - 11:04:01 CDT)
- tcl script to pull pdb file from tgz (Fri Jun 15 2018 - 10:08:50 CDT)
- Re: PDB Question (Mon Apr 23 2018 - 12:34:18 CDT)
- RE: VMD Segfault Fedora 27 (Tue Mar 06 2018 - 15:01:16 CST)
- Re: tcl script not executed when submitted using a slurm script (Wed Dec 20 2017 - 10:45:35 CST)
- RE: rlwrap: Command not found. (Tue Sep 05 2017 - 10:31:58 CDT)
- RE: Study the hydrogen bond in VMD (Tue Sep 05 2017 - 10:31:57 CDT)
- Re: VMD and latest XQuartz update (Tue Apr 11 2017 - 09:56:53 CDT)
- RE: zoom and focus on on a selection (Tue Mar 14 2017 - 10:31:59 CDT)
- RE: Usage of the Orient package (Tue Mar 07 2017 - 12:07:27 CST)
- RE: pdb reader plugin error checking (Thu Sep 22 2016 - 13:28:07 CDT)
- pdb reader plugin error checking (Tue Sep 20 2016 - 13:47:26 CDT)
- list structure in measure cluster output (Fri Jul 22 2016 - 11:25:50 CDT)
- strange output from measure cluster (Thu Jul 21 2016 - 17:31:46 CDT)
- RE: how to explore the frame number in clustering analysis by the clustering plugin (Thu Jul 07 2016 - 16:05:37 CDT)
- RE: (Wed Jun 15 2016 - 18:11:37 CDT)
- RE: (Wed Jun 15 2016 - 16:40:08 CDT)
- RE: Running a source script from a C shell (Thu Jun 02 2016 - 12:53:41 CDT)
- RE: Finding waters near a protein (Tue Apr 26 2016 - 17:26:05 CDT)
- RE: Problem visualizing a pdbqt file generated by AutoDockTools (Wed Dec 02 2015 - 17:41:25 CST)
- RE: Problem visualizing a pdbqt file generated by AutoDockTools (Wed Nov 25 2015 - 08:54:10 CST)
- RE: Plugin to read DCD files (Fri Sep 18 2015 - 10:05:38 CDT)
- RE: Plot of distance between two atoms vs frame number (Tue Aug 18 2015 - 14:24:08 CDT)
- RE: 3dconnexion spacemouse pro and vmd on fedora 21 (Thu Aug 06 2015 - 12:15:13 CDT)
- RE: 3dconnexion spacemouse pro and vmd on fedora 21 (Thu Aug 06 2015 - 11:36:17 CDT)
- 3dconnexion spacemouse pro and vmd on fedora 21 (Wed Aug 05 2015 - 15:02:54 CDT)
- RE: Questions regarding fftk and Gaussian (Fri Jun 26 2015 - 20:32:01 CDT)
- RE: differentiate between nitroso and oxime atomselections (Thu Jun 18 2015 - 11:03:48 CDT)
- differentiate between nitroso and oxime atomselections (Wed Jun 17 2015 - 18:55:27 CDT)
- RE: (Fri May 29 2015 - 10:48:54 CDT)
- RE: Questions regarding fftk and Gaussian (Tue May 19 2015 - 10:51:51 CDT)
- RE: fftk water interaction questions (Tue Apr 21 2015 - 16:09:46 CDT)
- fftk water interaction questions (Mon Apr 20 2015 - 14:18:45 CDT)
- within command (Fri Jan 23 2015 - 14:31:44 CST)
- RE: Re: FW: atomselection by wildcard and distance exclusion (Tue Jan 13 2015 - 12:23:11 CST)
- RE: Re: FW: atomselection by wildcard and distance exclusion (Tue Jan 13 2015 - 10:04:52 CST)
- FW: atomselection by wildcard and distance exclusion (Mon Jan 12 2015 - 23:12:58 CST)
- atomselection by wildcard and distance exclusion (Mon Jan 12 2015 - 18:57:52 CST)
- RE: a script to count the frames in which some water molecules interact with selected protein atoms (Tue Dec 30 2014 - 10:25:41 CST)
- RE: Error while calculating rotational angle (Thu Oct 09 2014 - 15:09:58 CDT)
- using vmd to apply symmetry operators part 2 (Thu Sep 18 2014 - 17:21:43 CDT)
- building amino acid modification (Wed Aug 27 2014 - 18:00:26 CDT)
- RE: vmd hangs at creating CUDA pool (Tue Aug 19 2014 - 11:41:12 CDT)
- vmd hangs at creating CUDA pool (Tue Aug 19 2014 - 11:11:17 CDT)
- autoionize with polyatomic ions (Mon Aug 18 2014 - 16:06:29 CDT)
- ammonium sulfate ions in system (Fri Aug 15 2014 - 15:51:52 CDT)
- RE: 3-d printing of vmd scenes (Wed May 28 2014 - 11:53:36 CDT)
- 3-d printing of vmd scenes (Fri May 16 2014 - 12:49:05 CDT)
- RE: default representations for multiple molecules (Thu May 15 2014 - 17:48:54 CDT)
- RE: VMD can't read 1OXY (Tue Feb 11 2014 - 12:31:35 CST)
- RE: VMD can't read 1OXY (Tue Feb 11 2014 - 12:17:16 CST)
- RE: VMD can't read 1OXY (Tue Feb 11 2014 - 11:03:32 CST)
- wrapper for VMD to read compressed .xz files (Fri Jan 31 2014 - 16:33:18 CST)
- RE: AMD vs. nvidia support (Wed Dec 11 2013 - 12:50:36 CST)
- RE: writing PDB (Thu Oct 24 2013 - 17:23:25 CDT)
- RE: Finding particles that are close (Tue Oct 08 2013 - 10:24:22 CDT)
- RE: manipulation of atomselections (Fri Jul 05 2013 - 17:27:28 CDT)
- manipulation of atomselections (Fri Jul 05 2013 - 15:54:16 CDT)
- RE: fftk Opt. Charges (Thu Jun 27 2013 - 15:56:52 CDT)
- RE: fftk Opt. Charges (Thu Jun 27 2013 - 14:53:35 CDT)
- RE: fftk Opt. Charges (Tue Jun 18 2013 - 17:47:56 CDT)
- RE: error in merging two structures (Thu Jun 13 2013 - 12:25:34 CDT)
- RE: error in merging two structures (Thu Jun 13 2013 - 10:32:34 CDT)
- RE: regarding FFTK (Tue May 28 2013 - 11:09:20 CDT)
- starting vmd in current working directory (Wed May 22 2013 - 11:59:28 CDT)
- RE: Suggestions on parameterizing a ligand to simulate in NAMD (Mon May 20 2013 - 14:15:26 CDT)
- RE: how to convert dcd AND ALIGN molecules then to pdbs in command line (Thu Apr 11 2013 - 10:08:08 CDT)
- RE: parameters for PE100 chain? (Wed Apr 10 2013 - 11:56:31 CDT)
- RE: how to convert dcd AND ALIGN molecules then to pdbs in command line (Wed Apr 10 2013 - 11:52:03 CDT)
- RE: how to convert dcd to pdbs in command line (Tue Apr 09 2013 - 12:44:59 CDT)
- RE: definition of single word "protein" selection (Wed Feb 27 2013 - 10:22:55 CST)
- definition of single word "protein" selection (Tue Feb 26 2013 - 17:00:39 CST)
- RE: visualizing multiframe trajectory simultaneously with multimolecule (Mon Dec 17 2012 - 10:19:02 CST)
- RE: visualizing multiframe trajectory simultaneously with multimolecule (Fri Dec 14 2012 - 17:06:03 CST)
- visualizing multiframe trajectory simultaneously with multimolecule (Thu Dec 13 2012 - 11:46:18 CST)
- RE: Hole program for vmd hole tcl script (Wed Nov 21 2012 - 10:20:21 CST)
- RE: Hole program for vmd hole tcl script (Tue Nov 20 2012 - 12:14:30 CST)
- [Solved]RE: molfile_plugins makefile errors (Mon Nov 19 2012 - 18:09:11 CST)
- RE: VMD can't display new PDB secondary structure properly (pyMol, jMol can) (Mon Nov 19 2012 - 17:30:19 CST)
- molfile_plugins makefile errors (Mon Nov 19 2012 - 15:24:33 CST)
- building plugins fails on tcl based plugins (Mon Nov 19 2012 - 14:59:18 CST)
- RE: VMD QMTool (Mon Nov 19 2012 - 14:51:36 CST)
- RE: acylated and amidated parameters. (Wed Nov 14 2012 - 11:52:05 CST)
- tc.h error while compiling vmd (Tue Nov 13 2012 - 16:00:27 CST)
- RE: Secondary structure analysis (Wed Oct 24 2012 - 14:32:32 CDT)
- RE: secondary structure calculations (Sat Oct 13 2012 - 23:03:19 CDT)
- RE: secondary structure calculations (Fri Oct 12 2012 - 11:27:25 CDT)
- secondary structure calculations (Thu Oct 11 2012 - 18:16:25 CDT)
- RE: Big DCD file help (Tue Sep 25 2012 - 11:43:52 CDT)
- RE: possible problem with graphics rep gui under with large numbers of molecules (Fri Jul 27 2012 - 12:41:51 CDT)
- RE: Loop for (Thu May 10 2012 - 21:17:27 CDT)
- RE: Re:Problem with generating psf using CGENFF (Mon Apr 30 2012 - 13:26:00 CDT)
- RE: Problem with generating psf using CGENFF (Fri Apr 27 2012 - 11:57:18 CDT)
- RE: Problem with generating psf using CGENFF (Fri Apr 27 2012 - 09:23:34 CDT)
- RE: Problem with generating psf using CGENFF (Thu Apr 26 2012 - 13:27:45 CDT)
- RE: Problem with hydration script (Thu Apr 19 2012 - 14:32:53 CDT)
- adding patches via autopsf (Wed Mar 21 2012 - 11:34:47 CDT)
- RE: pdb reader/writer appears to corrupt pdb output (Thu Feb 16 2012 - 16:04:27 CST)
- pdb reader/writer appears to corrupt pdb output (Thu Feb 16 2012 - 14:49:06 CST)
- testing vmd1.9.1 (Mon Feb 06 2012 - 18:19:19 CST)
- RE: using vmd to apply symmetry transformations (Fri Jan 13 2012 - 11:06:27 CST)
- using vmd to apply symmetry transformations (Fri Jan 13 2012 - 09:21:39 CST)
- RE: linux issues (Mon Sep 12 2011 - 12:25:34 CDT)
- RE: can not import Hessian/charge from single point calculation (Wed Jun 22 2011 - 12:55:36 CDT)
- RE: can not import Hessian/charge from single point calculation (Tue Jun 21 2011 - 12:04:46 CDT)
- RE: parameterization tool (Thu Jun 09 2011 - 11:52:29 CDT)
- parameterization tool (Wed Jun 08 2011 - 16:14:31 CDT)
- RE: vmd1.9beta1 namdEnergyPlugin (Mon Feb 28 2011 - 16:06:28 CST)
- RE: vmd1.9beta1 namdEnergyPlugin (Fri Feb 25 2011 - 10:45:04 CST)
- RE: vmd1.9beta1 namdEnergyPlugin (Thu Feb 24 2011 - 12:42:02 CST)
- vmd1.9beta1 (Wed Feb 23 2011 - 14:21:51 CST)
- RE: VMD XRequest errors (Wed Jul 28 2010 - 17:24:33 CDT)
- intersurf plugin missing in VMD 1.8.7 ? (Wed Mar 03 2010 - 11:11:49 CST)
- X_ChangeProperty error (Fri Feb 12 2010 - 14:50:27 CST)
BERGY
- how to identify DNA-protein interaction interface (Thu Apr 24 2008 - 05:42:53 CDT)
Berit Hinnemann
- Re: Graphics card for VMD (Wed Dec 16 2009 - 07:16:14 CST)
- Graphics card for VMD (Tue Dec 15 2009 - 11:25:25 CST)
- Re: Other color scales than the predefined ones? (Thu Nov 27 2008 - 03:38:46 CST)
- Other color scales than the predefined ones (Wed Nov 26 2008 - 09:52:23 CST)
- Re: Movie of a xyz trajectory (Wed Nov 26 2008 - 07:03:06 CST)
- Other color scales than the predefined ones? (Wed Nov 26 2008 - 07:00:17 CST)
- Nvidia graphics card with VMD (Fri Oct 20 2006 - 07:13:42 CDT)
- Computer for 3D visualization (Wed Sep 20 2006 - 04:45:58 CDT)
- Volume slices of Gaussian Cube Files: Color scale (Thu Jun 29 2006 - 13:42:05 CDT)
- RE: Gaussian Cube file with VMD (Tue May 23 2006 - 11:00:36 CDT)
- Gaussian Cube file with VMD (Mon May 22 2006 - 18:29:12 CDT)
Bernandie Jean
- ParseFEP plugin error (Tue Feb 26 2013 - 12:11:13 CST)
Bernardo Sosa Padilla Araujo
- Re: writepdb using selection form different molecules (Mon Mar 22 2010 - 13:25:35 CDT)
- writepdb using selection form different molecules (Fri Mar 19 2010 - 23:29:56 CDT)
- Re: measure command problem (Tue Mar 02 2010 - 14:15:42 CST)
- Re: measure command problem (Tue Mar 02 2010 - 12:33:57 CST)
- measure command problem (Mon Mar 01 2010 - 21:44:09 CST)
- Re: Counting number of water molecules (Thu Dec 10 2009 - 18:48:20 CST)
- Counting number of water molecules (Wed Dec 09 2009 - 16:30:13 CST)
- radius of gyration units (Tue Nov 03 2009 - 15:08:36 CST)
Bernd Doser
- Problems with tcl/tk 8.5 (Tue Jan 20 2009 - 02:08:05 CST)
Bernhard Knapp
- sasa function (Thu Jan 21 2010 - 02:32:31 CST)
- H-bonds (Thu Apr 02 2009 - 06:27:25 CDT)
- defintion of alpha helix in vmd? (Tue Dec 16 2008 - 03:30:03 CST)
- vmd-rmsd-color-tool (Fri Aug 01 2008 - 02:27:48 CDT)
Bertie Earl
- Spring quality watches offer (Tue Apr 29 2008 - 19:30:10 CDT)
Bertrand P. S. Russell
- Re: installation problem vmd 1.8.6 on fedora 3 (Sat Feb 09 2008 - 05:22:24 CST)
bertrand russell
- superimposing two structures and getting the coordinates (Tue Feb 20 2007 - 11:52:03 CST)
- Re: How to save the snapshot of my protein? (Fri Feb 09 2007 - 03:58:53 CST)
- How to save the snapshot of my protein? (Fri Feb 09 2007 - 01:24:54 CST)
- How to make movie with .crd files? (Wed Dec 13 2006 - 02:36:23 CST)
- VMD - unable to create OpenGL (Tue Nov 07 2006 - 03:31:29 CST)
- differentiating solvent molecules...... (Tue Oct 17 2006 - 12:44:28 CDT)
- VMD Installation Help (Tue Sep 26 2006 - 12:05:26 CDT)
- Installing VMFD in kubuntu.............. (Wed Aug 30 2006 - 10:59:37 CDT)
Beth Ashbridge
- superimposing (Tue Nov 01 2005 - 08:03:15 CST)
BETTLER Emmanuel
- cartoon representation of 1crn (Fri Apr 23 2004 - 11:25:46 CDT)
- is VMD compatible with NVIDIA 3D stereo drivers ? (Fri Mar 12 2004 - 08:47:12 CST)
- several questions, (Tue Sep 26 2000 - 07:01:11 CDT)
beyza bilgic
- sharing atoms (Mon May 16 2011 - 08:52:33 CDT)
- changing the color of Sn atom (Wed May 11 2011 - 06:12:50 CDT)
Beyza Bilgiç
- changing the color of Sn atom (Wed May 11 2011 - 05:24:31 CDT)
- to change color of Sn atom (Wed May 11 2011 - 04:33:51 CDT)
- to change color of Sn atom (Wed May 11 2011 - 04:28:07 CDT)
Bhanita Sharma
- RDF COM (Thu Aug 23 2012 - 00:28:56 CDT)
bharat gupta
- Re: Re: Hydrogen bond occupancy (Wed Jun 04 2014 - 18:37:26 CDT)
- Re: Re: Hydrogen bond occupancy (Fri May 30 2014 - 18:33:20 CDT)
- Re: Re: Hydrogen bond occupancy (Thu May 29 2014 - 21:23:18 CDT)
- Re: Hydrogen bond occupancy (Thu May 29 2014 - 20:55:55 CDT)
- Re: H-bond occupancy (Wed May 28 2014 - 03:18:16 CDT)
- Re: Depicting hydrogen bonds between water and residues (Mon Nov 11 2013 - 20:24:59 CST)
- Fwd: Re: Volmap (Mon Nov 04 2013 - 07:47:29 CST)
- Re: Re: Newbie question - Labeling a residue (Mon Nov 04 2013 - 07:23:35 CST)
- Re: Volmap (Mon Nov 04 2013 - 06:41:42 CST)
- Re: Newbie question - Labeling a residue (Mon Nov 04 2013 - 06:07:47 CST)
- Fwd: Re: Volmap (Mon Nov 04 2013 - 05:42:17 CST)
- Re: Volmap (Mon Nov 04 2013 - 04:49:34 CST)
- Re: simulation (Wed Nov 30 2011 - 05:50:56 CST)
- Re: using vmd to view gromacs trajectory (Thu Apr 14 2011 - 10:20:29 CDT)
- Re: USING IED for essential dynamics in VMD (Tue Feb 01 2011 - 18:38:39 CST)
- Re: using IED interface in VMD 1.8.7 windows (Tue Feb 01 2011 - 02:51:45 CST)
- RE : pbc tools in vmd for simulation (Sat Apr 17 2010 - 08:40:16 CDT)
Bharat Kumar
- Re: MOE and NAMD (Thu Dec 30 2010 - 18:31:21 CST)
- MOE and NAMD (Wed Dec 29 2010 - 09:55:21 CST)
- RMSD and PSF generation (Mon Dec 20 2010 - 21:29:48 CST)
- Re: Membrane Protein Tutorial (Sun Dec 05 2010 - 22:40:28 CST)
- Membrane Protein Tutorial (Sat Dec 04 2010 - 01:42:49 CST)
Bharat Sharma
- Re: Ignore all the errors and load severely wrong structure in XYZ format (Sat Jun 10 2017 - 16:07:40 CDT)
- Ignore all the errors and load severely wrong structure in XYZ format (Sat Jun 10 2017 - 09:48:06 CDT)
- Re: Drawing extended arrow to show direction vector on VMD (Tue Jun 23 2015 - 13:41:25 CDT)
- Drawing extended arrow to show direction vector on VMD (Tue Jun 23 2015 - 11:45:18 CDT)
- Re: VMD text mode on MAC OS (Fri Apr 10 2015 - 11:10:50 CDT)
- Re: XYZ to psf file (Thu Apr 09 2015 - 20:01:46 CDT)
- XYZ to psf file (Thu Apr 09 2015 - 09:43:10 CDT)
- VMD text mode on MAC OS (Wed Apr 08 2015 - 18:14:17 CDT)
- Re: MSD calculation - Memory saving. (Fri Mar 27 2015 - 11:10:26 CDT)
- MSD calculation - Memory saving. (Fri Mar 27 2015 - 07:33:56 CDT)
- How to run VMD text mode on Windows 7 (Tue Mar 24 2015 - 19:33:47 CDT)
- VMD Tcl Getting first index from residue number (Wed Feb 11 2015 - 12:14:21 CST)
- Hbond calculation - periodic atoms (Mon Jan 26 2015 - 18:59:58 CST)
- Re: How to calculate MSD on VMD (Wed Nov 12 2014 - 13:52:55 CST)
- How to calculate MSD on VMD (Wed Nov 12 2014 - 12:38:19 CST)
Bharath K. Srikanth
- Radial pair distribution function (Fri Mar 01 2013 - 03:05:58 CST)
Bhargava
- Re: center of unit cell (Thu Apr 08 2010 - 11:10:51 CDT)
- Re: On solvate plugin (Mon Jun 23 2008 - 09:14:05 CDT)
Bhaskar Jyoti Borah
- Re: exporting xyz file (Thu Jul 12 2007 - 11:19:25 CDT)
- Re: shifting of the origin (Thu Jul 12 2007 - 01:07:36 CDT)
- exporting xyz file (Thu Jul 12 2007 - 01:38:58 CDT)
- Re: shifting of the origin (Wed Jul 11 2007 - 23:33:22 CDT)
- Re: shifting of the origin (Wed Jul 11 2007 - 11:24:15 CDT)
- shifting of the origin (Tue Jul 10 2007 - 23:49:15 CDT)
- Re: need help (Tue Jul 10 2007 - 01:19:58 CDT)
- need help (Mon Jul 09 2007 - 05:25:50 CDT)
Bian Li
- problem with bigdcd rmsd calculaton output (Mon May 30 2011 - 22:22:48 CDT)
bibhab majumdar
- Font size of the colorbar legends and rotation of the colorscale bar (Sun Feb 26 2023 - 22:44:56 CST)
- Rotation of the color scale bar in VMD (Sun Feb 26 2023 - 22:21:11 CST)
Biff Forbush
- Re: Headtracking software (Tue Nov 16 2010 - 12:37:21 CST)
- Re: Headtracking software (Tue Nov 16 2010 - 11:01:00 CST)
- CUDA-NAMD hangs -- check the Northbridge temp! (Tue Jan 05 2010 - 21:51:51 CST)
- joystick, win32 simple interface (Tue Jun 23 2009 - 18:32:57 CDT)
Big Chungus
- How to access the Lable tab's info of atoms? (Wed Feb 28 2024 - 20:57:11 CST)
Bikan Tan
- How to cionize DNA? example needed! (Mon Aug 08 2011 - 18:59:19 CDT)
Bill McIntyre
- Commands runs manually but not as a script (Fri Nov 03 2023 - 10:58:11 CDT)
- Re: Script to Build Cyclic Peptides (Mon Oct 30 2023 - 10:58:32 CDT)
- Re: Script to Build Cyclic Peptides (Sat Oct 28 2023 - 18:13:51 CDT)
- Re: Script to Build Cyclic Peptides (Thu Oct 26 2023 - 12:34:12 CDT)
- Re: Script to Build Cyclic Peptides (Wed Oct 25 2023 - 06:20:02 CDT)
- Re: Script to Build Cyclic Peptides (Tue Oct 24 2023 - 00:52:02 CDT)
- Script to Build Cyclic Peptides (Sun Oct 22 2023 - 17:38:30 CDT)
- Listing solvent accessible surface area per residue (Sat Nov 19 2022 - 13:55:14 CST)
- Re: Obtaining a list of surface exposed residues (Fri Oct 28 2022 - 02:36:24 CDT)
Bin Liu
- draw geometrical objects on specific frames (Mon Sep 22 2014 - 11:44:59 CDT)
Bin Sun
- atom selection in cv module of VMD (Sun Jan 15 2017 - 18:36:22 CST)
BIN ZHANG
- Re: clip plane and cpk / VdW (Wed Nov 23 2011 - 11:25:22 CST)
- Re: namd-l: how to generate transparent figures? (Sun Jul 24 2011 - 11:31:04 CDT)
- Re: CG_MD temperature (Thu Feb 03 2011 - 01:30:15 CST)
- gradient background not rendered (Fri Feb 19 2010 - 16:50:59 CST)
- Re: Restraints on coarse grained model (Wed Dec 09 2009 - 13:01:58 CST)
- Re: Restraints on coarse grained model (Wed Dec 09 2009 - 12:07:37 CST)
- Re: CG lipid bilayer vmd 1.8.7 (Wed Dec 02 2009 - 15:17:05 CST)
- Re: CG lipid bilayer vmd 1.8.7 (Wed Dec 02 2009 - 14:03:58 CST)
- error in rbcg-2007.par file (Fri Nov 27 2009 - 13:15:01 CST)
- Re: drawing waterbox (Thu Aug 27 2009 - 11:02:46 CDT)
- Re: Moving Molecule (Mon Aug 24 2009 - 11:21:41 CDT)
- algorithm for command *within* (Thu Jul 16 2009 - 11:29:43 CDT)
- running vmd on computer node (Mon Jun 29 2009 - 12:55:08 CDT)
- Re: main window missing? (Wed May 27 2009 - 16:36:07 CDT)
- Re: main window missing? (Wed May 27 2009 - 15:49:40 CDT)
- main window missing? (Wed May 27 2009 - 15:17:40 CDT)
- Re: namdenergy (Mon May 11 2009 - 12:29:37 CDT)
- namdenergy (Thu May 07 2009 - 17:26:23 CDT)
- Re: setbonds (Wed Apr 22 2009 - 14:53:11 CDT)
- Re: density profiles (Wed Apr 22 2009 - 12:25:59 CDT)
- setbonds (Tue Apr 21 2009 - 23:01:35 CDT)
- draw command with different material (Thu Feb 26 2009 - 23:31:08 CST)
- Re: multiple colors for a single atom (Mon Feb 23 2009 - 11:55:48 CST)
- multiple colors for a single atom (Mon Feb 23 2009 - 00:05:50 CST)
- Re: helicity score? (Thu Feb 19 2009 - 15:14:45 CST)
- Re: Cannot read MSMS facet file (Mon Feb 16 2009 - 17:05:31 CST)
- Cannot read MSMS facet file (Sun Feb 15 2009 - 23:54:52 CST)
- pictures with frame (Tue Feb 03 2009 - 01:40:32 CST)
- helicity score? (Thu Jan 15 2009 - 23:39:21 CST)
- Re: beta column format in PDB (Wed Dec 24 2008 - 14:57:47 CST)
- beta column format in PDB (Wed Dec 24 2008 - 13:41:23 CST)
- How to get all the angle combinations? (Wed Dec 17 2008 - 23:07:16 CST)
- How to get number of electrons of an atom in VMD? (Mon Dec 08 2008 - 15:31:42 CST)
- Re: CG bead definition (Mon Nov 24 2008 - 18:24:35 CST)
- CG bead definition (Sun Nov 23 2008 - 23:56:12 CST)
- Re: how to run catdcd from within a proc (Mon Nov 17 2008 - 11:25:32 CST)
- intersurf in vmd (Sat Oct 11 2008 - 14:58:14 CDT)
- lipid tail selection (Sun Oct 05 2008 - 01:16:45 CDT)
- TAB key in vmd terminal (Thu Oct 02 2008 - 23:32:00 CDT)
bio lab
- Re: superimposing groups of three atoms (Fri Oct 21 2011 - 12:10:51 CDT)
- superimposing groups of three atoms (Thu Oct 20 2011 - 06:25:46 CDT)
BIO MED
- tutorial 2 (Thu Sep 13 2012 - 03:12:30 CDT)
- tutorial (Tue Sep 11 2012 - 03:53:07 CDT)
biocore_at_ks.uiuc.edu
- ANN: BioCoRE now includes remote job submission (Fri Mar 30 2001 - 13:26:32 CST)
Biomolecular Simulations Congress 2005
- Biomolecular Simulations Meeting Bordeaux, 2&3 Sept. 2005 (Tue Mar 22 2005 - 08:19:24 CST)
BIPLAB NANDI
- PSF Generation (Mon Feb 15 2010 - 23:10:53 CST)
Birgitte Maria Elisabeth Brydsoe
- Re: IED 2.02 and VMD 1.8.7 (Wed Oct 13 2010 - 09:47:39 CDT)
- Re: IED 2.02 and VMD 1.8.7 (Wed Oct 13 2010 - 09:28:13 CDT)
- IED 2.02 and VMD 1.8.7 (Wed Oct 13 2010 - 08:33:00 CDT)
- IED/Tkinter problems (Fri Sep 24 2010 - 09:13:43 CDT)
Bishop, Thomas C
- VMD on Suse 11.1 w/ NVIDIA dies. (Fri Sep 04 2009 - 17:52:35 CDT)
- RE: Periodic Bonding (Thu Aug 13 2009 - 14:46:24 CDT)
- RE: Load multiple files (Thu Feb 12 2009 - 11:18:57 CST)
- Re: Re: namd-l: Truncated Octahedron for VMD and NAMDsimulation (Fri May 16 2008 - 13:39:16 CDT)
Biswa Ranjan Meher
- H-atoms placed at the end in PDB file (Thu Nov 14 2013 - 17:15:15 CST)
bizoniusz_at_o2.pl
- trajectory2 (Mon Feb 06 2006 - 14:55:20 CST)
- trajectory (Mon Feb 06 2006 - 12:02:27 CST)
- rdf.tcl one more time (Mon Oct 17 2005 - 10:19:28 CDT)
- RDF.tcl (Fri Oct 14 2005 - 07:02:26 CDT)
Bjoern Olausson
- Re: VMD 1.9.1 beta 1 posted for download... (Tue Jan 03 2012 - 01:32:26 CST)
- Re: Povray renders labels always centered (Tue Dec 13 2011 - 09:31:52 CST)
- Povray renders labels always centered (Mon Dec 12 2011 - 01:37:04 CST)
- Re: Rendering long and high-quality movies from VMD (Wed Dec 07 2011 - 10:58:01 CST)
- Re: VMD never finishes reading vis. state file, stalls and hoggs CPU (Wed Nov 30 2011 - 10:11:53 CST)
- Re: VMD never finishes reading vis. state file, stalls and hoggs CPU (Mon Nov 28 2011 - 02:54:17 CST)
- Re: VMD never finishes reading vis. state file, stalls and hoggs CPU (Fri Nov 25 2011 - 05:36:26 CST)
- VMD never finishes reading vis. state file, stalls and hoggs CPU (Fri Nov 25 2011 - 00:51:07 CST)
- Re: RMSD Tool failes with MOL ID > 999 (Tue Nov 15 2011 - 02:38:34 CST)
- Re: Re: Save "Visulaization State" from within Tk Console (Mon Nov 14 2011 - 01:17:02 CST)
- Re: Save "Visulaization State" from within Tk Console (Fri Nov 11 2011 - 07:48:03 CST)
- Save "Visulaization State" from within Tk Console (Fri Nov 11 2011 - 07:41:18 CST)
- RMSD Tool failes with MOL ID > 999 (Fri Nov 11 2011 - 05:52:11 CST)
- Re: Suppress "Info)" messages (Mon Nov 07 2011 - 18:26:50 CST)
- Re: Suppress "Info)" messages (Mon Nov 07 2011 - 13:15:59 CST)
- Suppress "Info)" messages (Mon Nov 07 2011 - 11:56:06 CST)
- Re: average pdb from dcd file (Thu Oct 27 2011 - 09:54:06 CDT)
- Re: convert pdb format to normal pdb format (Wed Aug 24 2011 - 06:10:45 CDT)
- Re: Understand a script (Thu Jul 28 2011 - 03:28:41 CDT)
- Re: Understand a script (Mon Jul 25 2011 - 10:05:59 CDT)
- Re: File as video (Tue Jul 05 2011 - 03:33:13 CDT)
- Re: saving dcd with less frames (Tue Jun 07 2011 - 05:27:58 CDT)
- Re: size for render (Tue May 24 2011 - 06:34:49 CDT)
- Re: hi to all (Thu May 19 2011 - 04:15:26 CDT)
- Re: PhD position in Computational Structural Biology at MPI Muenster (Fri May 13 2011 - 13:23:05 CDT)
- VMD Movie Generator problem with "Image smoothing" set (Mon May 02 2011 - 06:26:54 CDT)
- Re: Re: VMD 1.9 beta 1 posted for download... (Thu Feb 17 2011 - 05:37:48 CST)
- Re: Draw a box cell for a crystal (Wed Sep 15 2010 - 08:19:32 CDT)
- Re: color charmm dcd by kinetic energy (Tue Jul 06 2010 - 02:51:24 CDT)
- Re: Visualize intersection of overlapping spheres? (Thu Jun 03 2010 - 02:24:02 CDT)
- Visualize intersection of overlapping spheres? (Wed Jun 02 2010 - 06:51:56 CDT)
- Re: Modelling program that does hydrogen adjust (Fri May 28 2010 - 06:14:24 CDT)
- Re: Creating AVI movies (Mon May 10 2010 - 08:37:58 CDT)
- Re: How to remove hydrogens from a pdb file? (Fri May 07 2010 - 02:41:51 CDT)
- Re: Coloring atoms based on timeframe range? (Fri Apr 23 2010 - 04:01:19 CDT)
- Re: Coloring atoms based on timeframe range? (Thu Apr 22 2010 - 10:41:46 CDT)
- Coloring atoms based on timeframe range? (Thu Apr 22 2010 - 08:51:34 CDT)
- Re: High quality movies, bmp frames and videomach=poor quality (Wed Apr 21 2010 - 08:34:00 CDT)
- Re: question about vmd use (Mon Apr 12 2010 - 06:16:42 CDT)
- Re: Way to change ColorScale Method to single color gradient? (Thu Apr 08 2010 - 02:18:05 CDT)
- Re: Way to change ColorScale Method to single color gradient? (Wed Apr 07 2010 - 08:05:07 CDT)
- Way to change ColorScale Method to single color gradient? (Wed Apr 07 2010 - 03:33:18 CDT)
- Wrapping membrane to center of PBC-Box (Tue Mar 23 2010 - 12:06:31 CDT)
- Re: Curious about analytical capabilities of VMD (Mon Jul 06 2009 - 07:10:37 CDT)
- Re: Curious about analytical capabilities of VMD (Wed Jul 01 2009 - 07:19:39 CDT)
- Re: Curious about analytical capabilities of VMD (Mon Jun 29 2009 - 05:29:33 CDT)
- Curious about analytical capabilities of VMD (Fri Jun 26 2009 - 03:48:05 CDT)
- Re: Transparency settings (Thu Jun 11 2009 - 06:09:15 CDT)
- Re: Transparency settings (Wed Jun 10 2009 - 10:29:08 CDT)
- Transparency settings (Wed Jun 10 2009 - 09:13:13 CDT)
Bjoern Windshuegel
- viewing insight trajectories with vmd (Tue Jun 25 2002 - 01:29:15 CDT)
BjÃ¶rn Forsberg
- VMD plugins not available without gui (Wed Oct 08 2014 - 03:37:23 CDT)
BjÃ¸rnar Jensen
- Re: displaying charge distribution (Mon Jan 14 2013 - 01:53:38 CST)
- Re: how to measure the distance of two atoms in 1000 conformations? (Mon Nov 19 2012 - 07:05:21 CST)
Björn Forsberg
- Re: How to remove particular residues and then view "ramachandran plot" in VMD (Thu Oct 09 2014 - 07:50:41 CDT)
Björn Windshügel
- Re: GRID maps visualization problems (Tue Nov 24 2009 - 12:22:47 CST)
- Rotation of molecules (Tue Dec 02 2008 - 08:20:30 CST)
- Loading multiple molecules in one step / "Apply changes automatically" (Fri Oct 21 2005 - 09:54:59 CDT)
Bjørnar Jensen
- Re: Problem related to the save trajectory (Mon Feb 18 2013 - 04:27:33 CST)
- Re: Problem related to the save trajectory (Mon Feb 18 2013 - 02:04:47 CST)
- Re: Dynamic bonds for amorphous silicon carbide? (Fri Feb 15 2013 - 04:09:18 CST)
- Re: How to display a selection from the Tk console (Tue Feb 12 2013 - 09:59:56 CST)
- Re: Selecting waters between two given distances from a particular point (Sat Oct 20 2012 - 04:34:26 CDT)
- Re: Radius of gyration from Big DCD (Fri Sep 28 2012 - 08:39:04 CDT)
- Re: Radius of gyration from Big DCD (Fri Sep 28 2012 - 05:35:53 CDT)
- Re: VolMap Tool coulombmsm - with periodic boundary conditions (Wed Aug 22 2012 - 07:40:24 CDT)
- VolMap Tool coulombmsm - with periodic boundary conditions (Wed Aug 22 2012 - 06:19:08 CDT)
Blake Charlebois
- RE: overlaying more than 2 molecules (Wed Aug 17 2005 - 12:57:30 CDT)
- RE: measuring rotation of protein about an axis (Tue Jul 19 2005 - 11:28:59 CDT)
- RE: (Mon Jul 18 2005 - 16:26:56 CDT)
- RE: Script for automated selection (Mon Jun 20 2005 - 12:28:39 CDT)
- RE: namd-l: tcl question (Thu Jun 16 2005 - 22:32:39 CDT)
- RE: how to write out the coordinates of center of mass of a particularresidue (Wed Jun 01 2005 - 21:39:49 CDT)
- RE: Any way for comparing two structures?? (Tue May 31 2005 - 10:50:32 CDT)
- RE: Total charge query? (Fri May 13 2005 - 17:28:41 CDT)
- RE: Autoionize / SODIUM (Mon Jan 24 2005 - 17:04:58 CST)
- Autoionize / SODIUM (Sun Jan 16 2005 - 12:14:04 CST)
bo baker
- Re: vmd crashes (Mon Mar 09 2009 - 19:09:59 CDT)
- vmd crashes (Mon Mar 09 2009 - 04:49:42 CDT)
- Re: select atoms (Mon Mar 02 2009 - 18:30:29 CST)
- select atoms (Sun Mar 01 2009 - 22:18:42 CST)
- Re: delete residues from trajectory (Sat Feb 28 2009 - 23:06:17 CST)
- delete residues from trajectory (Sat Feb 28 2009 - 03:44:06 CST)
- delete residues from trajectory (Sat Feb 28 2009 - 03:46:20 CST)
- Re: Atom distances from trajotory (Sat Feb 14 2009 - 17:16:27 CST)
- Atom distances from trajotory (Thu Feb 12 2009 - 23:50:21 CST)
- Atom distances from trajotory (Thu Feb 12 2009 - 03:27:20 CST)
- Load multiple files (Wed Feb 11 2009 - 22:43:35 CST)
- Re: Atomselect in NAMD GUI (Wed Feb 11 2009 - 16:01:37 CST)
- Re: Atomselect in NAMD GUI (Sun Feb 08 2009 - 16:17:15 CST)
- Atomselect in NAMD GUI (Thu Feb 05 2009 - 05:02:45 CST)
- Problem with Install (Fri Jan 16 2009 - 05:12:34 CST)
- VMD for Linux (Mon Jan 12 2009 - 05:14:50 CST)
- Re: QM Geometry optimization (Wed Dec 17 2008 - 12:30:08 CST)
- QM Geometry optimization (Tue Dec 16 2008 - 23:59:49 CST)
- convert THR and SER to the phosphorylated forms (Tue Oct 21 2008 - 19:06:11 CDT)
- Interface Propensity (Wed Sep 17 2008 - 05:56:20 CDT)
- Re: save selected residues (Mon Aug 11 2008 - 06:31:12 CDT)
- save selected residues (Sun Aug 10 2008 - 06:04:37 CDT)
- Re: Problem with saving coordinate (Sun Sep 02 2007 - 20:18:13 CDT)
- Re: Problem with saving coordinate (Sat Sep 01 2007 - 18:49:57 CDT)
- Re: Problem with saving coordinate (Fri Aug 31 2007 - 01:55:26 CDT)
- Problem with saving coordinate (Thu Aug 30 2007 - 22:44:57 CDT)
Bo HÃ¸jen Justesen
- Hi all, (Mon Oct 31 2011 - 05:47:22 CDT)
Bo Højen Justensen
- SV: average area per lipid (Tue Mar 04 2008 - 02:33:11 CST)
- VS: average area per lipid (Mon Mar 03 2008 - 15:10:09 CST)
Bo Liu
- Re: fit.tcl (Mon Nov 08 2010 - 09:23:24 CST)
- Re: Autoionize plugin (Wed Nov 19 2008 - 08:42:58 CST)
- Re: Catdcd? (Fri Oct 17 2008 - 00:01:59 CDT)
- Re: Windows version: Loading/writing files (Mon Oct 13 2008 - 09:50:41 CDT)
- Re: atom type (Fri Oct 03 2008 - 06:51:22 CDT)
- Re: Projection of a vector on to another. (Sat Sep 20 2008 - 06:09:46 CDT)
- Re: Projection of a vector on to another. (Fri Sep 19 2008 - 23:03:42 CDT)
- Re: namd-l: Re: counting gas molecules inside the nanotube (Fri Sep 19 2008 - 11:38:19 CDT)
- Re: Merge psf and pdb (Wed Sep 03 2008 - 00:17:13 CDT)
- Re: Merge psf and pdb (Tue Sep 02 2008 - 10:02:26 CDT)
- Re: TXT program editor (Fri Aug 29 2008 - 03:17:57 CDT)
- Re: namd-l: diffusion coefficient from rmsd (Thu Aug 28 2008 - 01:38:38 CDT)
- questions relating to VolMapTool (Wed Jul 23 2008 - 02:35:18 CDT)
- Fwd: memory overflow problem of Tcl scripting when dealing with trajectories(sorry for cross mailing...) (Wed Jul 16 2008 - 03:18:43 CDT)
- Re: namd-l: Energy plot script (Thu May 15 2008 - 13:00:23 CDT)
Boaz Shaanan
- Re: Stereo in linux/oxygen gvx1/xig driver (Thu Jan 24 2002 - 03:30:25 CST)
- Stereo in linux/oxygen gvx1/xig driver (Sat Jan 19 2002 - 06:35:50 CST)
Bob Johnson
- Deleting/modifying specific molecule representations (Tue Jun 01 2010 - 11:23:58 CDT)
- Re: Problems with licorice representation when rendering 3D PDF for Power Point (Fri Apr 23 2010 - 09:59:08 CDT)
- Problems with licorice representation when rendering 3D PDF for Power Point (Thu Apr 22 2010 - 14:56:52 CDT)
- Matrix: Warning: no convergence (0.00000000<390.26229858 after 1000 iterations). (Tue Nov 03 2009 - 14:49:29 CST)
- Re: Unable to find Stride output file: /usr/tmp/... (Tue Oct 27 2009 - 12:42:06 CDT)
- Unable to find Stride output file: /usr/tmp/... (Tue Oct 27 2009 - 12:22:03 CDT)
- Re: Unable to find Stride output file: /usr/tmp/... (Tue Oct 27 2009 - 12:47:55 CDT)
- Storing multiple values in the user field (Fri Sep 28 2007 - 16:15:05 CDT)
- Amber patches for Auto PSF generator (Wed Jun 27 2007 - 11:55:44 CDT)
- Using VolMap tool for charge density visualization (Fri Jun 01 2007 - 09:59:47 CDT)
- RMSD fitting for molecules adsorbed to surfaces (Thu May 10 2007 - 16:12:09 CDT)
- Re: Scripts to unwrap PBC from REMD trajectory (Fri Mar 16 2007 - 09:05:18 CDT)
- Scripts to unwrap PBC from REMD trajectory (Thu Mar 15 2007 - 16:08:50 CDT)
- Delete Volume Maps via Script (Wed Feb 28 2007 - 18:36:43 CST)
- Calculate VolMap for every frame by a script (Tue Feb 27 2007 - 16:21:12 CST)
- Reading box info. from PQR file (Mon Oct 30 2006 - 10:02:43 CST)
- Error in visualizing the 5 prime end of DNA strand (Mon Aug 29 2005 - 10:56:06 CDT)
- VMD fails to run (Sat Aug 20 2005 - 21:43:55 CDT)
- Periodic boundary conditions (Thu Aug 18 2005 - 12:00:19 CDT)
- Problem with DNA bonds (Mon Aug 15 2005 - 13:54:28 CDT)
- Visualizing an infinite carbon nanotube (Mon Aug 15 2005 - 13:23:44 CDT)
- Draw Bonds (Mon Aug 08 2005 - 10:42:13 CDT)
- Video card driver (Thu Aug 04 2005 - 13:56:44 CDT)
Bob Milius
- Re: vmd, linux & dri (fwd) (Fri Jan 12 2001 - 19:39:34 CST)
- Re: vmd, linux & dri (fwd) (Fri Jan 12 2001 - 19:29:20 CST)
Bob Wohlhueter
- upgrading vmd's nvidia component (Thu Aug 05 2010 - 16:04:53 CDT)
Bobbie Horton
- Play at the world's leading online casino..... (Thu Apr 10 2008 - 01:28:24 CDT)
Bogdan Costescu
- Re: AMD vs. nvidia support (Thu Dec 12 2013 - 04:16:48 CST)
- Re: Slow display with nVidia GeForce 9400GT and 3xx drivers on Linux (Mon Apr 15 2013 - 05:51:10 CDT)
- Re: Slow display with nVidia GeForce 9400GT and 3xx drivers on Linux (Mon Mar 18 2013 - 07:19:09 CDT)
- Re: Slow display with nVidia GeForce 9400GT and 3xx drivers on Linux (Fri Mar 08 2013 - 11:56:12 CST)
- Slow display with nVidia GeForce 9400GT and 3xx drivers on Linux (Tue Mar 05 2013 - 14:01:21 CST)
- Re: Re: VMD 1.9.1 core dumps (CentOS-5 x86_64) nvidia drivers: 304.64/4x GTX 680 (Tue Dec 11 2012 - 07:50:23 CST)
- Re: vmd crashes during gromacs trr loading (Wed Nov 07 2012 - 04:51:37 CST)
- Re: Problem with Reading GROMACS file in VMD (Tue Jul 24 2012 - 11:39:55 CDT)
- Re: Problem with Reading GROMACS file in VMD (Tue Jul 24 2012 - 11:42:02 CDT)
- Re: Problem with Reading GROMACS file in VMD (Tue Jul 24 2012 - 08:19:48 CDT)
- Re: Problem with Reading GROMACS file in VMD (Tue Jul 24 2012 - 07:11:04 CDT)
- Re: Problem with Reading GROMACS file in VMD (Tue Jul 24 2012 - 04:02:59 CDT)
- Re: Another thought related to drawing dipole moment vectors (Sun May 27 2012 - 07:10:12 CDT)
- Re: using xtc file to generate pdb's (Wed Dec 28 2011 - 07:01:39 CST)
- Re: How to parse very large trajectories? (Thu Nov 10 2011 - 08:20:41 CST)
- Re: Dynamic lines (Wed Nov 02 2011 - 13:42:01 CDT)
- Dynamic lines (Mon Oct 31 2011 - 13:21:59 CDT)
- Re: Plot a time line in the movie made with VMD (Wed Dec 01 2010 - 15:44:56 CST)
- Re: VMD and named pipes (Sat Sep 04 2010 - 05:26:52 CDT)
- Re: Matrix based intermediate rotations (Sat Sep 04 2010 - 05:35:41 CDT)
- Matrix based intermediate rotations (Fri Sep 03 2010 - 05:50:40 CDT)
- Re: VMD and named pipes (Thu Sep 02 2010 - 23:51:23 CDT)
- Re: Is it possible to load a part of a big xtc file faster... (Wed Aug 18 2010 - 10:50:43 CDT)
- Re: Focal blur with Tachyon (Fri Jul 30 2010 - 04:49:55 CDT)
- Re: Re: LANG setting needs to be solved in next release.... (Thu May 20 2010 - 08:47:06 CDT)
- Re: LANG setting needs to be solved in next release.... (Wed May 19 2010 - 09:14:27 CDT)
- Re: LANG setting needs to be solved in next release.... (Wed May 19 2010 - 08:34:38 CDT)
- Re: Re: vmd 1.8.7 on Intel 64 bit: segmentation fault (Mon Dec 14 2009 - 06:21:14 CST)
- Re: Re: vmd 1.8.7 on Intel 64 bit: segmentation fault" (Thu Dec 10 2009 - 06:14:34 CST)
- Re: charmm binary ele. pot. (Mon Mar 09 2009 - 13:16:00 CDT)
- Re: duration of video mpeg (Mon Dec 04 2006 - 05:18:53 CST)
- Re: loading gzipped trajectories into vmd (Tue Aug 29 2006 - 09:38:42 CDT)
- Re: Solutions for stereo - is CRT technology dead? (Mon May 22 2006 - 06:27:49 CDT)
- Re: libcprts.so.6 not found by VMD on RedHat EL3 (ia64). (Mon Apr 10 2006 - 11:23:46 CDT)
- Re: shutter glasses with VMD (Thu Mar 02 2006 - 07:05:36 CST)
- Re: Tachyon and text rendering (Thu Feb 23 2006 - 14:37:56 CST)
- Re: vmd-1.8.4b10/Linux amd64 only libstdc++.so.6 dependancy (Fri Feb 10 2006 - 12:05:03 CST)
- Re: vmd-1.8.4b10/Linux amd64 only libstdc++.so.6 dependancy (Thu Feb 09 2006 - 11:43:52 CST)
- Re: vmd-1.8.4b10/Linux amd64 only libstdc++.so.6 dependancy (Thu Feb 09 2006 - 10:51:55 CST)
- Re: compilation from source: make error message (Mon Dec 12 2005 - 06:04:24 CST)
- Re: compilation from source: first attempt failed (Fri Dec 09 2005 - 10:30:07 CST)
- Re: babel compilation error (Fri Dec 09 2005 - 10:04:22 CST)
- Re: MSMS problem (Wed Dec 07 2005 - 06:56:06 CST)
- Re: MSMS problem (Tue Dec 06 2005 - 11:31:53 CST)
- Re: MSMS problem (Mon Dec 05 2005 - 13:21:19 CST)
- Re: dcd large files, charmm-VMD (Fri Apr 22 2005 - 11:08:13 CDT)
- Re: dcd large files, charmm-VMD (Fri Apr 22 2005 - 08:09:11 CDT)
- Re: compressed trajectory support (Mon Apr 18 2005 - 09:57:14 CDT)
- Re: compressed trajectory support (Mon Apr 18 2005 - 09:20:00 CDT)
- Re: 3D/stereo hardware recommendations wanted!!! (Fri Jan 14 2005 - 04:51:45 CST)
- Re: Fwd: linux FC3 VMD vs insightII conflict (Wed Jan 12 2005 - 11:08:45 CST)
- Re: vmd not starting up on Fedora core 3 linux , nVidia quadro 980 XGL, nVidia 6629 driver (Tue Jan 11 2005 - 10:42:25 CST)
- Re: vmd not starting up on Fedora core 3 linux , nVidia quadro 980 XGL, nVidia 6629 driver (Mon Jan 10 2005 - 09:56:14 CST)
- Re: VMD on Linux Fedora Core 2 (Wed Oct 13 2004 - 09:11:15 CDT)
- Re: vmd psfgen problem with CHARMM (Thu Jul 15 2004 - 16:21:22 CDT)
- Re: vmd psfgen problem with CHARMM (Thu Jul 15 2004 - 13:46:26 CDT)
- Re: vmd psfgen problem with CHARMM (Thu Jul 15 2004 - 12:41:16 CDT)
- Re: mpeg doesn't run on media player (Fri Jun 25 2004 - 04:54:56 CDT)
- RE: How to read i8(64 bit) .dcd file with 32 bit VMD (Mon May 24 2004 - 03:24:33 CDT)
- RE: How to read i8(64 bit) trajectory (.dcd) file with 32 bit VMD (Mon May 24 2004 - 03:32:12 CDT)
- Re: vmd 1.8.2 - slow on linux (Wed May 12 2004 - 07:26:11 CDT)
- Re: dcd with fixed atoms (Wed Mar 17 2004 - 13:05:14 CST)
- Re: digest form (Wed Mar 17 2004 - 05:10:43 CST)
- Re: random graphics outages on startup (Wed Feb 04 2004 - 10:47:59 CST)
- RE: dcd reading error (Sat Jan 03 2004 - 10:07:49 CST)
- Re: quicktime/mpeg movies (Fri Jun 20 2003 - 14:30:24 CDT)
- Re: double image for one eye with crystal eyes stereo (Thu Jun 12 2003 - 11:02:01 CDT)
- Re: double image for one eye with crystal eyes stereo (Thu Jun 12 2003 - 10:41:47 CDT)
- Re: double image for one eye with crystal eyes stereo (Thu Jun 12 2003 - 09:34:36 CDT)
- Re: Some comments about stereo with nvidia cards & shutter glasses (Mon May 05 2003 - 11:58:14 CDT)
- Re: Raytracing with tachyon/povray because of pb with raster3d (Tue Nov 26 2002 - 12:58:40 CST)
- Re: Raytracing with tachyon/povray because of pb with raster3d (Tue Nov 26 2002 - 11:41:38 CST)
- Re: SGI O2 stereo problems (Thu Mar 09 2000 - 08:00:27 CST)
- Re: SGI O2 stereo problems (Wed Mar 08 2000 - 14:43:38 CST)
- SGI O2 stereo problems (Tue Feb 15 2000 - 13:33:15 CST)
Bogdan Tarus
- Re: vmd crash at start (Thu Jun 17 2010 - 12:16:06 CDT)
- vmd crash at start (Thu Jun 17 2010 - 10:33:35 CDT)
Bokas George
- Re: default representations for multiple molecules (Thu May 15 2014 - 18:31:47 CDT)
- Re: default representations for multiple molecules (Thu May 15 2014 - 17:58:52 CDT)
- default representations for multiple molecules (Thu May 15 2014 - 16:48:54 CDT)
Bonakala Satyanarayana
- Problem of VMD in ubuntu 14.04 (Fri Oct 23 2015 - 01:46:40 CDT)
- Creating data file for triclinic system (Wed Jul 23 2014 - 01:40:58 CDT)
bond.james
- how to get interaction energy (Wed Aug 15 2012 - 07:50:11 CDT)
- how to get interaction energy (Wed Aug 15 2012 - 06:04:29 CDT)
- constant velocity for carbon nanotubes (Wed Jul 18 2012 - 21:38:48 CDT)
Bongkeun Kim
- Re: Transparent image render problem after vmd 1.9 version (Wed Apr 06 2011 - 11:51:43 CDT)
- Transparent image render problem after vmd 1.9 version (Wed Apr 06 2011 - 01:22:21 CDT)
bonicoli_at_loria.fr
- Re: property iterate over a range (representation / draw style) (Wed Feb 04 2009 - 10:04:40 CST)
- property iterate over a range (representation / draw style) (Tue Feb 03 2009 - 11:16:12 CST)
bora erdemli
- BPS Meeting @ Baltimore (Mon Mar 05 2007 - 19:16:40 CST)
- rmsf calculations (Tue Feb 27 2007 - 01:42:25 CST)
- Re: measure hbonds (Fri Jan 28 2005 - 06:38:12 CST)
- BOND CP2 - CT2 IN PARAMETER FILES (Thu Oct 28 2004 - 16:42:09 CDT)
- Re: measure fit error?? (Fri Oct 08 2004 - 12:29:22 CDT)
- Re: problem in autoionize (Fri Oct 01 2004 - 00:23:58 CDT)
- Re: problem in autoionize (Thu Sep 30 2004 - 08:00:18 CDT)
- Re: problem in autoionize (Thu Sep 30 2004 - 01:38:51 CDT)
- problem in autoionize (Wed Sep 29 2004 - 08:43:05 CDT)
- rmsd calculation and alignment (Tue Sep 28 2004 - 07:28:15 CDT)
- torsion angle (Mon Sep 06 2004 - 06:18:22 CDT)
- rmsd problem,script and version (Fri Sep 03 2004 - 00:23:42 CDT)
- rmsd problem (Thu Aug 26 2004 - 14:10:05 CDT)
- Re: monitoring h bonds (Tue Aug 24 2004 - 06:52:50 CDT)
- monitoring h bonds (Wed Aug 18 2004 - 08:59:56 CDT)
Boris Steipe
- Re: psfgen and unknown residue types (Mon Feb 24 2014 - 10:16:00 CST)
- Re: psfgen and unknown residue types (Sun Feb 23 2014 - 21:19:42 CST)
- Re: VMD can't read 1OXY (Tue Feb 11 2014 - 16:15:13 CST)
- Re: VMD can't read 1OXY (Tue Feb 11 2014 - 09:51:10 CST)
- VMD can't read 1OXY (Mon Feb 10 2014 - 21:16:55 CST)
- Re: psfgen error for Argon atoms (Mon Jan 27 2014 - 10:14:28 CST)
- REï¼š hydrogen bond cutoff value (Tue Dec 03 2013 - 08:31:52 CST)
- Re: A question with dipwatch.tcl script in VMD (Sat Aug 17 2013 - 16:58:12 CDT)
- Re: problems aligning two simillar structures (Tue Mar 26 2013 - 20:07:40 CDT)
- Re: VMD can't display new PDB secondary structure properly ( pyMol, jMol can). . (Tue Nov 20 2012 - 14:44:53 CST)
- Re: VMD can't display new PDB secondary structure properly ( pyMol, jMol can). . (Tue Nov 20 2012 - 11:20:04 CST)
- Re: How to label the chains in a multimer (Fri Nov 16 2012 - 13:50:34 CST)
- Re: how to delete one peptide from dimer (Thu Nov 15 2012 - 09:59:37 CST)
- Re: Maximum length of an extended peptide? (Tue Nov 15 2011 - 22:29:42 CST)
- Re: shades of licorice representation (Tue Jul 19 2011 - 10:10:01 CDT)
- Re: volume of hydration shells (Thu Jun 23 2011 - 09:00:10 CDT)
- Re: how to display bond btw backbone atom and sidechain atom (Wed Nov 24 2010 - 07:57:41 CST)
- Re: Real-time ambient occlusion lighting (Tue Oct 12 2010 - 19:07:16 CDT)
- Multimodel PDB files with different models (again)? (Tue May 18 2010 - 16:19:46 CDT)
- Re: Multiseq question (Mon Nov 23 2009 - 09:48:34 CST)
- Re: conformations of a linker (Fri Oct 31 2008 - 16:39:17 CDT)
- Re: atom type (Wed Oct 01 2008 - 11:37:48 CDT)
- Re: multiple attempts before vmd starts up (Thu Oct 18 2007 - 13:47:21 CDT)
- Re: multiple attempts before vmd starts up (Thu Oct 18 2007 - 00:07:55 CDT)
Borne, Vincent
- Visualizing coarse grained particles in VMD (Thu Mar 26 2020 - 12:07:21 CDT)
Bose, Ritwika
- Protein mutation issues (Sun Jun 10 2018 - 23:27:29 CDT)
Boshra Moradi
- vmd in windows 8 (64bite) (Tue Sep 09 2014 - 12:47:23 CDT)
- Fwd: fixed atoms_creating psf with out change in pdb (Wed Sep 03 2014 - 21:13:08 CDT)
bozell, joe
- Problems with Mac OSX VMD and certain PDB files (Wed Nov 24 2004 - 12:34:47 CST)
brad noyes
- Re: compile VMD on freebsd 4.8 (Tue Sep 09 2003 - 21:05:44 CDT)
- Re: compile VMD on freebsd 4.8 (Tue Sep 09 2003 - 16:43:10 CDT)
- Re: compile VMD on freebsd 4.8 (Thu Jul 24 2003 - 17:54:42 CDT)
- Re: compile VMD on freebsd 4.8 (Wed Jul 23 2003 - 20:59:27 CDT)
- render to png, and ppm (Sun Jul 13 2003 - 20:47:15 CDT)
- Re: implicit casting (Fri May 23 2003 - 15:25:40 CDT)
- implicit casting (Fri May 23 2003 - 15:14:27 CDT)
- Re: compiling/porting vmd (Fri May 23 2003 - 01:30:18 CDT)
- compiling/porting vmd (Thu May 22 2003 - 22:23:25 CDT)
Bram Stolk
- Re: L/R lighting discrepancy (Thu Nov 10 2005 - 06:48:47 CST)
- Re: L/R lighting discrepancy (Wed Nov 09 2005 - 04:51:10 CST)
- Re: L/R lighting discrepancy (Tue Nov 08 2005 - 14:01:25 CST)
- L/R lighting discrepancy (Tue Nov 08 2005 - 10:44:39 CST)
- Re: IRIX6 build from CVS (Tue Nov 08 2005 - 10:20:10 CST)
- IRIX6 build from CVS (Tue Nov 08 2005 - 03:28:25 CST)
Brandon Havranek
- Alascan plugin error (Fri Aug 13 2021 - 23:23:25 CDT)
Branko
- Re: rgyr calculation problem (Fri Nov 19 2010 - 12:44:50 CST)
- Re: rgyr calculation problem (Wed Nov 10 2010 - 13:04:31 CST)
- Re: rgyr calculation problem (Wed Nov 10 2010 - 11:50:30 CST)
- Re: rgyr calculation problem (Wed Nov 10 2010 - 11:06:22 CST)
- rgyr calculation problem (Fri Nov 05 2010 - 16:21:05 CDT)
brataraj ghosh
- DNA .dcd file analysis (Thu Jan 05 2017 - 07:33:07 CST)
- plug-in for DNA .dcd (Tue Jan 03 2017 - 02:05:25 CST)
BRAULIO FAVIÁN VALDEBENITO MATURANA
- Protein cavities (Thu May 26 2011 - 12:41:48 CDT)
BRAULIO VALDEBENITO MATURANA
- Re: Protein cavities (Sun May 29 2011 - 16:42:33 CDT)
- Protein cavities (Sat May 28 2011 - 23:26:02 CDT)
Breght Boschker
- Eye position / camera position (Thu Jun 02 2005 - 05:27:49 CDT)
Brendan Dennis
- Re: Running VMD 1.9.4alpha on newer GPUs that require CUDA 11+ and OptiX 7+ (Wed Feb 01 2023 - 13:51:43 CST)
- Re: Running VMD 1.9.4alpha on newer GPUs that require CUDA 11+ and OptiX 7+ (Wed Feb 01 2023 - 01:10:25 CST)
- Re: Running VMD 1.9.4alpha on newer GPUs that require CUDA 11+ and OptiX 7+ (Tue Jan 31 2023 - 16:48:10 CST)
- Re: Running VMD 1.9.4alpha on newer GPUs that require CUDA 11+ and OptiX 7+ (Tue Jan 31 2023 - 13:16:41 CST)
- Running VMD 1.9.4alpha on newer GPUs that require CUDA 11+ and OptiX 7+ (Mon Jan 30 2023 - 20:16:39 CST)
Brendan O'Malley
- Postdoctoral positions in Australia (Wed Nov 06 2002 - 04:55:13 CST)
- VMD and Trackers (Sun Jul 14 2002 - 19:22:45 CDT)
- Tracking devices and VMD (Mon Jun 17 2002 - 04:15:07 CDT)
- vmd stereo (Sun Oct 29 2000 - 19:27:16 CST)
Bret Hess
- Re: Minimum content/format of PSF file to specify bonds? (Mon Nov 23 2015 - 11:59:22 CST)
- Re: Minimum content/format of PSF file to specify bonds? (Mon Nov 23 2015 - 11:46:31 CST)
- Minimum content/format of PSF file to specify bonds? (Mon Nov 23 2015 - 10:55:22 CST)
Brett Pemberton
- Re: VMD crashed due to: vmd_LINUXAMD64: indirect_vertex_array.c:659: emit_DrawArrays_old: Assertion `elements_per_request >= count' failed (Tue Jun 27 2006 - 22:37:59 CDT)
- Re: VMD crashed due to: vmd_LINUXAMD64: indirect_vertex_array.c:659: emit_DrawArrays_old: Assertion `elements_per_request >= count' failed (Tue Jun 27 2006 - 20:59:56 CDT)
- Re: VMD crashed due to: vmd_LINUXAMD64: indirect_vertex_array.c:659: emit_DrawArrays_old: Assertion `elements_per_request >= count' failed (Tue Jun 27 2006 - 18:57:15 CDT)
- VMD crashed due to: vmd_LINUXAMD64: indirect_vertex_array.c:659: emit_DrawArrays_old: Assertion `elements_per_request >= count' failed (Tue Jun 27 2006 - 00:52:41 CDT)
Brian Bennion
- Re: X_ChangeProperty: BadValue (integer parameter out of range for operation) 0x40 (Mon Jan 07 2008 - 10:58:36 CST)
- Re: Installation and running on VMD on Debian Testing System (Wed Oct 03 2007 - 09:51:54 CDT)
- Re: Loading up PDB files in absolute coordinates (Fri Jun 22 2007 - 15:34:28 CDT)
- Re: calculating b-factors from trajectories (Wed May 23 2007 - 10:34:57 CDT)
- Re: superimposing two structures and getting the coordinates (Tue Feb 20 2007 - 14:44:17 CST)
- autopsf errors in vmd1.8.5 (Mon Oct 30 2006 - 12:09:54 CST)
- Re: about maximum number of atoms (Wed Aug 02 2006 - 17:55:28 CDT)
- Re: RMSF ? (Wed Jun 21 2006 - 10:10:08 CDT)
- Re: fading rep scripts (Mon Jun 12 2006 - 17:48:21 CDT)
- fading rep scripts (Mon Jun 12 2006 - 16:41:38 CDT)
- Re: Possible error in aligning/computing RMSD of 2 molecules with three or two atoms (Thu Mar 23 2006 - 17:22:15 CST)
- Re: Poor Hydrogen Placement in AutoPSF (Mon Mar 20 2006 - 16:54:20 CST)
- Re: Poor Hydrogen Placement in AutoPSF (Mon Mar 20 2006 - 10:27:52 CST)
- Poor Hydrogen Placement in AutoPSF (Fri Mar 17 2006 - 16:39:15 CST)
- batchmode use of "labels" functions? (Fri Feb 10 2006 - 11:59:32 CST)
- Re: Generating an average structure from a trajectory (Fri Sep 16 2005 - 18:22:43 CDT)
- Re: catdcd vs readdcd.h error checking (Sat Aug 20 2005 - 11:22:16 CDT)
- catdcd vs readdcd.h error checking (Fri Aug 19 2005 - 11:53:55 CDT)
- Re: Adjacent surface? (Thu Aug 18 2005 - 14:24:07 CDT)
- Re: help with BIOMT (Fri Aug 12 2005 - 15:52:25 CDT)
- Re: namd-l: volume from VMD and NAMD different? (Fri Aug 05 2005 - 17:38:27 CDT)
- volume from VMD and NAMD different? (Fri Aug 05 2005 - 16:12:34 CDT)
- Re: Video card driver (Thu Aug 04 2005 - 17:05:05 CDT)
- vmd mpg movies not working in office 2000 (Tue Jul 12 2005 - 17:36:52 CDT)
- Re: Problem with "bigdcd" (Thu Apr 28 2005 - 12:33:59 CDT)
- Re: namd-l: Re: Interactive Simulations, ligand size limits.... (Thu Apr 28 2005 - 12:01:32 CDT)
- Re: Catching error info before it shuts down ... (Fri Feb 18 2005 - 10:01:32 CST)
- Re: PBS script for LINUX cluster (Tue Jan 18 2005 - 10:25:05 CST)
- Re: ERROR) Failed to create Surf atom radii input file (Tue Dec 28 2004 - 11:16:46 CST)
- Re: (Tue Dec 14 2004 - 12:47:07 CST)
- RE: MSMS variable (Tue Nov 30 2004 - 16:48:21 CST)
- RE: MSMS variable (Tue Nov 30 2004 - 13:15:47 CST)
- RE: MSMS variable (Wed Nov 24 2004 - 16:23:55 CST)
- Re: MSMS variable (Wed Nov 24 2004 - 10:13:23 CST)
- Re: Question about using psfgen on protein 4HVP (Tue Oct 26 2004 - 15:02:51 CDT)
- Re: VMD on Linux Fedora Core 2 (Wed Oct 13 2004 - 12:26:39 CDT)
- Re: PSFGEN problem (Fri Oct 08 2004 - 21:58:07 CDT)
- Re: dihedral angles at the ends (Tue Oct 05 2004 - 11:44:53 CDT)
- Re: Re: Installation on vmd-1.8 on mandrake10 (Fri Aug 27 2004 - 10:06:03 CDT)
- Re: makefile not generated from configure (Thu Aug 19 2004 - 12:24:13 CDT)
- Re: Solvating with TIP4 or SPC (Wed Aug 04 2004 - 10:43:19 CDT)
- Re: Box of non-polar solvent (Fri Jul 16 2004 - 13:35:28 CDT)
- Re: Box of non-polar solvent (Fri Jul 16 2004 - 13:13:01 CDT)
- Re: CONECT in pdb files (Fri Jul 02 2004 - 18:01:58 CDT)
- Re: Compile from Source Crashes 5/11/04 (Tue May 11 2004 - 16:26:33 CDT)
- Re: vmd 1.8.2 - slow on linux (Tue May 11 2004 - 15:25:45 CDT)
- Re: Compile from Source Crashes 5/11/04 (Tue May 11 2004 - 11:22:20 CDT)
- RE: Selection problem on TkCon (Tue May 04 2004 - 13:20:20 CDT)
- RE: Selection problem on TkCon (Mon May 03 2004 - 14:14:10 CDT)
- RE: Selection problem on TkCon (Mon May 03 2004 - 10:14:02 CDT)
- Re: vmd linux binary / native build on netbsd (Mon Apr 19 2004 - 12:25:21 CDT)
- Re: vmd linux binary / native build on netbsd (Fri Apr 16 2004 - 13:12:13 CDT)
- Re: Webpdb crashing (Fri Apr 16 2004 - 13:13:06 CDT)
- Re: Webpdb crashing (Fri Apr 16 2004 - 11:22:50 CDT)
- Re: Webpdb crashing (Fri Apr 16 2004 - 11:48:55 CDT)
- Re: psfgen question (Thu Mar 25 2004 - 11:42:45 CST)
- Re: Solvate Package (Wed Mar 17 2004 - 11:39:15 CST)
- Re: loading PDB+PSF (Tue Mar 16 2004 - 11:00:18 CST)
- Re: VMD as command line interface (Thu Mar 11 2004 - 10:24:31 CST)
- RE: gziped files (Tue Mar 09 2004 - 13:38:44 CST)
- RE: gziped files (Tue Mar 09 2004 - 13:29:03 CST)
- Re: gziped files (Tue Mar 09 2004 - 11:08:55 CST)
- Re: numeric python (Mon Mar 08 2004 - 10:07:17 CST)
- Re: athlon64 version of vmd (Fri Mar 05 2004 - 16:30:57 CST)
- Re: Non-serious query (Wed Mar 03 2004 - 11:23:33 CST)
- Re: removing surrounding water molecules (Fri Feb 13 2004 - 16:53:24 CST)
- Re: attempting to source a script (Wed Feb 11 2004 - 16:49:41 CST)
- Re: bigdcd (Wed Nov 05 2003 - 17:52:38 CST)
- Re: installation problem (Tue Nov 04 2003 - 10:16:20 CST)
- Re: secondary structure update (Mon Nov 03 2003 - 11:19:28 CST)
- Re: secondary structure update (Fri Oct 31 2003 - 12:18:34 CST)
- Re: secondary structure update (Fri Oct 31 2003 - 10:12:40 CST)
- Re: accessing VMD help (Fri Oct 31 2003 - 10:14:42 CST)
- Re: VMD and Chromium (Thu Oct 30 2003 - 14:46:37 CST)
- Re: aminoacid mutation (Tue Oct 28 2003 - 10:22:38 CST)
- Re: vmd 1.8.2b3 (September 16, 2003) on freebsd (Tue Sep 16 2003 - 23:05:07 CDT)
- Re: AtomLexer/lex.yy.c error (Tue Sep 16 2003 - 10:37:28 CDT)
- Re: trio program (Tue Sep 16 2003 - 10:17:13 CDT)
- Re: AtomLexer/lex.yy.c error (Tue Sep 16 2003 - 10:06:33 CDT)
- Re: trio program (Fri Sep 12 2003 - 11:00:17 CDT)
- Re: loading trj file (Fri Sep 12 2003 - 09:59:35 CDT)
Brian Corrie
- Run time error on Max Impact (Wed Apr 16 1997 - 01:16:40 CDT)
Brian Dotson
- Viewing an SDF file in VMD (Thu Jun 30 2005 - 07:54:31 CDT)
- Re: Using VMD with Chromium (Wed Mar 03 2004 - 07:22:01 CST)
- RE: Using VMD with Chromium (Tue Mar 02 2004 - 06:12:42 CST)
- Using VMD with Chromium (Mon Mar 01 2004 - 06:59:34 CST)
Brian Guthrie
- how to get VMD plugins for 1.9.3 (Sun Nov 24 2019 - 22:06:40 CST)
Brian Kidd
- creating videos where the representation changes throughout (Thu Feb 19 2009 - 23:30:20 CST)
- using the beta and occupancy columns as state variables (Tue Oct 28 2008 - 00:42:41 CDT)
- periodic box image in tcl script (Mon Sep 29 2008 - 11:27:39 CDT)
- vmd MacOSX using dispdev (Thu Jul 17 2008 - 18:08:03 CDT)
- Re: Mac OSX TK console issues (Fri Jun 15 2007 - 14:57:16 CDT)
- atomselection question (Tue May 22 2007 - 18:55:55 CDT)
- question about setting variables in a loop (Mon Jan 08 2007 - 22:01:12 CST)
- .vmdrc (Wed Jun 21 2006 - 18:26:48 CDT)
- color protein based on an event during a trajectory (Wed Jun 07 2006 - 21:33:39 CDT)
- Re: fedora core 5 and VMD 1.8.4 (Tue Apr 25 2006 - 23:02:17 CDT)
- Re: fedora core 5 and VMD 1.8.4 (Tue Apr 25 2006 - 20:06:50 CDT)
- fedora core 5 and VMD 1.8.4 (Tue Apr 25 2006 - 18:37:32 CDT)
- Calculate the area of overlap? (Sat May 21 2005 - 02:01:04 CDT)
- wrap ions (Wed Apr 27 2005 - 11:39:35 CDT)
- determining vdw, elec, and others (Wed Feb 16 2005 - 23:09:12 CST)
Brian Kim
- Re: Use variable in atomselect command (Tue Feb 07 2012 - 19:11:27 CST)
- Re: Use variable in atomselect command (Tue Feb 07 2012 - 16:40:24 CST)
- Use variable in atomselect command (Tue Feb 07 2012 - 15:16:17 CST)
Brian Puchala
- color trajectory using specific values rather than color scale (Mon Jun 27 2011 - 09:55:05 CDT)
Brian Radak
- Re: histidine protonation (Sun Apr 04 2021 - 14:56:14 CDT)
- Re: Using namdEnergy from an external python script (Thu Jan 16 2020 - 12:25:37 CST)
- Re: Measre dihedral angle of a certain type (Wed Apr 10 2019 - 05:48:10 CDT)
- Re: VMD psfgen lonepair handling (Tue Mar 26 2019 - 10:32:10 CDT)
- Re: VMD psfgen lonepair handling (Tue Mar 26 2019 - 08:28:21 CDT)
- Re: RTX-accelerated VMD 1.9.4 test build for 64-bit Linux posted... (Mon Mar 11 2019 - 16:57:12 CDT)
- Re: Difference in ParseFEP result with versions 1.9.2 and 2.1 (Tue Feb 19 2019 - 11:44:01 CST)
- Re: Difference in ParseFEP result with versions 1.9.2 and 2.1 (Mon Feb 18 2019 - 16:31:07 CST)
- Re: FEP tutorial plot error (Thu Jan 24 2019 - 13:37:07 CST)
- Re: Free Energy Perturbation Analysis using VMD (Fri Dec 14 2018 - 10:24:22 CST)
- Re: Patching for bond between protein and organic ligand (Tue Nov 13 2018 - 08:37:37 CST)
- Re: Patching for bond between protein and organic ligand (Mon Nov 12 2018 - 12:19:08 CST)
- Re: Re: Dynamic Bonds Question (Wed Oct 31 2018 - 17:42:53 CDT)
- Re: topotools in place of patching (Thu Oct 04 2018 - 15:32:20 CDT)
- Re: QwikMD and GROMOS Re: (Mon Aug 27 2018 - 11:04:26 CDT)
- Re: namd-l: Strange Bond Behavior Question (Fri Jun 22 2018 - 16:12:30 CDT)
- Re: ABF Calculations Question 1 (Fri May 25 2018 - 12:40:32 CDT)
- Re: namd-l: Re: Fwd: FEP with intermediary segments (Fri May 04 2018 - 11:04:10 CDT)
- Re: Fwd: FEP with intermediary segments (Fri May 04 2018 - 08:01:28 CDT)
- Re: RMSD of lipid molecules (Fri Apr 27 2018 - 08:59:34 CDT)
- Re: namd-l: Re: PSFGEN 1.6.4 autogenerate PATCH keyword not available (Tue Apr 24 2018 - 11:23:47 CDT)
- Re: PSFGEN 1.6.4 autogenerate PATCH keyword not available (Tue Apr 24 2018 - 07:34:01 CDT)
- Re: Re: namd-l: Re: Bug with FEP? (Tue Apr 17 2018 - 09:42:46 CDT)
- Re: Re: namd-l: Re: Bug with FEP? (Mon Apr 16 2018 - 11:31:45 CDT)
- Re: water molecules amber force field (Thu Apr 12 2018 - 12:23:35 CDT)
- Re: namd-l: Proper use of psfgen "mutate"? (Tue Apr 10 2018 - 09:41:54 CDT)
- Proper use of psfgen "mutate"? (Tue Apr 10 2018 - 08:58:47 CDT)
- Re: namd-l: ParseFEP error with FEP in segments at different lambda schedule (Tue Apr 10 2018 - 07:56:40 CDT)
- Re: Solvent PDB and PSF Files (Thu Mar 29 2018 - 11:40:26 CDT)
- Re: Fwd: ParseFEP for restating FEP (Mon Mar 26 2018 - 16:13:19 CDT)
- Re: Regarding installation of DruGui (Mon Mar 26 2018 - 11:12:57 CDT)
- Re: Fwd: ParseFEP for restating FEP (Mon Mar 26 2018 - 11:57:28 CDT)
- Re: [VMD-NAMD] Question about Dipole of DNA / Dipole Moment Watcher Plugin (Fri Mar 23 2018 - 10:59:05 CDT)
- Re: Fwd: ParseFEP for restating FEP (Fri Mar 23 2018 - 10:48:17 CDT)
- Re: Adding Hydroxide Ions to the simulation box (Wed Mar 21 2018 - 09:15:30 CDT)
- Re: Adding Hydroxide Ions to the simulation box (Tue Mar 20 2018 - 09:42:54 CDT)
- Re: Fwd: parseFEP domain error (Mon Mar 05 2018 - 15:43:15 CST)
- Re: setting up POPS or POPG in VMD (Tue Feb 13 2018 - 10:31:47 CST)
- Re: Improper terms in topology files processed by psfgen (Fri Jan 05 2018 - 10:40:00 CST)
- Re: Rgarding the output for dx file of occupancy(VolMap) (Mon Sep 18 2017 - 12:35:38 CDT)
- "spiral cylinders" instead of bonds when rendering with Tachyon? (Thu Mar 23 2017 - 14:34:16 CDT)
- Re: Numerical data from electrostatic calculations (Fri Mar 17 2017 - 11:09:18 CDT)
- Re: namd-l: psfgen - pdbalias when using readpsf (Thu Dec 15 2016 - 14:48:01 CST)
- psfgen - pdbalias when using readpsf (Thu Dec 15 2016 - 14:28:56 CST)
- Re: Atom selections for measure - index sorting (Thu Dec 15 2016 - 09:33:06 CST)
- Atom selections for measure - index sorting (Wed Dec 14 2016 - 15:49:03 CST)
- Re: NAMD Check points (Fri Dec 09 2016 - 10:17:47 CST)
- Re: Setting user field for time varying parameters? (Thu Dec 01 2016 - 15:24:45 CST)
- Setting user field for time varying parameters? (Thu Dec 01 2016 - 14:05:28 CST)
- Re: PRES and water-ions issues with charmm36 (Thu Dec 10 2015 - 15:58:49 CST)
- catdcd - writing DCD with box info from namdbin and xsc files? (Thu Oct 08 2015 - 10:03:58 CDT)
- Re: Questions with Solvation with TIP4P Water Model (Thu Apr 02 2015 - 14:21:15 CDT)
- Re: Re: namd-l: velocity IO with psfgen? (Thu Feb 26 2015 - 11:42:22 CST)
- Re: namd-l: velocity IO with psfgen? (Thu Feb 26 2015 - 10:56:57 CST)
- velocity IO with psfgen? (Thu Feb 26 2015 - 09:41:04 CST)
- Re: quick tcl question with vmd/psfgen (Thu Jan 29 2015 - 14:04:08 CST)
- Re: quick tcl question with vmd/psfgen (Thu Jan 29 2015 - 13:49:00 CST)
- quick tcl question with vmd/psfgen (Thu Jan 29 2015 - 12:30:47 CST)
- color scale definitions with more than three colors? (Thu Jul 31 2014 - 12:38:49 CDT)
- Re: FW: difficulty in viewing AMBER mdcrd files (Wed Jul 25 2012 - 08:45:38 CDT)
Brian Smith
- Contribution of selected atoms to surface (Fri May 04 2007 - 03:12:57 CDT)
- How do I set the color scale for beta? (Fri Sep 24 2004 - 01:43:31 CDT)
Brianna McIntosh
- Using Automatic PSF Builder for Novel Residues (Thu Jul 30 2015 - 17:32:56 CDT)
Brittany Boykin
- Building structure (Sat Nov 29 2014 - 14:38:49 CST)
Brittany Lott
- qwikmd can't load pdb file, locate "P:/" drive (Mon Mar 04 2019 - 20:24:54 CST)
Brittany Morgan
- RE: script to resolve trajectory "jumps" on Desmond dynamic (Wed Mar 04 2009 - 11:21:13 CST)
- RE: rna topology and parameters for rna (Mon Oct 29 2007 - 08:20:16 CDT)
brmorgan_at_clarku.edu
- 'gopython' Tkinter and Numeric Python error (Mon Jan 28 2008 - 09:55:36 CST)
- Solvate package (Wed Sep 05 2007 - 13:02:03 CDT)
Brooke Dallas
- Re: Bond Colors (Thu Oct 14 2010 - 11:37:10 CDT)
- Re: Bond Colors (Wed Oct 13 2010 - 11:31:16 CDT)
- Bond Colors (Wed Oct 13 2010 - 08:46:36 CDT)
brosbam_at_berkeley.edu
- autopsf from console (Thu Jul 17 2008 - 12:23:21 CDT)
- purple bacteria and psfgen (Tue Jul 15 2008 - 12:37:30 CDT)
Bruce D'Amora
- Re: VMD 1.9.3 beta 1 posted for download... (Thu Jul 21 2016 - 11:04:32 CDT)
- Re: VMD 1.9.3 (Tue Jun 28 2016 - 14:48:43 CDT)
- VMD with EGL (Sun May 29 2016 - 07:34:56 CDT)
Bruininks, B.M.H.
- VMD 1.9.4 (RTRT) with python3 and numpy on Ubuntu (Thu Nov 25 2021 - 03:25:12 CST)
- Re: Visualizing segmentation/labeling without python dependency (Thu Sep 02 2021 - 08:06:55 CDT)
- Re: Visualizing segmentation/labeling without python dependency (Thu Sep 02 2021 - 04:15:40 CDT)
- Visualizing segmentation/labeling without python dependency (Wed Sep 01 2021 - 08:35:14 CDT)
Bruno Luís Pinto de Oliveira
- NAMDenergy plugin_VMD_van der Waal interactions (Wed Feb 08 2012 - 12:40:57 CST)
- NAMDenergy plugin_VMD_van der Waal interactions (Wed Feb 08 2012 - 10:05:41 CST)
- NAMDenergy plugin_VMD_van der Waal interactions (Tue Feb 07 2012 - 09:20:23 CST)
- RE: Visualization of FEP simulation (Fri Oct 21 2011 - 12:37:34 CDT)
- RE: Visualization of FEP simulation (Thu Oct 20 2011 - 06:15:37 CDT)
- Visualization of FEP simulation (Wed Oct 19 2011 - 09:04:06 CDT)
- Visualization of FEP simulation (Thu Sep 08 2011 - 13:24:32 CDT)
- Visualization of FEP simulation (Thu Sep 08 2011 - 12:38:41 CDT)
Bryan Roessler
- FFTK, recognize wildcard atom types in forcefields (Fri Mar 23 2018 - 19:38:06 CDT)
- Re: AutoPSF formatted PDB: wrong residue order (Fri Feb 02 2018 - 14:04:43 CST)
- AutoPSF formatted PDB: wrong residue order (Fri Feb 02 2018 - 04:09:33 CST)
- Re: Feature request: "Apply to all molecules" option in graphical representation window (Wed Jan 18 2017 - 17:44:29 CST)
- Feature request: "Apply to all molecules" option in graphical representation window (Wed Jan 18 2017 - 17:06:48 CST)
- Re: Disabling VMD logo (Tue May 31 2016 - 20:47:21 CDT)
- Disabling VMD logo (Tue May 31 2016 - 20:40:27 CDT)
- Re: measure contacts not working as expected (Thu Dec 03 2015 - 23:05:08 CST)
- Re: measure contacts not working as expected (Thu Dec 03 2015 - 19:34:39 CST)
- measure contacts not working as expected (Wed Dec 02 2015 - 16:51:04 CST)
- Re: Ideal charge optimization strategy for atoms with existing ff parameters (Tue Oct 20 2015 - 15:34:48 CDT)
- Re: Ideal charge optimization strategy for atoms with existing ff parameters (Mon Oct 19 2015 - 09:45:32 CDT)
- Re: Ideal charge optimization strategy for atoms with existing ff parameters (Fri Oct 16 2015 - 10:01:53 CDT)
- Ideal charge optimization strategy for atoms with existing ff parameters (Tue Oct 13 2015 - 14:08:02 CDT)
- Select atoms within certain distance of vertical symmetry axis (Tue May 20 2014 - 16:25:26 CDT)
- Re: Altering extrabonds force constant during MD (Tue Apr 15 2014 - 09:52:18 CDT)
- Altering extrabonds force constant during MD (Mon Apr 14 2014 - 16:11:28 CDT)
- Problems with external Tachyon Renderer (Fri Nov 01 2013 - 21:02:34 CDT)
- Re: Showing frame number on display? (Thu Aug 09 2012 - 11:12:02 CDT)
- Showing frame number on display? (Wed Aug 08 2012 - 12:04:58 CDT)
- Re: PMEpot plugin (Wed Jun 20 2012 - 17:03:25 CDT)
- Re: Changing alphanumeric atom naming scheme to numeric (Wed Jun 06 2012 - 09:47:44 CDT)
- Changing alphanumeric atom naming scheme to numeric (Tue Jun 05 2012 - 12:07:15 CDT)
- Re: Problem with hydration script (Thu Apr 19 2012 - 15:17:35 CDT)
- Problem with hydration script (Thu Apr 19 2012 - 13:17:39 CDT)
- Re: atomselect counting (Thu Feb 02 2012 - 13:20:38 CST)
- Re: Calling all DCD files in a directory sequentially using CatDCD (Mon Jan 23 2012 - 18:24:07 CST)
- Re: Calling all DCD files in a directory sequentially using CatDCD (Mon Jan 23 2012 - 16:15:48 CST)
- Calling all DCD files in a directory sequentially using CatDCD (Mon Jan 23 2012 - 15:11:34 CST)
- Multiple Stream Files: What Order? (Wed Dec 14 2011 - 11:20:25 CST)
- Visualizing Timeline (tml) data w/o having to load trajectories (Thu Oct 27 2011 - 11:34:40 CDT)
Bryce Vang
- Spring quality watches offer (Mon Apr 28 2008 - 12:56:22 CDT)
bsnmrem-obj_at_yahoo.com
- Re: VMD 1.9 installation on linux (Wed Jun 13 2012 - 19:18:47 CDT)
- Re: Drawing an ellipsoid (Thu May 31 2012 - 16:03:53 CDT)
- Drawing an ellipsoid (Thu May 31 2012 - 08:44:33 CDT)
Buddhika Jayasena
- PDMS with VMD (Tue Jan 14 2014 - 16:07:07 CST)
Buford Granger
- Inexpensive Louis Vuitton bags (Thu Apr 24 2008 - 09:03:05 CDT)
Buford Greene
- No prescr1ption? No problem! (Sat Aug 25 2007 - 09:27:00 CDT)
Burak Cankurtaran
- PDB file (Tue Dec 29 2009 - 05:41:23 CST)
- Re: Isosurface and Fieldlines Not rendered in colour (Tue May 26 2009 - 21:17:36 CDT)
- Isosurface and Fieldlines Not rendered in colour (Tue May 26 2009 - 00:15:44 CDT)
Burcin Temel
- Re: suggested video card for linux (Mon Aug 11 2008 - 12:13:06 CDT)
- suggested video card for linux (Mon Aug 04 2008 - 07:32:03 CDT)
Burgess, Don E
- mutator plugin generates extra bond for tip3 (Fri Sep 30 2011 - 11:49:26 CDT)
- Recent Geforce Cuda GPU cards(GT 440, GTX 560ti) (Wed Apr 13 2011 - 11:26:02 CDT)
Burkhard Heil
- Run Python Scripts in VMD on Mac OS X (Tue Apr 27 2010 - 06:52:50 CDT)
Burlen Loring
- Re: segv in vmd upon opening a file (Wed Apr 01 2015 - 13:46:17 CDT)
- Re: segv in vmd upon opening a file (Wed Apr 01 2015 - 13:22:20 CDT)
- Re: segv in vmd upon opening a file (Wed Apr 01 2015 - 12:09:34 CDT)
- Re: segv in vmd upon opening a file (Wed Apr 01 2015 - 03:23:28 CDT)
- segv in vmd upon opening a file (Tue Mar 31 2015 - 16:20:44 CDT)
by way of Jeroen Akershoek
- Weird lighting in CAVE (Wed Aug 25 2004 - 03:24:00 CDT)
bybaker_at_itsa.ucsf.edu
- TkCon History (Mon Sep 05 2005 - 03:20:56 CDT)
- Re: vmdtext & Window (Sat Sep 03 2005 - 22:06:14 CDT)
- vmdtext and .cshrc. (Fri Sep 02 2005 - 21:09:25 CDT)
- plugin problem (Tue Aug 30 2005 - 01:17:45 CDT)
- Install VMD on Window XP (Thu Oct 28 2004 - 22:19:46 CDT)
- Install VMD on Window XP (Thu Oct 28 2004 - 22:17:59 CDT)
Bylund, Tatsiana (NIH/NIAID) [F]
- RE: how to analyze fitting structure into density map (Thu Mar 03 2016 - 13:38:59 CST)
- RE: how to analyze fitting structure into density map (Thu Mar 03 2016 - 13:17:52 CST)
- Re: how to analyze fitting structure into density map (Wed Mar 02 2016 - 18:58:53 CST)
- Re: how to analyze fitting structure into density map (Wed Mar 02 2016 - 18:05:34 CST)
- Re: how to analyze fitting structure into density map (Tue Mar 01 2016 - 18:54:19 CST)
- Re: how to analyze fitting structure into density map (Tue Mar 01 2016 - 11:11:02 CST)
- how to analyze fitting structure into density map (Tue Mar 01 2016 - 10:35:36 CST)
- Re: visualizing MDFF results with explicit solvent (Tue Mar 01 2016 - 10:32:54 CST)
- Re: visualizing MDFF results with explicit solvent (Tue Mar 01 2016 - 10:03:44 CST)
- visualizing MDFF results with explicit solvent (Tue Mar 01 2016 - 09:34:34 CST)
C L Freeman
- Re: vmd maxAtom (Thu Feb 07 2008 - 04:53:30 CST)
- vmd maxAtom (Wed Feb 06 2008 - 10:10:30 CST)
Caio Julio Martins Veloso
- RES: uNABLE TO OPEN VMD ON WINDOWS 2K (Thu Feb 01 2007 - 06:54:03 CST)
- uNABLE TO OPEN VMD ON WINDOWS 2K (Wed Jan 31 2007 - 21:38:03 CST)
Caio S. Souza
- Re: Timeline / Sequence View not functional (Mon Mar 13 2017 - 09:16:40 CDT)
- Re: How to compile for Python 3 (Sat Oct 29 2016 - 10:09:58 CDT)
- How to compile for Python 3 (Tue Jul 12 2016 - 17:03:21 CDT)
- Re: how to write pbc option in python? (Mon Apr 22 2013 - 10:03:32 CDT)
- Re: NameError: name 'AtomSel' is not defined (Mon Jan 28 2013 - 13:40:45 CST)
- Re: about atomselect command (Mon Dec 24 2012 - 11:17:24 CST)
- Re: problem of selection (Wed Dec 19 2012 - 07:30:38 CST)
- Re: python script failed (Mon Nov 26 2012 - 07:15:14 CST)
Caio Silva Souza
- Re: compiling vmd with g++-4.6 on ubuntu (Wed Sep 19 2012 - 12:30:53 CDT)
- Re: Python plans (Fri Jul 27 2012 - 12:46:27 CDT)
- Re: Python plans (Fri Jul 27 2012 - 12:19:07 CDT)
- Re: Python plans (Thu Jul 26 2012 - 14:40:40 CDT)
- Python plans (Sat Jul 21 2012 - 18:47:13 CDT)
Caio Veloso
- About Paratool (Tue Jan 26 2010 - 11:21:13 CST)
Caitlin Hetherington
- Problem loading file in VMD (Tue Aug 10 2021 - 09:18:17 CDT)
caldwell_at_heimdal.compchem.ucsf.edu
- Re: Amber prmtop/inpcrd files (Thu Jul 31 2003 - 14:22:12 CDT)
- Re: coloring waters (Fri Jun 20 2003 - 12:06:32 CDT)
- Re: coloring waters (Thu Jun 19 2003 - 18:25:04 CDT)
- coloring waters (Thu Jun 19 2003 - 12:51:05 CDT)
Cameron Mura
- resolved [Re: vmd / python / f10] (Sun May 17 2009 - 19:07:47 CDT)
- Re: vmd / python / f10 (Sat May 16 2009 - 22:00:29 CDT)
- vmd / python / f10 (Sat May 16 2009 - 18:43:18 CDT)
- FC4 stereo problems (Wed Jul 27 2005 - 18:03:58 CDT)
Camilo Andrés Jimenez Cruz
- Re: HBonds representation draws bonds with atoms (Hs) not included in the selection (Fri Dec 13 2013 - 13:20:07 CST)
- HBonds representation draws bonds with atoms (Hs) not included in the selection (Fri Dec 13 2013 - 09:35:37 CST)
campen_at_geosc.psu.edu
- Reading Amber .crd files (Tue Jul 18 2006 - 12:25:17 CDT)
- Reading Amber .prd and PARM files into VMD (Tue Jul 18 2006 - 08:32:37 CDT)
Can Ali Tomruk
- Does the VMD Linux 64-bit version perform better than the Windows 32-bit when visualizing large molecules? (Tue Aug 05 2014 - 16:45:31 CDT)
candy deck
- NAMD 2.8 and PLUMED 1.3 (Thu Aug 30 2012 - 07:23:27 CDT)
- Warning in the log file (Thu Jan 27 2011 - 09:28:12 CST)
- Adsorption and diffusion (Tue Dec 14 2010 - 03:38:53 CST)
- Problem Material Studio/VMD (Wed Aug 11 2010 - 01:49:55 CDT)
Capponi, Sara
- problems reading rst file as amber7 restart with VMD 1.9.3 (Fri Oct 20 2017 - 12:27:48 CDT)
Cara Kreck
- RE: Remote visualisation inconsistency (Thu Aug 28 2014 - 02:33:13 CDT)
- Remote visualisation inconsistency (Wed Aug 27 2014 - 11:37:39 CDT)
Cardenas Lizana, Paul Antonio
- measure inertia (Eigenvalues and Eigenvectors) (Sat Mar 18 2017 - 13:30:07 CDT)
Carla Jamous
- ppmtompeg (Wed Sep 22 2010 - 07:52:42 CDT)
- Re: ppm files (Tue Sep 21 2010 - 09:50:05 CDT)
- ppm files (Mon Sep 20 2010 - 07:07:52 CDT)
- Re: ppm files (Mon Sep 20 2010 - 07:36:20 CDT)
- Problem with New cartoon representation (Mon Mar 01 2010 - 02:37:33 CST)
carles ferrer
- truncated octahedron box in namd (Tue Aug 26 2003 - 17:58:28 CDT)
Carlos Guardia
- Re: Multiseq doesn't work on mac (Wed Jul 06 2022 - 11:45:26 CDT)
- Multiseq doesn't work on mac (Fri Jul 01 2022 - 17:38:05 CDT)
Carlos Simmerling
- Re: black VMD opengl screen after replacing GPU (Wed Nov 20 2024 - 10:42:45 CST)
- black VMD opengl screen after replacing GPU (Tue Nov 19 2024 - 16:10:46 CST)
- Re: How to choose solid color in clipping plane render with POV-Ray (Tue Aug 30 2022 - 12:42:58 CDT)
- Re: Tachyon not rendering large scenes (Fri Sep 03 2021 - 05:53:07 CDT)
- Re: Extracellular Salt Bridges (Tue Jul 13 2021 - 16:21:28 CDT)
- Re: Rendering using GPU (Thu Apr 15 2021 - 11:52:07 CDT)
- stride not showing all helix section after VMD crash (Tue Apr 13 2021 - 16:28:22 CDT)
- Re: histidine protonation (Sat Apr 03 2021 - 09:44:24 CDT)
- change color sequence used in label graphs? (Mon Mar 29 2021 - 14:00:55 CDT)
- Re: how to change working directory for viewmaster? (Sat Mar 06 2021 - 16:35:29 CST)
- how to change working directory for viewmaster? (Fri Mar 05 2021 - 09:56:07 CST)
- Re: VMD 1.9.4a50 64-bit Windows test build posted (Tue Dec 15 2020 - 09:58:37 CST)
- Re: Nvidia 3D vision not working in Windows 10 (Wed Mar 06 2019 - 12:25:49 CST)
- Re: Nvidia 3D vision not working in Windows 10 (Mon Aug 27 2018 - 10:32:30 CDT)
- Re: Nvidia 3D vision not working in Windows 10 (Mon Aug 27 2018 - 10:20:02 CDT)
- Nvidia 3D vision not working in Windows 10 (Mon Aug 27 2018 - 08:26:35 CDT)
- Re: water molecules amber force field (Thu Apr 12 2018 - 15:50:47 CDT)
- ACS COMP Division awards for Fall 2015 National Meeting in Boston (Thu Feb 05 2015 - 10:55:09 CST)
- ACS COMP Division travel awards for Spring 2015 National Meeting in Denver (Fri Sep 12 2014 - 09:42:32 CDT)
- Re: any way to rotate and translate with mouse without changing modes? (Wed Jun 25 2014 - 11:42:32 CDT)
- Re: any way to rotate and translate with mouse without changing modes? (Wed Jun 25 2014 - 09:30:48 CDT)
- any way to rotate and translate with mouse without changing modes? (Tue Jun 24 2014 - 13:17:52 CDT)
- problem with movie generation (Wed Apr 09 2014 - 10:31:51 CDT)
- Re: problem with movie generation (Wed Apr 09 2014 - 11:16:53 CDT)
- Re: problem with movie generation (Wed Apr 09 2014 - 11:41:42 CDT)
- ACS COMP Division student and junior faculty awards for Fall 2014 meeting in San Francisco (Tue Feb 18 2014 - 15:30:45 CST)
- Re: help with stereo viz on new samsung "3D" LCD and quadro card (Tue Feb 18 2014 - 10:53:04 CST)
- Re: help with stereo viz on new samsung "3D" LCD and quadro card (Tue Feb 18 2014 - 07:06:04 CST)
- help with stereo viz on new samsung "3D" LCD and quadro card (Fri Feb 14 2014 - 13:25:25 CST)
- info for computational chemistry awards, please forward (Fri Feb 20 2009 - 10:22:27 CST)
- problem rendering traj file with tachyon (Tue Sep 13 2005 - 10:47:03 CDT)
- Re: VMD crash on athlon64 with licorice representation (Wed May 11 2005 - 10:34:22 CDT)
- VMD crash on athlon64 with licorice representation (Wed May 11 2005 - 08:13:25 CDT)
carlos_at_avalon.umaryland.edu
- Fixing the View in a Movie (Fri Oct 12 2007 - 11:44:45 CDT)
Carmen Valladares
- NAMD tutorial for Windows problem reading pgn file from vmd tkconsole (Fri Aug 21 2009 - 16:26:04 CDT)
- Mutator: Losing Chromophore (Wed Aug 19 2009 - 19:14:57 CDT)
- Save State Fails (Tue Jul 21 2009 - 18:57:00 CDT)
Caro Miguel
- RE: Setting up a truncation cutoff fro volumetric data (Tue Apr 28 2015 - 11:05:05 CDT)
- RE: How to make solid surfaces work with non-orthorhombic cells (Mon Dec 01 2014 - 10:57:05 CST)
- RE: Rotate exchanges y and z axes? (Thu Nov 06 2014 - 02:29:03 CST)
- Dynamical bond rendering (Sat Apr 05 2014 - 01:36:34 CDT)
Carolina Penhavel de souza
- fftk - Opt-charges (Mon Apr 15 2013 - 09:40:26 CDT)
- fftk - Opt. Torsion (Tue Apr 02 2013 - 17:53:54 CDT)
- RE: question about fftk (Wed Oct 03 2012 - 09:19:55 CDT)
- question about fftk (Tue Oct 02 2012 - 08:26:12 CDT)
Carolyn Fitch
- Re: Quikmd hangs on new install of vmd 1.9.4 on BigSur (Sun Oct 03 2021 - 08:02:20 CDT)
- Quikmd hangs on new install of vmd 1.9.4 on BigSur (Sat Oct 02 2021 - 07:57:21 CDT)
Carolyn Phillips
- Re: Re: VMD 1.9.1 python interpreter (Sat Aug 04 2012 - 09:45:50 CDT)
- Re: Re: VMD 1.9.1 python interpreter (Sat Aug 04 2012 - 09:24:27 CDT)
- VMD 1.9.1 python interpreter (Tue Jul 31 2012 - 18:54:23 CDT)
- Re: VMD 1.9.1 python interpreter (Tue Jul 31 2012 - 19:00:26 CDT)
- Re: Problem with Movie Maker (Sat Oct 29 2011 - 11:38:10 CDT)
- Problem with Movie Maker (Fri Oct 28 2011 - 17:41:12 CDT)
- Re: Calculating RMSD on two sets of points (Tue May 10 2011 - 10:13:56 CDT)
- Calculating RMSD on two sets of points (Tue May 10 2011 - 09:57:25 CDT)
- Re: using VMD 1.8.7 on a Mac (Mon Aug 24 2009 - 18:24:36 CDT)
- Re: using VMD 1.8.7 on a Mac (Mon Aug 24 2009 - 11:33:04 CDT)
- using VMD 1.8.7 on a Mac (Sun Aug 23 2009 - 15:13:40 CDT)
- problem with gopython (Mon Mar 10 2008 - 22:32:05 CDT)
Carson Cope
- Delightsome Cart1er w4tches at Prest1ge Repl1cas (Fri Aug 31 2007 - 13:58:34 CDT)
Carsten Olbrich
- Porcupine update (Wed Feb 17 2010 - 03:03:27 CST)
- Re: namd-l: NAMD ibverbs not working on new cluster (Wed Jan 20 2010 - 06:49:43 CST)
- IDs of representations (Tue Dec 15 2009 - 03:30:54 CST)
- Re: porcupine plots for PC1 (Thu Dec 10 2009 - 04:43:03 CST)
- Holo-Bench with VMD and Flystick2 and/or Phantom (Tue Nov 17 2009 - 12:03:56 CST)
- Re: Download the newest version of VMD (Mon Jan 19 2009 - 05:05:08 CST)
- Re: How to generate an index (.ind) file? (Fri Dec 05 2008 - 01:30:17 CST)
- Re: SpaceNavigator (Tue Dec 04 2007 - 01:21:46 CST)
- Re: SpaceNavigator (Mon Dec 03 2007 - 07:46:02 CST)
- Re: SpaceNavigator (Fri Nov 30 2007 - 10:58:32 CST)
- Re: SpaceNavigator (Fri Nov 30 2007 - 10:16:46 CST)
- SpaceNavigator (Thu Nov 29 2007 - 11:23:01 CST)
Casalino, Lorenzo
- Re: RTX-accelerated VMD 1.9.4 test build for 64-bit Linux posted... (Tue Feb 26 2019 - 13:02:03 CST)
- Re: Flipping a molecule around its geometrical center (Mon Jun 04 2018 - 23:37:12 CDT)
Casey Johnson
- gofr not full PBC length (Wed Sep 17 2014 - 18:45:23 CDT)
- tcl procedure to set data (Sun Nov 06 2011 - 19:26:25 CST)
- Finding resname without using atomselect? (Tue Nov 01 2011 - 15:46:28 CDT)
- pdb naming convention to get ribbon representation (Wed Aug 31 2011 - 09:08:11 CDT)
- Represent custom peptide as ribbon? (Sat Aug 27 2011 - 09:24:07 CDT)
- Wrap PBC inside unit cellâ€ (Mon Aug 22 2011 - 17:54:41 CDT)
cashprofit3_at_address.com
- Real Cash, Real Profit....Believe it !!! (Tue Mar 21 2000 - 00:09:55 CST)
Cassiano Langini
- Tcl/Tk misbehave after upgrading MacOS to Sonoma (14.0) (Mon Oct 23 2023 - 05:17:56 CDT)
Castro Martinez, Camila
- Re: <<cionize on macOS error>> (Mon Sep 25 2023 - 01:49:52 CDT)
- Re: Angle between a vector and a plane (Wed Sep 20 2023 - 08:42:24 CDT)
- Angle between a vector and a plane (Wed Sep 20 2023 - 02:53:52 CDT)
Catalin Buiu
- Re: Problems with MDFF tutorial (Thu Jun 27 2013 - 12:44:36 CDT)
- Re: Problems with MDFF tutorial (Wed Jun 26 2013 - 11:28:46 CDT)
- Problems with MDFF tutorial (Tue Jun 25 2013 - 16:27:02 CDT)
Caterina Bernini
- pKa and Temperature in MD (Tue Mar 31 2009 - 14:47:39 CDT)
caterinabernini_at_unisi.it
- eliminate atoms from psf and pdb files (Tue Jan 06 2009 - 11:40:15 CST)
Cathal Leahy
- Extract specific frames from trajectory (Thu Apr 01 2010 - 10:40:19 CDT)
Catherine Tweedie
- polymer molecule orientation parameter (Mon Sep 10 2007 - 13:45:11 CDT)
Cathy Kelly
- Re: Center a trajectory (Tue Jul 16 2013 - 11:15:03 CDT)
cbala_at_igib.res.in
- a suggestion and query on command usage (Fri Jul 01 2005 - 08:08:57 CDT)
- loading amber file (Tue May 31 2005 - 01:05:45 CDT)
ccbroomell_at_gmail.com
- Re: VMD Compatible with Windows with 64-bit OS? (Thu Apr 09 2020 - 16:43:29 CDT)
- Re: Memory Pool Size - can I optimize this? (Mon Mar 30 2020 - 18:26:00 CDT)
- Re: Memory Pool Size - can I optimize this? (Mon Mar 30 2020 - 14:49:05 CDT)
- Re: Memory Pool Size - can I optimize this? (Mon Mar 30 2020 - 12:31:27 CDT)
Cecilia Lindgren
- monitoring of aromatic interactions? (Tue Sep 10 2013 - 07:25:46 CDT)
Celia Bremer
- periodicity and bonds (Wed Nov 14 2012 - 10:23:18 CST)
Cesar Avila
- Periodic image and transformation matrix (Mon Jul 21 2008 - 19:20:06 CDT)
- Re: How to visualize phi maps calculated with delphi V. 4 (Sat Apr 21 2007 - 20:05:42 CDT)
- Re: Shutter glasses on VMD (Sun Nov 26 2006 - 16:28:10 CST)
- Shutter glasses on VMD (Sat Nov 25 2006 - 12:14:00 CST)
Cesar Delgado
- vmd-1.8.2, Spaceball and FC2 (Mon Jun 07 2004 - 13:54:36 CDT)
- Re: Using VMD with Chromium (Tue Mar 02 2004 - 19:26:22 CST)
- Re: VMD and Chromium (Thu Oct 30 2003 - 15:17:22 CST)
- Re: VMD and Chromium (Thu Oct 30 2003 - 13:37:15 CST)
- Re: VMD and Chromium (Thu Oct 30 2003 - 12:03:45 CST)
- VMD and Chromium (Wed Oct 22 2003 - 18:13:57 CDT)
- Tachyon VMD and MPI (Mon Dec 09 2002 - 18:25:19 CST)
- Re: Chromium (Mon Aug 05 2002 - 16:19:09 CDT)
- Re: Chromium (Thu Aug 01 2002 - 16:21:54 CDT)
- Re: Chromium (Thu Aug 01 2002 - 16:07:40 CDT)
- Chromium (Thu Aug 01 2002 - 15:16:31 CDT)
- More Linux woes (Fri Jul 26 2002 - 16:08:10 CDT)
- Linux compile error (Fri Jul 26 2002 - 15:47:34 CDT)
Cesar Luis Avila
- Re: Data fields in vmd (Thu Jan 15 2009 - 13:27:14 CST)
- Re: Data fields in vmd (Thu Jan 15 2009 - 12:33:09 CST)
- Data fields in vmd (Wed Jan 14 2009 - 15:02:25 CST)
- Calculating acyl chain order parameter profile on phospholipid vesicles (Thu Jan 08 2009 - 15:43:55 CST)
- Re: doubling a membrane (Tue Nov 11 2008 - 18:44:07 CST)
- Re: doubling a membrane (Tue Nov 11 2008 - 13:23:33 CST)
- Re: Problems with Newcartoon representation (Wed Aug 06 2008 - 14:28:00 CDT)
- Problems with Newcartoon representation (Wed Aug 06 2008 - 11:17:58 CDT)
- Extracting IR spectra from trajectories (Fri Oct 19 2007 - 10:08:45 CDT)
- Averaging volmaps (Thu Sep 06 2007 - 10:11:36 CDT)
- PMEpot + bigDCD ? (Wed Sep 05 2007 - 15:08:00 CDT)
- Re: How to load packages from tcllib into VMD (Mon Aug 20 2007 - 17:22:53 CDT)
- How to load packages from tcllib into VMD (Mon Aug 20 2007 - 14:59:49 CDT)
- Re: NAMD energy plugin (Wed Aug 15 2007 - 11:58:41 CDT)
- Re: NAMD energy plugin (Wed Aug 15 2007 - 11:15:17 CDT)
- NAMD energy plugin (Wed Aug 15 2007 - 08:22:59 CDT)
- Calculating volumetric data for a molecule (Tue Jul 24 2007 - 17:30:43 CDT)
- Setting modstyle volumeslice options via tk console (Wed Jul 18 2007 - 15:16:20 CDT)
- Rotate dx map (Thu Jun 21 2007 - 10:03:50 CDT)
- Re: PME plugin (Tue Jun 12 2007 - 11:22:26 CDT)
- PME plugin (Tue Jun 12 2007 - 11:18:47 CDT)
- Re: lipid Scd order parameter for a large bilayer (1440 lipids) with a changing bilayer normal (ie. bilayer undulations) (Wed Jun 06 2007 - 10:55:19 CDT)
- Re: list in TCL (Mon Jun 04 2007 - 20:07:33 CDT)
- Using regular expressions on tcl atomselection (Thu May 31 2007 - 17:45:32 CDT)
- Electron density profile (Thu May 31 2007 - 11:30:29 CDT)
- Re: lipid Scd order parameter for a large bilayer (1440 lipids) with a changing bilayer normal (ie. bilayer undulations) (Wed May 30 2007 - 20:36:09 CDT)
- Re: selecting complete residues within perticular distance. (Mon May 28 2007 - 14:04:32 CDT)
- Re: How to use remote GLSL rendering capabilities? (Sun May 27 2007 - 16:05:03 CDT)
- Re: selecting complete residues within perticular distance. (Sun May 27 2007 - 16:06:29 CDT)
- How to use remote GLSL rendering capabilities? (Thu May 24 2007 - 18:02:43 CDT)
- Adjusting perspective (Thu May 24 2007 - 11:33:40 CDT)
- How to visualize phi maps calculated with delphi V. 4 (Fri Apr 20 2007 - 18:36:48 CDT)
- Re: vmd can't start up after being installed in linux (Wed Apr 18 2007 - 13:23:21 CDT)
- Re: vmd can't start up after being installed in linux (Wed Apr 18 2007 - 10:54:40 CDT)
- Re: Strange characters using writemol2 (vmd 1.8.5) (Mon Apr 16 2007 - 20:06:58 CDT)
- Strange characters using writemol2 (vmd 1.8.5) (Mon Apr 16 2007 - 18:32:28 CDT)
- Re: Updating atomselection from frame to frame (Fri Mar 02 2007 - 08:59:48 CST)
- Re: Updating atomselection from frame to frame (Fri Mar 02 2007 - 07:32:01 CST)
- Re: superimposing two structures and getting the coordinates (Tue Feb 20 2007 - 14:52:36 CST)
- Re: superimposing two structures and getting the coordinates (Tue Feb 20 2007 - 12:43:52 CST)
- Measure atoms volume on VMD (Thu Feb 15 2007 - 15:27:53 CST)
- Re: Saving work in VMD--this seems ridiculously difficult! (Thu Feb 08 2007 - 20:53:30 CST)
- Re: Saving mutli-molecule structures in VMD (e.g., for building membranes) (Mon Feb 05 2007 - 09:11:38 CST)
- Re: Removing water in tcl (Thu Jan 04 2007 - 16:13:49 CST)
- Removing water in tcl (Thu Jan 04 2007 - 10:23:15 CST)
- Re: Writing pdb without chain identifier (Wed Dec 27 2006 - 12:54:25 CST)
- Re: Writing pdb without chain identifier (Tue Dec 26 2006 - 17:16:51 CST)
- Writing pdb without chain identifier (Tue Dec 26 2006 - 14:49:45 CST)
- Re: PME units (Tue Oct 03 2006 - 15:05:17 CDT)
- Re: namd-l: Re: Angles and dihedral generation (Tue Sep 05 2006 - 08:15:18 CDT)
- Re: namd-l: Re: Angles and dihedral generation (Mon Sep 04 2006 - 10:00:35 CDT)
- Angles and dihedral generation (Fri Sep 01 2006 - 20:02:36 CDT)
- Re: Where did I put those angles? (Thu Aug 31 2006 - 19:17:14 CDT)
- Where did I put those angles? (Thu Aug 31 2006 - 17:16:01 CDT)
Cesar Millan
- Re: tkcon behavior in OS X / selection Q (Tue Feb 08 2022 - 14:10:54 CST)
- Re: problems with ligands (Thu Apr 14 2016 - 06:02:29 CDT)
- Re: averaged structure (Tue Aug 12 2014 - 12:15:11 CDT)
- Re: VMD 1.9 beta 3 posted for download... (Tue Mar 08 2011 - 19:14:30 CST)
- Re: VMD 1.9 beta 3 posted for download... (Mon Mar 07 2011 - 17:43:46 CST)
- Re: VMD 1.9 beta 3 posted for download... (Mon Mar 07 2011 - 15:47:47 CST)
- Possible bug in vmd 1.8.7 alpha? (Sat Apr 18 2009 - 00:09:57 CDT)
- Potential map animation, help! (Tue Nov 20 2007 - 12:40:59 CST)
- Re: use animatepdbs.tcl to include APBS potential maps (Sun Jun 10 2007 - 22:09:27 CDT)
- use animatepdbs.tcl to include APBS potential maps (Sat Jun 09 2007 - 22:48:02 CDT)
- Re: save coordinates after moving them. (Wed Oct 04 2006 - 15:35:33 CDT)
- Re: save coordinates after moving them. (Tue Oct 03 2006 - 15:32:17 CDT)
- save coordinates after moving them. (Tue Oct 03 2006 - 14:02:41 CDT)
- How to build a pseudo pore? (Sat Sep 30 2006 - 11:36:15 CDT)
- proto-HEME parameters (Thu Apr 06 2006 - 17:05:56 CDT)
Cetin Baloglu
- Re: bad resolution and too slow on mandrake 10.0 (Wed May 25 2005 - 04:04:55 CDT)
- Hydration (Wed May 18 2005 - 03:44:34 CDT)
- radius of gyration (Tue May 10 2005 - 09:47:59 CDT)
cgji
- Vmd too slow on Suse10.x (Mon May 05 2008 - 08:20:47 CDT)
Ch. Fufezan
- Re: change default drawing and coloring method (Tue May 23 2006 - 09:26:52 CDT)
Chaitanya Krishna
- Message from Chaitanya Krishna (Fri Jan 27 2006 - 08:17:50 CST)
Chaitanya Krishna A
- Building a sphere of atoms around a chosen atom (Mon Jan 02 2006 - 08:01:49 CST)
- mpg image speed (Tue Apr 12 2005 - 09:06:44 CDT)
- Re: mpg image speed (Mon Apr 11 2005 - 14:19:11 CDT)
- Re: mpg image speed (Mon Apr 11 2005 - 12:02:09 CDT)
- mpg image speed (Sun Apr 10 2005 - 01:01:08 CDT)
- mpg image speed (Sun Apr 10 2005 - 00:04:34 CDT)
- mpg image speed (Thu Apr 07 2005 - 04:08:54 CDT)
Chan, Matthew
- VMD1.9.4a57 crashes when main console moved to second display (Thu Sep 29 2022 - 16:37:35 CDT)
Chanda.Jnanojjal_at_edam.uhp-nancy.fr
- replication of bilayer (Wed Dec 26 2007 - 04:08:00 CST)
Chandra Ramananjara
- Re: NAMDENERGY crashing repeatedly (Tue Aug 05 2008 - 18:49:40 CDT)
- NAMDENERGY crashing repeatedly (Tue Aug 05 2008 - 09:27:12 CDT)
- Inconsistencies in NAMD simulations (Tue Jan 22 2008 - 02:49:53 CST)
- namdenergy plugin (Sun Jul 09 2006 - 23:47:10 CDT)
- Re: error using Namdenergy (Wed Jun 21 2006 - 19:55:01 CDT)
- Re: error using Namdenergy (Wed Jun 21 2006 - 21:17:13 CDT)
- error using Namdenergy (Wed Jun 21 2006 - 15:04:19 CDT)
- NAMD support for MNDO semi-empirical model (Mon May 15 2006 - 10:34:07 CDT)
- Tcl scripting within NAMD configuration file (Fri Mar 24 2006 - 09:26:18 CST)
- TCL scripting within NAMD Configuration File (Thu Mar 23 2006 - 09:12:56 CST)
- Re: Problem with VMD 'animate' command (Mon Feb 13 2006 - 01:37:31 CST)
- Problem with VMD 'animate' command (Sun Feb 12 2006 - 10:12:36 CST)
chandrakala gowda
- importing topology file from PRODRG (Fri Feb 21 2014 - 10:48:00 CST)
- Re: measure dihedral angle for all the loaded pdb files (Fri Feb 07 2014 - 14:48:28 CST)
- measure dihedral angle for all the loaded pdb files (Fri Feb 07 2014 - 10:08:55 CST)
- Re: why tutorial cannot be played? (Fri Dec 27 2013 - 16:16:40 CST)
- Re: Re: REï¼š hydrogen bond cutoff value (Tue Dec 03 2013 - 07:40:29 CST)
- Re: loading pdb files from multiple directories (Fri Nov 29 2013 - 06:14:51 CST)
- loading pdb files from multiple directories (Fri Nov 29 2013 - 04:43:37 CST)
chandran karunakaran
- Add H-atoms to Pdb file for NMR (Tue Apr 20 2004 - 11:22:32 CDT)
- Metal-Metal distance (Tue Apr 08 2003 - 17:26:13 CDT)
- Solvate 1.1.1 (Tue Mar 25 2003 - 13:05:23 CST)
- Distance, angle (Sat Mar 22 2003 - 15:09:10 CST)
- (no subject) (Thu Mar 20 2003 - 13:56:44 CST)
- (no subject) (Thu Mar 20 2003 - 13:55:13 CST)
Chang Hu
- NAMD from command line args (Sat May 06 2006 - 21:09:53 CDT)
- Re: Re: Refreshing the screen (Thu May 04 2006 - 14:12:16 CDT)
- Re: Re: Refreshing the screen (Thu May 04 2006 - 13:24:47 CDT)
- Refreshing the screen (Thu May 04 2006 - 11:58:12 CDT)
- Re: Building VMD in Windows (Sun Apr 30 2006 - 22:42:34 CDT)
- Re: Building VMD in Windows (Sun Apr 30 2006 - 01:07:52 CDT)
- Re: Problems with mouse programming in VMD (Sun Apr 30 2006 - 01:03:07 CDT)
- Building VMD in Windows (Sat Apr 29 2006 - 22:12:23 CDT)
- Re: Problems with mouse programming in VMD (Sat Apr 29 2006 - 21:05:37 CDT)
- Re: Problems with mouse programming in VMD (Thu Apr 27 2006 - 12:36:23 CDT)
- Problems with mouse programming in VMD (Wed Apr 26 2006 - 23:19:57 CDT)
Chang, Christopher
- Re: cannot visualize GROMACS trajectories in VMD 1.9.4 on MacOS Big Sur (Tue Mar 16 2021 - 10:54:00 CDT)
- Re: Plotting orbitals from Molden file (Fri Feb 19 2021 - 13:35:02 CST)
- Plotting orbitals from Molden file (Tue Feb 16 2021 - 16:53:56 CST)
- Re: Startup problem on Windows (Tue Nov 17 2020 - 10:18:07 CST)
- Re: Configuring Tkcon in VMD for Catalina to access history with up arrow (Fri Jul 24 2020 - 14:31:02 CDT)
- Configuring Tkcon in VMD for Catalina to access history with up arrow (Thu Jul 23 2020 - 17:16:32 CDT)
- VMD 1.9.3 Linux installation (Fri Dec 13 2019 - 18:27:05 CST)
- Re: namd-l: solvate a molecule (Tue Sep 23 2008 - 11:57:58 CDT)
- Re: solvate a molecule (Tue Sep 23 2008 - 11:47:37 CDT)
- Measure hbonds equivalent in Python interface? (Wed Sep 10 2008 - 18:52:43 CDT)
- Re: Py_atomsel.C: invalid conversion (Tue Sep 02 2008 - 13:59:12 CDT)
- Py_atomsel.C: invalid conversion (Fri Aug 29 2008 - 13:01:04 CDT)
- RE: VMD 1.8.5 startup (Thu Nov 09 2006 - 14:20:16 CST)
- VMD 1.8.5 startup (Wed Nov 08 2006 - 14:56:37 CST)
- RE: Atomselection for negative values (Wed Jul 19 2006 - 17:46:15 CDT)
- Atomselection for negative values (Wed Jul 19 2006 - 16:18:39 CDT)
- RE: Appending to DCD file with "animate write" (Wed Nov 16 2005 - 17:05:41 CST)
- RE: Appending to DCD file with "animate write" (Wed Nov 16 2005 - 13:42:36 CST)
- Appending to DCD file with "animate write" (Wed Nov 16 2005 - 13:11:30 CST)
- RE: problem with writepdb (Mon Oct 24 2005 - 11:15:22 CDT)
- RE: Loading multiple molecules in one step / "Apply changes automatically" (Fri Oct 21 2005 - 11:15:40 CDT)
- RE: Warning: add bond failed in patch ACE (Thu Oct 20 2005 - 11:41:43 CDT)
- RE: dots per inch? (Wed Oct 19 2005 - 15:26:46 CDT)
- RE: puzzling writepdb error (Wed Oct 12 2005 - 17:58:33 CDT)
- RE: VMD removing slightly misplaced atoms (Tue Oct 04 2005 - 20:05:48 CDT)
- RE: visualizing an atomselect (Wed Sep 28 2005 - 18:38:29 CDT)
- RE: tcl command to save structure to file? (Wed Sep 28 2005 - 18:30:16 CDT)
- COR format and first residue (Tue Sep 27 2005 - 18:31:32 CDT)
- RE: Left Right eye stereo flip in Crystal Eyes (Wed Sep 14 2005 - 15:18:37 CDT)
- RE: DCD file format (Wed Sep 14 2005 - 14:27:47 CDT)
- RE: problem rendering traj file with tachyon (Tue Sep 13 2005 - 16:19:22 CDT)
- RE: dcd tools (Tue Sep 13 2005 - 10:20:35 CDT)
- RE: Read support for CHARMM binary coordinate file? (Thu Aug 25 2005 - 17:59:55 CDT)
- Read support for CHARMM binary coordinate file? (Tue Aug 23 2005 - 17:28:31 CDT)
- RE: help with BIOMT (Fri Aug 12 2005 - 14:57:51 CDT)
- RE: vmd with no x (Thu Aug 11 2005 - 18:00:33 CDT)
- RE: Atom renumbering in DCD file (Tue Aug 09 2005 - 14:15:03 CDT)
- Atom renumbering in DCD file (Mon Aug 08 2005 - 18:48:33 CDT)
- Changing atom order in DCD structures? (Mon Jul 25 2005 - 15:42:45 CDT)
- RE: Representing disulfide bonds when using psfgen (Thu Jul 21 2005 - 12:39:06 CDT)
- RE: (Mon Jul 18 2005 - 16:32:09 CDT)
- TCL for adding bonds? (Thu Jul 07 2005 - 11:30:21 CDT)
- RE: psfgen and DNA (Thu Jul 07 2005 - 10:54:42 CDT)
- Strange VMD output (Fri Jun 17 2005 - 15:02:57 CDT)
- RE: Combine Drawing Methods - Cartoon and Disulfide Bonds (Tue Jun 14 2005 - 18:43:48 CDT)
- RE: Problems with Psf using Charmm format, solvate and autoionize (Wed Jun 08 2005 - 15:12:41 CDT)
- RE: creating scripts (Fri Jun 03 2005 - 17:50:51 CDT)
- Total charge query? (Fri May 13 2005 - 13:32:20 CDT)
- RE: representation_problem (Wed Apr 20 2005 - 16:34:14 CDT)
- RE: mpg image speed (Mon Apr 11 2005 - 11:20:24 CDT)
- RE: How to remove "Lable" (Thu Apr 07 2005 - 17:39:55 CDT)
- RE: Display only side chains (Mon Mar 07 2005 - 17:40:24 CST)
- RE: vmdmovie plugin (Fri Feb 18 2005 - 15:21:59 CST)
- RE: window size (Thu Feb 10 2005 - 17:07:31 CST)
- RE: installation of VIDEOMACH, how to point to the location of the files (Fri Feb 04 2005 - 13:49:17 CST)
- Selected angles during build? (Thu Feb 03 2005 - 15:38:04 CST)
- Possible values for "select_method"? (Mon Jan 10 2005 - 16:48:27 CST)
Changbong Hyeon
- Text-line command for Graphics? (Fri Apr 25 2003 - 16:00:40 CDT)
- DCD file format? (Fri Apr 25 2003 - 15:50:23 CDT)
chanyann06_at_stu.scu.edu.cn
- Question about Network Analysis tutorial (Fri Jul 29 2022 - 07:12:07 CDT)
Chapman, John O.
- AWS for VMD and NAMD no longer working? (Wed Nov 10 2021 - 16:25:23 CST)
charbott_at_gmail.com
- Re: RE: trouble with measure hbonds (Tue Oct 05 2010 - 10:35:14 CDT)
Chari, Ravi
- APBS dx colors depend on order of molec files loaded??? (Thu Oct 18 2007 - 14:52:48 CDT)
Charles Cleveland
- Re: Problem with periodic condition (Sat Apr 28 2007 - 16:02:55 CDT)
- 1.8.6 install for Windows OpenGL (Microsoft Windows 2000/XP/Vista (32-bit) using OpenGL) (Sun Apr 08 2007 - 08:05:00 CDT)
Charles Danko
- Re: namd-l: How to make a disulphide bond (Tue May 16 2006 - 13:47:37 CDT)
Charles Greenberg
- Re: secondary structure inconsistency (Thu Apr 03 2014 - 12:48:16 CDT)
- secondary structure inconsistency (Wed Apr 02 2014 - 12:39:33 CDT)
- SSRestraints missing some beta sheets (Fri Feb 15 2013 - 18:57:14 CST)
Charles Hoying
- Error using psfgen "unknown residue type SOD" (Wed Nov 01 2017 - 04:59:23 CDT)
Charles McAnany
- Chains x, y, and z cannot be selected (Wed Aug 31 2022 - 14:27:29 CDT)
- Three dcdplugin.c questions, and the DCD binary format. (Thu Jun 01 2017 - 12:39:48 CDT)
- Re: Feature request: Change printf( to fprintf(stderr, in molfile plugins (Fri Jan 29 2016 - 11:13:40 CST)
- Feature request: Change printf( to fprintf(stderr, in molfile plugins (Thu Jan 28 2016 - 12:23:46 CST)
- Re: VMD camera feature request: zoom and tilt (Wed Jul 29 2015 - 12:04:59 CDT)
- VMD camera feature request: zoom and tilt (Mon Jul 27 2015 - 11:59:29 CDT)
- Optimizing an inter-residue distance measurement (Wed Apr 01 2015 - 14:42:37 CDT)
- Exposed area of a particular residue from dehydrated trajectory (Sun Jan 25 2015 - 23:31:38 CST)
- Do I need a "professional" graphics card? (Sun Feb 09 2014 - 13:29:41 CST)
- Migrating a tcl plugin to C (Sat Nov 16 2013 - 16:14:21 CST)
CHARLES MCCALLUM
- Re: molefacture isn't writing PDB coords (Tue Mar 04 2025 - 14:42:11 CST)
- Re: molefacture isn't writing PDB coords (Tue Mar 04 2025 - 13:21:26 CST)
- Re: molefacture isn't writing PDB coords (Tue Mar 04 2025 - 11:23:32 CST)
- Re: molefacture isn't writing PDB coords (Tue Mar 04 2025 - 09:42:20 CST)
- molefacture isn't writing PDB coords (Mon Mar 03 2025 - 20:34:12 CST)
- Re: mol addfile (Tue Apr 23 2024 - 14:04:23 CDT)
- mol addfile (Thu Apr 18 2024 - 13:18:51 CDT)
- Re: Commands runs manually but not as a script (Fri Nov 24 2023 - 19:23:05 CST)
- Re: Timeline/H-Bond broken OS X (Fri May 06 2022 - 12:16:06 CDT)
- Re: Timeline/H-Bond broken OS X (Fri May 06 2022 - 11:25:52 CDT)
- Timeline/H-Bond broken OS X (Tue Mar 29 2022 - 19:03:08 CDT)
- Re: Water molecule ID in Hydrogen bond plugin (Tue Mar 01 2022 - 14:58:06 CST)
- Re: Water molecule ID in Hydrogen bond plugin (Tue Mar 01 2022 - 15:01:32 CST)
- Re: hmassrepart (Thu Feb 10 2022 - 18:21:40 CST)
- Re: hmassrepart (Thu Feb 10 2022 - 17:03:56 CST)
- Re: drawing of direction vectors for conformational transition (Thu Sep 14 2006 - 10:42:06 CDT)
- Re: psfgen problems? (Tue Aug 22 2006 - 12:41:51 CDT)
- Re: reading cmap wih vmd (Fri Aug 18 2006 - 10:23:57 CDT)
- Re: water box... (Sat Jun 24 2006 - 18:24:16 CDT)
- Re: removing waters (gramicidin example) (Thu Oct 27 2005 - 15:26:01 CDT)
- Re: removing waters (gramicidin example) (Thu Oct 27 2005 - 15:46:22 CDT)
- removing waters (gramicidin example) (Thu Oct 27 2005 - 12:57:46 CDT)
- Re: trouble with autopsf (Tue Oct 25 2005 - 08:19:38 CDT)
- Re: RMSD of dihedrals (Fri Sep 30 2005 - 09:14:55 CDT)
- RMSD of dihedrals (Thu Sep 29 2005 - 15:58:07 CDT)
- Re: Ramachandran plot (Tue May 10 2005 - 22:56:14 CDT)
- Re: VMD does not start on Mac OS 10.3.8 (Fri Mar 18 2005 - 17:07:22 CST)
- Re: (Wed Nov 17 2004 - 22:21:11 CST)
- Re: psfgen and xplor topology (Tue Oct 26 2004 - 11:36:37 CDT)
- Re: psfgen and xplor topology (Tue Oct 26 2004 - 09:50:08 CDT)
- Re: psfgen and xplor topology (Mon Oct 25 2004 - 22:33:48 CDT)
- Re: VMD 1.8.1 MacOSX running very slow on new G4 1 GHz Powerbook (Thu Oct 23 2003 - 13:12:39 CDT)
- mousing problem under OS X (Fri Oct 17 2003 - 23:25:46 CDT)
- re-centering view/rotation axes (Mon Aug 11 2003 - 17:03:37 CDT)
- configuring vmd w/ browser on OS X (Fri Aug 08 2003 - 21:49:16 CDT)
- Re: movie making (Tue Aug 05 2003 - 16:05:53 CDT)
- Re: solute + solvent temperature? (Fri May 16 2003 - 01:04:12 CDT)
- vmdmovie on OS X current (Fri May 09 2003 - 02:22:23 CDT)
Charles Moad
- applying 6dof input forces (Tue Jul 05 2005 - 16:13:02 CDT)
- creating psf with trimethoprim (Wed May 11 2005 - 21:38:14 CDT)
- IMDEnergies from python (Mon May 09 2005 - 22:51:43 CDT)
- Re: Converting graphics to a pdb's coord system (Thu Apr 14 2005 - 20:08:24 CDT)
- Re: Converting graphics to a pdb's coord system (Wed Apr 13 2005 - 18:40:54 CDT)
- Converting graphics to a pdb's coord system (Tue Apr 12 2005 - 08:52:12 CDT)
- Re: mpg image speed (Mon Apr 11 2005 - 14:23:08 CDT)
- Converting graphics to a pdb's coord system (Sun Apr 10 2005 - 19:13:31 CDT)
Charles Schwieters
- Re: No Display when running vmd 1.3 (Thu May 27 1999 - 16:03:58 CDT)
- translations with fixed and unfixed molecules (Mon Apr 12 1999 - 16:27:28 CDT)
- moving molecules and getting the new positions (Tue Mar 30 1999 - 15:57:19 CST)
charles sun
- multiseq doesn't respond to ctrl key correctly (Thu Feb 09 2012 - 22:58:45 CST)
Charles Whidborne
- Running ABF to separate DNA strands (Mon Aug 04 2014 - 19:36:33 CDT)
- Running ABF to seperate DNA strands (Mon Aug 04 2014 - 19:40:28 CDT)
Charles Zhao
- Solvate plug-in (Tue Aug 10 2010 - 21:53:22 CDT)
Charles.Schwieters_at_nih.gov
- Re: Molecule rotation (Thu Mar 08 2001 - 12:54:04 CST)
Charles_at_Schwieters.org
- Re: vmd-xplor installation (Thu Dec 14 2006 - 18:56:28 CST)
- Re: understanding NOE restraints (Tue May 03 2005 - 05:52:56 CDT)
- Re: Calling Python hackers.... (Tue Feb 08 2005 - 11:11:21 CST)
- Re: core when using some features of vmd-xplor (Thu May 06 2004 - 16:03:01 CDT)
- Re: few colors in new ribbons representation - raytrace output (Thu Jan 29 2004 - 21:31:23 CST)
- few colors in new ribbons representation - raytrace output (Thu Jan 29 2004 - 17:40:15 CST)
- stereo postscript rendering (Tue Jun 20 2000 - 08:04:27 CDT)
- script for generating stereo postscript images (Fri Feb 11 2000 - 14:53:32 CST)
Charlesworth, Henry
- Re: removing bonds across periodic boundary in a video (Fri Aug 21 2015 - 07:49:27 CDT)
- removing bonds across periodic boundary in a video (Thu Aug 20 2015 - 12:44:22 CDT)
Charlie Mcdowell
- problems with OSX 64-bit installation (Mon Aug 15 2022 - 23:05:09 CDT)
Charlotte J Siska
- trouble saving the state of two proteins (Fri Jun 29 2007 - 12:45:27 CDT)
Charlotte Siska
- trouble with measure hbonds (Mon Oct 04 2010 - 15:01:36 CDT)
Charu Sharma (JRF)
- Re: Fwd: (Wed Jul 24 2019 - 08:59:05 CDT)
- Re: Fwd: (Wed Jul 24 2019 - 03:57:31 CDT)
- Fwd: (Wed Jul 24 2019 - 03:03:06 CDT)
Chathurika Abeyrathne
- Re: Re: namd-l: MMTools (Wed Aug 17 2011 - 21:07:21 CDT)
- Re: Re: namd-l: MMTools (Wed Aug 17 2011 - 19:02:46 CDT)
- MMTools (Tue Aug 16 2011 - 20:03:45 CDT)
- Re: Total Dipole Moment (Tue Jun 28 2011 - 20:17:04 CDT)
- Re: Total Dipole Moment (Tue Jun 28 2011 - 20:08:17 CDT)
- Re: Total Dipole Moment (Tue Jun 28 2011 - 19:56:41 CDT)
- Total Dipole Moment (Tue Jun 28 2011 - 04:48:54 CDT)
- Water Models (Sat Apr 02 2011 - 02:43:29 CDT)
CHAUMONT Alain
- Changing the rotation and centering matrix of a molecule (Wed Oct 13 2004 - 10:39:48 CDT)
- Centering of the view on one atom (Wed Mar 31 2004 - 09:42:09 CST)
- Spatial Distributionb Functions (Thu Feb 05 2004 - 03:01:46 CST)
Chaya Stern
- fftk bonded parameter optimization (Wed Apr 01 2015 - 15:57:28 CDT)
- Re: fftk bonded and dihedral optimization question (Fri Mar 20 2015 - 11:11:59 CDT)
- fftk bonded and dihedral optimization question (Fri Mar 20 2015 - 09:13:01 CDT)
- Re: psfgen N-terminal patches (Mon Nov 03 2014 - 11:17:08 CST)
- psfgen N-terminal patches (Fri Oct 31 2014 - 14:08:07 CDT)
- Re: psfgen not parsing toppar_all36_lipid_detergent.str (Mon Oct 06 2014 - 16:51:46 CDT)
- Re: psfgen not parsing toppar_all36_lipid_detergent.str (Mon Oct 06 2014 - 16:25:30 CDT)
- psfgen not parsing toppar_all36_lipid_detergent.str (Mon Oct 06 2014 - 15:01:48 CDT)
Chen Chen
- Re: use configure.options (Mon Nov 17 2008 - 21:37:24 CST)
- Re: use configure.options (Mon Nov 17 2008 - 20:53:14 CST)
- use configure.options (Mon Nov 17 2008 - 19:34:24 CST)
Chen Fei
- Compute force between two atoms (Tue Feb 26 2008 - 20:28:22 CST)
Chen Yongzhi
- How to save trajectory using Tcl commands? (Wed Apr 14 2004 - 19:28:11 CDT)
CHEN, Chi
- How to show section contour of volumetric data (Mon Sep 30 2013 - 20:57:24 CDT)
Chen, Bo (NIH/NIDDK) [F]
- Can anyone help me get the coordinate of the cylinders in the cartoon representation? (Fri Feb 26 2010 - 11:11:42 CST)
CHEN, Chi
- ´ð¸´: ´ð¸´: How to show section contour of volumetric data (Tue Oct 01 2013 - 03:08:42 CDT)
Chen, Zhihong (chenz2)
- problem about dowser (Fri Sep 03 2010 - 16:38:05 CDT)
Chenbo Yan
- Re: Error in FFTK charges optimization (Run Optimization) (Sat Aug 20 2022 - 07:43:52 CDT)
- Error in FFTK charges optimization (Run Optimization) (Thu Aug 18 2022 - 21:31:59 CDT)
Chenchen Wang
- Re: topotools (Wed Apr 28 2010 - 15:15:38 CDT)
- topotools (Wed Apr 28 2010 - 00:19:21 CDT)
ChenFei
- ´ð¸´: classify and compute the forces between two atoms (Tue Feb 26 2008 - 01:10:29 CST)
- classify and compute the forces between two atoms (Mon Feb 25 2008 - 06:38:58 CST)
- How can I get .xyzr file or .xyzrn file? (Wed Sep 26 2007 - 02:27:51 CDT)
Cheng Luo, Ph.D.
- question about "then: then/endif not found" in the start VMD. (Fri Dec 16 2005 - 11:52:18 CST)
Cheng, Kelvin
- Error in running VMD on AMD64-bit machine (Fedora Core 4) (Mon Dec 19 2005 - 16:36:55 CST)
chenmengen
- NOC 3.0 is released (Wed May 16 2007 - 14:01:37 CDT)
- NOC (current version 1.5.2.10) a new, free program for protein structure model-building, visualization, validation and analysis (Tue Mar 29 2005 - 19:07:52 CST)
Cheol Soon Lee
- Segmentation error! (Wed Apr 09 1997 - 05:47:56 CDT)
- Segmentation error! (Wed Apr 09 1997 - 05:46:34 CDT)
cheol_at_rccd.snu.ac.kr
- Error in Linux (Wed Apr 09 1997 - 05:51:13 CDT)
Cheri M Turman
- Re: error while loading shared libraries: libGLU.so.1 (Tue Oct 26 2004 - 15:12:07 CDT)
- Re: error while loading shared libraries: libGLU.so.1 (Tue Oct 26 2004 - 13:37:56 CDT)
- Re: error while loading shared libraries: libGLU.so.1 (Tue Oct 26 2004 - 12:21:29 CDT)
- Re: error while loading shared libraries: libGLU.so.1 (Thu Oct 21 2004 - 14:27:46 CDT)
- error while loading shared libraries: libGLU.so.1 (Thu Oct 21 2004 - 13:24:12 CDT)
- Re: startup failure (Mon Apr 05 2004 - 12:47:54 CDT)
- startup failure (Fri Apr 02 2004 - 15:29:00 CST)
- startup errors and variations of installation (Thu Apr 01 2004 - 14:43:58 CST)
- startup failure (Thu Apr 01 2004 - 14:24:14 CST)
Chetan Mahajan
- Re: origin in VMD (Thu Jul 10 2014 - 13:33:08 CDT)
- Re: origin in VMD (Thu Jul 10 2014 - 12:18:34 CDT)
- origin in VMD (Wed Jul 09 2014 - 20:48:53 CDT)
- coordinates: visual and in-file (Tue Feb 18 2014 - 19:18:14 CST)
- loading .xtc file (Thu Feb 06 2014 - 20:18:25 CST)
- RE: Re: [lammps-users] LAMMPS to VMD: lmp2vmd tool (Wed Jun 10 2009 - 10:00:30 CDT)
- RE: Re: [lammps-users] LAMMPS to VMD: lmp2vmd tool (Tue Jun 09 2009 - 13:08:16 CDT)
Chetna Tyagi
- How to visualize unusual amino acid in VMD with Cartoon or ribbon representation (Wed Jul 01 2020 - 09:29:46 CDT)
- Protein is not read in VMD Normal Mode Wizard plugin (Mon Nov 18 2019 - 07:53:02 CST)
Chia-Ju Hsieh
- Re: Error of NAMD simulation when the structure including azide (Fri Sep 16 2016 - 15:03:43 CDT)
- Error of NAMD simulation when the structure including azide (Thu Sep 15 2016 - 10:15:34 CDT)
Chiara Cardelli
- Re: alchemical transformations (Tue Apr 22 2014 - 04:19:29 CDT)
- Re: alchemical transformations (Mon Apr 21 2014 - 04:21:58 CDT)
- alchemical transformations (Sun Apr 20 2014 - 13:19:41 CDT)
chiessi_at_uniroma2.it
- Re: Discrepancy in value of dihedral angles of a sugar molecule by VMD tools (Fri Jul 23 2021 - 04:42:54 CDT)
- Re: Discrepancy in value of dihedral angles of a sugar molecule by VMD tools (Thu Jul 22 2021 - 08:38:25 CDT)
- Discrepancy in value of dihedral angles of a sugar molecule by VMD tools (Thu Jul 22 2021 - 05:55:17 CDT)
chiloo777 777
- problem about running (Sat Apr 17 2010 - 01:54:41 CDT)
chin chun
- protein from protein sequence in VMD (Thu Mar 31 2016 - 08:40:44 CDT)
- movie making in vmd (Mon Aug 26 2013 - 13:29:20 CDT)
- density of system (Sun Jul 21 2013 - 14:46:30 CDT)
Chintapalli, Sree vamsee
- Compilation error: stride_LINUXAMD64', surf_LINUXAMD64, tachyon_LINUXAMD64 : No such file or directory (Thu Apr 22 2021 - 14:45:29 CDT)
- Error while compiling vmd: "libmolfile_plugin.h" (Thu Apr 15 2021 - 12:08:04 CDT)
Chirag Vora
- how to center protein? (Tue Apr 24 2012 - 00:04:09 CDT)
- Radial distribution function in VMD (Tue Nov 22 2011 - 12:01:52 CST)
- How to read pdbqt file? (Sat Sep 03 2011 - 14:57:01 CDT)
- Re: DNA hairpin (Sun Aug 21 2011 - 11:49:44 CDT)
CHIRANJEEV BURMA
- Questions about using VMD to modify/alter nucleic acid structures (Sun Sep 13 2020 - 12:01:20 CDT)
Chitrak Gupta
- Re: (Wed Oct 02 2019 - 09:24:07 CDT)
- Re: namd-l: Is there someway to render protein picture without background color? (Sat Sep 14 2019 - 20:52:08 CDT)
- Re: What does pbc get -now do (Sun Oct 07 2018 - 12:40:21 CDT)
- Re: vmd tcl script writing issue (Wed Apr 18 2018 - 10:14:18 CDT)
- Re: How to calculate head group and acyl chain contact (separately) within 5 Anstrom of a particular protein residue? (Wed Jan 10 2018 - 10:15:00 CST)
- Re: Computing atom distances (Fri Nov 03 2017 - 18:16:55 CDT)
- Re: Computing atom distances (Tue Oct 31 2017 - 17:27:38 CDT)
- Re: write a new dcd file for a sub selection of atoms (Tue Oct 24 2017 - 07:25:33 CDT)
- Re: convert frames to nano seconds (Thu Aug 17 2017 - 17:13:45 CDT)
- Re: convert frames to nano seconds (Thu Aug 17 2017 - 09:15:11 CDT)
- Re: convert frames to nano seconds (Thu Aug 17 2017 - 09:32:19 CDT)
- Re: autoionize not neutralizing the system (Sun Aug 06 2017 - 11:50:54 CDT)
- Re: (Wed Apr 05 2017 - 10:43:55 CDT)
- PSFGEN error "failed to parse autogenerate statement" (Wed Mar 08 2017 - 13:45:28 CST)
- Re: Interacting H-bond between two dimer (Sat Feb 04 2017 - 19:30:12 CST)
- Re: Interacting H-bond between two dimer (Fri Feb 03 2017 - 10:45:02 CST)
- Re: Fwd: vmd1.9.23 rlwrap: No match (Sat Dec 17 2016 - 13:14:38 CST)
- Re: Size of POPC membrane (Fri Oct 07 2016 - 05:52:26 CDT)
- setting secondary structure (Fri Sep 09 2016 - 17:31:27 CDT)
- Re: getting list of correct indices? (Thu Aug 18 2016 - 16:07:18 CDT)
- Re: Water segid split (Thu Aug 04 2016 - 18:15:02 CDT)
- Re: Water segid split (Thu Aug 04 2016 - 18:20:19 CDT)
- Re: K-means clustering algorithm for multiple frames in C (Fri Jul 01 2016 - 13:40:54 CDT)
- Re: secondary structure script (Tue Jun 28 2016 - 20:38:47 CDT)
- psfgen error with "auto angles dihe patch" (Mon Jun 06 2016 - 10:47:01 CDT)
- Re: defining/updating atom selection within loop (Fri May 27 2016 - 14:03:47 CDT)
- Re: Wrapping problem (Fri May 27 2016 - 12:47:36 CDT)
- Re: defining/updating atom selection within loop (Thu May 26 2016 - 15:31:33 CDT)
- Re: defining/updating atom selection within loop (Thu May 26 2016 - 13:11:05 CDT)
- Re: defining/updating atom selection within loop (Wed May 25 2016 - 22:05:21 CDT)
- defining/updating atom selection within loop (Wed May 25 2016 - 13:07:49 CDT)
- Re: TCL script to track molecules moving within a specified region each time frame (Mon May 16 2016 - 13:53:54 CDT)
- Re: TCL script to track molecules moving within a specified region each time frame (Mon May 16 2016 - 11:30:33 CDT)
- Re: intermolecular salt bridge (Fri May 13 2016 - 09:53:36 CDT)
- intermolecular salt bridge (Thu May 05 2016 - 16:25:20 CDT)
- Re: Unable to visualize my polymer chains generated using RIS theory using VMD properly (Tue Mar 29 2016 - 08:11:27 CDT)
- Re: Unable to visualize my polymer chains generated using RIS theory using VMD properly (Sun Mar 20 2016 - 17:27:42 CDT)
- Re: catdcd error (Fri Mar 04 2016 - 17:21:47 CST)
- Re: wrapping multi chain proteins (Mon Feb 22 2016 - 14:52:32 CST)
- Re: FFTK dihedral scan (Sat Nov 21 2015 - 10:41:55 CST)
- Re: FFTK dihedral scan (Fri Nov 20 2015 - 20:48:25 CST)
- Re: FFTK dihedral scan (Wed Nov 18 2015 - 14:31:22 CST)
- FFTK dihedral scan (Wed Nov 18 2015 - 08:07:57 CST)
- Re: Ideal charge optimization strategy for atoms with existing ff parameters (Wed Oct 21 2015 - 10:45:08 CDT)
- Re: Plot waters vs time in a trajectory (Mon Oct 19 2015 - 16:36:15 CDT)
- Re: Ideal charge optimization strategy for atoms with existing ff parameters (Mon Oct 19 2015 - 10:59:52 CDT)
- Re: Regarding generating psf file (Thu Oct 15 2015 - 09:32:29 CDT)
- Re: Regarding generating psf file (Thu Oct 15 2015 - 08:14:38 CDT)
- Re: namd-l: Atomselect within radial pair distribution function g(r) (Wed Sep 30 2015 - 08:09:16 CDT)
- Re: multiple parameterized ligands (Mon Sep 28 2015 - 20:56:21 CDT)
- Re: FFTK Bond optimization (Fri Sep 25 2015 - 15:43:45 CDT)
- Re: FFTK Bond optimization (Fri Sep 25 2015 - 15:44:39 CDT)
- Re: FFTK Bond optimization (Tue Sep 22 2015 - 18:18:00 CDT)
- Re: FFTK Bond optimization (Tue Sep 22 2015 - 18:06:30 CDT)
- Re: -restrict option in measure sasa (Fri Sep 18 2015 - 11:51:03 CDT)
- -restrict option in measure sasa (Wed Sep 16 2015 - 12:42:26 CDT)
- Re: fftk Bond guassian input for hessian calculation (Tue Sep 15 2015 - 10:47:52 CDT)
- FFTK Bond optimization (Fri Sep 11 2015 - 08:26:42 CDT)
- Re: FFTK water interaction (Thu Sep 10 2015 - 12:39:01 CDT)
- Re: FFTK water interaction (Wed Sep 09 2015 - 08:17:50 CDT)
- Re: FFTK water interaction (Tue Sep 08 2015 - 14:57:55 CDT)
- FFTK water interaction (Tue Sep 08 2015 - 10:54:19 CDT)
- Re: FFTK initial par file is empty (Thu Sep 03 2015 - 19:56:00 CDT)
- Re: FFTK initial par file is empty (Wed Sep 02 2015 - 14:59:12 CDT)
- FFTK initial par file is empty (Wed Sep 02 2015 - 11:05:47 CDT)
ChoiHeeSung
- vmd bug in ubuntu 9.10 (Wed Nov 11 2009 - 10:53:04 CST)
Chola Regmi
- Re: Writing dcd/pdb file of selection from NAMD velocity dcd file (Wed Mar 19 2014 - 19:36:55 CDT)
- Writing dcd/pdb file of selection from NAMD velocity dcd file (Wed Mar 19 2014 - 16:29:06 CDT)
- Re: Regarding fit_angle.tcl script (Sat Jan 12 2013 - 10:23:01 CST)
- Re: Regarding fit_angle.tcl script (Fri Jan 11 2013 - 22:19:58 CST)
- Regarding fit_angle.tcl script (Thu Jan 10 2013 - 10:45:59 CST)
Chowdhury, Sanjib Chandra
- VDW-radius-and-Interstitial-Space (Tue Nov 10 2015 - 19:10:18 CST)
Chris Berthiaume
- Re: segfault using VMD 1.8.6 32-bit Linux and chromium 1.9 (Tue Aug 26 2008 - 12:23:11 CDT)
- segfault using VMD 1.8.6 32-bit Linux and chromium 1.9 (Mon Aug 25 2008 - 20:50:12 CDT)
Chris Broomell
- Re: Windows version, system out of memory (Tue May 19 2020 - 16:39:41 CDT)
- Re: Memory Pool Size - can I optimize this? (Tue Mar 31 2020 - 15:27:29 CDT)
- Re: Memory Pool Size - can I optimize this? (Tue Mar 31 2020 - 15:21:49 CDT)
- Re: Memory Pool Size - can I optimize this? (Mon Mar 30 2020 - 15:58:00 CDT)
- Memory Pool Size - can I optimize this? (Mon Mar 30 2020 - 10:55:08 CDT)
Chris Harrison
- Re: Question about generating a .js file (Thu Sep 20 2012 - 18:25:22 CDT)
- Re: MDFF and implicit solvent (Wed Sep 12 2012 - 12:03:45 CDT)
- Re: tutorial (Tue Sep 11 2012 - 04:41:16 CDT)
- Re: NAMD 2.8 and PLUMED 1.3 (Thu Aug 30 2012 - 08:21:55 CDT)
- Re: namd-l: Question regarding FEP parameters (Wed Aug 29 2012 - 15:32:52 CDT)
- Re: Regarding the latest VMD 1.9.2.alpha builds from BioCoRE (Thu Aug 23 2012 - 22:47:10 CDT)
- Re: Regarding the latest VMD 1.9.2.alpha builds from BioCoRE (Thu Aug 23 2012 - 22:34:20 CDT)
- Re: Regarding the latest VMD 1.9.2.alpha builds from BioCoRE (Thu Aug 23 2012 - 22:00:46 CDT)
- Re: Problem with generating psf using CGENFF (Thu Apr 26 2012 - 11:55:08 CDT)
- Re: Problem with generating psf using CGENFF (Thu Apr 26 2012 - 06:23:08 CDT)
- Re: openGL x,y position (Sun Apr 22 2012 - 23:00:26 CDT)
- Re: how to place a membrane protein with OPM ? (Thu Mar 01 2012 - 00:13:58 CST)
- Re: how to place a membrane protein with OPM ? (Wed Feb 29 2012 - 21:35:28 CST)
- Re: how to place a membrane protein with OPM ? (Wed Feb 29 2012 - 21:36:32 CST)
- Re: PSFGEN and Reading Bonds from PDB Files (Sun Feb 05 2012 - 15:45:19 CST)
- Re: select whole residues (Tue Jan 03 2012 - 18:37:13 CST)
- Re: to use tcl script in command line (Thu Dec 08 2011 - 08:30:37 CST)
- Re: Reading the SMD information form the log file (Fri Dec 02 2011 - 11:37:38 CST)
- Re: Maximum length of an extended peptide? (Tue Nov 15 2011 - 20:07:24 CST)
- Re: namd-l: selection of cholesterol molecules (Wed Nov 02 2011 - 00:06:35 CDT)
- Re: selection (Mon Oct 31 2011 - 17:03:55 CDT)
- Re: selection (Mon Oct 31 2011 - 15:13:57 CDT)
- Re: move ligand around the protin (Mon Oct 31 2011 - 11:54:43 CDT)
- Re: Run a variable through VMD Tk/Tcl console .vmdrc file (Sun Oct 30 2011 - 10:28:37 CDT)
- Re: Problems with APBS calculations (Thu May 19 2011 - 21:37:36 CDT)
Chris Ing
- Re: vmd smooth trajectory distorted molecule (Wed Aug 09 2017 - 15:18:25 CDT)
- Temporary Files for STRIDE Inaccessible on Windows 8 (Thu Jul 03 2014 - 16:08:03 CDT)
- Re: extracting grid points from an isosurface (Tue Aug 06 2013 - 15:04:08 CDT)
- Re: Real-time Representation Changes During Interactive MD (Thu Jan 03 2013 - 18:14:29 CST)
- Real-time Representation Changes During Interactive MD (Wed Dec 19 2012 - 11:36:22 CST)
Chris Knorowski
- Re: python 2.7 probelms (Fri Aug 15 2014 - 16:05:50 CDT)
- python 2.7 probelms (Thu Aug 14 2014 - 15:52:40 CDT)
- periodic images with xyz coordinates (Mon Nov 11 2013 - 16:09:50 CST)
- Re: clipping plane (Wed Oct 23 2013 - 17:33:14 CDT)
- Re: clipping plane (Wed Oct 09 2013 - 15:44:53 CDT)
- clipping plane (Wed Oct 09 2013 - 14:25:45 CDT)
- Re: Finding particles that are close (Tue Oct 08 2013 - 16:05:38 CDT)
- Re: loading a trajectory where particles aren't conservd (Wed Aug 31 2011 - 15:35:04 CDT)
- loading a trajectory where particles aren't conservd (Mon Aug 29 2011 - 16:35:28 CDT)
Chris Neale
- Re: (Thu Jul 07 2022 - 21:25:56 CDT)
- Re: Could not read file problem (Fri Jul 23 2021 - 09:42:54 CDT)
- Re: loading multiple different topologies into the same "molecule" (Thu Jun 10 2021 - 18:58:54 CDT)
- Re: loading multiple different topologies into the same "molecule" (Thu Jun 10 2021 - 13:51:13 CDT)
- Re: loading multiple different topologies into the same "molecule" (Thu Jun 10 2021 - 12:26:39 CDT)
- loading multiple different topologies into the same "molecule" (Wed Jun 09 2021 - 18:34:22 CDT)
- Re: VMD NetCDF plugin on POWER9 CPUs (like ORNL Summit) (Mon Jan 04 2021 - 19:47:17 CST)
- VMD NetCDF plugin on POWER9 CPUs (like ORNL Summit) (Sat Dec 26 2020 - 11:49:32 CST)
- Re: CIF file reader (Wed Apr 01 2020 - 01:48:32 CDT)
- Re: CIF file reader (Sat Mar 28 2020 - 23:24:24 CDT)
- Re: 2-Dimensional map of a lipid molecule around the protein (Thu Mar 22 2018 - 10:31:06 CDT)
- Re: Rendering 3D 360 Movies at higher resolution (Mon Oct 02 2017 - 18:03:28 CDT)
- Re: Visualize temperature (Fri Aug 18 2017 - 14:53:11 CDT)
- trajectory smoothing with periodic images in VMD (Wed Dec 21 2016 - 12:52:39 CST)
Chris Taylor
- Re: compile vmd-1.9.4a57 source - OptiXRenderer.h:84:10: fatal error: optix_math.h: No such file or directory (Fri Jul 26 2024 - 22:11:53 CDT)
- Re: compile vmd-1.9.4a57 source - OptiXRenderer.h:84:10: fatal error: optix_math.h: No such file or directory (Fri Jul 26 2024 - 22:15:58 CDT)
- compile vmd-1.9.4a57 source - OptiXRenderer.h:84:10: fatal error: optix_math.h: No such file or directory (Fri Jul 26 2024 - 00:22:45 CDT)
- Re: Compiling CUDAMarchingCubes.cu build error (Thu Jul 25 2024 - 23:08:47 CDT)
- Re: Compiling CUDAMarchingCubes.cu build error (Wed Jul 24 2024 - 20:14:04 CDT)
- Re: Compiling CUDAMarchingCubes.cu build error (Tue Jul 23 2024 - 20:02:18 CDT)
- Compiling CUDAMarchingCubes.cu build error (Sun Jul 21 2024 - 20:53:43 CDT)
- Re: CUDA error: an illegal memory access was encountered, CUDAQuickSurf.cu (Mon Apr 17 2023 - 22:40:59 CDT)
- Re: CUDA error: an illegal memory access was encountered, CUDAQuickSurf.cu (Mon Apr 10 2023 - 20:08:42 CDT)
- CUDA error: an illegal memory access was encountered, CUDAQuickSurf.cu (Sun Apr 09 2023 - 22:07:14 CDT)
- Re: vmd mpi parallel rendering with SLURM (Thu Apr 06 2023 - 21:14:08 CDT)
- Re: VMD 64-bit Windows OSPRay Initialization Error Possible Fix (Tue Feb 14 2023 - 22:41:23 CST)
- Re: VMD 1.9.4.a53 crashes on windows 11 (Thu Nov 03 2022 - 22:51:17 CDT)
- INITIALIZATION ERROR --> OSPRay not yet initialized - WIN64, version 1.9.4a53 (Mon Sep 26 2022 - 18:31:01 CDT)
- OSPRay error on startup Windows11 (Thu Aug 11 2022 - 17:26:42 CDT)
- Re: Movie Maker plugin parallel MPI rendering (Mon May 30 2022 - 13:12:09 CDT)
- Movie Maker plugin parallel MPI rendering (Sun May 29 2022 - 17:33:46 CDT)
- Movie Maker plugin parallel MPI rendering (Thu May 26 2022 - 21:23:39 CDT)
- Re: Parallel rendering example from tutorial, "VMD parallel commands" (Fri May 06 2022 - 20:07:16 CDT)
- Re: Parallel rendering example from tutorial, "VMD parallel commands" (Wed May 04 2022 - 22:46:28 CDT)
- Parallel rendering example from tutorial, "VMD parallel commands" (Mon May 02 2022 - 21:49:45 CDT)
- Use VMDOSPRAYMPI env variable and OSPray render method (Mon Apr 18 2022 - 21:17:08 CDT)
- Use VMDOSPRAYMPI env variable and OSPray render method (Sun Apr 17 2022 - 02:09:04 CDT)
- Re: VMD dumps core after OSPRay render completes (Tue Apr 12 2022 - 01:14:35 CDT)
- VMD dumps core after OSPRay render completes (Sun Apr 10 2022 - 15:46:02 CDT)
- RE: Merge frames of PDB asymmetric unit to biological assembly (Thu Oct 14 2021 - 14:21:39 CDT)
- RE: Merge frames of PDB asymmetric unit to biological assembly (Tue Oct 12 2021 - 21:46:24 CDT)
- RE: Merge frames of PDB asymmetric unit to biological assembly (Wed Oct 06 2021 - 21:02:58 CDT)
- Merge frames of PDB asymmetric unit to biological assembly (Tue Oct 05 2021 - 22:10:14 CDT)
- RE: RE: Install VMD from source on Amazon EC2 instance (Thu Jan 07 2021 - 17:25:09 CST)
- RE: RE: Install VMD from source on Amazon EC2 instance (Thu Jan 07 2021 - 17:08:44 CST)
- RE: RE: Install VMD from source on Amazon EC2 instance (Thu Jan 07 2021 - 16:58:04 CST)
- RE: RE: Install VMD from source on Amazon EC2 instance (Thu Jan 07 2021 - 16:54:18 CST)
- RE: Install VMD from source on Amazon EC2 instance (Thu Jan 07 2021 - 16:20:21 CST)
- RE: Install VMD from source on Amazon EC2 instance (Mon Jan 04 2021 - 18:54:26 CST)
- Install VMD with goal of enabling Intel OSPray renderer (Fri Jan 01 2021 - 03:59:34 CST)
Chris Upton
- Re: [Tech] Colors in VMD (Fri Jan 24 1997 - 11:55:13 CST)
- JMV (Wed Mar 31 2004 - 13:30:08 CST)
- MacOSX bundle (Sat Jul 06 2002 - 00:16:13 CDT)
- Mac OSX version (Tue Jun 25 2002 - 12:18:47 CDT)
chris.harwell_at_pharma.novartis.com
- VMD on Linux RH9 with ATI's fglrx-4.3.0-3.14.6 1280x1024@100Hz dumping core ... any helpful advice :>? (Fri Dec 17 2004 - 15:27:21 CST)
- any body else have VMD problems with Linux + ATI FireGL X1-256p + fglrx-glc22-4.3.0-3.7.0 (Wed Feb 11 2004 - 16:16:46 CST)
chris.neale_at_utoronto.ca
- surf fails with TIP4P water in VMD 1.9b1 (Mon Feb 28 2011 - 10:52:08 CST)
Christer Svanberg
- VMD using CygWin? (Tue Dec 19 2006 - 07:29:15 CST)
Christian Courtney
- Replica watch is a perfect gift (Sun Apr 27 2008 - 04:18:34 CDT)
Christian Fufezan
- Re: Starting VMD at Command Line in OSX (Sat Oct 28 2006 - 13:38:10 CDT)
- pass variables from the shell to VMD (Thu Sep 07 2006 - 10:54:05 CDT)
- change default drawing and coloring method (Mon May 22 2006 - 19:08:17 CDT)
Christian Jorgensen
- Re: FFTK scan torsions aromatics (Fri Dec 06 2013 - 11:12:48 CST)
- Re: Fwd: FFTK scan torsions aromatics (Fri Dec 06 2013 - 05:07:42 CST)
- vmd: Saving output (Mon Nov 01 2010 - 04:30:03 CDT)
- vmd: Tcl script help (Fri Oct 29 2010 - 14:06:59 CDT)
Christian Leitold
- Re: Parallelization to an axis (Sat Mar 24 2018 - 00:56:46 CDT)
- Re: Parallelization to an axis (Fri Mar 23 2018 - 14:17:58 CDT)
- Re: Building plugins with _USE_ZLIB (how to activate preprocessor macro) (Tue Mar 13 2018 - 17:33:24 CDT)
- Re: Building plugins with _USE_ZLIB (how to activate preprocessor macro) (Tue Mar 13 2018 - 15:25:36 CDT)
- Building plugins with _USE_ZLIB (how to activate preprocessor macro) (Tue Mar 13 2018 - 14:19:48 CDT)
- Re: VMD XYZ plugin: add support for reading velocities (Thu Jun 09 2016 - 11:12:10 CDT)
- VMD XYZ plugin: add support for reading velocities (Thu Jun 09 2016 - 10:06:55 CDT)
- Re: Modify XYZ reader plugin (Wed Jul 15 2015 - 07:27:32 CDT)
- Re: Modify XYZ reader plugin (Wed Jul 15 2015 - 05:46:52 CDT)
- Re: Modify XYZ reader plugin (Tue Jul 14 2015 - 11:25:17 CDT)
- Modify XYZ reader plugin (Tue Jul 14 2015 - 11:07:07 CDT)
Christian Mücksch
- Re: Problem with VMD's depth cueing and 3DConnexion SpaceNavigator (Tue Sep 17 2013 - 12:19:56 CDT)
- Re: Problem with VMD's depth cueing and 3DConnexion SpaceNavigator (Tue Sep 10 2013 - 08:20:16 CDT)
- Problem with VMD's depth cueing and 3DConnexion SpaceNavigator (Tue Sep 10 2013 - 07:11:21 CDT)
- Problem with VMD 1.9.1 (CUDA) on Snow Leopard (Mon Feb 13 2012 - 05:02:54 CST)
Christian Seitz
- Re: MultiSeq QR structure factorization on the command line (Wed Jun 29 2022 - 18:23:55 CDT)
- MultiSeq QR structure factorization on the command line (Tue Jun 28 2022 - 14:07:41 CDT)
- Surf drawing representation fails after negative circle radius (Mon Mar 08 2021 - 01:50:03 CST)
- Re: PBC wrap deleting PBC boundaries during wrapping (Tue Jan 07 2020 - 17:37:24 CST)
- PBC wrap deleting PBC boundaries during wrapping (Mon Jan 06 2020 - 18:37:42 CST)
Christian Simon
- Re: Problem with Hg, H (Wed May 10 2006 - 07:40:49 CDT)
- Re: Difficulties using Crystal Eyes 3 (Mon Dec 06 2004 - 10:20:59 CST)
- Difficulties using Crystal Eyes 3 (Thu Dec 02 2004 - 09:00:05 CST)
- "Pick item mode" inactive in OSX bundle ? (Thu Oct 03 2002 - 07:44:53 CDT)
- Re: VMD 1.8 alpha 16, publically available ... (Mon Jun 24 2002 - 13:43:23 CDT)
- No 'Primary File Type' in Load menu (v1.8a10 on MacOSX) (Thu Jun 20 2002 - 08:01:20 CDT)
- Re: Re: Mac Titanium video card (Mon Jun 10 2002 - 07:45:42 CDT)
- Mac Titanium video card (Wed Jun 05 2002 - 17:06:20 CDT)
- Re: Help on script (Mon Mar 25 2002 - 08:06:27 CST)
Christian Wohlschlager
- dcd File and bounds (Mon Sep 19 2016 - 08:00:53 CDT)
- Animate Molekul (Tue Apr 05 2016 - 08:12:17 CDT)
- vmd 1.9.3 A (Tue Nov 17 2015 - 01:31:46 CST)
- Cannot Remote Display on Ubuntu (Tue Sep 22 2015 - 02:30:12 CDT)
- Cannot Remote Display on Ububtu (Tue Sep 22 2015 - 00:54:34 CDT)
- 1.9.3 Version (Thu Aug 27 2015 - 08:22:51 CDT)
- Antw: Re: cvs (Tue Jul 14 2015 - 01:02:05 CDT)
- cvs (Mon Jul 13 2015 - 02:08:53 CDT)
- Oculus Rift (Fri Mar 06 2015 - 04:21:55 CST)
- AW: Antw: AW: Oculus Rift DK2 (Wed Dec 10 2014 - 04:49:00 CST)
- Oculus Rift DK2 (Fri Nov 28 2014 - 03:47:14 CST)
- Antw: Stereo Mode User Defined (Wed Nov 05 2014 - 02:08:34 CST)
- Stereo Mode User Defined (Wed Nov 05 2014 - 02:06:10 CST)
- Oculus Rift (Fri Oct 31 2014 - 06:51:43 CDT)
- CL (Fri Jul 04 2014 - 06:13:43 CDT)
- two Molecules in one pdb and psf (Fri Jul 05 2013 - 04:37:21 CDT)
- Merge Structur (Wed Jul 03 2013 - 08:52:00 CDT)
- Re: Fwd: VMD Stereo does not work Quadbufferd (Fri May 11 2012 - 03:45:12 CDT)
- Fwd: VMD Stereo does not work Quadbufferd (Mon May 07 2012 - 02:46:23 CDT)
- VMD Stereo not work (Thu Apr 26 2012 - 08:32:48 CDT)
- Re: Problem vmd 1.9 plus Cave (Fri Oct 28 2011 - 04:23:30 CDT)
- Problem vmd 1.9 plus Cave (Thu Oct 27 2011 - 01:12:09 CDT)
- Re: VMD meets Andy Warhol/Campbell's Soup on display wall (Thu Sep 29 2011 - 01:18:13 CDT)
- Cionize (Thu Sep 15 2011 - 01:12:16 CDT)
- cionize (Fri Sep 09 2011 - 02:10:28 CDT)
- Salt brigde (Thu Jul 07 2011 - 01:06:51 CDT)
- Simple Question regarding psf generation (Tue Apr 19 2011 - 08:09:15 CDT)
- Seminars Trainings (Wed Nov 24 2010 - 02:37:48 CST)
- Novint Falcon (Tue Oct 19 2010 - 07:22:21 CDT)
- wheris sculptor.tcl (Fri Sep 24 2010 - 05:39:50 CDT)
- Use of parmtool plugin (Mon Sep 13 2010 - 01:38:01 CDT)
- VMD plus Phantom (Wed Aug 18 2010 - 11:04:42 CDT)
- vmd on Microsoft 2000 and Phantom (Tue Jun 22 2010 - 07:51:03 CDT)
- Error vmd and Nvidia Graphik Card (Tue Mar 09 2010 - 10:19:47 CST)
- Changing Nvidia driver (Tue Nov 17 2009 - 02:46:23 CST)
- Question about Keyboaerd events send from other PC (Thu Nov 05 2009 - 02:29:36 CST)
- Antw: Re: Cuda an a cluster ? (Fri Oct 23 2009 - 00:20:59 CDT)
- Cuda an a cluster ? (Thu Oct 22 2009 - 02:56:18 CDT)
- VMD Tracking VRPN (Wed Aug 19 2009 - 02:01:49 CDT)
- Antw: Re: CUDA Support (Tue Aug 18 2009 - 01:06:27 CDT)
- CUDA Support (Wed Aug 12 2009 - 03:09:35 CDT)
- NEW New (Thu Aug 06 2009 - 07:44:37 CDT)
- vmd Linux 64 (Fri Jul 31 2009 - 03:29:04 CDT)
- Re: Antw: Re: CAVE & Vmd (Fri Jul 27 2007 - 01:45:45 CDT)
- Antw: Re: CAVE & Vmd (Wed Jul 25 2007 - 08:21:27 CDT)
- CAVE & Vmd (Fri Jul 06 2007 - 02:06:54 CDT)
- Cave and usr keys defined in tcl (Tue Feb 27 2007 - 05:46:38 CST)
- Large Molecule in CAVE Enviroment (Thu Jan 18 2007 - 01:35:06 CST)
- Unaligned access to ... (Mon Jan 08 2007 - 02:57:56 CST)
- CAVE Sensor Question (Mon Dec 18 2006 - 01:28:53 CST)
- Thank you for you answere the folowing is the .vmdsensor file (Tue Dec 12 2006 - 06:06:52 CST)
- CAVE Question (Mon Dec 11 2006 - 00:28:12 CST)
- Re: Antw: Re: CAve Question (Thu Nov 30 2006 - 08:22:46 CST)
- Help for the CAVE (Wed Nov 29 2006 - 08:19:11 CST)
- Antw: Re: CAve Question (Tue Nov 28 2006 - 08:16:48 CST)
- CAve Question (Mon Nov 27 2006 - 02:39:04 CST)
Christina Payne
- solvate numbering problems (Wed Apr 06 2005 - 11:05:39 CDT)
Christine Horejs
- Please remove me from mailing list (Wed Aug 01 2018 - 04:59:12 CDT)
- display surface amino acid beads (Sat Jan 09 2010 - 04:22:34 CST)
- xzy format and ResType (Tue Nov 17 2009 - 14:03:01 CST)
- RBCG bead diameter (Wed Oct 28 2009 - 11:54:50 CDT)
- Re: lammpstrj file as pdb (Tue Oct 27 2009 - 12:18:15 CDT)
- lammpstrj file as pdb (Tue Oct 27 2009 - 11:50:06 CDT)
- colour residues (Mon Oct 12 2009 - 17:58:31 CDT)
- format of pdb file (Mon Oct 12 2009 - 09:04:51 CDT)
Christoph Hagedorn
- Q: MO visualisation (Thu Dec 14 2000 - 11:35:39 CST)
Christoph Schneider
- calculation of RMS values (Wed Aug 19 1998 - 04:05:51 CDT)
- measuring torsion angles (Mon Jun 29 1998 - 03:08:48 CDT)
- H-bonds (Mon Oct 06 1997 - 12:02:13 CDT)
- rock around the clock? (Mon Oct 06 1997 - 11:02:46 CDT)
Christoph Weber
- Re: VMD on MacOSX 10.6 Snow Leopard: fast (Tue Sep 01 2009 - 13:30:07 CDT)
- VMD on MacOSX 10.6 Snow Leopard: fast (Mon Aug 31 2009 - 18:31:11 CDT)
- NVidia GeForce 3D Vision (Tue May 19 2009 - 12:38:08 CDT)
- Improved VMD performance on MacOSX 10.5.2 (Tue Feb 12 2008 - 16:51:14 CST)
- Re: VMD 1.8.6, XTC format on Mac OS X 10.5.1 (Sat Jan 26 2008 - 16:59:17 CST)
- Re: no transparency on newest iMacs (Thu Oct 04 2007 - 15:56:56 CDT)
- no transparency on newest iMacs (Wed Oct 03 2007 - 19:05:21 CDT)
- VMD performance on Vista (Thu Feb 01 2007 - 16:23:58 CST)
- Re: VMD email support next two weeks (Mon Dec 18 2006 - 18:10:13 CST)
- Re: RE: vmd-l digest V1 #579 (Thu Jul 20 2006 - 17:19:08 CDT)
- Re: Anyone using ATI X1600? (Mon Jul 17 2006 - 16:18:00 CDT)
- revised VMD tutorial (Fri Jul 14 2006 - 19:03:44 CDT)
- Re: Anyone using ATI X1600? (Fri Jul 14 2006 - 18:35:35 CDT)
- Re: MacBookPro and VMD version (Wed Apr 05 2006 - 14:10:08 CDT)
Christoph Willing
- Possible MPI code problem (and fix) (Thu Mar 29 2012 - 07:30:12 CDT)
- Can't set graphics window position to 0,0 (Tue Mar 27 2012 - 18:17:10 CDT)
Christophe Guilbert
- avoiding distance based bond search when reading a PDB file (Thu Nov 14 2002 - 14:31:17 CST)
christopher
- morph (Wed Feb 28 2007 - 16:18:48 CST)
- Re: VMD open GL Display problem (Tue Feb 27 2007 - 10:52:51 CST)
- GL window offset problem (Mon Feb 12 2007 - 15:09:55 CST)
- cartoon problems (encore) (Sat Feb 03 2007 - 15:29:56 CST)
- Re: [vmd] K3b bug? (Sat Jan 27 2007 - 09:15:58 CST)
- [vmd] K3b bug? (Sat Jan 27 2007 - 07:12:57 CST)
- Install and Configure Problems (Wed Jan 03 2007 - 08:57:14 CST)
- coloring residues with VMD (Wed Nov 29 2006 - 14:41:37 CST)
Christopher D. Wassman
- Re: Problems loading shared object, vmd1.8 linux mesa binaries (Tue Feb 25 2003 - 01:49:09 CST)
- Problems loading shared object, vmd1.8 linux mesa binaries (Sun Feb 23 2003 - 21:59:24 CST)
Christopher Gaughan
- Problem with visualizing trajectory produced in Amber (Mon Jan 25 2021 - 02:05:51 CST)
Christopher Gillespie
- Re: Understanding topology files? (Thu Jan 15 2009 - 10:27:52 CST)
- Re: Understanding topology files? (Thu Jan 15 2009 - 09:25:23 CST)
- Re: Catdcd? (Thu Oct 16 2008 - 12:25:42 CDT)
- Re: Selecting atoms that have real SASA greater than 0, Not using "Surface" (Tue Jul 29 2008 - 18:39:14 CDT)
- Re: water box...density!!! (Mon Jul 28 2008 - 09:43:47 CDT)
- Re: solvation and box size (Mon Jul 28 2008 - 07:33:37 CDT)
- Selecting atoms that have real SASA greater than 0, Not using "Surface" (Sun Jul 20 2008 - 16:28:04 CDT)
- Re: trajectory to xyz file. (Mon Jul 07 2008 - 14:44:12 CDT)
- Measure gofr with large DCD files (Possibly use bigdcd ???) (Fri May 23 2008 - 18:43:22 CDT)
Christopher Gutnajer
- Re: loading .xtc file (Thu Feb 06 2014 - 22:37:14 CST)
- Re: Coarse Graining Cholesterol with VMD's cg builder (Tue Jul 09 2013 - 22:30:01 CDT)
- Coarse Graining Cholesterol with VMD's cg builder (Fri Jun 28 2013 - 15:12:48 CDT)
Christopher Hartshorn
- Script problem (Thu Mar 12 2009 - 03:40:50 CDT)
- Membrane builder ?'s (Mon Feb 23 2009 - 13:09:16 CST)
- Average position of atom set (Tue Nov 04 2008 - 09:59:56 CST)
- Catdcd? (Thu Oct 16 2008 - 11:37:15 CDT)
- Solid Support Problem (Thu Sep 18 2008 - 13:33:07 CDT)
Christopher MacDermaid
- Re: to set VMDFORCECPUCOUNT (Fri Sep 20 2013 - 11:08:56 CDT)
- Buffer Overflow in "label add" in VMD (Wed Sep 18 2013 - 10:19:26 CDT)
- Re: molinfo top get filename, dialogue vs. "mol new" (Thu May 09 2013 - 10:59:03 CDT)
- Re: molinfo top get filename, dialogue vs. "mol new" (Thu May 09 2013 - 10:43:20 CDT)
- Re: molinfo top get filename, dialogue vs. "mol new" (Thu May 09 2013 - 10:36:54 CDT)
- Re: molinfo top get filename, dialogue vs. "mol new" (Thu May 09 2013 - 10:32:35 CDT)
- molinfo top get filename, dialogue vs. "mol new" (Thu May 09 2013 - 08:30:13 CDT)
- Re: How to build a coiled alpha-helix (Tue Apr 02 2013 - 10:18:44 CDT)
- Re: superimposing proteins with non-similar coordinates (Wed Aug 26 2009 - 17:17:34 CDT)
Christopher McLean
- RE: Blank thumbnails and non-working snapshots (Thu Feb 11 2010 - 03:18:29 CST)
- RE: Blank thumbnails and non-working snapshots (Tue Feb 09 2010 - 09:04:06 CST)
- RE: Blank thumbnails and non-working snapshots (Tue Feb 09 2010 - 03:47:41 CST)
- Blank thumbnails and non-working snapshots (Mon Feb 08 2010 - 09:55:13 CST)
Christopher Neale
- Re: parallel processing in vmd (Thu Sep 14 2017 - 22:34:52 CDT)
- Is occulus rift plug-and-play with VMD yet? If so, what are the capabilities? (Sat Aug 12 2017 - 11:29:49 CDT)
- setting bonds so that they are saved in DMS format output (Fri Jun 28 2013 - 21:26:40 CDT)
- APBS plugin requires molecule renaming after drag and drop loading of .pqr file (Thu Jul 26 2012 - 21:03:35 CDT)
- %-sign shortcut for mouse->force->atom not working (Sun May 06 2012 - 12:21:38 CDT)
- how to use the AutoIMD "Tool control" panel. (Mon Apr 30 2012 - 11:28:19 CDT)
Christopher Share
- Running VMD on Mac OS X (Mon Dec 01 2008 - 23:23:08 CST)
Christopher Stiles
- RE: different numbers of frames even though... (Fri Mar 14 2008 - 10:59:50 CDT)
- different numbers of frames even though... (Fri Mar 14 2008 - 01:49:53 CDT)
- radial density over one frame (Sun Mar 09 2008 - 14:55:51 CDT)
- RE: OpenGL Display (Wed Nov 14 2007 - 07:14:17 CST)
- OpenGL Display (Tue Nov 13 2007 - 23:33:32 CST)
- radial density (Thu Aug 09 2007 - 09:11:55 CDT)
- RE: CNT Analysis (Tue Aug 07 2007 - 10:12:13 CDT)
- CNT Analysis (Tue Aug 07 2007 - 08:41:31 CDT)
Chuck
- Problem: I got a runtime error "CthCreate failed to create fiber!". (Sun Jul 12 2009 - 03:49:44 CDT)
- FATAL ERROR: ABNORMAL EOF FOUND - buffer=*0 0* (Mon Feb 23 2009 - 15:52:05 CST)
chucruz_at_ks.uiuc.edu
- full version OEM soft (Thu Oct 29 2009 - 23:14:25 CDT)
- Downloadable version (Thu Oct 29 2009 - 02:51:04 CDT)
Chung, Dong Hoon
- Where should I put script file? (Fri Nov 12 2004 - 14:02:09 CST)
Chunhu Tan
- How to build a crystal structure from a pdb file ? (Tue Sep 20 2005 - 19:43:41 CDT)
- May I use my own radii? (Thu Mar 17 2005 - 16:17:49 CST)
Chunli Yan
- can not visualize bond in vmd (Fri Nov 04 2022 - 12:49:26 CDT)
Ciara McCormack
- FW: Dynamical network analysis-NetworkView (Thu Jul 04 2013 - 04:17:14 CDT)
Cihan Aydin
- vmdnumpy for IED... (Sun Jun 14 2009 - 17:42:36 CDT)
Cindy Cregier
- Re: Re: looking for help to solve FATAL ERRORï¼š Didn't find vdw parameter for atom type C11 (Mon Mar 11 2024 - 20:03:24 CDT)
- CHARMM36 and water: can the H-H "bond" be added to the wat.top file used by solvate.tcl? (Wed Jul 05 2023 - 01:14:37 CDT)
cipitaua_at_gmail.com
- Re: bug in the g(r) evaluation? (Wed Apr 23 2008 - 07:50:12 CDT)
- Re: bug in the g(r) evaluation? (Tue Apr 22 2008 - 11:06:14 CDT)
- bug in the g(r) evaluation? (Tue Apr 22 2008 - 09:30:37 CDT)
Claire Loison
- NeutronRefTools ? (Fri Jun 16 2017 - 05:45:51 CDT)
Claire Zerafa
- RENDER ISSUES (Thu Jun 07 2007 - 08:48:17 CDT)
- rendering problems (Thu Jun 07 2007 - 09:37:13 CDT)
- Fw: visualising bonds in vmd (Wed Sep 07 2005 - 16:02:25 CDT)
- visualising bonds in vmd (Wed Sep 07 2005 - 08:00:31 CDT)
- visualising protein dynamics (Wed Jun 22 2005 - 12:39:55 CDT)
- vmd load molecule problem (Fri Jun 17 2005 - 06:30:29 CDT)
- RUNNING VMD (Thu Mar 03 2005 - 12:42:35 CST)
Clarinet
- Certain combinations of X-server and X-client do not allow VMD to start (Mon Sep 16 2013 - 09:40:08 CDT)
- Re: Drawing Method: Lines does not display anything (Wed Nov 21 2012 - 07:03:03 CST)
- Drawing Method: Lines does not display anything (Tue Nov 20 2012 - 08:04:09 CST)
- Re: Flickering display when running remotely (Wed May 30 2012 - 04:37:58 CDT)
- Flickering display when running remotely (Tue May 29 2012 - 10:43:52 CDT)
Clark II, Jeffrey Keith
- Re: Mapping Gaussian electrostatic potential to electron density with cube files (Fri Mar 14 2014 - 14:29:06 CDT)
Claw Isthelaw
- How to embed 3-D image into powerpoint (Mon Aug 04 2008 - 15:15:33 CDT)
- RE: Create atom selection from list of integers (Mon Jun 02 2008 - 13:10:12 CDT)
- Re: Selecting the N-closest Waters (Mon Jun 02 2008 - 13:25:51 CDT)
- Create atom selection from list of integers (Mon Jun 02 2008 - 11:01:49 CDT)
- RE: plotting on Mac (Sat Aug 11 2007 - 19:53:35 CDT)
- Broken tube drawing method? (Thu Jul 05 2007 - 00:17:37 CDT)
- RE: Installation Error Involving TLC (Sun May 27 2007 - 22:37:30 CDT)
- RE: Automatically shutting down VMD after NAMD terminates IMD connection (Sun May 20 2007 - 16:20:30 CDT)
- Automatically shutting down VMD after NAMD terminates IMD connection (Sat May 19 2007 - 13:23:42 CDT)
Clement Fang Jin Koh
- Joining nonlinear chain fragments from LAMMPS data file (Wed Aug 11 2021 - 12:32:56 CDT)
- Re: Order of atom indexes for a Fragment (Mon Nov 06 2017 - 15:46:07 CST)
- Order of atom indexes for a Fragment (Sun Nov 05 2017 - 22:18:22 CST)
CLEMENTS, ROBERT
- compile windows binary in linux (Mon Sep 13 2010 - 14:17:51 CDT)
Clinton Sylvester
- Watches made to impress (Thu May 01 2008 - 10:40:03 CDT)
cmhartshorn
- Re: selecting waters (Mon May 11 2009 - 17:31:55 CDT)
cmorton_at_medstv.unimelb.edu.au
- Other glasses with CE emitters? (Thu Feb 24 2005 - 17:20:58 CST)
CMP
- (no subject) (Mon Aug 27 2018 - 05:45:29 CDT)
cnu gromacs
- pbc wrap (Fri May 13 2011 - 13:50:30 CDT)
cojocaru vlad
- a question (Mon Feb 05 2001 - 10:24:40 CST)
Cojocaru, Vlad
- RE: How can I draw secondary structures if I only have the carbon alpha coordinates (Thu Aug 18 2011 - 14:46:45 CDT)
Cojocaru,Vlad
- RE: cvs plugins do not compile because of errors in the sgsmooth.C (Tue Mar 31 2009 - 13:40:47 CDT)
- RE: warnings during plugin build (Mon Apr 21 2008 - 18:35:21 CDT)
- RE: warnings during plugin build (Sun Apr 20 2008 - 12:37:39 CDT)
- RE: warnings during plugin build (Sun Apr 20 2008 - 03:51:17 CDT)
- RE: warnings during plugin build (Sat Apr 19 2008 - 17:53:58 CDT)
- RE: warnings during plugin build (Sat Apr 19 2008 - 13:34:22 CDT)
- warnings during plugin build (Sat Apr 19 2008 - 09:09:32 CDT)
- RE: compilation with python 2.5 and file permissions from the CVS repository (Sun Apr 13 2008 - 14:50:44 CDT)
- compilation with python 2.5 and file permissions from the CVS repository (Sun Apr 13 2008 - 12:24:52 CDT)
- RE: bilayer thickness in simulation of POPC membranes (Sun Aug 12 2007 - 02:54:44 CDT)
- RE: bilayer thickness in simulation of POPC membranes (Sat Aug 11 2007 - 10:08:28 CDT)
- RE: save state fails (Thu Aug 02 2007 - 13:41:29 CDT)
- RE: increase light under depth cueing (Sun Apr 29 2007 - 15:12:54 CDT)
- message in the console (Sun Dec 18 2005 - 13:42:18 CST)
- Re: compilation from source: make error message (Mon Dec 12 2005 - 15:06:08 CST)
- sorry John .. I found them (Thu Dec 08 2005 - 15:07:07 CST)
- plugin source tree (Thu Dec 08 2005 - 14:57:46 CST)
- babel compilation error (Thu Dec 08 2005 - 14:26:38 CST)
- python: it doesnt work (Tue Dec 06 2005 - 16:34:13 CST)
- Python libraries for vmd: _tkinter was not enabled in Modules/Setup (Tue Dec 06 2005 - 14:45:55 CST)
- RE: MSMS problem (Mon Dec 05 2005 - 13:36:33 CST)
- the same old IED problem (Sun Dec 04 2005 - 14:01:07 CST)
- MSMS problem (Sun Dec 04 2005 - 06:05:43 CST)
- MSMS problem (Sat Dec 03 2005 - 02:40:29 CST)
Collette Riviere
- VR Movies (Wed Apr 03 2024 - 23:04:15 CDT)
- VR Movie Rendering (Tue Mar 05 2024 - 22:05:16 CST)
Collins Nganou
- Re: unable to load .xtc files on VMD 1.8.7 (Thu Aug 22 2013 - 08:05:12 CDT)
- dihedral angle distribution (Tue Aug 13 2013 - 08:36:47 CDT)
Come On
- Re: how to make movies from HISTORY file (Wed Jun 07 2006 - 04:20:15 CDT)
- how to make movies from HISTORY file (Tue Jun 06 2006 - 13:11:55 CDT)
cong chen
- Re: about TkConsole (Wed Apr 08 2009 - 07:27:52 CDT)
- Re: about TkConsole (Tue Apr 07 2009 - 20:04:45 CDT)
- about TkConsole (Mon Apr 06 2009 - 23:16:19 CDT)
- about measure dihedral angle (Thu May 08 2008 - 20:53:08 CDT)
- about writepdb (Mon May 05 2008 - 00:08:53 CDT)
- atomselect (Wed Apr 16 2008 - 19:58:18 CDT)
- Problems with PDB file format in VMD (Thu Mar 27 2008 - 18:55:38 CDT)
- Test (Tue Mar 25 2008 - 18:39:50 CDT)
conor parks
- Re: Steinhardt order parameter and clustering algorithms (Sun Dec 13 2015 - 15:11:11 CST)
- Re: Steinhardt order parameter and clustering algorithms (Sat Dec 12 2015 - 17:01:42 CST)
- Re: Bonds appearing as elongated lines (Wed Sep 16 2015 - 11:59:14 CDT)
Conrad F Li
- Using MDFF 0.6 in VMD 1.9.4a (Fri Aug 21 2020 - 11:19:41 CDT)
Cook, Rich
- Re: compiling VMD -- confused failure (Tue Aug 27 2013 - 14:49:26 CDT)
- Re: compiling VMD -- confused failure (Tue Aug 27 2013 - 15:29:47 CDT)
- Re: compiling VMD -- confused failure (Tue Aug 27 2013 - 13:31:05 CDT)
- compiling VMD -- confused failure (Mon Aug 26 2013 - 20:15:07 CDT)
- Re: trouble compiling/setting up VMD (Mon Aug 26 2013 - 20:06:20 CDT)
- trouble compiling/setting up VMD (Mon Aug 26 2013 - 18:44:26 CDT)
Corenflos, Steven
- Bad Length and GLXBadLargeRequest errors (Wed Dec 22 2010 - 15:57:58 CST)
Corenflos, Steven Charles
- TCL/VMD problem (Wed Mar 05 2008 - 11:59:20 CST)
- namd help? (Tue Feb 05 2008 - 12:15:47 CST)
- RE: Problems Opening Large .dx File (Wed Oct 17 2007 - 17:09:54 CDT)
- Problems Opening Large .dx File (Mon Oct 15 2007 - 11:30:04 CDT)
Corey Fugate
- Re: paratools charmm partial charges (Mon May 03 2010 - 13:42:02 CDT)
- paratools charmm partial charges (Thu Apr 29 2010 - 23:30:19 CDT)
- Re: Paratools Question (Thu Apr 29 2010 - 01:35:23 CDT)
- Paratools Question (Wed Apr 28 2010 - 23:17:39 CDT)
Corey Taylor
- Re: M1 Mac menu issues (Thu Dec 28 2023 - 01:51:07 CST)
- M1 Mac menu issues (Wed Dec 27 2023 - 05:22:48 CST)
Corine Brady
- Tag Heuer replicas better than originals (Sun Apr 20 2008 - 07:33:41 CDT)
Cosmin ROMAN
- Re: variable atom number and dynamic bonds (Wed May 05 2004 - 16:53:56 CDT)
- Re: variable atom number and dynamic bonds (Wed May 05 2004 - 17:34:23 CDT)
- variable atom number and dynamic bonds (Wed May 05 2004 - 10:55:19 CDT)
- Re: coloring method User (Mon Mar 22 2004 - 11:56:03 CST)
- coloring method User (Sun Mar 21 2004 - 09:05:23 CST)
Cosseddu, Salvatore
- RE: Segmentation fault (Tue Mar 11 2014 - 10:00:30 CDT)
- RE: Segmentation fault (Tue Mar 11 2014 - 10:02:52 CDT)
- VMD within emacs (Thu Mar 06 2014 - 11:17:53 CST)
- VMD within emacs (Thu Mar 06 2014 - 11:21:28 CST)
- RE: Security problem? (Thu Feb 20 2014 - 10:44:37 CST)
- RE: Security problem? (Thu Feb 20 2014 - 10:37:07 CST)
- RE: Security problem? (Wed Feb 19 2014 - 08:38:02 CST)
- RE: Security problem? (Wed Feb 19 2014 - 08:24:26 CST)
- RE: VMD text mode commands (Wed Jan 22 2014 - 16:06:13 CST)
- R: Distance between center of mass of two amino acid residues. (Sun Feb 19 2012 - 13:50:37 CST)
- RE: The spheres become oval, getting close to the screen borders (Sun Feb 05 2012 - 11:43:11 CST)
- The spheres become oval, getting close to the screen borders (Sun Feb 05 2012 - 09:53:57 CST)
- RE: Calling all DCD files in a directory sequentially using CatDCD (Tue Jan 24 2012 - 03:47:29 CST)
- RE: ionic radii of sodium and chloride (Sun Jan 22 2012 - 15:27:30 CST)
- RE: Finding resname without using atomselect? (Tue Nov 01 2011 - 18:35:22 CDT)
- RE: Finding resname without using atomselect? (Tue Nov 01 2011 - 18:48:29 CDT)
- RE: tips for an annoying aliasing task? (Thu May 26 2011 - 15:51:49 CDT)
- RE: Compiling plugins without netcdf support returns an error. (Fri May 13 2011 - 06:41:40 CDT)
- RE: Compiling plugins without netcdf support returns an error. (Thu May 12 2011 - 18:48:11 CDT)
- Compiling plugins without netcdf support returns an error. (Thu May 12 2011 - 15:12:32 CDT)
- Compiling plugins without netcdf support returns an error. (Thu May 12 2011 - 13:28:48 CDT)
- RE: Rotating and saving coordinates of a copy of molecule alongwith original molecule (Thu Mar 31 2011 - 16:59:32 CDT)
cpao_at_Princeton.EDU
- question about rendering images (Wed Sep 22 2004 - 16:54:38 CDT)
CPMAS Chen
- Re: helix orientation angle (Wed Nov 02 2022 - 14:42:48 CDT)
- helix orientation angle (Thu Oct 27 2022 - 20:55:45 CDT)
- Re: Re: [phenixbb] secondary structure presentation in VMD (Tue Jan 23 2018 - 11:38:16 CST)
- Re: Re: [phenixbb] secondary structure presentation in VMD (Tue Jan 23 2018 - 11:01:48 CST)
- Re: [phenixbb] secondary structure presentation in VMD (Mon Jan 22 2018 - 15:58:44 CST)
- secondary structure new cartoon presentation (Sun Jan 21 2018 - 08:55:56 CST)
- Re: vmd error xMDFF (Thu Jun 25 2015 - 17:29:48 CDT)
- Re: vmd error xMDFF (Thu Jun 25 2015 - 17:01:59 CDT)
- Re: vmd error xMDFF (Thu Jun 25 2015 - 15:44:09 CDT)
- Re: vmd error xMDFF (Tue Jun 16 2015 - 15:49:26 CDT)
- vmd error xMDFF (Thu Jun 11 2015 - 14:34:51 CDT)
Craig Amundsen
- Re: Tachyon (Mon Jun 19 2017 - 14:27:37 CDT)
- Re: Tachyon (Wed Jun 14 2017 - 11:53:41 CDT)
- Tachyon (Wed Jun 14 2017 - 11:18:12 CDT)
craig bullington
- Tcl commands and X11 (Fri Jun 12 2009 - 11:48:37 CDT)
- MSMS installation (Mon Jun 08 2009 - 14:27:57 CDT)
Craig C. Martens
- VMD error messages on intel iMac (Wed Jan 31 2007 - 23:32:32 CST)
Craig Knox
- Re: how do I show contacts with XXX angstroms between a protein and a ligand? (Mon Jun 06 2011 - 11:33:42 CDT)
- Re: mdf molfile plugin reader atom_type bug (Tue Apr 19 2011 - 13:44:42 CDT)
- mdf molfile plugin reader atom_type bug (Mon Apr 18 2011 - 13:03:51 CDT)
- rod-like shapes (Fri Jan 20 2006 - 16:49:21 CST)
Craig Maloney
- psfgen vs. x-plor (Tue Nov 08 2005 - 20:01:52 CST)
- python can't find math module (Tue Nov 01 2005 - 15:50:10 CST)
- MacOS 10.4 problems (Fri Oct 28 2005 - 00:13:25 CDT)
- Re: tcl/python and readline not working (Fri Oct 28 2005 - 00:05:47 CDT)
- tcl/python and readline not working (Wed Oct 26 2005 - 17:48:27 CDT)
- core API? (Wed Oct 26 2005 - 13:46:38 CDT)
- Re: making bonds myself (Tue Oct 25 2005 - 20:05:04 CDT)
- making bonds myself (Tue Oct 25 2005 - 19:16:32 CDT)
Craig Morton
- Dialboxes (Sun Jul 22 2001 - 21:36:49 CDT)
Craig Shepherd
- suggested citation vs. pubmed entry (Thu Jul 01 2004 - 13:18:58 CDT)
- suggested citation versus pubmed entry (Wed Jun 30 2004 - 19:00:19 CDT)
Cristian Bogaciu
- Question (Fri Apr 12 2019 - 20:44:32 CDT)
cristiana.carellialinovi_at_rm.unicatt.it
- secondary structure colors in timeline plugin (Fri Sep 14 2007 - 07:51:31 CDT)
- secondary structure colors in timeline plugin (Fri Sep 14 2007 - 06:24:30 CDT)
Cristina
- Re: question about electrostatic map visualizing (Tue Oct 26 2004 - 13:00:13 CDT)
- question about electrostatic map visualizing (Sat Sep 04 2004 - 11:02:47 CDT)
Cristina Rodríguez
- Re: about docking with VMD (Tue Jul 19 2011 - 17:34:25 CDT)
crockett c.h. (chc2g16)
- RE: Running RMSF script on compute canada (Thu Dec 12 2019 - 20:09:49 CST)
- Running RMSF script on compute canada (Thu Dec 12 2019 - 12:43:26 CST)
- Using RMSD for individual residues script (as seen in the NAMD tutorial) and bigdcd (Mon Dec 09 2019 - 17:28:46 CST)
- Using bigdcd and .tcl scripts (Wed Nov 27 2019 - 09:23:39 CST)
Crosskey, Mark William
- Disable display resetview (Sun Mar 31 2013 - 22:38:11 CDT)
Crowley, Michael
- Reading new amber prmtop formats. (Wed Sep 16 2009 - 12:21:42 CDT)
- too many bonds (Sun Apr 05 2009 - 01:27:03 CDT)
- (no subject) (Sun Apr 05 2009 - 00:48:58 CDT)
Cruzeiro,Vinicius Wilian D
- Re: Different colors of a residue at different frames (Sun Jul 01 2018 - 11:00:50 CDT)
- Different colors of a residue at different frames (Thu Jun 28 2018 - 16:13:29 CDT)
Crystal Liu
- Re: getting list of correct indices? (Thu Aug 18 2016 - 17:00:29 CDT)
CSM USP
- PSF files append!! (Wed Nov 15 2006 - 13:06:06 CST)
csu1505110121_at_163.com
- VMDFORCECPUCOUNT (Wed Oct 26 2016 - 22:47:42 CDT)
cubellis_at_unina.it
- coloring by difference in beta factors (Tue Dec 01 2009 - 06:25:28 CST)
Cun Zhang
- Re: How can I get the path of the TOP molecule in the tcl console? (Thu Dec 04 2014 - 20:58:18 CST)
- Re: How can I get the path of the TOP molecule in the tcl console? (Thu Dec 04 2014 - 20:20:00 CST)
- Re: Re: rlwrap problem on (Thu Nov 24 2011 - 07:07:11 CST)
- Re: Installing VMD on Debian Linux (Tue Oct 25 2011 - 03:53:49 CDT)
- Re: Command line for thickness parameter (Tue Aug 09 2011 - 07:56:27 CDT)
- Re: Vmd molecule rotation and translation (Mon Aug 08 2011 - 21:34:01 CDT)
- Re: how to make the picture size suitable for the image size in pov file ? (Fri Dec 31 2010 - 20:08:42 CST)
- how to make the picture size suitable for the image size in pov file ? (Thu Dec 30 2010 - 20:52:14 CST)
- How to change atom type and make it take effect immediately ï¼Ÿ (Sat Nov 13 2010 - 08:17:24 CST)
- Re: Loading DCD Frames in Python (Sun Oct 03 2010 - 00:39:53 CDT)
- Re: protein breaks into parts after converting trajectory file to pdb file (Mon Sep 27 2010 - 20:17:33 CDT)
- Re: vmd display water molecules error (Sun Sep 19 2010 - 21:16:00 CDT)
- Re: vmd display water molecules error (Sun Sep 19 2010 - 20:55:47 CDT)
- vmd display water molecules error (Fri Sep 17 2010 - 02:37:03 CDT)
- Re: compile vmd (Thu Sep 16 2010 - 20:25:45 CDT)
- Re: tcl script (Wed Aug 18 2010 - 03:25:21 CDT)
- Re: where can I download Tachyon version 0.98.10 ? (Wed Aug 18 2010 - 00:36:33 CDT)
- Re: where can I download Tachyon version 0.98.10 ? (Mon Aug 16 2010 - 04:02:55 CDT)
- Re: where can I download Tachyon version 0.98.10 ? (Sun Aug 15 2010 - 08:01:14 CDT)
- Re: where can I download Tachyon version 0.98.10 ? (Sun Aug 15 2010 - 03:16:45 CDT)
- where can I download Tachyon version 0.98.10 ? (Fri Aug 13 2010 - 23:06:19 CDT)
- Re: About Atom Index Order (Thu Aug 12 2010 - 04:58:57 CDT)
- Re: About Atom Index Order (Thu Aug 12 2010 - 03:52:10 CDT)
- About Atom Index Order (Wed Aug 11 2010 - 20:59:08 CDT)
- How to display real time when reading trr file? (Wed Jan 20 2010 - 01:59:20 CST)
- How to display real time when reading trr file? (Wed Jan 20 2010 - 01:59:16 CST)
- Re: Problem when using VMD Python Library (Sun Dec 27 2009 - 08:31:04 CST)
- Problem when using VMD Python Library (Fri Dec 25 2009 - 06:03:46 CST)
cyclone_at_team.planetsweep.com
- New Release: Planetsweep Revolutionizes Internet Browsing (Mon Apr 09 2001 - 13:13:23 CDT)
Cyril Bauvais
- Re: 3D projection of vmd window (Thu Nov 24 2016 - 04:08:16 CST)
- 3D projection of vmd window (Thu Nov 03 2016 - 18:18:50 CDT)
Czarny,Ryan
- VMD Crash (Fri Apr 03 2020 - 12:42:08 CDT)
César Dp
- "Unable to create OpenGL window" (Tue Jul 18 2006 - 15:20:55 CDT)
César Filipe Barbosa Ribeiro
- (no subject) (Sun Dec 02 2001 - 13:50:44 CST)
Daan Mevius
- Re: Problems with S-Adenosyl-L-Methionine / SAM Topology & Parameter for MD simulations (Tue Oct 13 2015 - 09:23:50 CDT)
- Problems with S-Adenosyl-L-Methionine / SAM Topology & Parameter for MD simulations (Sun Oct 11 2015 - 06:20:19 CDT)
Daeun Noh
- Re: SASA calculation for sidechains of my peptide residues (Thu Jun 06 2019 - 15:42:13 CDT)
- SASA calculation for sidechains of my peptide residues (Wed Jun 05 2019 - 17:44:20 CDT)
Dafydd Jones
- VMD 1.8.1 MacOSX running very slow on new G4 1 GHz Powerbook (Thu Oct 23 2003 - 07:00:38 CDT)
Dai Ling
- How to install VMD on AIX5 OpenGL server (Tue Jan 20 2004 - 04:52:47 CST)
Daipayan Sarkar
- Re: How to shortening bonds length in a molecule ? (Thu Aug 31 2023 - 03:00:20 CDT)
- Re: Python crash VMD1.9.4 (Tue Apr 18 2023 - 10:25:23 CDT)
- Re: Residence time of ions (Thu Nov 10 2022 - 08:02:17 CST)
- Re: RE: Simple MDFF Tutorial - 1ake does not fit into map (Tue Nov 08 2022 - 15:45:28 CST)
- Re: RE: Simple MDFF Tutorial - 1ake does not fit into map (Tue Nov 08 2022 - 01:19:15 CST)
- VMD error loading dcd files (Wed Oct 18 2017 - 21:01:39 CDT)
Dallas B. Warren
- deleting at vmd console (Thu Feb 15 2007 - 22:23:01 CST)
- HBonds Representation (Tue Oct 10 2006 - 23:04:35 CDT)
- RE: Unexpected End-of-file? (Thu Aug 24 2006 - 17:38:28 CDT)
- RE: What's wrong with my VMD (Thu Oct 13 2005 - 21:02:12 CDT)
- RE: Show a movie from one static structure to another in VMD? (Wed Oct 12 2005 - 19:51:36 CDT)
- RE: How to build a crystal structure from a pdb file ? (Wed Sep 21 2005 - 18:20:02 CDT)
- RE: problem with coloring surface by electrostatic potential (Tue Sep 20 2005 - 20:54:12 CDT)
- RE: small figures (Sun Aug 21 2005 - 18:51:33 CDT)
- RE: What is missing when using VMDSIMPLEGRAPHICS 1? (Fri May 13 2005 - 21:31:43 CDT)
- RE: What is missing when using VMDSIMPLEGRAPHICS 1? (Fri May 13 2005 - 02:07:05 CDT)
- What is missing when using VMDSIMPLEGRAPHICS 1? (Thu May 12 2005 - 23:13:20 CDT)
Dallas Warren
- Re: Pbc box on, default (Wed Feb 03 2021 - 16:51:51 CST)
- Re: How to visualize unusual amino acid in VMD with Cartoon or ribbon representation (Wed Jul 01 2020 - 17:55:56 CDT)
- Re: Windows version, system out of memory (Wed May 20 2020 - 00:29:08 CDT)
- Re: Windows version, system out of memory (Tue May 19 2020 - 18:30:17 CDT)
- Windows version, system out of memory (Mon May 18 2020 - 02:39:32 CDT)
- Re: error with make movie (Mon May 04 2020 - 17:55:59 CDT)
- Re: Installing VMD 1.9.3 on Linux - Missing Console (Tue Dec 17 2019 - 16:50:34 CST)
- Re: Files not written during OptiX ray tracing (Thu Dec 05 2019 - 19:02:31 CST)
- Re: Query on preferred encoder/settings for producing MPEG files (Mon Oct 28 2019 - 19:08:59 CDT)
- Re: Absolute scaling? "Scale to #" does this? (Thu Oct 17 2019 - 04:12:08 CDT)
- Absolute scaling? "Scale to #" does this? (Mon Oct 07 2019 - 15:28:34 CDT)
- Re: New VMD 1.9.4 test versions posted with many new updates/features... (Tue Jul 16 2019 - 17:18:16 CDT)
- Re: New VMD 1.9.4 test versions posted with many new updates/features... (Sun Jul 14 2019 - 20:10:43 CDT)
- Re: how to draw boxes with semi-transparent sides (Sun Jun 02 2019 - 17:57:21 CDT)
- Re: Partial rendering of periodic cells` (Wed May 15 2019 - 18:23:57 CDT)
- Tachyon-OptiX Rendering User Defined Clipping Planes? (Wed May 15 2019 - 18:22:26 CDT)
- Re: RTX-accelerated VMD 1.9.4 test build for 64-bit Linux posted... (Mon Apr 29 2019 - 19:00:35 CDT)
- Re: RTX-accelerated VMD 1.9.4 test build for 64-bit Linux posted... (Mon Apr 29 2019 - 18:59:40 CDT)
- Re: RTX-accelerated VMD 1.9.4 test build for 64-bit Linux posted... (Mon Apr 29 2019 - 18:52:15 CDT)
- Re: Regarding image quality in vmd (Mon Feb 18 2019 - 14:51:11 CST)
- Re: How can I create the water Solvate in vmd (Tue May 15 2018 - 20:23:27 CDT)
- Fwd: Protein backbone representation for non standard residues / molecules (Wed Mar 28 2018 - 22:21:46 CDT)
- Re: Creating VR-movies with tachyon renderer (Wed Mar 07 2018 - 16:04:53 CST)
- Re: Creating VR-movies with tachyon renderer (Wed Mar 07 2018 - 16:10:17 CST)
- Re: Creating VR-movies with tachyon renderer (Tue Mar 06 2018 - 14:23:07 CST)
- Re: Render in spherical equirectangular projection (Tue Nov 07 2017 - 17:16:12 CST)
- Render in spherical equirectangular projection (Mon Oct 30 2017 - 20:08:00 CDT)
- Re: Wrapping molecules in unit box (Sun Oct 29 2017 - 15:26:54 CDT)
- Re: Stuttering in video with TachyonL-Optix (Tue Oct 10 2017 - 17:57:25 CDT)
- Re: Stuttering in video with TachyonL-Optix (Tue Oct 10 2017 - 15:54:40 CDT)
- Re: Stuttering in video with TachyonL-Optix (Mon Oct 09 2017 - 20:53:18 CDT)
- Stuttering in video with TachyonL-Optix (Mon Oct 09 2017 - 20:43:57 CDT)
- Re: Start in VMD (Wed Oct 04 2017 - 16:40:29 CDT)
- Re: Rendering 3D 360 Movies at higher resolution (Wed Oct 04 2017 - 16:35:41 CDT)
- Re: Rendering 3D 360 Movies at higher resolution (Mon Oct 02 2017 - 21:11:33 CDT)
- Re: Rendering 3D 360 Movies at higher resolution (Mon Oct 02 2017 - 21:14:47 CDT)
- Re: Rendering 3D 360 Movies at higher resolution (Mon Oct 02 2017 - 21:19:56 CDT)
- Re: Rendering 3D 360 Movies at higher resolution (Mon Oct 02 2017 - 16:47:59 CDT)
- Re: Rendering 3D 360 Movies at higher resolution (Sun Oct 01 2017 - 06:46:06 CDT)
- Rendering 3D 360 Movies at higher resolution (Wed Sep 27 2017 - 23:01:17 CDT)
- Re: TachyonL-OptiX (Mon Aug 28 2017 - 19:57:09 CDT)
- Re: TachyonL-OptiX (Tue Aug 22 2017 - 21:01:27 CDT)
- Re: TachyonL-OptiX (Mon Aug 21 2017 - 20:59:58 CDT)
- TachyonL-OptiX (Mon Aug 21 2017 - 19:20:00 CDT)
- Re: HOLE-VMD installation (Thu Jul 13 2017 - 20:07:58 CDT)
- Re: Drawing hollow circles (Tue May 23 2017 - 23:25:35 CDT)
- Re: Finding .vmdrc in LINUX(UBUNTU) (Sun Apr 30 2017 - 16:16:30 CDT)
- Re: Fwd: Termination when using QuickSurf, libGL no version info, and CUDA Error in start up (Tue Mar 07 2017 - 19:36:13 CST)
- Re: Fwd: Termination when using QuickSurf, libGL no version info, and CUDA Error in start up (Tue Mar 07 2017 - 19:21:08 CST)
- Re: Fwd: Termination when using QuickSurf, libGL no version info, and CUDA Error in start up (Tue Mar 07 2017 - 19:31:27 CST)
- Re: Fwd: Termination when using QuickSurf, libGL no version info, and CUDA Error in start up (Mon Mar 06 2017 - 22:08:56 CST)
- Re: Fwd: Termination when using QuickSurf, libGL no version info, and CUDA Error in start up (Mon Mar 06 2017 - 21:09:54 CST)
- Re: Fwd: Termination when using QuickSurf, libGL no version info, and CUDA Error in start up (Mon Mar 06 2017 - 20:12:11 CST)
- Re: Fwd: Termination when using QuickSurf, libGL no version info, and CUDA Error in start up (Tue Feb 28 2017 - 19:08:46 CST)
- Fwd: Termination when using QuickSurf, libGL no version info, and CUDA Error in start up (Mon Feb 27 2017 - 18:32:54 CST)
- Re: May I use my own radii? (Thu Mar 17 2005 - 19:00:58 CST)
- Re: install 1.8.3 on RHEL4 (Thu Mar 17 2005 - 16:16:25 CST)
- Re: Catching error info before it shuts down ... (Wed Feb 23 2005 - 17:30:39 CST)
- Re: Catching error info before it shuts down ... (Wed Feb 23 2005 - 16:49:33 CST)
- Re: Catching error info before it shuts down ... (Wed Feb 23 2005 - 16:23:33 CST)
- Re: Catching error info before it shuts down ... (Mon Feb 21 2005 - 16:49:50 CST)
- Re: Catching error info before it shuts down ... (Mon Feb 21 2005 - 00:02:51 CST)
- Re: Catching error info before it shuts down ... (Sun Feb 20 2005 - 16:03:51 CST)
- Catching error info before it shuts down ... (Thu Feb 17 2005 - 23:41:08 CST)
- Re: HOW TO: visualization of electron density maps (Mon Jan 24 2005 - 15:34:41 CST)
- Re: Rotating and translating molecules .. (Wed Jan 19 2005 - 17:04:06 CST)
- Re: Rotating and translating molecules .. (Wed Jan 19 2005 - 15:02:48 CST)
- Rotating and translating molecules .. (Tue Jan 18 2005 - 19:15:56 CST)
- Re: Rendering of screen/display different (Mon Apr 26 2004 - 20:45:57 CDT)
- Re: Rendering of screen/display different (Mon Apr 26 2004 - 20:28:14 CDT)
- Re: Rendering of screen/display different (Sun Apr 25 2004 - 16:11:12 CDT)
- Re: Rendering of screen/display different (Thu Apr 22 2004 - 17:21:36 CDT)
- Re: Rendering of screen/display different (Wed Apr 21 2004 - 16:40:10 CDT)
- Rendering of screen/display different (Wed Apr 21 2004 - 00:36:56 CDT)
- Rendering of screen/display different (Wed Apr 21 2004 - 00:36:12 CDT)
- Re: rotating a representation (Mon Mar 08 2004 - 15:39:53 CST)
- Re: any body else have VMD problems with Linux + ATI FireGL X1-256p + fglrx-glc22-4.3.0-3.7.0 (Wed Feb 11 2004 - 17:14:28 CST)
- Re: New version very slow? (Thu Jan 08 2004 - 20:17:17 CST)
- Re: New version very slow? (Thu Dec 11 2003 - 00:53:38 CST)
- Re: New version very slow? (Wed Dec 10 2003 - 22:21:49 CST)
- New version very slow? (Tue Dec 09 2003 - 19:45:09 CST)
- Setting default viewing window location in XP (Mon Oct 13 2003 - 19:40:48 CDT)
- Re: PLT file format? (Tue Jul 15 2003 - 17:58:30 CDT)
- Re: PLT file format? (Thu Jun 19 2003 - 16:39:43 CDT)
- PLT file format? (Wed Jun 18 2003 - 01:55:31 CDT)
- Re: Support Contours? (Tue Jun 17 2003 - 21:28:26 CDT)
- Support Contours? (Wed Jun 11 2003 - 17:16:09 CDT)
- Re: Molecular dynamics order parameters (Tue May 20 2003 - 16:58:09 CDT)
- Re: Graphics Cards (Mon May 19 2003 - 17:06:30 CDT)
- Graphics Cards (Sun May 18 2003 - 17:55:37 CDT)
- PBC - setting box size (Thu Mar 20 2003 - 20:43:35 CST)
dalpizar_at_fbio.uh.cu
- Re: Fwd: problemas con la opt de los enlaces (Wed Jul 18 2018 - 10:38:52 CDT)
- Fwd: problemas con la opt de los enlaces (Tue Jul 17 2018 - 15:05:07 CDT)
- Opt. Bonded: Angle in multiple rings (Fri Jun 22 2018 - 11:15:59 CDT)
- Error: vecscale: parameters must have data (Fri May 11 2018 - 15:17:11 CDT)
Damian Loska
- VMD, MultiSeq, STAMP (Sun Aug 30 2009 - 11:42:14 CDT)
Damiano Buratto
- Re: Upgrade CUDA5.5 driver and vmd doesn't work anymore (Mon Jan 27 2014 - 04:26:04 CST)
- Upgrade CUDA5.5 driver and vmd doesn't work anymore (Fri Jan 24 2014 - 10:09:36 CST)
Damien Serres
- Change VDW scaling in CPK drawing method (Thu Feb 12 2015 - 11:03:52 CST)
Damien Touraine
- external ??? (Thu Feb 02 2006 - 09:45:11 CST)
Dan Fishelovitch
- vmd 1.8a21 (Sun Apr 16 2006 - 10:02:34 CDT)
Dan Gordon
- Re: tkconsole and intel macs (Tue May 29 2007 - 19:21:03 CDT)
- tkconsole and intel macs (Sun May 27 2007 - 20:32:11 CDT)
Dan J Martingano
- Using Bigdcd with RMSD Trajectory tool in VMD (Mon Aug 30 2010 - 14:33:29 CDT)
Dan Lussier
- Re: converting old LAMMPS ASCII dumps (Tue Aug 24 2010 - 12:59:40 CDT)
- Re: converting old LAMMPS ASCII dumps (Tue Aug 24 2010 - 09:38:11 CDT)
- converting old LAMMPS ASCII dumps (Mon Aug 23 2010 - 19:08:01 CDT)
- producing high quality video on Mac (Wed Feb 17 2010 - 17:51:03 CST)
- Re: getting other variables out of LAMMPS ascii dump files (Thu Jul 16 2009 - 04:46:03 CDT)
- Re: getting other variables out of LAMMPS ascii dump files (Tue Jul 14 2009 - 17:31:57 CDT)
- getting other variables out of LAMMPS ascii dump files (Mon Jul 13 2009 - 13:44:23 CDT)
- constant region selection for animation (Thu Jun 25 2009 - 09:55:00 CDT)
- Re: pbctools on alpha version (Wed Apr 22 2009 - 03:46:23 CDT)
- pbctools on alpha version (Fri Apr 17 2009 - 09:05:06 CDT)
- Re: OS X intel binary problem (Sun Apr 05 2009 - 09:40:26 CDT)
- OS X intel binary problem (Sun Apr 05 2009 - 03:02:20 CDT)
Dan Michael O. HeggÃ¸
- New crystallography plugin (Wed May 09 2012 - 17:33:04 CDT)
- New crystallography plugin (Wed May 09 2012 - 16:31:33 CDT)
Dan Strahs
- compile problem for VMD1.8.6: OpenGLRenderer.C (Sat Mar 08 2008 - 20:17:23 CST)
- Win64 version (Wed Sep 06 2006 - 14:51:10 CDT)
- Re: dots per inch? (Wed Oct 19 2005 - 16:46:02 CDT)
- matrix transforms of volume objects (Thu Oct 13 2005 - 20:18:06 CDT)
- Re: problem with coloring surface by electrostatic potential (Tue Sep 20 2005 - 18:04:15 CDT)
- Re: problem with coloring surface by electrostatic potential (Tue Sep 20 2005 - 16:40:09 CDT)
- problem with coloring surface by electrostatic potential (Tue Sep 20 2005 - 11:13:58 CDT)
- keywords to access surface? (Fri Sep 16 2005 - 19:44:53 CDT)
- Re: CAVE (Wed Sep 07 2005 - 08:59:22 CDT)
- coloring surface by volume (Fri Aug 26 2005 - 20:05:55 CDT)
Dan thomas Major
- viewing MOs (Fri Aug 28 2009 - 09:47:34 CDT)
Dan White
- Fwd: Crystal eyes stereo on un supported Mac G5 GeForce FX5200 (Fri Aug 18 2006 - 09:15:23 CDT)
- Re: stereo enabler (Fri Mar 31 2006 - 03:08:21 CST)
- Re: Stereo on non supported G5 (Fri Mar 31 2006 - 02:12:42 CST)
- Re: stereo on MacG5 with Nvidia GeForce FX 5200 (Wed Mar 29 2006 - 14:15:45 CST)
- stereo on MacG5 (Wed Mar 29 2006 - 12:36:16 CST)
- Re: OSX quad buffered stereo possible on older G5 with GeForce FX5200! (Mon Mar 13 2006 - 08:17:46 CST)
- Re: vmd movie ppmtompeg (Thu Jan 26 2006 - 01:42:09 CST)
- Re: mpeg1 movie output makes 0Kb file - any one know why? (Thu Jan 12 2006 - 10:42:38 CST)
- mpeg1 movie output makes 0Kb file - any one know why? (Thu Jan 12 2006 - 08:13:42 CST)
Dan Willenbring
- volmap masks (Wed Feb 25 2009 - 14:17:32 CST)
Dan Wright
- Re: VMD window transparent in Opensuse 11.1 ATI system (Tue Jan 20 2009 - 15:13:21 CST)
- Re: Batch mode on Mac OS 10.5.3 (Tue Jun 03 2008 - 11:24:22 CDT)
- Re: Installation and running on VMD on Debian Testing System (Wed Oct 03 2007 - 12:05:38 CDT)
- Re: installing MSMS on OS X 10.4.9 (Intel) (Tue May 08 2007 - 16:58:43 CDT)
- Re: Question about RMSD calculator (Tue Dec 12 2006 - 16:20:58 CST)
- Re: VMD 1.8.5 startup (Thu Nov 09 2006 - 07:47:03 CST)
- Re: vmd-1.8.4b10/Linux amd64 only libstdc++.so.6 dependancy (Wed Feb 08 2006 - 22:26:53 CST)
- Re: Tcl scripting (Wed Feb 08 2006 - 12:14:41 CST)
- Re: illegal mouse mode (Fri Nov 11 2005 - 17:00:07 CST)
- Re: IRIX6 build from CVS (Tue Nov 08 2005 - 10:14:45 CST)
- Re: RMSD of identical pdbs not zero (Tue Sep 13 2005 - 09:30:02 CDT)
- Re: weird atomselect problem (Mon Aug 01 2005 - 15:19:03 CDT)
- Re: weird atomselect problem (Mon Aug 01 2005 - 08:56:56 CDT)
- Color bar in VMD (Fri Apr 22 2005 - 16:23:36 CDT)
- Re: Keyboard mapping incorrect for OS X (Thu Feb 17 2005 - 21:48:21 CST)
- Re: multiple alignment tool (Fri Feb 04 2005 - 16:23:32 CST)
Dani
- Re: catdcd error (Wed Mar 16 2016 - 16:50:47 CDT)
- Re: Namd Plot Plugin (Thu Aug 20 2015 - 13:27:57 CDT)
- Re: Namd Plot Plugin (Thu Aug 20 2015 - 13:26:33 CDT)
Dani Süveges
- modelling phosphorylation (Mon Sep 18 2006 - 04:45:55 CDT)
Daniel Adrion
- Question about running script for hydrogen bonding analysis (Sat Oct 29 2022 - 09:04:33 CDT)
Daniel Aguayo
- Re: namd-l: Re: CHARMM parameters for Mn 2+ ion (Fri Mar 25 2011 - 14:45:15 CDT)
- Re: Tachyon Rendering (Tue Oct 27 2009 - 14:14:55 CDT)
- Tachyon Rendering (Tue Oct 27 2009 - 10:27:52 CDT)
- Re: How to generate a monolayer in VMD (Tue Oct 06 2009 - 13:16:43 CDT)
- Re: using VMD 1.8.7 on a Mac (Tue Aug 25 2009 - 12:53:02 CDT)
- Re: Cionize on mac cuda (Mon Aug 17 2009 - 19:28:30 CDT)
- Re: Cionize on mac cuda (Tue Aug 11 2009 - 13:16:04 CDT)
- Re: Cionize on mac cuda (Wed Aug 05 2009 - 20:46:10 CDT)
- Cionize on mac cuda (Wed Aug 05 2009 - 20:29:07 CDT)
- Re: VMD HOLE Result (Tue Jun 02 2009 - 17:03:26 CDT)
- Re: Away from VMD-L/email until July 8th... (Fri Jun 20 2008 - 16:27:34 CDT)
- Re: Electrostatic - PMEpot (Mon Jun 16 2008 - 09:02:08 CDT)
- Electrostatic - PMEpot (Fri Jun 13 2008 - 12:23:22 CDT)
- Re: VMD 1.8.6 GLSL problem (Tue Apr 10 2007 - 10:11:36 CDT)
- Re: VMD 1.8.6 GLSL problem (Tue Apr 10 2007 - 01:21:34 CDT)
- VMD 1.8.6 GLSL problem (Mon Apr 09 2007 - 01:08:04 CDT)
- Re: Locating channel using hole (Tue Mar 06 2007 - 14:28:24 CST)
- Re: Paratool problem (Mon Nov 27 2006 - 21:44:22 CST)
- Re: Paratool problem (Mon Nov 20 2006 - 19:03:17 CST)
- Paratool problem (Wed Nov 15 2006 - 13:29:58 CST)
- Re: protein in membrane (Wed Sep 13 2006 - 21:32:19 CDT)
- Paratool problem (Wed Aug 30 2006 - 18:35:36 CDT)
- Re: Problem with wait (Tue Apr 25 2006 - 14:43:21 CDT)
- Problem with wait (Mon Apr 24 2006 - 20:39:19 CDT)
- Re: Tcl scripting (Tue Feb 07 2006 - 17:34:22 CST)
- Re: dublicated residue name in PDB/PSF (Wed Feb 01 2006 - 12:24:16 CST)
- Re: get values from openDx grid format (Wed Jan 18 2006 - 12:45:07 CST)
- get values from openDx grid format (Mon Jan 16 2006 - 19:25:57 CST)
- Re: get values from openDx grid format (Mon Jan 16 2006 - 19:00:34 CST)
- get values from openDx grid format (Sun Jan 15 2006 - 19:33:45 CST)
Daniel Aiello
- VMD not working on MacOS X 10.6.7 (Thu Jun 23 2011 - 12:26:20 CDT)
Daniel B. Faken
- Python interface (was: Accessing TCL through Python interface) (Fri May 20 2005 - 08:34:00 CDT)
- Accessing TCL through Python interface (Sat May 14 2005 - 15:09:35 CDT)
- 1.8.3 (Fri Jul 30 2004 - 09:36:52 CDT)
Daniel Barsky
- counting selected atoms---selection time series (Wed Aug 31 2005 - 12:57:32 CDT)
- crystallographic symmetry tool (Wed Dec 05 2001 - 19:11:35 CST)
- Re: Prachi Singh's mail (Mon Jun 05 2000 - 16:35:06 CDT)
Daniel Beaman
- Re: Trying to get VMD to run locally while logged into a remote machine (Mon Nov 26 2007 - 20:09:30 CST)
- Re: Trying to get VMD to run locally while logged into a remote machine (Mon Nov 26 2007 - 19:30:32 CST)
- Re: Trying to get VMD to run locally while logged into a remote machine (Mon Nov 26 2007 - 17:27:48 CST)
- Trying to get VMD to run locally while logged into a remote machine (Tue Nov 20 2007 - 16:04:57 CST)
Daniel Brooks
- Re: Importing Surface Mesh into VMD? (Mon Mar 13 2017 - 16:05:15 CDT)
- Importing Surface Mesh into VMD? (Mon Mar 13 2017 - 02:22:18 CDT)
Daniel Farrell
- Re: particular set of xyz coordinates in PDB causes seg fault (Tue Jun 15 2010 - 15:35:50 CDT)
- Re: particular set of xyz coordinates in PDB causes seg fault (Tue Jun 15 2010 - 13:59:50 CDT)
- particular set of xyz coordinates in PDB causes seg fault (Tue Jun 15 2010 - 12:16:58 CDT)
Daniel Fellner
- Re: Re: flipping a .inp file for a water interaction INQUIRY (Fri Aug 16 2024 - 21:45:53 CDT)
- Re: flipping a .inp file for a water interaction INQUIRY (Thu Aug 01 2024 - 20:48:58 CDT)
- Re: FFTK - Dihedral doesn't fit the QM target data (Thu Mar 21 2024 - 18:25:16 CDT)
- Re: FFTK - Dihedral doesn't fit the QM target data (Thu Mar 14 2024 - 03:51:15 CDT)
- Re: When should I use NTER and NNEU as a patch? (Wed Oct 12 2022 - 01:38:40 CDT)
- Re: FFTK baOpt electronic effects (Wed Apr 13 2022 - 21:39:00 CDT)
- FFTK baOpt electronic effects (Wed Apr 13 2022 - 12:33:04 CDT)
- Re: FFTK dihedral scan discontinuities (Fri Apr 08 2022 - 01:29:41 CDT)
- Re: FFTK Charge Optimization Target Data (Thu Apr 07 2022 - 03:12:01 CDT)
- Re: FFTK Charge Optimization Target Data (Mon Apr 04 2022 - 02:04:40 CDT)
- Re: FFTK Charge Optimization Target Data (Fri Apr 01 2022 - 02:52:01 CDT)
- FFTK Charge Optimization Target Data (Wed Mar 30 2022 - 02:13:08 CDT)
- VMD/QMTool generating multiple outputs (Wed Sep 22 2021 - 03:02:06 CDT)
- FFTK dihedral scan discontinuities (Thu Aug 26 2021 - 10:18:17 CDT)
- FFTK: Dihedral scan trans/cis (Sun Mar 21 2021 - 06:28:55 CDT)
- Re: Calculation of residue pair energy values (Sun Feb 14 2021 - 19:23:10 CST)
- Re: fftk and charmmgui vdW parameters (Wed Feb 03 2021 - 17:02:50 CST)
- Re: Re: Unable to fit dihedral to QM target data in FFTK (Mon Feb 01 2021 - 18:45:03 CST)
- Re: Fwd: Naming Atoms in VMD (Tue Jan 19 2021 - 19:47:08 CST)
- Re: Random deletions of molecules (Wed Dec 30 2020 - 19:20:08 CST)
- Re: Windows VMD 1.9.4a Version Failing (Mon Dec 28 2020 - 20:05:45 CST)
- Re: charge opt not converged (Wed Nov 18 2020 - 18:18:04 CST)
- Re: charge opt not converged (Wed Nov 18 2020 - 16:34:30 CST)
- Re: charge opt not converged (Wed Nov 18 2020 - 15:45:39 CST)
- Re: Combining fragments for parameterization (Sat Oct 31 2020 - 03:15:46 CDT)
- Re: Combining fragments for parameterization (Thu Oct 15 2020 - 01:05:34 CDT)
- Re: FFTK: Water Interactions, Steric Clashes (Tue Oct 06 2020 - 22:51:15 CDT)
- Re: Errors at Charge Opt. (Charge-2 step from FFTK Screencast) (Fri Oct 02 2020 - 18:39:32 CDT)
- FFTK Charge Opt Indoles (Sun Sep 27 2020 - 20:15:46 CDT)
- Re: FFTK Gaussian Input Generator - Bug? (Fri Sep 25 2020 - 08:42:57 CDT)
- Re: FFTK Gaussian Input Generator - Bug? (Fri Sep 25 2020 - 00:54:04 CDT)
- Re: FFTK Gaussian Input Generator - Bug? (Thu Sep 24 2020 - 21:22:39 CDT)
- FFTK Gaussian Input Generator - Bug? (Thu Sep 24 2020 - 20:20:36 CDT)
- FFTK Fragment Charge Opt. (Wed Jul 22 2020 - 03:46:59 CDT)
- FFTK Opt Torsions MM Trajectory (Wed Jul 15 2020 - 07:11:20 CDT)
- Re: FFTK sulfur ChargeOpt (Wed Jun 24 2020 - 22:36:42 CDT)
- Re: FFTK sulfur ChargeOpt (Mon Jun 22 2020 - 02:09:39 CDT)
- Re: FFTK sulfur ChargeOpt (Fri Jun 19 2020 - 21:55:53 CDT)
- Re: FFTK sulfur ChargeOpt (Fri Jun 19 2020 - 19:37:01 CDT)
- Re: FFTK sulfur ChargeOpt (Fri Jun 19 2020 - 17:52:54 CDT)
- FFTK sulfur ChargeOpt (Thu Jun 18 2020 - 23:17:42 CDT)
- Re: FFTK: Charge Optimisation partial charges (Wed Jun 10 2020 - 07:01:37 CDT)
- FFTK: Charge Optimisation partial charges (Mon Jun 08 2020 - 23:15:15 CDT)
- Re: How to determine a molecule's conformation in solution (Mon Jun 01 2020 - 21:04:57 CDT)
- Re: How to determine a molecule's conformation in solution (Mon Jun 01 2020 - 11:14:29 CDT)
- Re: FFTK: Opt. Charges Error (Sat May 30 2020 - 20:33:32 CDT)
- FFTK: Opt. Charges Error (Sat May 30 2020 - 02:58:43 CDT)
- Re: FFTK: Charge Optimization (Water Int.) (Sun May 24 2020 - 21:24:40 CDT)
- FFTK: Charge Optimization (Water Int.) (Fri May 22 2020 - 01:24:18 CDT)
- FFTK Characterising Distortions (Thu Apr 23 2020 - 02:32:58 CDT)
Daniel Gaston
- Re: Some VMD questions (Tue Jun 30 2009 - 13:10:14 CDT)
- Re: Secondary Structure Depiction (Tue Apr 21 2009 - 12:01:08 CDT)
- Re: Secondary Structure Depiction (Tue Apr 21 2009 - 12:02:29 CDT)
- Re: Secondary Structure Depiction (Tue Apr 21 2009 - 10:29:03 CDT)
- Secondary Structure Depiction (Tue Apr 21 2009 - 09:25:08 CDT)
- Re: RMSD-gaps (Mon Apr 20 2009 - 18:57:33 CDT)
Daniel Guion
- Re: Issue with patching when running mutator in vmd (Mon Dec 16 2024 - 16:35:57 CST)
- Issue with patching when running mutator in vmd (Fri Dec 13 2024 - 16:19:19 CST)
Daniel Han
- sidechain atomselection (Wed Jan 26 2005 - 18:53:55 CST)
Daniel Holloway
- Re: Tachyon post-render commands under Win-XP (Tue Jun 07 2011 - 05:07:42 CDT)
- Tachyon post-render commands under Win-XP (Mon Jun 06 2011 - 08:50:17 CDT)
Daniel Hornburg
- Orientation an rotation of molecules in a movie (Sat Oct 09 2010 - 07:26:21 CDT)
- AW: VMD 3D movies rendering (Thu Aug 19 2010 - 03:23:43 CDT)
- AW: VMD 3D movies rendering (Wed Aug 18 2010 - 02:17:49 CDT)
- AW: VMD 3D movies rendering (Tue Aug 17 2010 - 10:50:30 CDT)
- AW: VMD 3D movies rendering (Tue Aug 17 2010 - 05:43:35 CDT)
- VMD 3D movies rendering (Mon Aug 16 2010 - 05:07:59 CDT)
Daniel Kennedy
- problems with ADP vanadate (Sun Sep 16 2007 - 11:12:09 CDT)
- residue missed by psfgen (Mon Aug 20 2007 - 12:09:05 CDT)
- Monte Carlo conformational search (Wed Aug 08 2007 - 11:23:54 CDT)
- water sphere? (Tue Jul 17 2007 - 16:40:57 CDT)
Daniel Klose
- ffTK dihedral fitting question and cmap derivation (Wed Oct 02 2013 - 03:24:38 CDT)
- FFTK question regarding dihedral fitting (Fri Jul 26 2013 - 01:29:14 CDT)
- Re: measure fit rotation matrix convention (Tue Feb 26 2013 - 04:43:23 CST)
- measure fit rotation matrix convention (Fri Feb 22 2013 - 10:16:23 CST)
- pbc wrap question (Mon Aug 27 2012 - 03:22:04 CDT)
Daniel LÃ©vesque
- Re: Error when compiling plugins: tcl.h not found (Tue May 14 2013 - 13:51:46 CDT)
- Error when compiling plugins: tcl.h not found (Tue May 14 2013 - 11:37:47 CDT)
Daniel Marin
- Re: Why the restype color of Gly residue in protein is green (polar)? (Tue May 24 2022 - 13:48:54 CDT)
- Why the restype color of Gly residue in protein is green (polar)? (Tue May 24 2022 - 04:28:35 CDT)
Daniel Moore
- Per Residue Interaction Energy from Desmond MD simulations (Fri Jun 12 2015 - 04:54:02 CDT)
Daniel MÃ¶ller
- AW: Display representations with Tk Console (Thu Oct 11 2018 - 14:54:29 CDT)
- AW: Secondary structure representation stays static (Mon Aug 27 2018 - 04:31:42 CDT)
- AW: water molecules amber force field (Thu Apr 12 2018 - 17:46:58 CDT)
- WG: zoom and focus on on a selection (Tue Mar 14 2017 - 15:14:50 CDT)
- AW: issue drawing a PBC box centered on a selection (Fri Apr 01 2016 - 03:10:31 CDT)
- AW: Generating PSF for several proteins in one shot (Sat Aug 08 2015 - 05:39:58 CDT)
- AW: IR Spectroscopy plugin questions (Thu Jun 04 2015 - 13:51:07 CDT)
- AW: IR Spectroscopy plugin questions (Thu Jun 04 2015 - 12:57:00 CDT)
- AW: IR Spectroscopy plugin questions (Thu Jun 04 2015 - 05:35:50 CDT)
- AW: How to create an aggregation of molecules with VMD? (Tue May 05 2015 - 02:13:30 CDT)
- AW: vmd-I: Fatal Error: Unable to Open CHARMM Parameter File (Tue Feb 03 2015 - 04:02:56 CST)
- AW: The quality of movie made by VMD (Mon Jan 19 2015 - 07:18:15 CST)
Daniel Möller
- AW: A fill for "bodies" build out of surfacs (Mon May 07 2018 - 16:31:37 CDT)
- A fill for "bodies" build out of surfacs (Mon May 07 2018 - 05:12:40 CDT)
- coloring method User for graphics like tubes? (Mon Apr 30 2018 - 04:39:25 CDT)
- AW: Isosurface Render - No Color? (Tue Jun 21 2016 - 07:45:00 CDT)
- AW: Residue numbers in outfiles PDB/GRO (Thu Mar 31 2016 - 13:31:36 CDT)
- AW: question about reading more volumes via atomselect or removing of them (Thu Jan 14 2016 - 05:37:52 CST)
- question about reading more volumes via atomselect or removing of them (Wed Jan 13 2016 - 08:33:13 CST)
- Possible memory leak with adding and deleting molecules frequently (Fri Nov 27 2015 - 04:33:06 CST)
- AW: Sodium within distance (Tue Jul 07 2015 - 03:47:08 CDT)
- AW: namd2.exe has stopped working - NAMDEnergy (Tue Feb 03 2015 - 06:21:10 CST)
- questions about "new" posssible features (Mon Feb 02 2015 - 05:29:17 CST)
- AW: VMD TkConsole command (Thu Jan 08 2015 - 14:14:11 CST)
- AW: Any interest in VMD supporting mirror reflections w/ ray tracing? (Fri Nov 28 2014 - 06:53:01 CST)
Daniel Russel
- Re: Loading molfileplugins without modifying vmd install (Tue Feb 04 2014 - 10:13:28 CST)
- Loading molfileplugins without modifying vmd install (Mon Feb 03 2014 - 16:04:55 CST)
- Crash with molfile plugin when doing "Load data into molecule" (Thu Jan 23 2014 - 23:23:06 CST)
Daniel Schwaab
- Self Assembled Monolayer (Tue May 31 2005 - 09:48:06 CDT)
Daniel STERBULEAC
- Calculation of residue pair energy values (Sun Feb 14 2021 - 16:46:12 CST)
- Glycoprotein simulation answer (Fri Nov 20 2020 - 23:51:08 CST)
- Re: VMD Align command (Mon Oct 19 2020 - 17:42:41 CDT)
- VMD Align command (Mon Oct 19 2020 - 15:33:46 CDT)
Daniel Strahs
- alter crosshair appearance (Thu May 24 2018 - 12:48:30 CDT)
- identifying the specific coordinates of a voxel (Thu Aug 03 2017 - 12:30:30 CDT)
- Re: rlwrap: No match. (Fri Aug 01 2014 - 16:16:13 CDT)
- Re: rlwrap: No match. (Fri Aug 01 2014 - 15:34:01 CDT)
- Re: keywords to access surface? (Sun Sep 18 2005 - 18:39:00 CDT)
Daniel Svozil
- mmView - a tool for mmCIF exploration (Tue Dec 06 2011 - 05:38:03 CST)
Daniel Terry
- Boolean operators and the new atomsel type (Wed Feb 10 2010 - 12:30:21 CST)
Daniel.Mulvihill
- RE: Problems uploading new molecule (Wed Sep 11 2013 - 10:26:55 CDT)
- RE: Problems uploading new molecule (Wed Sep 11 2013 - 05:11:56 CDT)
- Problems uploading new molecule (Tue Sep 10 2013 - 10:22:20 CDT)
Daniela Rivas
- Re: How to extract data from log file (Mon Apr 03 2017 - 08:30:17 CDT)
- Re: Center of Mass RMSD in a trajectory (Mon Apr 03 2017 - 03:59:30 CDT)
- Center of Mass RMSD in a trajectory (Mon Apr 03 2017 - 02:58:54 CDT)
- Re: Problem with N-glycosylation (Wed Mar 08 2017 - 18:14:18 CST)
- Problem with N-glycosylation (Tue Mar 07 2017 - 20:40:19 CST)
- "Jump" in Energy and Volume graphs of my MD (Wed Mar 30 2016 - 15:01:39 CDT)
- catdcd error (Wed Mar 02 2016 - 12:11:07 CST)
- Plot waters vs time in a trajectory (Mon Oct 19 2015 - 15:05:24 CDT)
- Namd Plot Plugin (Thu Aug 20 2015 - 08:54:58 CDT)
- Re: Load trajectory file in .sim format (Tue Jun 16 2015 - 09:56:54 CDT)
- Re: Load trajectory file in .sim format (Tue Jun 16 2015 - 09:46:19 CDT)
- Load trajectory file in .sim format (Tue Jun 16 2015 - 09:02:13 CDT)
Danielle Chandler
- Announcement: Hands-On Workshop On Computational Biophysics (Wed Jan 07 2015 - 12:30:34 CST)
- Announcement: Hands-On Workshop On Computational Biophysics (Wed Dec 17 2014 - 10:24:49 CST)
- Announcement: Hands-On Workshop On Computational Biophysics (Tue Oct 07 2014 - 11:30:00 CDT)
- Announcement: Hands-On Workshop On Computational Biophysics (Wed Aug 27 2014 - 13:04:56 CDT)
- Announcement: Hands-On Workshop On Computational Biophysics (Tue Aug 12 2014 - 09:30:56 CDT)
- Re: lipid tail selection (Thu Oct 09 2008 - 14:30:37 CDT)
DanLiu
- add/remove bonds between different types of atoms (Mon Jan 05 2015 - 05:20:07 CST)
- Re: Update Plugin (Tue Feb 25 2014 - 07:33:29 CST)
- Re: Update Plugin (Tue Feb 25 2014 - 06:35:34 CST)
- Re: Update Plugin (Tue Feb 25 2014 - 06:42:05 CST)
- Update Plugin (Tue Feb 25 2014 - 05:18:07 CST)
- Re: line (Wed Nov 20 2013 - 11:13:17 CST)
- line (Tue Nov 19 2013 - 02:01:37 CST)
- Re: Mouse-Add/Remove Bonds (Mon Apr 15 2013 - 11:32:58 CDT)
- Mouse-Add/Remove Bonds (Mon Apr 15 2013 - 07:04:24 CDT)
- Re: draw structure with xyz coordinates (Tue Feb 12 2013 - 02:09:37 CST)
- draw structure with xyz coordinates (Mon Feb 11 2013 - 09:46:48 CST)
- VMD on Mac OS X, converter problem (Mon Oct 08 2012 - 02:44:56 CDT)
Danny Xu
- Automate QwikMD? (Tue Dec 20 2016 - 15:23:28 CST)
Danu Fajar
- Re: Error Running NAMD (Thu Mar 02 2017 - 08:54:48 CST)
- Re: Error Running NAMD (Sun Feb 26 2017 - 10:50:23 CST)
- Re: Error Running NAMD (Sat Feb 11 2017 - 12:03:17 CST)
- Re: Error Running NAMD (Fri Feb 10 2017 - 13:31:38 CST)
- Error Running NAMD (Thu Feb 09 2017 - 22:53:46 CST)
Daou, Joseph A
- RE: Mutate Residue Extension (Tue Mar 04 2014 - 19:53:37 CST)
- Mutate Residue Extension (Tue Mar 04 2014 - 14:25:38 CST)
Darre Castell, Leonardo
- RE: charge re-optimization (Fri Jul 19 2013 - 10:13:47 CDT)
- charge re-optimization (Fri Jul 19 2013 - 08:10:47 CDT)
- dihedrals in ffTK (Thu Jul 04 2013 - 06:56:16 CDT)
- RE: ureybradley and impropers in ffTK (Sat Jun 29 2013 - 08:01:38 CDT)
- ureybradley and impropers in ffTK (Fri Jun 28 2013 - 11:52:21 CDT)
Darrell Kuykendall
- Re: .obj Oddity (Thu Jul 24 2014 - 13:57:16 CDT)
- Re: .obj Oddity (Thu Jul 24 2014 - 10:00:20 CDT)
- .obj Oddity (Wed Jul 23 2014 - 15:30:19 CDT)
- Re: VMD Quantum Chemistry Visualization (Mon Jul 21 2014 - 10:58:50 CDT)
- Re: VMD Quantum Chemistry Visualization (Mon Jul 21 2014 - 10:46:55 CDT)
- VMD Quantum Chemistry Visualization (Sat Jul 19 2014 - 12:38:28 CDT)
- Re: Paratool Problem (Thu Sep 21 2006 - 10:55:20 CDT)
- Paratool Problem (Thu Sep 21 2006 - 13:50:01 CDT)
Darren Li
- Q=9B=9E=E5=A4=8D=EF=BC=9A__by_using_Ax?= el's HOOMD plugin, convert pdb to xml and missing bond information (Mon Sep 26 2016 - 09:08:56 CDT)
- Q=BD=AC=E5=8F=91=EF=BC=9A__by_using_Ax?= el's HOOMD plugin, convert pdb to xml and missing bond information (Mon Sep 26 2016 - 01:45:01 CDT)
- by using Axel's HOOMD plugin, convert pdb to xml and missing bond information (Sun Sep 25 2016 - 22:40:02 CDT)
Darui Xu
- ribbon representation (Fri Oct 17 2003 - 11:28:31 CDT)
- vrml (Wed Sep 24 2003 - 11:19:37 CDT)
Das, Debasish
- how do I show spheres that are rotating around their centre (Wed May 01 2013 - 17:33:38 CDT)
Dave Arias (NelsonDa)
- namd2 unable to find bond. (Wed Mar 07 2012 - 14:58:39 CST)
- Problems with PSFGEN (Mon Feb 27 2012 - 13:18:07 CST)
Dave Humbird
- OpenGLExtensions.C compile problem (Wed Sep 10 2003 - 18:52:59 CDT)
Dave Pugmire
- Re: VMD and chromium (Mon Nov 03 2003 - 16:39:55 CST)
- Re: VMD and chromium (Fri Oct 31 2003 - 17:56:43 CST)
- VMD and chromium (Fri Oct 31 2003 - 14:00:56 CST)
Dave Schall
- Re: topotools question regarding ordering of bonds, angles, etc in output. (Fri Oct 03 2014 - 13:25:27 CDT)
- Re: topotools question regarding ordering of bonds, angles, etc in output. (Fri Oct 03 2014 - 12:51:22 CDT)
- topotools question regarding ordering of bonds, angles, etc in output. (Fri Oct 03 2014 - 11:08:27 CDT)
- Re: visualizing dynamic charge (Tue May 14 2013 - 11:47:07 CDT)
- visualizing dynamic charge (Mon May 13 2013 - 15:20:24 CDT)
- Dynamic bonds for amorphous silicon carbide? (Thu Feb 14 2013 - 13:52:07 CST)
- Re: 3d viz? (Mon Aug 29 2011 - 14:45:17 CDT)
- Re: 3d viz? (Mon Aug 29 2011 - 13:53:05 CDT)
- 3d viz? (Mon Aug 29 2011 - 09:28:34 CDT)
David A. Horita
- RE: Large positive non-integer charge (Thu May 12 2011 - 16:51:39 CDT)
- keeping original coordinates in trajectory (Wed Mar 09 2005 - 14:27:28 CST)
- RE: amd64/nvidiaFX1100/linux crash (Tue Oct 05 2004 - 17:19:49 CDT)
- amd64/nvidiaFX1100/linux crash (Tue Oct 05 2004 - 16:00:07 CDT)
David A. Case
- Re: time correlation function (Thu Mar 27 2008 - 16:35:11 CDT)
- Re: how to wrap trajectory into truncated octahedral box (Mon Jul 30 2007 - 11:30:15 CDT)
- Re: IED, output from nmode (amber) (Tue Sep 12 2006 - 10:18:35 CDT)
- Re: incompatibility between VMD & NAMD for reading Amber crd files (Wed Jun 23 2004 - 12:39:42 CDT)
David Alejandro RincÃ³n Daza
- Re: Fwd: Naming Atoms in VMD (Thu Jan 21 2021 - 20:22:56 CST)
- Re: Fwd: Naming Atoms in VMD (Thu Jan 21 2021 - 15:57:41 CST)
- Fwd: Naming Atoms in VMD (Tue Jan 19 2021 - 16:27:44 CST)
- Re: How to measure several angles? (Tue Dec 22 2020 - 11:00:39 CST)
- How to measure several angles? (Mon Dec 07 2020 - 15:55:19 CST)
- Re: PSFGEN (Wed Jun 03 2020 - 16:43:26 CDT)
- Re: PSFGEN (Wed Jun 03 2020 - 15:10:47 CDT)
- PSFGEN (Tue Jun 02 2020 - 16:51:19 CDT)
David Brandon
- Workshop on Very Large System Simulation, Urbana, IL, August 11-15, 2014 (Sat May 17 2014 - 18:26:44 CDT)
- Workshop on GPU Programming for Molecular Modeling, in Urbana, Illinois, July 22-24, 2014 (Fri Apr 18 2014 - 16:42:16 CDT)
- "Hands-on" Workshop on Computational Biophysics at Lake Tahoe, August 4-8, 2014 (Tue Apr 01 2014 - 16:23:08 CDT)
- Computational Biophysics Workshop using NAMD and VMD, November 18-22, 2013, Urbana, Illinois, USA (Fri Aug 23 2013 - 14:15:11 CDT)
- Workshop on GPU Programming for Molecular Modeling, August 2-4, 2013, in Urbana, Illinois (Wed Jun 12 2013 - 11:03:08 CDT)
- 'Hands-on' Workshop on Computational Biophysics using VMD, NAMD, and ProDy, June 10-14, 2013 in Pittsburgh, PA (Fri Mar 08 2013 - 12:22:27 CST)
- 'Hands-On' Workshop on Computational Biophysics using VMD and NAMD, October 22-26, 2012 in Urbana, Illinois (Mon Jul 09 2012 - 14:32:25 CDT)
- 'Hands-On' Workshop on Computational Biophysics using VMD and NAMD, February 11-15, 2012 in Urbana, Illinois (Thu Nov 17 2011 - 13:53:59 CST)
- 'Hands-On' Workshop on Computational Biophysics using VMD and NAMD, October 17-21, 2011, Bremen, Germany (Fri Jul 29 2011 - 14:15:06 CDT)
- "Hands-On" Workshop on Computational Biophysics, March 21-25, 2011, Atlanta, GA, USA (Tue Dec 21 2010 - 14:38:16 CST)
- "Hands-On" Workshop on Computational Biophysics (Tue Mar 08 2005 - 11:54:35 CST)
David Carrasco de Busturia
- Re: NewCartoon or NewRibbons Secondary Structure methods don't work with latest updated Mesa 22.2.3 (Wed Jan 25 2023 - 02:10:51 CST)
- NewCartoon or NewRibbons Secondary Structure methods don't work with latest updated Mesa 22.2.3 (Sat Nov 19 2022 - 05:48:51 CST)
- Angle Cutoff variable for Hydrogen Bonds (Thu Aug 18 2022 - 05:41:30 CDT)
David Chalmers
- Graphics cards (Sun Sep 10 2006 - 23:11:58 CDT)
- NewCartoon and mol2 files (Wed May 31 2006 - 06:11:33 CDT)
- Playing part of a trajectory using TCL (Tue May 02 2006 - 05:30:37 CDT)
- Reading in unit cell (Mon Nov 17 2003 - 17:45:13 CST)
- NAMD constant pressure/temp advice (Mon Sep 01 2003 - 03:06:35 CDT)
- Molecular dynamics order parameters (Tue May 20 2003 - 06:47:18 CDT)
- Another feature request for vmd 1.8 (Mon Oct 28 2002 - 20:02:15 CST)
- Using VMD to edit dynamics output (Sun Oct 01 2000 - 22:47:14 CDT)
David Cohen-Tanugi
- modeling rGO without ReaxFF (Fri Feb 15 2013 - 08:53:15 CST)
- Variable number of steps in run command? (Tue Jan 15 2013 - 10:30:55 CST)
- Spatial (angular) distribution function (Mon Feb 13 2012 - 13:38:11 CST)
- Script for Angular Distribution Function? (Tue Dec 06 2011 - 09:45:36 CST)
- Rendering long and high-quality movies from VMD (Sun Dec 04 2011 - 21:35:40 CST)
David E. Heppner
- Re: TP2 Phosphotyrosine Patch Issue (Wed May 04 2016 - 05:02:00 CDT)
- TP2 Phosphotyrosine Patch Issue (Tue May 03 2016 - 15:29:22 CDT)
David E. Jones
- Wavefront obj output (Wed Mar 12 1997 - 13:40:03 CST)
- Re: linux graphics adapters? (Thu Jul 13 2000 - 14:43:06 CDT)
David F. Green
- Re: vmd psfgen problem with CHARMM (Thu Jul 15 2004 - 15:29:50 CDT)
David Fischermeier
- Re: FFTK plugin: domain error: argument not in valid range (Sat Dec 09 2017 - 05:32:50 CST)
- FFTK plugin: domain error: argument not in valid range (Fri Dec 08 2017 - 06:14:49 CST)
David Gae
- Moment of inertia script (Fri Mar 26 2021 - 15:11:54 CDT)
- Re: Problem reading mdcrd file (Sat Mar 03 2018 - 14:03:09 CST)
David Guertin
- Re: Installation problem with VMD, Multiseq, and BLAST (Thu Feb 03 2011 - 16:00:11 CST)
- Re: Installation problem with VMD, Multiseq, and BLAST (Tue Feb 01 2011 - 12:50:04 CST)
- Installation problem with VMD, Multiseq, and BLAST (Tue Feb 01 2011 - 10:49:24 CST)
- Installation problem with VMD, Multiseq, and BLAST (Tue Feb 01 2011 - 10:15:48 CST)
David Hardy
- Re: VMD. PSF and lone pairs (Thu Feb 11 2021 - 08:49:53 CST)
- Fwd: Klaus Schulten Memorial Symposium, registration and accommodation (Thu Oct 05 2017 - 15:29:08 CDT)
- Re: 780Ti and NAMD2 (Wed Aug 30 2017 - 10:21:40 CDT)
- Re: setting up the grid for periodic coulomb volmap calc (Mon Feb 25 2013 - 15:21:52 CST)
- Re: Question about Drude polarizable model (Tue Jul 24 2012 - 12:19:41 CDT)
David Hoover
- surface rendering across X11 windows (Thu Jul 29 2010 - 16:15:48 CDT)
David Horita
- extracting distances (Wed Dec 09 1998 - 17:00:54 CST)
David Huggins
- Running the ParseFEP Plugin from the Command Line (Thu Sep 26 2013 - 11:14:59 CDT)
- Extracting Entropies and Enthalpies With The ParseFEP Plugin Using SOS or BAR (Fri Jan 25 2013 - 07:41:58 CST)
- Re: Installing VMD 1.8.7 on i686/SL5 (Wed Mar 02 2011 - 09:41:34 CST)
- Installing VMD 1.8.7 on i686/SL5 (Wed Mar 02 2011 - 07:38:14 CST)
- Save Atom Selection to DCD (Wed Dec 15 2010 - 13:46:16 CST)
- Problem With No Atoms In Selection (Tue Nov 16 2010 - 14:35:20 CST)
- DCD write/save with a python script (Fri Nov 05 2010 - 14:58:18 CDT)
- Re: Interaction Energy Using Python (Wed Oct 13 2010 - 08:48:12 CDT)
- Loading DCD Frames in Python (Sat Oct 02 2010 - 05:16:05 CDT)
- Interaction Energy Using Python (Wed Sep 29 2010 - 11:04:25 CDT)
David Joiner
- CAVE and Flystick control (Wed May 04 2011 - 14:52:34 CDT)
- Re: Compiling on Windows (Wed Mar 30 2011 - 10:04:46 CDT)
- Re: Compiling on Windows (Wed Mar 23 2011 - 11:14:26 CDT)
- Re: Compiling on Windows (Wed Feb 23 2011 - 20:30:48 CST)
- Re: Compiling on Windows (Wed Feb 23 2011 - 10:20:35 CST)
- Re: Compiling on Windows (Tue Feb 22 2011 - 22:06:24 CST)
- Re: Compiling on Windows (Mon Feb 21 2011 - 21:42:48 CST)
- Re: Compiling on Windows (Mon Feb 21 2011 - 21:09:09 CST)
- Re: Compiling on Windows (Sat Feb 19 2011 - 00:07:25 CST)
- Re: Compiling on Windows (Fri Feb 18 2011 - 22:10:37 CST)
- Re: Compiling on Windows (Fri Feb 18 2011 - 15:29:45 CST)
- Re: Compiling on Windows (Fri Feb 18 2011 - 12:17:38 CST)
- Re: Compiling on Windows (Thu Feb 17 2011 - 19:57:13 CST)
- Compiling on Windows (Thu Feb 17 2011 - 14:12:44 CST)
David Kastner
- Re: Quicksurf crashes VMD on newest Mac version (Mon May 10 2021 - 14:58:23 CDT)
- Quicksurf crashes VMD on newest Mac version (Thu May 06 2021 - 23:29:03 CDT)
- Re: Error when loading log files into ffTK Torsion Explorer (Tue Oct 11 2016 - 22:42:49 CDT)
- Error when loading log files into ffTK Torsion Explorer (Mon Oct 10 2016 - 22:52:59 CDT)
David Kingsbury
- Re: Coloring by BETA not updating per frame (Sun Jul 24 2005 - 23:39:25 CDT)
- Re: Coloring by BETA not updating per frame (Sun Jul 24 2005 - 20:45:47 CDT)
- Coloring by BETA not updating per frame (Sat Jul 23 2005 - 11:16:09 CDT)
David L. Azevedo
- Problems with PSFGEN in Simulation of Water Permeation through nanotubes (Fri Sep 24 2004 - 08:52:13 CDT)
David Li
- Re: about vmd solvation plugin (Wed Jun 09 2010 - 05:33:10 CDT)
- about vmd solvation plugin (Sat Jun 05 2010 - 18:31:36 CDT)
david MARTROU
- script to draw lines between labelled atoms (Wed Nov 27 2013 - 07:30:07 CST)
- script to draw lines between labelled atoms (Wed Nov 27 2013 - 05:26:21 CST)
David Minh
- Text-mode VMD (Wed Aug 29 2012 - 13:17:18 CDT)
David Muramatsu
- problems with tachyon (Fri Sep 12 2014 - 04:46:39 CDT)
David Nicholson
- Showing TkConsole on VMD Startup (Fri Feb 07 2020 - 12:44:08 CST)
David Norris
- Re: POV render fails 2nd time (Fri May 26 2000 - 15:15:51 CDT)
- Re: More than 99999 atoms? (Fri May 26 2000 - 09:51:19 CDT)
David Poger
- Creating AVI movies (Mon May 10 2010 - 07:28:24 CDT)
- RE: VMD on MacOSX 10.6 Snow Leopard: fast (Mon Sep 07 2009 - 04:01:48 CDT)
- Re: How to reduce memory usage of a script? (Tue Aug 05 2008 - 02:18:05 CDT)
- Re: How to reduce memory usage of a script? (Tue Aug 05 2008 - 00:24:10 CDT)
- How to reduce memory usage of a script? (Mon Aug 04 2008 - 20:31:10 CDT)
- Re: Problem to find the number of frames of a trajectory (Mon Jul 21 2008 - 23:58:48 CDT)
- Problem to find the number of frames of a trajectory (Mon Jul 21 2008 - 20:19:01 CDT)
- Normal mode analysis (Tue Apr 19 2005 - 08:02:57 CDT)
David Schall
- Dynamic bonds and H2 molecules. (Tue Nov 13 2007 - 11:17:30 CST)
- dynamic bonds question?? (Thu Sep 09 2004 - 16:20:47 CDT)
David Slochower
- Re: Mapping Gaussian electrostatic potential to electron density with cube files (Fri Nov 22 2013 - 17:46:21 CST)
- Mapping Gaussian electrostatic potential to electron density with cube files (Fri Nov 22 2013 - 12:56:35 CST)
David Smith
- VMD-L Mailing List: Velocity autocorrelation and spatial distribution functions (Sun Mar 10 2013 - 14:33:17 CDT)
David Stevens
- Adding a hydrogen through the command line and Molefacture (Thu May 24 2018 - 11:58:39 CDT)
David SÃ¡ez
- FFTK: What is the correct charge calculation setup for carbonyl compounds (Wed Feb 19 2020 - 10:06:54 CST)
- Re: Gaussian16 support issue of ffTK (Wed Feb 05 2020 - 11:45:41 CST)
- Re: Gaussian16 support issue of ffTK (Wed Feb 05 2020 - 04:07:17 CST)
- Re: FFTK dihedral parametrization (Wed Jan 29 2020 - 08:58:11 CST)
- Re: FFTK dihedral parametrization (Wed Jan 29 2020 - 07:57:40 CST)
- FFTK dihedral parametrization (Fri Jan 24 2020 - 23:07:00 CST)
David Tanner
- Re: Linking to molfile_plugin libraries (Fri May 29 2009 - 13:30:24 CDT)
- Linking to molfile_plugin libraries (Fri May 29 2009 - 13:02:59 CDT)
- Re: Linking to molfile_plugin libraries (Fri May 29 2009 - 13:18:28 CDT)
- Re: Adding two separate pdb files: Lipid Bilayer's with Protein's (Tue May 19 2009 - 11:00:30 CDT)
- Re: Manipulating dcd using script in VMD (Tue Apr 28 2009 - 08:07:24 CDT)
- representation ColorID in Tcl (Wed Nov 19 2008 - 11:25:42 CST)
- Re: pick atom id script (Fri Jul 11 2008 - 09:32:53 CDT)
David Wedner
- a script for angular distribution (Wed Jan 26 2011 - 11:41:51 CST)
- a script for angular distribution (Wed Jan 26 2011 - 10:44:34 CST)
- radial distribution function from the center of mass (Thu Nov 18 2010 - 19:41:56 CST)
- does vmd allow change in volume (Thu Nov 18 2010 - 12:57:00 CST)
- Re: How to Measure Radius of gyration (Wed Nov 17 2010 - 18:40:22 CST)
- Re: How to Measure Radius of gyration (Tue Nov 16 2010 - 13:24:05 CST)
- Measure Radius of gyration (Mon Nov 15 2010 - 12:31:15 CST)
Davide Marchi
- Re: cannot visualize GROMACS trajectories in VMD 1.9.4 on MacOS Big Sur (Tue Mar 16 2021 - 13:33:02 CDT)
- cannot visualize GROMACS trajectories in VMD 1.9.4 on MacOS Big Sur (Tue Mar 16 2021 - 05:48:35 CDT)
Davide Mercadante
- Re: Extracting velocity information from .gro or .trr files (Fri Jan 29 2016 - 03:48:55 CST)
- Extracting velocity information from .gro or .trr files (Thu Jan 28 2016 - 10:30:47 CST)
- Re: BUG REPORT: Malfunctioning of VMD with Yosemite? (Thu Sep 04 2014 - 17:32:21 CDT)
- Re: BUG REPORT: Malfunctioning of VMD with Yosemite? (Thu Sep 04 2014 - 07:08:57 CDT)
- Possible malfunctioning of VMD with Yosemite? (Wed Sep 03 2014 - 14:37:39 CDT)
- Re: draw a time bar for a trajectory (Tue Sep 24 2013 - 01:28:58 CDT)
- draw a time bar for a trajectory (Mon Sep 23 2013 - 09:53:24 CDT)
- Re: Fwd: APBS on each frame (Thu Aug 08 2013 - 16:08:12 CDT)
- Re: Spring script not working (Mon Feb 18 2013 - 09:17:25 CST)
- Spring script not working (Mon Feb 18 2013 - 07:26:13 CST)
Davide Provasi
- Re: Visualize a SMILES string (Tue Apr 29 2014 - 11:56:16 CDT)
- Re: movie out of principal component analysis (Mon Nov 21 2011 - 12:37:44 CST)
- Re: How can I draw secondary structures if I only have the carbon alpha coordinates (Thu Aug 18 2011 - 13:00:15 CDT)
- Re: xy diagonal (Wed Jun 08 2011 - 13:23:40 CDT)
- desmond trajectory plugin (Mon May 02 2011 - 10:40:30 CDT)
davide\.ruffoni
- error with top2psf (Wed Apr 21 2004 - 06:04:51 CDT)
- top2psf (Mon Apr 19 2004 - 09:29:55 CDT)
davidiniming .
- VMD download page down (Mon Nov 11 2019 - 00:24:16 CST)
Davit Hakobyan
- Re: Not all frames loaded (Tue Mar 01 2016 - 23:39:41 CST)
- Re: Not all frames loaded (Tue Mar 01 2016 - 14:11:45 CST)
- Re: Not all frames loaded (Tue Mar 01 2016 - 04:37:49 CST)
- Not all frames loaded (Mon Feb 29 2016 - 13:28:03 CST)
- Re: Include HETATM into *.psf file (Thu May 06 2004 - 01:05:11 CDT)
- Include HETATM into *.psf file (Mon May 03 2004 - 14:04:32 CDT)
Dawid das
- Add specific h-bonds (Thu Aug 12 2021 - 08:59:35 CDT)
- Minimum distance between atoms within representation (Fri May 05 2017 - 12:22:07 CDT)
- Re: Close contacts upon solvation of XYZ file. (Fri Nov 25 2016 - 01:52:10 CST)
- Close contacts upon solvation of XYZ file. (Thu Nov 24 2016 - 10:30:50 CST)
- Problem with FFTK in VMD 1.9.2 (Thu Jan 22 2015 - 07:41:31 CST)
- Why does dipole moment depends so strongly on constraints? (Tue Jan 13 2015 - 08:57:53 CST)
- Modify bond label. (Mon Sep 15 2014 - 10:01:01 CDT)
- Making trajectory movie last longer. (Wed Sep 03 2014 - 08:33:37 CDT)
- Different colouring of the same molecule. (Wed Aug 27 2014 - 13:37:20 CDT)
- How does saltbr calculate distance? (Sat Aug 23 2014 - 13:55:48 CDT)
- Writing new coordinates to file. (Mon Mar 03 2014 - 15:25:14 CST)
- RMSD for non-pdb file. (Tue Nov 26 2013 - 08:07:48 CST)
- Re: Making a trajectory movie from frames. (Tue Sep 24 2013 - 11:04:38 CDT)
- Increasing number of digits (Tue Sep 03 2013 - 09:31:00 CDT)
Dawn
- porcupine plots for PC1 (Sun Dec 06 2009 - 13:29:19 CST)
- time-averaged RMSD per residue (Fri Jul 24 2009 - 08:06:08 CDT)
- the scripting interface (Sun Mar 08 2009 - 10:00:19 CDT)
- correlation (Sun Mar 08 2009 - 03:05:49 CDT)
Dayong He
- The pdb format of vmd (Thu Jan 22 1998 - 11:01:58 CST)
dbg
- VMD installation (Fri Apr 13 2007 - 01:09:54 CDT)
- compile a plugin source code (Fri Apr 13 2007 - 06:29:59 CDT)
DCM CA
- Tracing distances among atoms in a MD simulation (Wed Jun 08 2011 - 20:57:17 CDT)
de Waal, Parker
- Water visualization (Wed Apr 30 2014 - 20:46:31 CDT)
De Winter Hans
- OS X Connection between VMD and AutoIMD (Thu Feb 01 2018 - 03:17:27 CST)
Dean Appling
- error loading pdb files (Tue Jan 24 2006 - 08:59:08 CST)
Dean Johnson
- Re: RMS fits (Fri Oct 18 2002 - 23:04:11 CDT)
Deanna Fleming
- Replica watch is a perfect gift (Thu Apr 17 2008 - 05:25:56 CDT)
Debajeet Ghosh
- PME boolean (Fri Aug 14 2020 - 02:14:30 CDT)
Debashis Kundu
- Error in NAMD energy plugin of VMD (Fri May 15 2015 - 08:40:45 CDT)
Debasis Sengupta
- different number of atoms in each frame of the trajectory file (Fri Jul 29 2011 - 16:58:34 CDT)
- Bond between two hydrogen atoms (Tue Jun 28 2011 - 12:23:05 CDT)
- Re: setting different bond length for different atom pair (Thu Apr 14 2011 - 12:07:56 CDT)
- setting different bond length for different atom pair (Fri Feb 11 2011 - 12:01:44 CST)
Debasish Mandal
- Recognizing Chlorine atoms in VMD (Tue Feb 03 2015 - 13:56:20 CST)
Debostuti Ghoshdastidar
- Re: Unable to reload a saved state in VMD 1.9.3 (Fri May 06 2022 - 01:18:10 CDT)
- Re: Unable to reload a saved state in VMD 1.9.3 (Mon May 02 2022 - 13:26:46 CDT)
- Unable to reload a saved state in VMD 1.9.3 (Mon May 02 2022 - 07:17:12 CDT)
- Re: Graphics card requirement for VMD (Tue Mar 13 2018 - 09:55:26 CDT)
- Graphics card requirement for VMD (Tue Mar 13 2018 - 07:05:32 CDT)
- Graphics Requirement for VMD (Tue Mar 13 2018 - 06:29:47 CDT)
- Choosing an appropriate isovalue for comparing different systems (Sun Jul 12 2015 - 10:37:35 CDT)
- Re: Visualizing two different data sets in the isosurface mode (Sat Oct 11 2014 - 00:31:44 CDT)
- Visualizing two different data sets in the isosurface mode (Thu Oct 09 2014 - 02:24:39 CDT)
- Re: Rendering snapshots (Wed Aug 13 2014 - 12:20:17 CDT)
- Re: Rendering snapshots (Wed Aug 13 2014 - 00:21:32 CDT)
- Re: Rendering snapshots (Wed Aug 13 2014 - 00:06:32 CDT)
- Rendering snapshots (Tue Aug 12 2014 - 08:23:50 CDT)
debra ragland
- editing distance.tcl (Mon Feb 15 2016 - 08:23:38 CST)
- Re: VMD Hbond criterion vs. other software (Mon Feb 01 2016 - 09:32:05 CST)
- VMD Hbond criterion vs. other software (Mon Feb 01 2016 - 07:24:40 CST)
- Calculating distances from command line VMD 1.9.2 (Tue Sep 01 2015 - 08:08:11 CDT)
- Distances from the command line VMD 1.9.2 (Tue Sep 01 2015 - 07:49:25 CDT)
- Hydrogen bond angle (Mon Aug 03 2015 - 11:58:16 CDT)
- Script for recursive file execution (Fri Jul 31 2015 - 11:48:10 CDT)
Decai Yu
- RE: xyz file and VASP CHGCAR file do not overlap (Wed Feb 17 2010 - 11:23:56 CST)
- RE: xyz file and VASP CHGCAR file do not overlap (Mon Feb 15 2010 - 10:26:46 CST)
- RE: xyz file and VASP CHGCAR file do not overlap (Fri Feb 12 2010 - 15:20:16 CST)
- xyz file and VASP CHGCAR file do not overlap (Fri Feb 12 2010 - 13:29:44 CST)
Deepak Singh
- output (Sun Nov 14 1999 - 19:48:57 CST)
- question (Sun Nov 14 1999 - 17:00:26 CST)
- font size (Fri Nov 12 1999 - 13:38:53 CST)
- Re: SEGMENT ID (Fri Oct 22 1999 - 09:30:09 CDT)
- SEGMENT ID (Tue Oct 19 1999 - 23:45:46 CDT)
- Re: Selection (Tue Oct 17 2000 - 11:51:33 CDT)
- Re: Selection (Tue Oct 17 2000 - 11:31:12 CDT)
- Selection (Tue Oct 17 2000 - 11:08:51 CDT)
- graphing a dihedral (Sat May 13 2000 - 20:48:31 CDT)
Deepangi Pandit
- Re: 3D protein visualization (Mon Nov 08 2010 - 15:59:08 CST)
- Re: sasa function (Thu Jan 21 2010 - 09:13:45 CST)
- Re: 3D Stereo : Windows 7, nVIDIA GEFORCE (Wed Jan 20 2010 - 09:39:38 CST)
- 3D Stereo : Windows 7, nVIDIA GEFORCE (Tue Jan 19 2010 - 17:32:04 CST)
- Re: Calculating volumes enclosed by SAS (Fri Nov 21 2008 - 16:09:12 CST)
- VMD access using XWIN32 or X-Deep (Fri Oct 12 2007 - 13:20:01 CDT)
- VMD access using XWIN32 or X-Deep (Fri Oct 12 2007 - 11:35:52 CDT)
Deepshikha Ghosh 19310001
- BFEE calculations for protein-protein complexes (Mon Dec 12 2022 - 04:23:41 CST)
Deepti Mishra
- Invitation to connect on LinkedIn (Mon Jul 19 2010 - 05:57:43 CDT)
- atom selection (Sun Jun 07 2009 - 23:32:43 CDT)
- difficulty in installing VMD on linux. (Fri Sep 19 2008 - 05:47:18 CDT)
deepti nayar
- tcl script (Wed Aug 18 2010 - 01:14:06 CDT)
deepti sethi
- installation problem on solaris 9 (Sat Dec 31 2005 - 03:57:55 CST)
Delalande
- Compiled version for MacOSX with non-standard options (Thu Apr 17 2008 - 08:37:14 CDT)
DeLano, Warren
- RE: Stereo mode on NVidia/Win2000 (Fri Jan 24 2003 - 13:44:14 CST)
Demet Akten
- ion bead (residue based CG) (Mon Aug 09 2010 - 05:34:26 CDT)
- script for area per lipid (Mon Mar 08 2010 - 06:39:16 CST)
Demetrios Braddock
- map files (Mon Sep 19 2005 - 19:41:39 CDT)
- (no subject) (Thu Sep 15 2005 - 18:40:47 CDT)
Demian Riccardi
- Exceeded maximum number of bonds (Thu May 29 2008 - 13:18:09 CDT)
Demy Hernandez
- Movie Making Troubles (Tue Dec 08 2020 - 18:48:07 CST)
- Re: Translation Script (Wed Nov 11 2020 - 19:24:47 CST)
- Translation Script (Tue Nov 10 2020 - 10:55:28 CST)
Deng, Jinxia (Nancy)
- non-water solvent prepared by VMD (Thu May 26 2016 - 12:22:45 CDT)
- speed of pbc join is slow (Tue Mar 15 2016 - 15:48:41 CDT)
- pbc to keep membrane in center (Tue Mar 01 2016 - 09:03:27 CST)
- hydrophobic interaction between peptide vs membrane (Mon Feb 15 2016 - 10:51:28 CST)
Denilson F. Oliveira
- Re: chlorine atom: Cl or CL ? (Fri Dec 02 2016 - 12:03:00 CST)
- (no subject) (Fri Dec 02 2016 - 05:51:38 CST)
DENILSON FERREIRA DE OLIVEIRA
- Re: NUMLP NUMLPH section eliminated by VMD 1.9.4a57 (Mon May 20 2024 - 14:05:58 CDT)
- Re: NUMLP NUMLPH section eliminated by VMD 1.9.4a57 (Wed May 15 2024 - 07:07:12 CDT)
- NUMLP NUMLPH section eliminated by VMD 1.9.4a57 (Tue May 14 2024 - 08:06:59 CDT)
- Re: Cafe 1.0 plugin does not recognize commands (Wed Jul 13 2022 - 12:43:56 CDT)
- Re: Cafe 1.0 plugin does not recognize commands (Wed Jul 13 2022 - 02:40:55 CDT)
- Cafe 1.0 plugin does not recognize commands (Mon Jul 11 2022 - 09:07:19 CDT)
- Re: Fwd: VMD Crash with Ubuntu 12.04 LTS and NVidia 310.44 driver. (Fri May 03 2013 - 13:36:24 CDT)
- Re: Force Field ToolKit - Angles (Mon Apr 30 2012 - 21:20:54 CDT)
- Re: Force Field ToolKit - Angles (Mon Apr 30 2012 - 21:22:37 CDT)
- Re: Force Field ToolKit - Angles (Mon Apr 30 2012 - 15:22:42 CDT)
- RE: Force Field ToolKit - Angles (Sun Apr 29 2012 - 19:29:33 CDT)
- RE: Force Field ToolKit - Angles (Sun Apr 29 2012 - 18:58:39 CDT)
- Re: Force Field Toolkit: scaling, weight etc (Sun Apr 29 2012 - 18:11:56 CDT)
- Force Field ToolKit - Angles (Sun Apr 29 2012 - 14:39:52 CDT)
- Force Field Toolkit: scaling, weight etc (Sun Apr 29 2012 - 06:37:04 CDT)
denilson_at_dqi.ufla.br
- FFTK: bond and angle parameters (Mon Apr 07 2014 - 14:42:28 CDT)
- Re: vmd-1.9.1 broken after upgrade to Ubuntu 13.10 (Wed Nov 27 2013 - 11:52:28 CST)
- Re: VMD script (Wed Aug 28 2013 - 06:51:11 CDT)
- Fwd: Re: VMD script (Tue Aug 27 2013 - 13:43:52 CDT)
- Re: VMD crashes KDE at startup (Fri Apr 19 2013 - 14:17:48 CDT)
- Re: VMD crashes KDE at startup (Fri Apr 19 2013 - 11:48:56 CDT)
- Re: VMD crashes KDE at startup (Fri Apr 19 2013 - 09:27:08 CDT)
- Martini RBCG (Wed Jan 16 2013 - 12:18:00 CST)
- (no subject) (Thu Oct 06 2011 - 15:12:44 CDT)
- Fw: (Mon Oct 03 2011 - 11:18:01 CDT)
- (no subject) (Mon Oct 03 2011 - 08:56:08 CDT)
Denis Davydov
- please remove me from the list (Fri May 17 2013 - 04:40:56 CDT)
- bondsrecalc question (Fri Mar 30 2012 - 11:10:14 CDT)
Denis Zhu
- Vmd Opengl display do not show anything (Thu Apr 02 2015 - 09:25:13 CDT)
Denise G Teotico
- installing IED on vmd on windows (Tue Jan 03 2006 - 10:06:51 CST)
Denise Teotico
- installing IED on an sgi (Tue Jan 03 2006 - 17:35:07 CST)
Denish Poudyal
- NAMD simulation (Sun Mar 25 2018 - 20:25:03 CDT)
- i thought I could run a 100 ns NAMD simulation in my laptop for a protein-hormone system containing around 2000 atoms in its pdb file(4lnx.pdb). But even to run a simulation for four hundred fifty thousand steps, it has taken almost 4700 minutes. is this normal or its low? the device has 4 cores with 16 gigs of ram and 4 gigs of gpu(amd). Or any suggestions to run it faster??? (Sun Mar 25 2018 - 20:22:34 CDT)
- Error merging the pdbs and psfs (Mon Feb 26 2018 - 20:26:08 CST)
deniszhu1991
- Re: Vmd Opengl display do not show anything (Thu Apr 02 2015 - 13:14:35 CDT)
Dennis N
- Running Multiseq Operations in Text-Only Mode (Thu Nov 07 2013 - 16:53:42 CST)
Dennis N Bromley
- Re: merging several pdbs in one file (Fri Sep 26 2014 - 11:31:25 CDT)
- Re: merging several pdbs in one file (Mon Sep 22 2014 - 12:52:59 CDT)
- How can I easily show ball and stick residues across all molecules and representations? (Thu Jul 18 2013 - 17:07:51 CDT)
- Re: installing and running VMD on Windows 64-bit (Thu Nov 10 2011 - 12:12:43 CST)
- Re: how do I show contacts with XXX angstroms between a protein and a ligand? (Sat Jun 04 2011 - 21:24:26 CDT)
- Re: how do I show contacts with XXX angstroms between a protein and a ligand? (Sat Jun 04 2011 - 13:09:48 CDT)
- Re: how do I show contacts with XXX angstroms between a protein and a ligand? (Sat Jun 04 2011 - 12:14:40 CDT)
- Re: how do I show contacts with XXX angstroms between a protein and a ligand? (Sat Jun 04 2011 - 12:27:05 CDT)
- how do I show contacts with XXX angstroms between a protein and a ligand? (Fri Jun 03 2011 - 22:27:58 CDT)
Denny Bromley
- Re: invisible files in windows (Wed Jun 15 2011 - 20:41:57 CDT)
Denys Bashtovyy
- hydrophobicity on the Connolly surface (Thu Jan 02 2003 - 07:04:10 CST)
DePuy
- Re: How to enable Python on Windows XP (Sat Jul 31 2004 - 17:12:20 CDT)
Derek Ng
- Background colour (Sat Nov 29 2003 - 23:38:26 CST)
Derek R. Ploor
- cavetracker (Wed Jan 16 2002 - 15:00:31 CST)
Derman BaÅŸtÃ¼rk
- When should I use NTER and NNEU as a patch? (Tue Oct 11 2022 - 23:38:26 CDT)
Derya Meral
- regarding representations, resolution and length of trajectory movies (Tue Oct 02 2012 - 13:00:54 CDT)
DESPIAU-PUJO Emilie UJF
- H-H dynamic bonds (Tue Jul 17 2012 - 09:58:31 CDT)
Devanand T
- Re: Creating a pdb of periodic images of a unit cell (Wed Nov 21 2018 - 00:19:11 CST)
- Re: How to copy/paste a membrane patch to create a larger membrane? (Mon Feb 05 2018 - 09:26:40 CST)
- Re: tcl command "lremove" not working in VMD text mode (Wed Sep 06 2017 - 16:38:31 CDT)
- tcl command "lremove" not working in VMD text mode (Wed Sep 06 2017 - 16:08:44 CDT)
- Re: Which phosphoserine patch to use: SP1 or SP2? (Wed Jul 27 2016 - 05:26:07 CDT)
- Which phosphoserine patch to use: SP1 or SP2? (Wed Jul 27 2016 - 02:33:10 CDT)
- How to extract residue names and resid from serial numbers in vmd using tcl? (Tue Jun 07 2016 - 13:07:39 CDT)
- Superimposing 2 dcd files (Sat Apr 30 2016 - 16:29:01 CDT)
- How to remove particular residues and then view "ramachandran plot" in VMD (Thu Oct 09 2014 - 04:44:06 CDT)
dhacademic
- use variable in atomselect (Fri May 27 2011 - 14:55:26 CDT)
- bring z-axis along a new vector (Tue Feb 15 2011 - 14:39:04 CST)
- Re: problem in extracting frame number (Thu Jan 13 2011 - 13:08:17 CST)
- problem in extracting frame number (Thu Jan 13 2011 - 09:45:16 CST)
- question about Ca-dist.tcl (Wed Sep 01 2010 - 10:14:24 CDT)
DHEERAJ CHITARA
- Regarding Distance measurements (Thu Jun 11 2020 - 05:57:49 CDT)
Dhiraj Srivastava
- specifying path of add on program (Fri Nov 08 2019 - 14:57:07 CST)
- Re: Fusing proteins together (Thu Jul 26 2018 - 16:50:55 CDT)
- topology file in /linux/src/vmd-1.8.6/plugins/noarch/tcl/readcharmmtop1.0/top_all27_prot_lipid_na.inp (Tue Sep 25 2007 - 19:00:30 CDT)
- Re: topology file in /linux/src/vmd-1.8.6/plugins/noarch/tcl/readcharmmtop1.0/top_all27_prot_lipid_na.inp (Tue Sep 25 2007 - 19:33:14 CDT)
Dhritiman Talukdar
- Location of 'mol bondsrecalc' in source code (Sat Nov 12 2016 - 00:05:08 CST)
- Re: Does topo readlammpsdata automatically detect bonds? (Fri Jan 30 2015 - 03:21:48 CST)
- Re: Output of topo getbondlist to text file from VMD (Sat Jan 24 2015 - 09:21:04 CST)
- Does topo readlammpsdata automatically detect bonds? (Sat Jan 24 2015 - 09:23:00 CST)
- Output of topo getbondlist to text file from VMD (Fri Jan 23 2015 - 14:38:50 CST)
- Re: Change bond per atom limit of VMD (Mon Jan 12 2015 - 13:40:49 CST)
- Re: Change bond per atom limit of VMD (Wed Jan 07 2015 - 14:53:49 CST)
- Re: Change bond per atom limit of VMD (Wed Jan 07 2015 - 03:28:37 CST)
- Re: Change bond per atom limit of VMD (Wed Jan 07 2015 - 01:21:31 CST)
- Re: Change bond per atom limit of VMD (Tue Jan 06 2015 - 22:41:41 CST)
- Re: Change bond per atom limit of VMD (Tue Jan 06 2015 - 12:15:21 CST)
- Change bond per atom limit of VMD (Tue Jan 06 2015 - 09:36:52 CST)
Dian Jiao
- problem with pbc wrap (Thu Jun 28 2012 - 13:46:00 CDT)
diane lynch
- diplaying multiple frames from DCD file (Fri Aug 24 2001 - 15:11:20 CDT)
Dibyadeep Paul
- PSFGEN::: ERROR: failed on end of segment (Wed Feb 13 2008 - 03:38:14 CST)
- Re: merging two pdb files (Thu Nov 08 2007 - 08:24:18 CST)
- merging two pdb files (Thu Nov 08 2007 - 06:06:19 CST)
Dick Medrano
- Charlie Buy your loved one Hermes (Thu Sep 27 2007 - 20:39:34 CDT)
Diego Enry
- Re: HOW TO PARAMETRIZE A LIGAND (Thu Apr 28 2011 - 10:20:02 CDT)
Diego Enry Barreto Gomes
- [request] Best practices for rendering frames and making movies (Tue Feb 21 2012 - 17:22:56 CST)
Diego Gomes
- Re: molefacture isn't writing PDB coords (Fri Mar 07 2025 - 09:50:39 CST)
- Re: Surf render crashing (Mon Mar 03 2025 - 11:25:53 CST)
- Re: Surf render crashing (Fri Feb 28 2025 - 21:33:00 CST)
- Re: Error on VMD2 startup: cannot source vmdinit.tcl (Wed Feb 26 2025 - 09:20:40 CST)
- Re: VMD 2.0 Segmentation Fault on Ubuntu 24.04 and Containers (Tue Feb 25 2025 - 17:02:46 CST)
- Re: VMD 2.0 Segmentation Fault on Ubuntu 24.04 and Containers (Tue Feb 25 2025 - 13:18:44 CST)
- Re: VMD 2.0 Segmentation Fault on Ubuntu 24.04 and Containers (Tue Feb 25 2025 - 09:38:41 CST)
- Re: Tachyon download is offline (Mon Nov 18 2024 - 12:15:28 CST)
- Re: Volume considered in calculation of g(r) (Wed Nov 06 2024 - 10:22:11 CST)
- Re: Partial black screen with Tachyon RTX RTRT (Tue Oct 29 2024 - 15:15:30 CDT)
- Re: CUDA Error with Quicksurf (Sat Oct 26 2024 - 11:14:45 CDT)
- Re: Two different type of color set for potential map of overlapped molecules (Wed Oct 02 2024 - 14:04:50 CDT)
- Re: VMD 1.9.4 NAMDEnergy plugin query (Mon Sep 30 2024 - 10:15:56 CDT)
- Re: VMD ORCA 6 Update (Fri Sep 13 2024 - 10:13:59 CDT)
- Re: CHGCAR file read in VMD (Wed Aug 07 2024 - 10:16:25 CDT)
- Re: VMD reads vasp files with variable cells incorrectly (Fri Aug 02 2024 - 12:06:08 CDT)
- Re: CHGCAR file read in VMD (Fri Aug 02 2024 - 12:08:46 CDT)
- Re: VMD reads vasp files with variable cells incorrectly (Wed Jul 31 2024 - 10:10:20 CDT)
- Re: compile vmd-1.9.4a57 source - OptiXRenderer.h:84:10: fatal error: optix_math.h: No such file or directory (Wed Jul 31 2024 - 10:19:04 CDT)
- Re: compile vmd-1.9.4a57 source - OptiXRenderer.h:84:10: fatal error: optix_math.h: No such file or directory (Fri Jul 26 2024 - 09:31:43 CDT)
- Re: Opening file after i downloaded vmd (Wed Jul 17 2024 - 13:27:31 CDT)
- Re: loading multiple pdbs as frames and the filenames (Wed Jun 26 2024 - 16:57:58 CDT)
- Re: Potential Bug Using NAMD Energy Plugin from the Command Line (Sat Jun 22 2024 - 09:57:34 CDT)
- Re: VMD receives Segmentation Fault After NVIDIA Driver Update (Fri Jun 07 2024 - 11:15:23 CDT)
- Re: NUMLP NUMLPH section eliminated by VMD 1.9.4a57 (Tue May 21 2024 - 09:03:17 CDT)
- Re: NUMLP NUMLPH section eliminated by VMD 1.9.4a57 (Wed May 15 2024 - 10:58:07 CDT)
- Re: NUMLP NUMLPH section eliminated by VMD 1.9.4a57 (Tue May 14 2024 - 10:18:44 CDT)
- Re: saving a PDB in a different order than it was loaded (Fri May 03 2024 - 10:38:56 CDT)
- Re: VMD 1.9.4a53 on Windows 11 crashing frequently (Thu May 02 2024 - 10:01:42 CDT)
- Re: mol addfile (Mon Apr 22 2024 - 13:33:07 CDT)
- Re: Problems with â€˜Surfâ€™ as a â€œDrawing methodâ€ for protein in VMD installed to a local folder (Thu Apr 11 2024 - 12:56:15 CDT)
- Re: Problems with â€˜Surfâ€™ as a â€œDrawing methodâ€ for protein in VMD installed to a local folder (Thu Apr 11 2024 - 11:38:36 CDT)
- Re: Problems with â€˜Surfâ€™ as a â€œDrawing methodâ€ for protein in VMD installed to a local folder (Thu Apr 11 2024 - 10:14:05 CDT)
- Re: Can not run VMD in interactive mode on the supercomputer from Mac (Thu Apr 11 2024 - 09:48:49 CDT)
- Re: VR Movies (Fri Apr 05 2024 - 05:20:50 CDT)
- Re: Problems generating movies for vmd 1.9.4a53 (Mon Mar 04 2024 - 13:23:46 CST)
- Re: Fwd: bond lengths and angle display (Fri Mar 01 2024 - 10:08:19 CST)
- Re: Fwd: bond lengths and angle display (Thu Feb 29 2024 - 22:10:19 CST)
- Re: Problems generating movies for vmd 1.9.4a53 (Thu Feb 29 2024 - 17:09:42 CST)
- Re: unable to open VMD as normal (Wed Feb 07 2024 - 02:13:14 CST)
- Re: unable to open VMD as normal (Tue Feb 06 2024 - 15:07:22 CST)
- Re: unable to open VMD as normal (Tue Feb 06 2024 - 12:25:08 CST)
- Re: NAMDenergy plugin (Tue Jan 30 2024 - 10:12:10 CST)
- Re: NAMDenergy plugin (Mon Jan 29 2024 - 10:17:37 CST)
- Re: << Hbonds distances >> (Mon Jan 08 2024 - 11:00:08 CST)
- Re: M1 Mac menu issues (Fri Jan 05 2024 - 15:04:59 CST)
- Re: Missing operand error in vmd pathways plugin (Wed Dec 20 2023 - 09:31:18 CST)
- Re: how to control "offset" and "midpoint" of color scale simultaneously using tk-console (Thu Dec 07 2023 - 09:22:00 CST)
- Re: Issue assigning impropers with topotools (Thu Dec 07 2023 - 09:31:44 CST)
- Re: How to evaluate VMD performance properly? (Mon Nov 20 2023 - 22:30:15 CST)
- Re: Re: Smoothing PBC jumps across PBC (Mon Nov 20 2023 - 22:34:43 CST)
- Re: Molefacture 2 does not generate angles & dihedrals (Mon Nov 13 2023 - 10:41:45 CST)
- Re: Commands runs manually but not as a script (Tue Nov 07 2023 - 09:19:01 CST)
- Re: VMD openGL over ssh from a server with NVIDIA (Thu Nov 02 2023 - 14:41:33 CDT)
- Re: STRIDE breaks after 100,000 protein atoms (Thu Nov 02 2023 - 13:57:33 CDT)
- Re: STRIDE breaks after 100,000 protein atoms (Thu Nov 02 2023 - 12:58:25 CDT)
- Re: Molefacture 2 does not generate angles & dihedrals (Thu Nov 02 2023 - 12:21:42 CDT)
- Re: Re: <<cionize on macOS error>> (Mon Sep 25 2023 - 17:13:46 CDT)
- Re: <<measure command>> (Fri Sep 22 2023 - 11:07:32 CDT)
- Re: Angle between a vector and a plane (Thu Sep 21 2023 - 12:50:19 CDT)
- Re: Error in porcupine plot (Tue Sep 05 2023 - 13:55:55 CDT)
- Re: Unable to use plots with QwikMD (Sun Aug 13 2023 - 15:18:25 CDT)
- Re: Converting namd trajectory to desmond trajectory (Wed Jun 14 2023 - 14:33:50 CDT)
- Re: Convert trajectory (Wed May 31 2023 - 09:49:07 CDT)
- Render straight to ffmpeg/NVENC ? (Wed Apr 05 2023 - 15:08:10 CDT)
- Re: Show tcl console selections in VMD graphical display (Thu Mar 23 2023 - 09:11:43 CDT)
- get "x y z" from smoothed coordinates (Wed Jan 18 2023 - 15:20:37 CST)
- Re: Listing solvent accessible surface area per residue (Fri Dec 09 2022 - 14:14:44 CST)
- Re: Use VMD to produce images and videos to sell (Tue Oct 18 2022 - 08:29:18 CDT)
- Re: Rendering structures with Hydrogen Bonds using Tachyon (Fri Sep 09 2022 - 13:44:38 CDT)
- Re: Automation of Analysis from QwikMD and Loading Trajectory Without Water in QwikMD (Wed Sep 07 2022 - 16:43:28 CDT)
- Re: Re: Visualisation of CG bonds (Mon Jun 27 2022 - 11:21:34 CDT)
- 3D projectors compatible with VMD. (Tue Aug 07 2012 - 20:43:23 CDT)
Diego Granados
- Making an extensive search of PDB (Tue Aug 19 2014 - 18:21:25 CDT)
- Trouble with visual representations while loading a dcd. (Thu Jun 05 2014 - 11:34:52 CDT)
- Building a beta barrel using a beta hairpin (Thu Jul 12 2012 - 17:27:43 CDT)
Diego Javier Alonso de Armiño
- VMD crashes. (Fri Oct 28 2011 - 10:22:19 CDT)
- Conversion of GAMESS Quantum MD trajectory file (Mon Apr 26 2010 - 13:59:49 CDT)
Diego Vazquez
- Re: netcdf trajectory file (Fri Oct 30 2015 - 08:19:32 CDT)
- Re: netcdf trajectory file (Fri Oct 30 2015 - 07:21:19 CDT)
- Re: netcdf trajectory file (Fri Oct 30 2015 - 04:02:57 CDT)
- Re: Plot waters vs time in a trajectory (Tue Oct 20 2015 - 21:44:05 CDT)
- Re: writing initial coordinates in Amber format (Sun Aug 09 2015 - 00:59:17 CDT)
Diehl, Alex (NIH/NCI) [V]
- (no subject) (Tue Dec 07 2010 - 14:06:41 CST)
Dieter Blaas
- RE: installation of VIDEOMACH, how to point to the location of the files (Sun Feb 06 2005 - 16:23:26 CST)
- Re: installation of VIDEOMACH, how to point to the location of the files (Fri Feb 04 2005 - 10:22:34 CST)
- installation of VIDEOMACH, how to point to the location of the files (Fri Feb 04 2005 - 04:37:07 CST)
- HOW TO: visualization of electron density maps (Mon Jan 24 2005 - 04:28:00 CST)
- Re: ERROR) Failed to create Surf atom radii input file (Wed Dec 29 2004 - 02:42:54 CST)
- Re: ERROR) Failed to create Surf atom radii input file (Tue Dec 28 2004 - 10:02:40 CST)
- ERROR) Failed to create Surf atom radii input file (Tue Dec 28 2004 - 04:14:50 CST)
- RE: change location of temporay file storage (Win2k (Tue May 11 2004 - 08:20:31 CDT)
- Surface rendering crashes PC (Tue May 11 2004 - 08:13:20 CDT)
- Surface - upper limit for number of coordinates? (Tue May 11 2004 - 07:08:31 CDT)
- Surface - upper limit for number of coordinates? (Tue May 11 2004 - 07:10:36 CDT)
- Re: change location of temporay file storage (Win2k) (Mon May 10 2004 - 23:59:18 CDT)
- change location of temporay file storage (Win2k) (Thu Mar 11 2004 - 23:55:32 CST)
Dieter Krachtus
- Re: STL files (Fri Aug 08 2003 - 09:04:45 CDT)
Diez Fernandez, Amanda
- using inorganic builder for amorphous silica (Thu May 11 2017 - 07:35:11 CDT)
Dimitrios Mantzalis
- Re: From Vmd to lammps data file (Mon Feb 27 2012 - 09:07:05 CST)
- From Vmd to lammps data file (Mon Feb 27 2012 - 06:55:34 CST)
Dimitrov, Alex
- VMD/IMD problems on MacOS Yosemite (Fri Dec 12 2014 - 00:38:53 CST)
Dimitrova, Maria
- Re: vmdrc file not loaded when the filename is a command line argument (Sun Apr 02 2017 - 07:12:30 CDT)
- vmdrc file not loaded when the filename is a command line argument (Sat Apr 01 2017 - 10:49:55 CDT)
- Atom label offset (Mon Dec 19 2016 - 03:12:14 CST)
- VMD Molden plugin crashes (Fri Apr 29 2016 - 06:27:58 CDT)
- can't read "viewplist": no such variable (Mon Feb 01 2016 - 09:05:41 CST)
- Selecting atoms in the RMSD tool (Thu Sep 03 2015 - 07:34:49 CDT)
DimitryASuplatov
- Selecting AMBER ions Cl- and Na+ using VMD (Wed Mar 17 2010 - 06:42:41 CDT)
- Offset for frame ids in dcd trajectory (Sat May 23 2009 - 11:11:09 CDT)
- Re: Operations with MD frames - acquiring time infromation (Sat May 23 2009 - 09:21:49 CDT)
- Operations with MD frames - acquiring time infromation (Sat May 23 2009 - 08:16:37 CDT)
- Manipulating dcd using script in VMD (Tue Apr 28 2009 - 01:26:05 CDT)
- Calculating system net charge with tcl in VMD (Mon Apr 27 2009 - 04:43:34 CDT)
dimka
- Re: Calculating acyl chain order parameter profile on phospholipid vesicles (Tue Jan 13 2009 - 10:28:43 CST)
- Re: Desmond trajectory conversion to dcd format (Wed Nov 26 2008 - 17:09:57 CST)
- select cylindrical slab (Fri Jun 27 2008 - 12:08:41 CDT)
- sausage view of NMR ensembles (Thu Jan 31 2008 - 23:10:59 CST)
- cloning a molecule (Thu Nov 01 2007 - 13:46:44 CDT)
- dcd file error (Tue Aug 28 2007 - 17:50:52 CDT)
- drawing a membrane (Tue May 08 2007 - 15:10:03 CDT)
- hexagonal box (Tue Apr 17 2007 - 12:11:09 CDT)
- Re: 'SURF' representation problem (Sun Apr 08 2007 - 13:22:11 CDT)
- average structure (Mon Feb 12 2007 - 13:42:33 CST)
- Re: no subject (Mon Sep 18 2006 - 13:50:55 CDT)
- Re: problem in visualizing gaussian log file (Thu Sep 14 2006 - 13:13:33 CDT)
- rdf plugin in vmd 1.85 (Wed Sep 13 2006 - 14:08:29 CDT)
- Re: pass variables from the shell to VMD (Thu Sep 07 2006 - 12:09:32 CDT)
- Re: A error of " transforming dcd into pdb " (Tue Aug 29 2006 - 02:41:47 CDT)
- Re: A error of " transforming dcd into pdb " (Tue Aug 29 2006 - 02:37:14 CDT)
- Re: Fwd: How to pick up the lost periodic information? (Mon May 08 2006 - 12:08:53 CDT)
- Re: peptide builder (Sat Apr 22 2006 - 14:58:34 CDT)
- selection in different pcb images (Tue Apr 11 2006 - 15:02:37 CDT)
- box information (Tue Apr 04 2006 - 17:18:30 CDT)
- Re: VMD Command (Tue Mar 21 2006 - 01:20:06 CST)
- Re: namd-l: what does "patch" mean? (Sun Mar 19 2006 - 23:33:21 CST)
- Re: contact map definition (Mon Mar 13 2006 - 12:03:18 CST)
- Re: vmdtext on Mac OS X (Thu Feb 02 2006 - 18:25:08 CST)
- vmdtext on Mac OS X (Thu Feb 02 2006 - 13:54:32 CST)
- Re: STRIDE error (Fri Nov 18 2005 - 14:50:04 CST)
- STRIDE error (Fri Nov 18 2005 - 13:41:02 CST)
- Lipid area (Mon Nov 07 2005 - 13:10:20 CST)
- dcd tools (Mon Sep 12 2005 - 20:34:20 CDT)
- area of protein cross sections (Mon Aug 15 2005 - 14:29:38 CDT)
- display hexagonal periodic system (Wed Aug 10 2005 - 12:38:54 CDT)
- lipid definition (Wed May 25 2005 - 10:55:04 CDT)
- # of waters limit (Tue Mar 22 2005 - 15:19:51 CST)
Ding, L.
- polymer bead spring model file format (Tue Nov 17 2009 - 11:15:50 CST)
dipak sanap
- VMD script variable is (Fri Nov 06 2015 - 03:56:41 CST)
- Tcl script for hydration shell of backbone carbonyl oxygen for whole trajectory. (Thu Oct 22 2015 - 01:06:39 CDT)
Dipesh Bhattarai
- Re: display of the atom number beyond 100000 in pdb file (Tue Mar 02 2010 - 21:41:53 CST)
- Re: Converting tracker coordinates to molecule coordinate for selection (Fri Feb 12 2010 - 11:57:03 CST)
- Re: Converting tracker coordinates to molecule coordinate for selection (Fri Feb 12 2010 - 09:24:58 CST)
- Converting tracker coordinates to molecule coordinate for selection (Mon Feb 08 2010 - 10:57:03 CST)
- Re: 3D Stereo : Windows 7, nVIDIA GEFORCE (Wed Jan 20 2010 - 16:17:33 CST)
- Re: building VMD is tricky -please help (Mon Nov 30 2009 - 19:32:09 CST)
- Re: Using class UIVR (Tue Nov 24 2009 - 10:27:22 CST)
- Using class UIVR (Mon Nov 23 2009 - 10:59:57 CST)
- Re: Holo-Bench with VMD and Flystick2 and/or Phantom (Tue Nov 17 2009 - 13:04:59 CST)
dipti lele
- Building LPS membrane (Sun Jun 07 2009 - 00:35:50 CDT)
- Loading .vel file in VMD (Thu Nov 20 2008 - 23:03:42 CST)
- Querry (Tue Oct 21 2008 - 08:42:18 CDT)
Diship Srivastava
- helix content colvar for a 3-10 helix (Tue Mar 07 2023 - 00:46:08 CST)
- Unknown variable modifier. while running vmd (Tue Nov 29 2022 - 23:33:40 CST)
- Re: Re: Found bad contact (Thu Jun 10 2021 - 11:11:59 CDT)
- Lipid Packing Defect in vmd (Sun Jun 06 2021 - 04:57:06 CDT)
Diss Romain
- gziped files (Mon Mar 08 2004 - 10:00:49 CST)
Dive, Aniruddha Mukund
- Re: VMD TCL Script to save last frame of a trajectory using bash+tcl scripts (Wed Feb 21 2018 - 12:18:02 CST)
- VMD TCL Script to save last frame of a trajectory using bash+tcl scripts (Mon Feb 19 2018 - 16:37:33 CST)
- Re: TCL script to track molecules moving within a specified region each time frame (Tue May 17 2016 - 11:26:04 CDT)
- Re: TCL script to track molecules moving within a specified region each time frame (Mon May 16 2016 - 12:57:18 CDT)
- TCL script to track molecules moving within a specified region each time frame (Mon May 16 2016 - 02:52:14 CDT)
- IR Spectral Density Tool (Thu Dec 03 2015 - 20:39:11 CST)
- Error while opening dump file (Tue Nov 17 2015 - 19:05:10 CST)
divya nayar
- protein-water RDF (Mon Jun 27 2011 - 01:15:21 CDT)
- volume of hydration shells (Thu Jun 23 2011 - 06:12:35 CDT)
- hydration shell volume (Thu Jun 23 2011 - 01:43:55 CDT)
- finding water around protein (Wed Jun 22 2011 - 23:55:35 CDT)
- fit.tcl (Mon Nov 08 2010 - 03:01:14 CST)
- rmsd (Tue Nov 02 2010 - 11:53:26 CDT)
divyabharathi korlepara
- Location of measure command script (Wed Dec 20 2017 - 03:43:12 CST)
- Reading from file (Mon Apr 04 2016 - 00:51:49 CDT)
Dmitry A Kondrashov
- vmdmovie in OS X.3 (Mon Nov 24 2003 - 16:42:10 CST)
Dmitry Kovalsky
- numeric python (Mon Mar 08 2004 - 05:01:39 CST)
- sources (Fri Nov 08 2002 - 06:39:40 CST)
- XTC files in 1.8a21 (Wed Oct 16 2002 - 04:08:30 CDT)
- MANDRAKE and VMD (Sun Jun 09 2002 - 03:35:45 CDT)
- Mandrake and VMD (Thu Jun 06 2002 - 04:22:15 CDT)
Dmitry Lupyan
- Re: problem with superimposing two proteins (Fri Jan 11 2008 - 15:26:38 CST)
Dmitry Osolodkin
- Re: GPU choice for large systems (Sat Oct 01 2011 - 08:37:43 CDT)
- GPU choice for large systems (Sat Oct 01 2011 - 06:39:16 CDT)
- Re: installation of vmd 1.8.3 (Mon Jun 06 2005 - 05:57:34 CDT)
- installation of vmd 1.8.3 (Fri Jun 03 2005 - 11:49:21 CDT)
- Any way for comparing two structures?? (Tue May 31 2005 - 09:11:07 CDT)
- Any way for comparing two structures?? (Tue May 31 2005 - 08:58:29 CDT)
Dmitry Suplatov
- Re: Problems with â€˜Surfâ€™ as a â€œDrawing methodâ€ for protein in VMD installed to a local folder (Thu Apr 11 2024 - 12:02:22 CDT)
- Problems with â€˜Surfâ€™ as a â€œDrawing methodâ€ for protein in VMD installed to a local folder (Thu Apr 11 2024 - 08:04:45 CDT)
- Re: RMSF calculation with reference structure update (Thu Feb 02 2017 - 05:59:35 CST)
- RMSF calculation with reference structure update (Tue Jan 31 2017 - 11:32:04 CST)
Do Yong Kim
- custom residue ribbon/cartoon representation issue (Tue Oct 01 2013 - 10:59:08 CDT)
- making time lapse video (Thu Feb 14 2013 - 15:06:06 CST)
Do_Ba Duc
- Problem in linking (with TCL included in webpdbplugin.c) (Tue Dec 06 2005 - 20:55:11 CST)
- Problem with webpdgplugin-s.o and TCL while linking (Tue Dec 06 2005 - 19:42:55 CST)
Doaa Saayed
- excluding atoms (Sat Apr 28 2018 - 05:29:58 CDT)
- hollow sphere (Thu Apr 12 2018 - 12:14:56 CDT)
doan dung
- paratool (Sun Aug 29 2010 - 10:04:29 CDT)
Dolan, Michael (NIH/NIAID) [C]
- SBCG membrane (Wed Dec 24 2008 - 11:59:25 CST)
Dolan, Michael A. (NIH/NIAID) [C]
- Visualizing H-bonds between two segnames or chains (Wed Mar 25 2015 - 10:30:07 CDT)
Domenico Riolfi Barzotto
- Re: Molecule is shown with too many bonds (Fri Dec 18 2020 - 11:22:56 CST)
- Molecule is shown with too many bonds (Fri Dec 18 2020 - 08:32:48 CST)
Dominic Hayward
- Re: Compiling VMD with the TNG plugin (Tue Jan 26 2021 - 12:11:11 CST)
- Re: Compiling VMD with the TNG plugin (Tue Jan 26 2021 - 04:08:29 CST)
- Compiling VMD with the TNG plugin (Mon Jan 25 2021 - 11:46:41 CST)
Dominik BottlÃ¤nder
- Re: actual simulation time for a frame (Tue Sep 09 2014 - 12:18:57 CDT)
Dominik Bottländer
- Re: actual simulation time for a frame (Mon Sep 08 2014 - 12:07:12 CDT)
- Re: actual simulation time for a frame (Sat Sep 06 2014 - 01:36:43 CDT)
- actual simulation time for a frame (Thu Sep 04 2014 - 10:12:22 CDT)
Dominik Horinek
- atom coloring (Mon Mar 11 2002 - 17:59:30 CST)
- Re: Card for VMD with OpenGL & Linux (Mon Apr 09 2001 - 17:09:45 CDT)
- Card for VMD with OpenGL & Linux (Mon Apr 09 2001 - 16:38:40 CDT)
Dominique Compton
- W4tches from simple to luxurious at Prest1ge Repl1cas (Mon Apr 23 2007 - 17:51:51 CDT)
Dominique Mias-Lucquin
- Re: Python crash VMD1.9.4 (Tue Apr 18 2023 - 08:10:33 CDT)
- Re: Python crash VMD1.9.4 (Tue Apr 18 2023 - 04:46:06 CDT)
- Re: Python crash VMD1.9.4 (Tue Apr 18 2023 - 03:27:39 CDT)
- Re: Python crash VMD1.9.4 (Fri Apr 14 2023 - 02:41:53 CDT)
- Re: Python crash VMD1.9.4 (Thu Apr 13 2023 - 05:05:45 CDT)
- Python crash VMD1.9.4 (Wed Apr 12 2023 - 08:02:19 CDT)
- Re: VMD 1.9.4 crashes after running the "Merge Structures" plugin (with psfgen 2.0) (Wed Apr 06 2022 - 07:58:22 CDT)
- VMD 1.9.4 as a Python Module (Wed Mar 09 2022 - 05:15:39 CST)
- Re: Select Nucleic Acid sequence (Thu Jan 09 2020 - 02:28:07 CST)
- Select Nucleic Acid sequence (Fri Dec 20 2019 - 07:37:15 CST)
Dominique Vlieghe
- Problems with povray (Mon Oct 25 2004 - 07:13:11 CDT)
- Re: VMD: Potential Energy Calculation (Fri May 07 2004 - 09:25:39 CDT)
- segid and geometry script (Wed Jun 25 2003 - 08:51:52 CDT)
- Simple potential energy calculations in VMD (Mon Jun 23 2003 - 10:34:45 CDT)
Don Havelberg
- Re: color by resid (Tue Apr 23 2002 - 02:02:23 CDT)
- Re: python create graphics molecule (Tue Mar 26 2002 - 17:19:02 CST)
- Re: python create graphics molecule (Tue Mar 26 2002 - 17:16:00 CST)
- python create graphics molecule (Tue Mar 26 2002 - 07:10:25 CST)
Donald Karr
- Comparing Structures with Multiseq and Qres (Thu Apr 03 2014 - 10:33:55 CDT)
dong
- ´ð¸´: tkcon problem with my vmd (Tue Sep 28 2004 - 01:54:33 CDT)
- tkcon problem with my vmd (Mon Sep 27 2004 - 12:07:50 CDT)
Dong Luo
- Re: CGTools with pdb and top files (Tue Apr 02 2013 - 11:29:46 CDT)
- Re: CGTools with pdb and top files (Mon Apr 01 2013 - 10:39:56 CDT)
- Re: Protein-ligand contact (Wed Dec 21 2011 - 11:13:26 CST)
- Re: Save pdb with original numbering (Tue Nov 29 2011 - 10:12:44 CST)
- Re: How to understand the occupancy? (Fri Nov 04 2011 - 14:42:09 CDT)
- Add solvation box tool (Thu Jun 09 2011 - 09:46:33 CDT)
- Re: consultation about metal_enviroment.tcl (Wed Dec 22 2010 - 09:45:19 CST)
- Re: Fwd: autopsf error: failed on end of segment (Wed Dec 22 2010 - 09:51:39 CST)
- Re: Re:pbc and measure hbond (Wed Apr 21 2010 - 10:38:30 CDT)
- Re: What occupancy at the Hbond plugin mean? (Tue Feb 09 2010 - 10:21:29 CST)
- Re: bad text display in tk console (ubuntu 8.04 VMD 1.8.7 linux 32 bit) (Wed Jan 20 2010 - 14:01:45 CST)
- Re: bad text display in tk console (ubuntu 8.04 VMD 1.8.7 linux 32 bit) (Wed Jan 20 2010 - 13:48:09 CST)
- Re: bad text display in tk console (ubuntu 8.04 VMD 1.8.7 linux 32 bit) (Wed Jan 20 2010 - 11:12:11 CST)
- Re: bad text display in tk console (ubuntu 8.04 VMD 1.8.7 linux 32 bit) (Wed Jan 20 2010 - 10:17:57 CST)
- bad text display in tk console (ubuntu 8.04 VMD 1.8.7 linux 32 bit) (Fri Jan 15 2010 - 11:30:48 CST)
- Re: namd-l: how to use measure hbonds to calculate occupancy of all hbonds in simulation? (Wed May 16 2007 - 11:44:01 CDT)
- Re: namd-l: how to use measure hbonds to calculate occupancy of all hbonds in simulation? (Tue May 15 2007 - 18:27:01 CDT)
Dong Xu
- Re: Desmond trajectory conversion to dcd format (Wed Nov 26 2008 - 17:15:25 CST)
- Desmond trajectory conversion to dcd format (Wed Nov 26 2008 - 16:24:57 CST)
- Pairwise RMSD (Fri Oct 03 2008 - 10:10:16 CDT)
- How to render an image like this one with VMD? (Wed Sep 24 2008 - 20:58:12 CDT)
- QR factorization for structural alignment (Thu Jul 10 2008 - 17:30:39 CDT)
- QR factorization for structural alignment (Sat Jul 05 2008 - 17:06:29 CDT)
- Re: Image rendering using pov-ray (Fri Jun 13 2008 - 14:35:45 CDT)
- Re: Image rendering using pov-ray (Thu Jun 12 2008 - 21:31:03 CDT)
- Image rendering using pov-ray (Mon Jun 09 2008 - 20:35:55 CDT)
- mass weighted rms fit (Sun May 25 2008 - 11:14:47 CDT)
- Re: Can not enter text in VMD plugin window (Mon Apr 28 2008 - 13:04:52 CDT)
- Re: Can not enter text in VMD plugin window (Sat Apr 26 2008 - 00:10:04 CDT)
- Can not enter text in VMD plugin window (Fri Apr 25 2008 - 21:21:16 CDT)
- Re-create Figures in VMD Images and Movies Tutorial (Mon Mar 17 2008 - 16:17:57 CDT)
- Re: calculate volume (Sat Mar 08 2008 - 17:28:39 CST)
- Re: calculate volume (Sat Mar 08 2008 - 11:09:36 CST)
- Re: calculate volume (Fri Mar 07 2008 - 22:46:28 CST)
- calculate volume (Fri Mar 07 2008 - 21:20:40 CST)
- Re: SASA calculation (protein + small molecules) (Sun Feb 24 2008 - 20:42:44 CST)
- measure binding site SASA (Sun Feb 24 2008 - 12:38:49 CST)
- VMD limitation for loading large trajectory file (Fri Feb 15 2008 - 16:48:45 CST)
DongHoon Chung
- Coloring based on POS (Thu Mar 11 2004 - 03:11:40 CST)
- RE: Non-serious query (Thu Mar 04 2004 - 18:16:23 CST)
dongsheng lei
- Re: Extract parameters of Shape-based Coarse Graining model from AA simulation (Thu Oct 23 2008 - 04:46:50 CDT)
- Extract parameters of Shape-based Coarse Graining model from AA simulation (Wed Oct 22 2008 - 01:54:54 CDT)
Dongsheng Zhang
- Re: render (Tue Apr 01 2008 - 14:22:17 CDT)
- render (Mon Mar 31 2008 - 15:51:35 CDT)
- pbc join (Sun Mar 09 2008 - 22:44:32 CDT)
- error in loading psf file generated from lammps data file. (Thu Jan 17 2008 - 16:23:27 CST)
- display bonds (Fri Dec 14 2007 - 08:52:24 CST)
- how to prevent molecule jump around (Wed Jul 05 2006 - 00:35:41 CDT)
- Re: vmd display problem (Mon Jun 19 2006 - 13:17:23 CDT)
- vmd display problem (Sun Jun 18 2006 - 22:04:53 CDT)
- how to change paramters in making movie (Wed Jun 14 2006 - 12:33:09 CDT)
- (no subject) (Tue Nov 18 2003 - 17:24:20 CST)
- (no subject) (Wed May 21 2003 - 23:13:52 CDT)
Donnie Skinner
- Re: Your Val1um 0rder #63504 (Tue Apr 24 2007 - 13:01:46 CDT)
Donovan B.T.
- Getting PSF in right format from .gro file (Wed May 16 2012 - 08:54:59 CDT)
- AutoPSF (Fri Apr 20 2012 - 04:29:53 CDT)
- RE: measure dipole (Wed Mar 30 2011 - 08:16:53 CDT)
- RE: measure dipole (Mon Mar 28 2011 - 08:26:36 CDT)
- RE: measure dipole (Fri Mar 25 2011 - 08:18:38 CDT)
- measure dipole (Thu Mar 24 2011 - 13:07:28 CDT)
Doran Bennett
- Coloring lots of Groups (Thu Dec 06 2012 - 10:25:06 CST)
doug irvine
- VMD working on Linux i386 w/ Mesa & Nvidia (Wed Nov 17 1999 - 14:19:21 CST)
Douglas Dahl
- W4tches from simple to luxurious at Prest1ge Repl1cas (Wed Aug 22 2007 - 13:49:57 CDT)
Douglas Houston
- Interactive Display of Molecular Orbitals (Fri Oct 31 2014 - 11:05:24 CDT)
- Re: VMD's NAMD GUI (Sun Dec 29 2013 - 03:39:02 CST)
- VMD's NAMD GUI (Tue Dec 24 2013 - 06:13:24 CST)
Dourna Jamshideasli
- QFilesize_limit_exceeded_(core_dumped)=94_with_VMD_on_?= Linux (Thu May 26 2022 - 11:21:50 CDT)
Dow Hurst
- Re: VMD high DPI (Fri Sep 03 2021 - 12:45:22 CDT)
- ppm image conversion gpu dependent? (Mon Jan 08 2018 - 17:22:03 CST)
- GUI mod request (Sat Dec 09 2017 - 10:06:37 CST)
- Re: GUI mod request (Sat Dec 09 2017 - 11:10:58 CST)
- Re: Text size in the VMD at high-resolutions (Sat Oct 10 2015 - 22:27:00 CDT)
- Re: create surface of overlapping VdW volume (Sat Jun 11 2011 - 11:08:43 CDT)
- create surface of overlapping VdW volume (Fri Jun 10 2011 - 18:17:50 CDT)
- Re: Android support (Sun Mar 06 2011 - 13:55:02 CST)
- Android support (Sun Mar 06 2011 - 11:24:15 CST)
Dow Hurst DPHURST
- OpenSuSE 10.3: ppmtompeg and MovieMaker plugin (Fri Dec 14 2007 - 12:14:46 CST)
- status of psfgen support for CHARMM psf format (Mon Oct 22 2007 - 09:37:30 CDT)
- Re: GLSL rendering problems (??) (Mon May 14 2007 - 10:39:14 CDT)
- Re: GLSL error (Tue Jan 30 2007 - 11:08:22 CST)
- GLSL error (Mon Jan 29 2007 - 14:40:14 CST)
- Re: How to make bold font? (Thu Jun 01 2006 - 09:12:20 CDT)
- Re: RMSD problem on 1.8.4a22 (Linux OpenGL) (Thu Dec 15 2005 - 09:15:09 CST)
- Re: VMD crashes with FX440 and RH Entreprise 4.0 (Tue Sep 06 2005 - 13:10:51 CDT)
- Re: CMYK images (Fri Jul 29 2005 - 19:54:46 CDT)
- Re: CMYK images (Fri Jul 29 2005 - 19:51:30 CDT)
- Nvidia update 1.0-7664 success for VMD-1.8.3 (Tue Jun 21 2005 - 16:49:37 CDT)
- test email (Tue Jun 21 2005 - 14:32:05 CDT)
- Create a new color category (Tue Jun 21 2005 - 12:25:52 CDT)
Dr Gavin Seddon
- Re: vmd crashes on startup (Thu Oct 20 2005 - 13:45:29 CDT)
- Re: vmd crashes on startup (Thu Oct 20 2005 - 13:29:47 CDT)
- Re: vmd crashes on startup (Thu Oct 20 2005 - 13:24:45 CDT)
- Re: vmd crashes on startup (Thu Oct 20 2005 - 04:13:46 CDT)
- vmd crashes on startup (Wed Oct 19 2005 - 07:40:54 CDT)
Dr Nick
- 20 colors for 20 amino acids! (Fri Jan 17 2003 - 11:23:28 CST)
Dr Nicolas Le Novere
- Re: More than 99999 atoms? (Mon May 29 2000 - 08:04:29 CDT)
- surface in raster3d (Thu Apr 06 2000 - 07:18:30 CDT)
Dr. Dan White
- movie maker plugin doesn't load (Fri Aug 16 2002 - 10:54:22 CDT)
- VMD stereo with Radeon 8500 and crystal eyes on Xig Xserver (Fri Jul 12 2002 - 08:10:32 CDT)
Dr. Daniel James White PhD
- MSMS on linux and Draw Multiple Frames in VMD 1.8.3 (Thu Apr 14 2005 - 09:17:40 CDT)
- Fwd: linux FC3 VMD vs insightII conflict (Wed Jan 12 2005 - 06:36:57 CST)
- Re: vmd not starting up on Fedora core 3 linux , InsightII to blame (Wed Jan 12 2005 - 01:33:05 CST)
- Re: vmd not starting up on Fedora core 3 linux , nVidia quadro 980 XGL, nVidia 6629 driver (Wed Jan 12 2005 - 00:53:22 CST)
- Re: vmd not starting up on Fedora core 3 linux , nVidia quadro 980 XGL, nVidia 6629 driver (Tue Jan 11 2005 - 07:42:45 CST)
- Re: vmd not starting up on Fedora core 3 linux , nVidia quadro 980 XGL, nVidia 6629 driver (Mon Jan 10 2005 - 01:20:31 CST)
- Re: vmd not starting up on Fedora core 3 linux , nVidia quadro 980 XGL, nVidia 6629 driver (Fri Jan 07 2005 - 07:12:37 CST)
- vmd not starting up on Fedora core 3 linux , nVidia quadro 980 XGL, nVidia 6629 driver (Fri Jan 07 2005 - 06:13:04 CST)
- vmd not starting up on Fedora core 3 linux , nVidia quadro 980 XGL, nVidia 6629 driver (Fri Jan 07 2005 - 02:15:08 CST)
- vmd not starting up on Fedora core 3 linux , nVidia quadro 980 XGL, nVidia 6629 driver (Thu Jan 06 2005 - 05:27:34 CST)
- ATI fglrx 3.11 drivers for Radeon 8500 LE with linux 2.6 kernel, quad buffered stereo on sony G520??? (Wed Aug 25 2004 - 03:44:24 CDT)
- enable direct rendering DRI on fedora core 2 (Fri Jun 11 2004 - 06:50:34 CDT)
- Re: how to make unique chain pdb identifier of virus capsid 60 mer? (Thu Apr 15 2004 - 09:00:24 CDT)
- Re: how to make whole biological unit / virus capsid from pdb BIOMT records (Tue Apr 06 2004 - 04:12:58 CDT)
- how to make whole biological unit / virus capsid from pdb BIOMT records (Mon Apr 05 2004 - 10:35:06 CDT)
- .cshrc error prevents VMD working on OSX10.3.3??? or something else??? (Tue Mar 23 2004 - 03:36:59 CST)
- Fwd: Digest (Wed Mar 17 2004 - 03:32:00 CST)
- digest form (Tue Mar 16 2004 - 03:34:05 CST)
- Re: ATI radeon 8500 and Linux quad buffered stereo (Tue Sep 02 2003 - 03:09:28 CDT)
- osX anti aliasing and rendering speed / window size on linux (Mon Jun 16 2003 - 04:45:54 CDT)
- Re: double image for one eye with crystal eyes stereo (Fri Jun 13 2003 - 03:50:12 CDT)
- Re: double image for one eye with crystal eyes stereo (Fri Jun 13 2003 - 03:38:01 CDT)
- Re: double image for one eye with crystal eyes stereo (Thu Jun 12 2003 - 09:48:30 CDT)
- NAMD IMD large protein model (Thu Jun 12 2003 - 08:51:23 CDT)
- double image for one eye with crystal eyes stereo (Thu Jun 12 2003 - 08:38:37 CDT)
- psfgen error with alias residue (Mon Jun 09 2003 - 08:48:32 CDT)
- gamepad on linux? (Wed Apr 02 2003 - 10:52:15 CST)
- Re: Suggested graphic card :: LINUX (Tue Mar 04 2003 - 02:31:52 CST)
- Re: hard ware stereo (Mon Jan 27 2003 - 04:14:09 CST)
- Re: saving a tiff file (Wed Dec 18 2002 - 05:16:45 CST)
Dr. David Gregory
- Re: No Display when running vmd 1.3 (Fri May 28 1999 - 08:31:57 CDT)
- No Display when running vmd 1.3 (Thu May 27 1999 - 14:53:51 CDT)
Dr. Luis Rosales Leon
- Re: combine together two PBD/PSF files (Wed Nov 07 2007 - 18:50:50 CST)
- VRPN, phantom and VMD... (Wed Jul 04 2007 - 17:12:38 CDT)
Dr. Mick Knaggs
- Mesa libs + Mac OS X + HW stereo + vmd (Fri Jun 17 2005 - 14:28:30 CDT)
Dr. Paul Fons
- memory problems (Sat Aug 25 2001 - 19:54:48 CDT)
- Programming problem (making bonds) (Sat Aug 25 2001 - 19:51:09 CDT)
Dr. Peter Schellenberg
- ATI crashes, use of setenv VMD_EXCL_GL_EXTENSIONS (Mon Jun 06 2005 - 02:28:21 CDT)
Dr. Seth Olsen
- Changing decimal places in a label? (Wed Feb 03 2010 - 23:21:12 CST)
- VMD Does not start on my MacBook (Wed Jul 16 2008 - 21:15:57 CDT)
- Problems with a multiple orbital cube file (Fri Sep 14 2007 - 01:49:38 CDT)
- Re: Python development (Tue Jan 30 2007 - 19:51:12 CST)
- Re: problem viewing cube files (Thu Oct 05 2006 - 03:32:34 CDT)
- problem viewing cube files (Tue Oct 03 2006 - 21:10:33 CDT)
- Changing Text Style (Tue Oct 03 2006 - 21:52:35 CDT)
- Re: What unit system does VMD use? (Thu Sep 21 2006 - 21:50:58 CDT)
- Re: What unit system does VMD use? (Thu Sep 21 2006 - 21:38:01 CDT)
- Re: What unit system does VMD use? (Thu Sep 21 2006 - 21:30:53 CDT)
- Re: What unit system does VMD use? (Thu Sep 21 2006 - 21:25:09 CDT)
- How to hide graphics molecules in a python script? (Thu Sep 21 2006 - 20:44:28 CDT)
- What unit system does VMD use? (Thu Sep 21 2006 - 19:21:09 CDT)
- Re: importing VMD python modules from external interpreterr (Wed Sep 20 2006 - 01:44:24 CDT)
- importing VMD python modules from external interpreterr (Tue Sep 19 2006 - 22:19:02 CDT)
- How do I change details of a drawing style using the text interface? (Fri May 19 2006 - 21:52:05 CDT)
- Problem building vmd 1.8.3 and destroyed usable 1.8.2 version (Mon Sep 26 2005 - 00:28:22 CDT)
DR. WOON KAI LIN
- HOMO and LUMO visualization (Mon Apr 18 2016 - 20:56:51 CDT)
Dr. Y. U. Sasidhar
- Re: initial run by vmd on loading a trajectory (Thu Jan 30 2003 - 05:32:53 CST)
- initial run by vmd on loading a trajectory (Tue Jan 28 2003 - 22:58:17 CST)
Dr. Zaheer-ul-Haq Qasmi
- Looking for assistance on vmd (Sat Apr 17 2004 - 11:45:53 CDT)
DreamCatcher
- Questions about trajectory files obtained from LAMMPS Molecular dynamics with Reax Force field (Fri Apr 29 2011 - 07:48:18 CDT)
dstrahs_at_pace.edu
- Re: An remark on PoV output (Mon May 14 2007 - 17:52:17 CDT)
dtp3+_at_pitt.edu
- RE: Re: Re: your mail (Tue Jan 04 2005 - 13:12:57 CST)
- (no subject) (Mon Jan 03 2005 - 14:33:55 CST)
Ducasse Laurent
- save coordinates (Mon Mar 30 2015 - 09:00:31 CDT)
DUCHER Roland
- TR: (Thu Aug 06 2020 - 03:03:12 CDT)
- (no subject) (Thu Aug 02 2012 - 04:09:33 CDT)
Dudo
- Re: First "Hands-On" Workshop on Structural DNA Nanotechnology (Mon Sep 24 2018 - 09:49:19 CDT)
- Re: Oculus Rift (Fri Mar 06 2015 - 04:47:03 CST)
- Re: Graphics card suitable for VMD (Fri Oct 31 2014 - 10:38:30 CDT)
- Re: How to get all bond angles and bond distances for all atoms in sheet (Wed Sep 03 2014 - 02:00:12 CDT)
- Re: Accessible volume around an atom (Thu Aug 28 2014 - 04:55:01 CDT)
- Re: self-diffusion coefficient from RMSD (Mon Feb 03 2014 - 21:44:29 CST)
- Re: volume analysis in vmd (Mon Nov 04 2013 - 11:02:04 CST)
- Re: volume analysis in vmd (Thu Oct 31 2013 - 12:48:46 CDT)
- (no subject) (Wed Sep 12 2012 - 13:17:08 CDT)
- Re: Setting molecule ColorID to values greater than 32 (Fri Aug 03 2012 - 09:07:56 CDT)
- Re: Use of coarse grain plugin (Wed Feb 08 2012 - 18:47:01 CST)
- Re: represent water molecules (Mon Jan 02 2012 - 08:49:57 CST)
- Re: Script for Angular Distribution Function? (Tue Dec 06 2011 - 10:30:41 CST)
- Re: RDF calculation for production steps (Thu Sep 15 2011 - 15:23:15 CDT)
- Re: Re: namd-l: how to generate transparent figures? (Mon Jul 25 2011 - 05:13:50 CDT)
- Re: VMD and Kinect (Wed Mar 09 2011 - 12:27:40 CST)
- Re: removing all water molecules (Thu Jan 27 2011 - 09:41:49 CST)
- Re: removing all water molecules (Thu Jan 27 2011 - 08:05:54 CST)
- Re: removing all water molecules (Thu Jan 27 2011 - 07:40:16 CST)
- Re: VTF trajectory from coarse grained ESPReSo simulations. Visualization in Windows. (Wed Jan 12 2011 - 12:16:39 CST)
- VTF trajectory from coarse grained ESPReSo simulations. Visualization in Windows. (Wed Jan 12 2011 - 06:41:27 CST)
Dusan Racko
- Re: ChatGPT knows basic VMD scripting... (Mon Feb 13 2023 - 07:27:29 CST)
- BIMac2019 (Thu Feb 28 2019 - 08:39:19 CST)
dwang_at_cs.kent.edu
- a question about "measure fit" (Thu Jun 22 2006 - 20:36:59 CDT)
dwds gerge
- re: Bug in 'source' command or in for loop? (Tue Sep 13 2011 - 19:37:08 CDT)
- Bug in 'source' command or in for loop? (Tue Sep 13 2011 - 12:06:10 CDT)
Eamon Caddigan
- Re: display of electron density maps (Thu Jun 03 2004 - 11:33:00 CDT)
- Re: Help about Contact Map plugin. Still puzzled by atom selection. (Thu May 27 2004 - 17:48:01 CDT)
- Re: Rendering of screen/display different (Wed Apr 21 2004 - 10:24:16 CDT)
- APBS Plugin for VMD (Mon Feb 23 2004 - 14:14:33 CST)
- Re: antialiasing problem (Thu Nov 20 2003 - 15:15:00 CST)
Eashan C
- Outdated Tutorial Files? (Fri Nov 20 2020 - 23:17:00 CST)
- Re: extended system file not found (Tue Nov 17 2020 - 20:41:14 CST)
- extended system file not found (Tue Nov 17 2020 - 18:36:59 CST)
- (no subject) (Mon Nov 16 2020 - 00:32:30 CST)
Ebert Maximilian
- Distribute evenly n-molecules at m-angstroem from protein surface (Fri Dec 02 2016 - 21:55:50 CST)
- Re: Change color of drawn object (Sat Oct 10 2015 - 20:34:33 CDT)
- Change color of drawn object (Thu Oct 08 2015 - 13:48:07 CDT)
- RE: Draw cylinder with two different diameters for the endpoints (cone) (Wed Oct 07 2015 - 11:35:27 CDT)
- Draw cylinder with two different diameters for the endpoints (cone) (Wed Oct 07 2015 - 11:21:08 CDT)
- Re: OpenDX file format website down: What do the three values at each grid point represent (Tue Oct 06 2015 - 14:38:43 CDT)
- Re: OpenDX file format website down: What do the three values at each grid point represent (Mon Oct 05 2015 - 10:05:29 CDT)
- OpenDX file format website down: What do the three values at each grid point represent (Fri Oct 02 2015 - 12:36:27 CDT)
- VMD with XTC trajectory and stride (Thu Oct 01 2015 - 11:56:13 CDT)
- Re: Implicit Ligand Sampling: How to get energy along a reaction coordinate? (Wed Sep 23 2015 - 15:09:55 CDT)
- Implicit Ligand Sampling: How to get energy along a reaction coordinate? (Wed Sep 23 2015 - 14:11:06 CDT)
- Re: Save position of entire molecule and draw it later (Thu Aug 28 2014 - 13:58:58 CDT)
- Save position of entire molecule and draw it later (Thu Aug 28 2014 - 10:37:34 CDT)
- Accessible volume around an atom (Wed Aug 27 2014 - 13:22:29 CDT)
- Re: Select the residue which comprises the atom with index (Fri Jun 27 2014 - 12:14:46 CDT)
- Select the residue which comprises the atom with index (Fri Jun 27 2014 - 11:08:22 CDT)
- Re: NVIDIA GeForce GT 750M and CUDA (Sat Oct 26 2013 - 10:49:33 CDT)
- NVIDIA GeForce GT 750M and CUDA (Fri Oct 25 2013 - 15:06:36 CDT)
Ebrahim Mayat
- Re: vmd 1.8.3 on my mac (Sun Feb 20 2005 - 08:42:49 CST)
- CAVE on OS X (Mon Dec 13 2004 - 02:57:27 CST)
Ebru Cetin
- VMD Timeline Plug-in Selection in Hydrogen Bonds Calculations (Fri May 28 2021 - 11:55:09 CDT)
- Fwd: VMD Timeline Plug-in Selection in Hydrogen Bonds Calculations (Wed May 26 2021 - 04:33:46 CDT)
Ebru Ã‡etin
- Re: Re: ffTK Parameter Selection i.e. just Scan and Opt Torsion Selection Viable? (Tue Feb 20 2024 - 07:03:03 CST)
- Re: protein and lipid jumping (Sat Oct 23 2021 - 03:51:17 CDT)
Eckhart Guthöhrlein
- Re: Molscript (Thu Aug 26 2004 - 07:14:17 CDT)
- Re: Molscript (Wed Aug 25 2004 - 04:05:04 CDT)
- Re: no main window (Tue Aug 24 2004 - 09:25:07 CDT)
- Molscript (Tue Aug 24 2004 - 06:16:30 CDT)
- no main window (Tue Aug 24 2004 - 06:11:06 CDT)
- same view in VMD and Molscript (Tue Feb 25 2003 - 10:22:10 CST)
Ed Lowe
- enantiomers (Fri Jun 20 2008 - 08:38:06 CDT)
ed mendez
- Changing colors (Sun Nov 27 2005 - 06:30:51 CST)
Ed Robertson
- (no subject) (Tue May 13 2014 - 04:48:54 CDT)
Edelmiro Moman
- Re: (Sat Aug 21 2010 - 04:03:35 CDT)
- Re: MDFF Query: how to convert XPLOR style density maps to DX or SITUS format (Sat Jul 24 2010 - 03:50:58 CDT)
- Mol2 with Charmm atom types? (Mon May 31 2010 - 04:45:51 CDT)
- Re: (Mon Mar 08 2010 - 14:05:52 CST)
- Re: measure command problem (Tue Mar 02 2010 - 13:53:08 CST)
- Re: Graphics card for molecular graphics (Thu Feb 11 2010 - 06:03:47 CST)
- Graphics card for molecular graphics (Sun Jan 24 2010 - 10:57:42 CST)
Eden Duthie
- MSMS of selection's contribution to total surface (Tue Nov 29 2005 - 18:10:05 CST)
Edgar Galicia
- Re: Surf render crashing (Tue Mar 04 2025 - 05:00:36 CST)
- Surf render crashing (Fri Feb 28 2025 - 15:25:06 CST)
- Clipping plane (Mon Jan 18 2021 - 11:58:43 CST)
Edith Euan
- Problems with VMD installation Fedora 12 64bits (Sat Mar 13 2010 - 00:57:39 CST)
Edivaldo Rodrigues
- Re: PROBLEM INSTALLING VMD (Fri Jul 15 2022 - 13:23:10 CDT)
- PROBLEM INSTALLING VMD (Mon Jul 11 2022 - 06:53:09 CDT)
- (no subject) (Thu Jul 07 2022 - 16:12:53 CDT)
Edoardo Baldi
- TachyonL-Optix render command (Tue Oct 20 2015 - 12:45:31 CDT)
Eduard Schreiner
- Re: Aligning two proteins of varying atom numbers (Thu May 19 2011 - 12:07:00 CDT)
- Re: trajectory of water within 5 A of protein (Tue May 10 2011 - 09:51:13 CDT)
- Re: hello (Fri Apr 29 2011 - 06:40:50 CDT)
- Re: problem in extracting frame number (Thu Jan 13 2011 - 10:33:34 CST)
- Re: Regarding fitframes.tcl (Tue Jan 04 2011 - 07:48:33 CST)
- Re: Regarding fitframes.tcl (Tue Jan 04 2011 - 05:31:58 CST)
- Re: reading of one frame from DCD file (Tue Nov 30 2010 - 19:44:55 CST)
- Re: Rendering .dat files created from Movie Maker using Tachyon (Tue Nov 16 2010 - 23:39:58 CST)
- Re: Rendering .dat files created from Movie Maker using Tachyon (Tue Nov 16 2010 - 11:25:07 CST)
- Re: Measure Radius of gyration (Mon Nov 15 2010 - 13:47:16 CST)
- Re: rmsd (Tue Nov 02 2010 - 13:01:09 CDT)
- Re: Bond Colors (Wed Oct 13 2010 - 12:14:46 CDT)
- Re: RE: trouble with measure hbonds (Tue Oct 05 2010 - 11:33:03 CDT)
- Re: trouble with measure hbonds (Mon Oct 04 2010 - 15:53:17 CDT)
- Re: write pdbs of selected frames of a trajectory (Wed Sep 22 2010 - 15:09:14 CDT)
- Re: superimpose residues across several protein structures (Wed Sep 22 2010 - 08:52:20 CDT)
- Re: creating psf file (Sun Sep 19 2010 - 21:39:29 CDT)
- Re: turning on the tcl/tk console in .vmdrc (Tue Sep 14 2010 - 07:35:55 CDT)
- Re: Autoionize question for DNA molecule (Mon Jul 12 2010 - 11:08:02 CDT)
- Re: DPPC (Thu Jul 08 2010 - 23:42:27 CDT)
- Re: SASA and SESA (Sun Jan 24 2010 - 15:38:54 CST)
- Re: VMD movie from XYZ coordinate if file has two type of atoms] (Tue Dec 11 2007 - 07:49:44 CST)
- Re: VMD movie from XYZ coordinate if file has two type of atoms (Tue Dec 11 2007 - 02:36:07 CST)
- Re: problem with saving changed coordinates in a new state (Thu Nov 29 2007 - 02:24:56 CST)
- Re: superposition of two complex according to the same inhibitor (Tue Oct 23 2007 - 01:05:26 CDT)
- numbonds (Tue Aug 28 2007 - 10:54:20 CDT)
- Re: atomselect (Tue Jul 10 2007 - 09:23:23 CDT)
- Re: regarding selecting complete residues within a distance (Fri May 25 2007 - 07:41:48 CDT)
- Re: Displaying the periodic box ... (Thu May 24 2007 - 12:39:40 CDT)
- Re: average structure (Tue Feb 13 2007 - 06:52:21 CST)
- Re: wildcards in atomselect command (Fri Jan 26 2007 - 10:13:27 CST)
- Re: adding new atoms to a molecule from a script (Thu Oct 05 2006 - 08:20:54 CDT)
- Re: no main window with ATI openGL (Wed Oct 04 2006 - 08:05:37 CDT)
- Re: Hbond donor-acceptor distances (Wed Oct 04 2006 - 06:15:38 CDT)
- Re: A error of " transforming dcd into pdb " (Tue Aug 29 2006 - 04:46:24 CDT)
- Re: md trajectory: centering/h-bonb residence/coordination number (Mon Aug 21 2006 - 12:09:34 CDT)
- Re: Problem with Hg, H (Wed May 10 2006 - 10:41:34 CDT)
- Re: How to select water near a certain residue if it is outside of the water box? (Wed May 10 2006 - 04:22:34 CDT)
- Re: search path and naming conventions for custom TCL scripts (Wed May 03 2006 - 12:35:15 CDT)
- Re: how to plot waters h-bonded to a protein? (Thu Apr 06 2006 - 12:09:19 CDT)
- Re: PBC and H-bond detection (Fri Dec 09 2005 - 04:41:10 CST)
- Re: dihedral angles (Tue Dec 06 2005 - 09:35:22 CST)
- Re: new coordinates (Thu Oct 06 2005 - 06:18:01 CDT)
- Re: quality rendering (Thu Jul 14 2005 - 01:46:46 CDT)
- Re: Re: wrong bond drawing with pdb files (Thu Jul 14 2005 - 01:38:46 CDT)
- Re: display Gaussian cube file (Wed Jul 13 2005 - 04:05:27 CDT)
- Re: wrong bond drawing with pdb files (Tue Jul 12 2005 - 11:01:24 CDT)
- Re: TCL for adding bonds? (Fri Jul 08 2005 - 03:26:15 CDT)
- Re: a suggestion and query on command usage (Sat Jul 02 2005 - 10:01:53 CDT)
- Re: Render to Tachyon Internal in a Tcl script (Thu Jun 16 2005 - 01:41:30 CDT)
- Re: writing DCD files (Fri May 06 2005 - 06:57:18 CDT)
- Re: bond missimg (Mon Apr 25 2005 - 08:58:44 CDT)
- Re: drawing the edges of a non-rectangular box (Fri Mar 11 2005 - 13:02:50 CST)
- Re: Is it possible to select a sub-trajectory specificities. (Thu Mar 03 2005 - 06:16:58 CST)
- Re: Is it possible to select a sub-trajectory specificities. (Wed Mar 02 2005 - 05:18:30 CST)
- Re: Align protein with different number of aminoacid (Fri Feb 11 2005 - 04:42:24 CST)
- Re: VMD and CPMD (Wed Jan 26 2005 - 08:56:00 CST)
Eduardo
- Re: Matrix based intermediate rotations (Fri Sep 03 2010 - 11:16:26 CDT)
- Re: Charmm parameters for Polybutylene terephthalate (PBT) (Thu Mar 11 2010 - 01:33:56 CST)
- Re: density profiles (Wed Apr 22 2009 - 22:17:42 CDT)
Eduardo Cruz-Chu
- Re: namd-l: Atom movement within a range of Z value (Tue May 11 2010 - 15:45:59 CDT)
- Re: Manipulating dcd using script in VMD (Tue Apr 28 2009 - 01:55:25 CDT)
- Re: Calculating system net charge with tcl in VMD (Mon Apr 27 2009 - 10:50:01 CDT)
- Re: Selecting the sides of a benzene ring (Tue Jul 22 2008 - 11:21:42 CDT)
Eduardo Estevez
- How to get a file of trajectories and velocities in VMD? (Mon Oct 10 2022 - 16:53:39 CDT)
- How to calculate number of water molecules close to a nanostructure (Sat Oct 01 2022 - 06:52:56 CDT)
- MOLECULE DESTROYED BY FATAL ERROR (Sun Jan 16 2022 - 14:54:00 CST)
- REMOVE WATER MOLECULES WITH A SPECIFIC DISTANCE (Sun May 16 2021 - 13:13:06 CDT)
EDUARDO JOSÃ‰ AZEVEDO CORREA
- Re: ChatGPT knows basic VMD scripting... (Mon Feb 13 2023 - 09:37:06 CST)
Eduardo Oliveira
- measure fit - wrong alignment (Thu May 26 2011 - 05:56:40 CDT)
Edward Ditler
- Re: Re: VMD 1.9.4a38 build for macOS Catalina (Mon Dec 09 2019 - 00:58:42 CST)
- Re: Getting list of arguments for TCL console (Wed Nov 27 2019 - 05:22:16 CST)
- Getting list of arguments for TCL console (Tue Nov 26 2019 - 02:23:58 CST)
Edward J. Smiley Jr.
- Coloring with an XYZ file (Tue May 04 2004 - 15:25:50 CDT)
Edward Lyman
- Re: dx file format (Tue Mar 12 2013 - 10:35:06 CDT)
- Re: dx file format (Mon Mar 11 2013 - 20:23:55 CDT)
- dx file format (Mon Mar 11 2013 - 16:41:46 CDT)
- Re: setting up the grid for periodic coulomb volmap calc (Mon Feb 25 2013 - 15:20:43 CST)
- conversion from CHARMM27 psf to charmm36 with psfgen? (Mon Feb 25 2013 - 08:37:12 CST)
- setting up the grid for periodic coulomb volmap calc (Fri Feb 22 2013 - 09:19:43 CST)
- Re: unwrapping long trajectories (Fri Jun 15 2012 - 23:35:58 CDT)
- Re: unwrapping long trajectories (Mon Jun 11 2012 - 18:05:32 CDT)
- unwrapping long trajectories (Fri Jun 08 2012 - 10:09:48 CDT)
- autoionize adds too many ions (Fri Jul 15 2011 - 14:34:48 CDT)
- tips for an annoying aliasing task? (Thu May 26 2011 - 10:33:27 CDT)
- Re: SASA calculation using periodic images? (Tue May 03 2011 - 09:34:57 CDT)
- Re: psfgen: error processing bonds (Sun May 01 2011 - 16:14:33 CDT)
- Re: psfgen: error processing bonds (Sat Apr 30 2011 - 10:39:47 CDT)
- Re: psfgen: error processing bonds (Sat Apr 30 2011 - 10:16:16 CDT)
- Re: psfgen: error processing bonds (Fri Apr 29 2011 - 14:30:53 CDT)
- Re: psfgen: error processing bonds (Fri Apr 29 2011 - 08:00:52 CDT)
- psfgen: error processing bonds (Fri Apr 22 2011 - 10:03:30 CDT)
- dtr plugin: does it work for forces traj? (Fri Nov 05 2010 - 11:03:55 CDT)
- Re: Solvent Accessible Surface (Thu Aug 12 2010 - 14:10:25 CDT)
- Re: making a movie of an unusual trajectory (Fri Jul 16 2010 - 13:09:09 CDT)
- Re: making a movie of an unusual trajectory (Fri Jul 16 2010 - 12:34:06 CDT)
- making a movie of an unusual trajectory (Fri Jul 16 2010 - 11:54:47 CDT)
- Re: -samples flag of measure sasa (Fri Jun 18 2010 - 14:15:10 CDT)
- -samples flag of measure sasa (Thu Jun 17 2010 - 11:47:34 CDT)
- Re: units of "measure dipole" (Tue May 11 2010 - 15:35:56 CDT)
- units of "measure dipole" (Tue May 11 2010 - 14:47:45 CDT)
- Re: 2 questions about "measure sasa" (Fri Feb 26 2010 - 13:44:59 CST)
- Re: 2 questions about "measure sasa" (Thu Feb 25 2010 - 17:05:37 CST)
- 2 questions about "measure sasa" (Wed Feb 17 2010 - 14:40:53 CST)
- namd2.7b1, tip4p, and dummies (Wed Sep 30 2009 - 01:36:06 CDT)
- memory allocation issue (Wed May 06 2009 - 13:37:04 CDT)
- SMD question (Thu Feb 19 2009 - 14:00:32 CST)
- trans routine (Fri Jan 16 2009 - 12:49:24 CST)
- equilibrating a membrane patch (Mon Dec 08 2008 - 13:25:30 CST)
- doubling a membrane (Mon Nov 10 2008 - 16:42:13 CST)
- conformations of a linker (Fri Oct 31 2008 - 14:07:08 CDT)
- move matrix definition (Tue Oct 28 2008 - 11:39:42 CDT)
- pbc join (Tue Sep 02 2008 - 13:34:46 CDT)
Edward P. Manning
- PDB COORDINATES (Sun Jul 26 2009 - 19:08:28 CDT)
Edward Patrick Obrien
- Re: Surface accesible area w/v1.8.3beta (Mon Feb 07 2005 - 12:47:34 CST)
- Re: Surface accesible area w/v1.8.3beta (Mon Feb 07 2005 - 12:03:46 CST)
- Surface accesible area w/v1.8.3beta (Mon Feb 07 2005 - 11:26:16 CST)
Edwina Grove
- Replica watches make great gifts (Sun May 04 2008 - 01:24:11 CDT)
ee_at_post.harvard.edu
- VMD + MSMS + WinNT (Thu Nov 30 2000 - 15:27:31 CST)
effekri_at_infinito.it
- error python (Mon Sep 13 2004 - 02:18:25 CDT)
Efthymiou, Christos
- Re: Concatenate DCD Files with Different Numbers of Atoms (Wed Jul 05 2023 - 02:53:00 CDT)
- Fix the Header of DCD File After Merging Multiple Trajectories (Mon Jul 03 2023 - 04:19:11 CDT)
- Concatenate DCD Files with Different Numbers of Atoms (Sat Jul 01 2023 - 16:04:35 CDT)
- Re: Random Sudden Increase in RMSD Near End of Simulation (Mon May 01 2023 - 13:39:12 CDT)
- Re: Random Sudden Increase in RMSD Near End of Simulation (Mon May 01 2023 - 11:43:33 CDT)
- Random Sudden Increase in RMSD Near End of Simulation (Fri Apr 28 2023 - 01:58:28 CDT)
- Error with Catdcd (Tue Mar 07 2023 - 16:47:47 CST)
- How to change stride of trajectory initially loaded in CaFE Plugin (Thu Feb 02 2023 - 17:45:36 CST)
- TCL Script for PCA? (Mon Jan 09 2023 - 15:24:06 CST)
- Error with PCA Calculation using Normal Mode Wizard (Tue Nov 08 2022 - 12:06:45 CST)
- Re: Re: Using BigDCD on Simulation Files Located on Mapped Network Drive (Tue Oct 11 2022 - 19:45:48 CDT)
- Re: Using BigDCD on Simulation Files Located on Mapped Network Drive (Tue Oct 11 2022 - 14:15:52 CDT)
- Using BigDCD on Simulation Files Located on Mapped Network Drive (Tue Oct 11 2022 - 13:33:08 CDT)
- QwikMD Error in VMD 1.9.4a53 on Windows 10 Computer (Mon Oct 10 2022 - 12:04:46 CDT)
- Re: Maximum Stride Possible for Publishable Results (Fri Oct 07 2022 - 13:34:53 CDT)
- Re: Maximum Stride Possible for Publishable Results (Wed Oct 05 2022 - 13:30:00 CDT)
- Re: Maximum Stride Possible for Publishable Results (Tue Oct 04 2022 - 12:43:17 CDT)
- Maximum Stride Possible for Publishable Results (Mon Oct 03 2022 - 13:50:17 CDT)
- Automation of Analysis from QwikMD and Loading Trajectory Without Water in QwikMD (Thu Sep 01 2022 - 08:48:31 CDT)
- Add Topology and Parameters in QwikMD (Tue Aug 30 2022 - 10:09:37 CDT)
- Re: How to reduce the size of a .dcd file? (Mon Aug 29 2022 - 04:29:13 CDT)
- Re: How to reduce the size of a .dcd file? (Mon Aug 29 2022 - 03:55:39 CDT)
- Re: How to reduce the size of a .dcd file? (Fri Aug 26 2022 - 14:04:03 CDT)
- DisRG Plugin Availability (Thu Aug 25 2022 - 10:43:10 CDT)
- CaFE VMD Plugin Errors at PB Calculation Step (Fri Aug 19 2022 - 04:03:25 CDT)
- Re: CaFE Plugin - Didn't Find vDW Parameter for Atom Type HT1 Error (Thu Aug 18 2022 - 15:16:34 CDT)
- CaFE Plugin - Didn't Find vDW Parameter for Atom Type HT1 Error (Thu Aug 18 2022 - 11:11:35 CDT)
- Adding Topology+Parameter For Small Molecule in QwikMD (Tue Aug 09 2022 - 08:09:41 CDT)
- Re: Hetero Chain not Recognized by Structure Manipulation Window (Tue Aug 09 2022 - 05:01:28 CDT)
- Hetero Chain not Recognized by Structure Manipulation Window (Mon Aug 08 2022 - 11:10:16 CDT)
- Preparing Simulation Files Quickly Using QwikMD (Fri Aug 05 2022 - 03:46:56 CDT)
- Unable to Delete Macro QwikMD Error (Mon Aug 01 2022 - 03:55:53 CDT)
- Re: Error with CaFE VMD Plugin (Thu Jul 14 2022 - 12:19:20 CDT)
- Calculate Free Binding Energy of Protein-Protein Complex: CaFE Extension (Tue Jun 28 2022 - 14:26:49 CDT)
- Re: How to reduce the size of a .dcd file? (Tue Jun 21 2022 - 04:35:02 CDT)
- Re: How to reduce the size of a .dcd file? (Sun Jun 19 2022 - 08:15:37 CDT)
- Re: How to reduce the size of a .dcd file? (Fri Jun 17 2022 - 07:26:49 CDT)
- Re: Error with CaFE VMD Plugin (Fri Jun 17 2022 - 06:22:28 CDT)
- Error with CaFE VMD Plugin (Thu Jun 16 2022 - 05:30:17 CDT)
- How to reduce the size of a .dcd file? (Thu Jun 16 2022 - 05:14:03 CDT)
- Re: Clarification on RMSF Calculation (Mon May 30 2022 - 16:01:41 CDT)
- Clarification on RMSF Calculation (Mon May 30 2022 - 14:08:16 CDT)
- Plot RMSD/RMSF/SASA Results from Multiple Trajectories on Same Plot (Thu May 19 2022 - 14:53:57 CDT)
- Calculate Free Energy of Protein-Protein Binding (Thu May 12 2022 - 13:55:43 CDT)
EGIDEA PUTI DEVINA
- Error when find salt bridges (Tue Apr 25 2017 - 22:02:16 CDT)
ehsan shahini
- Bond Length and Bond Angle as a Function of Steps (Tue Jul 30 2019 - 02:29:41 CDT)
- Changing atoms diameter (Fri Apr 22 2016 - 04:26:46 CDT)
ehsan zahedinejad
- fftk charge optimization option (Sat Jan 19 2013 - 19:12:06 CST)
- Question regarding dihedral fitting using fftk (Fri Nov 30 2012 - 00:23:42 CST)
- Re: question about fftk (Tue Oct 02 2012 - 11:05:35 CDT)
- Duplicate option in fftk (Thu Sep 13 2012 - 18:53:39 CDT)
Eiros Zamora, Juan
- Re: CUDA acceleration for Tachyon rendering? (Fri Dec 02 2016 - 04:48:37 CST)
- CUDA acceleration for Tachyon rendering? (Thu Dec 01 2016 - 13:41:59 CST)
- Re: Tachyon renderer memory error (Tue Feb 09 2016 - 10:15:34 CST)
- Tachyon renderer memory error (Tue Feb 09 2016 - 04:44:38 CST)
- Re: Specify stride from command line (Tue Feb 02 2016 - 04:15:57 CST)
- Specify stride from command line (Thu Jan 28 2016 - 10:07:43 CST)
- Re: Best VMD install for El Capitan OS X? (Fri Nov 06 2015 - 09:32:57 CST)
- Best VMD install for El Capitan OS X? (Mon Nov 02 2015 - 03:35:36 CST)
Eisenhart, Andrew (eisenhaw)
- Re: FFTK measure bond error (Mon Nov 07 2016 - 13:33:39 CST)
- Re: FFTK measure bond error (Wed Nov 02 2016 - 11:27:20 CDT)
- FFTK measure bond error (Mon Oct 31 2016 - 13:15:24 CDT)
Ekta Khurana
- Re: Multiseq in text mode (Wed Feb 09 2011 - 13:23:19 CST)
- Re: Multiseq in text mode (Tue Feb 08 2011 - 08:06:16 CST)
- Re: Multiseq in text mode (Mon Feb 07 2011 - 23:33:00 CST)
- Multiseq in text mode (Mon Feb 07 2011 - 13:11:57 CST)
- Re: .xyz to .dcd using catdcd (Mon Apr 16 2007 - 21:31:42 CDT)
- Re: .xyz to .dcd using catdcd (Mon Apr 16 2007 - 14:34:47 CDT)
- .xyz to .dcd using catdcd (Fri Apr 13 2007 - 16:08:51 CDT)
- electric field (Sat Sep 02 2006 - 20:21:23 CDT)
- RE: how to write out the coordinates of center of mass of a particularresidue (Thu Jun 02 2005 - 10:12:00 CDT)
- RE: Rama plot (Tue May 10 2005 - 11:31:27 CDT)
- Ramachandran plot (Mon May 09 2005 - 18:00:46 CDT)
- RE: Rama plot (Mon May 09 2005 - 18:34:48 CDT)
- Rama plot (Mon May 09 2005 - 18:07:40 CDT)
- Re: SMD (Mon Feb 07 2005 - 13:57:23 CST)
- SMD (Mon Feb 07 2005 - 10:28:24 CST)
- solvent mixture (Wed Feb 02 2005 - 20:44:48 CST)
- angle between two vectors (Tue Jan 11 2005 - 18:56:54 CST)
- Label using TCL (Mon Nov 22 2004 - 18:43:28 CST)
- density profile (Tue Mar 16 2004 - 14:57:36 CST)
- save psf (Thu Feb 19 2004 - 16:44:16 CST)
eladp_at_hplus.tau.ac.il
- Calculating minimal distance between two groups (Mon Nov 14 2005 - 10:02:59 CST)
elena ermakova
- residue-residue interaction energy (Tue Dec 08 2015 - 02:48:04 CST)
- Dynamical Network Analysis programs gncommunities and subopt (Sat Apr 14 2012 - 01:40:33 CDT)
Elena Lilkova
- Re: FFTK scan torsions question (Tue Feb 17 2015 - 10:07:10 CST)
- FFTK scan torsions question (Tue Feb 17 2015 - 07:46:06 CST)
- FFTK charge optimization of one charge group (Tue Feb 10 2015 - 08:08:18 CST)
- Re: FFTK charge optimization of one charge group (Tue Feb 10 2015 - 08:36:35 CST)
- Large angle force constants with FFTK (Tue Jan 06 2015 - 07:32:57 CST)
ELENA S SLOBOUNOV
- VMD on LINUX with CAVELib (Fri Apr 28 2006 - 16:25:13 CDT)
Elena Slobounov
- VMD + linux (64) + Flock of Birds (Fri Jul 15 2005 - 16:06:24 CDT)
elene shopova
- Body (Mon Mar 06 2017 - 11:18:40 CST)
elham sattarinezhad
- version 1.9.3 (Fri May 12 2023 - 09:31:35 CDT)
Eli Alster
- STAMP Multiseq (Tue Aug 13 2013 - 11:40:32 CDT)
Elias Ahadi
- Extra lines shown in trajectories in VMD (Wed Jul 21 2010 - 12:26:08 CDT)
- bond connectivity not displayed in VMD (Wed Oct 21 2009 - 11:36:39 CDT)
- model protein chain not displayed properly (Mon Sep 28 2009 - 13:38:32 CDT)
Elif Ozkirimli
- Re: changing the representation of all loaded molecules (Wed May 26 2004 - 13:32:28 CDT)
- Re: changing the representation of all loaded molecules (Thu May 20 2004 - 08:55:25 CDT)
- changing the representation of all loaded molecules (Wed May 19 2004 - 14:32:02 CDT)
Elijah Roberts
- Re: Multiseq error: 'can't read 'SequenceIDtoMolID(122)': no such element in array' (Wed Oct 22 2008 - 22:24:11 CDT)
- Re: Pairwise RMSD (Tue Oct 07 2008 - 15:13:16 CDT)
- Re: Multiseq refusing to load a structure due to taxonomy problem (Tue Jul 29 2008 - 13:17:04 CDT)
- Re: problem with superimposing two proteins (Thu Jan 10 2008 - 17:09:37 CST)
- Re: custom db in Multiseq (Tue May 22 2007 - 16:01:53 CDT)
- Re: Sequences and BLAST searching (Wed Nov 15 2006 - 12:05:57 CST)
- Re: VMD1.8.5 : multiseq db (Tue Aug 29 2006 - 12:20:04 CDT)
- Re: Réf. : Re: vmd-l : VMD1.8.5 : multiseq db (Tue Aug 29 2006 - 10:45:09 CDT)
- Re: vmd-l : VMD1.8.5 : multiseq db (Tue Aug 29 2006 - 09:08:40 CDT)
- Re: Loading structures into sequence alignment extension? (Mon Feb 13 2006 - 14:03:28 CST)
Eliud Oloo
- analysis script causes vmd to crash (Thu Feb 02 2006 - 19:26:35 CST)
Eliza Wray
- Your Val1um 0rder #799563 (Fri Aug 31 2007 - 10:02:23 CDT)
Elizabeth K. White
- problem with RMSD script (Wed Aug 15 2001 - 15:03:11 CDT)
Elizabeth Wait
- Re: Visualization State Issue With Secondary Structure (Tue Jun 11 2019 - 11:16:04 CDT)
- Visualization State Issue With Secondary Structure (Thu Jun 06 2019 - 15:46:40 CDT)
Ellis, Matthew
- Coloring different isosurfaces with user-defined colors (Sat Feb 02 2019 - 04:38:32 CST)
Emanuel Vamvakopoulos
- about graphics accelaration (Fri Apr 12 2002 - 11:36:49 CDT)
Emeline Leproult
- Link between the electrostatic potential on the surface and the grid.dx generated by APBS (Mon Feb 02 2009 - 09:57:02 CST)
emerson p l
- Re: Questions - Running vmd on a supercomputer (Mon Feb 14 2022 - 12:50:13 CST)
- Questions - Running vmd on a supercomputer (Mon Feb 14 2022 - 08:01:02 CST)
Emilia Wu
- superposition of two complex according to the same inhibitor (Mon Oct 22 2007 - 21:42:59 CDT)
- the representation of within 10 angstrom of a specific point (Sun Oct 07 2007 - 22:01:08 CDT)
Emiliano Fratini
- Problem with CG Builder/AutoPSF extension in VMD (Thu Mar 09 2017 - 05:34:41 CST)
Emiliano Ippoliti
- Re: measure gofr script (Sat Apr 28 2012 - 11:17:00 CDT)
- measure gofr script (Sat Apr 28 2012 - 08:51:58 CDT)
- Re: Stereoscopic visualization (Tue May 11 2010 - 02:37:15 CDT)
- Re: Stereoscopic visualization (Sun May 09 2010 - 13:56:59 CDT)
- Stereoscopic visualization (Sun May 09 2010 - 10:58:46 CDT)
emiliawu_at_dicp.ac.cn
- count CLA number from different frames (Sat Mar 12 2011 - 07:16:32 CST)
- abuot avpos (Thu Feb 24 2011 - 00:57:00 CST)
Emilio Lence
- Can I load NetCDF trajectories from AMBER in VMD on a Windows machine? (Fri Jan 16 2015 - 06:12:54 CST)
Emily Chen
- Re: OpenGL Display slow/freeze (Tue Jun 22 2010 - 13:51:37 CDT)
- Re: OpenGL Display slow/freeze (Tue Jun 22 2010 - 13:53:30 CDT)
- AutoPSF errors (Mon Jun 21 2010 - 14:06:19 CDT)
Emily Moore
- Running without interface (Thu Sep 04 2008 - 11:29:02 CDT)
- Re: TXT program editor (Thu Aug 28 2008 - 18:13:01 CDT)
- Re: TXT program editor (Thu Aug 28 2008 - 17:09:42 CDT)
- Re: Trouble updating frames in script (Tue Aug 19 2008 - 14:23:29 CDT)
- Trouble updating frames in script (Tue Aug 19 2008 - 12:21:11 CDT)
Emma Wu
- Dealing with lone pairs in fftk (Sat Jan 30 2021 - 20:31:30 CST)
- Re: Windows VMD 1.9.4a Version Failing (Thu Jan 07 2021 - 19:43:27 CST)
- Re: Error with RESP in ffTK (Wed Dec 30 2020 - 17:52:56 CST)
- Error with RESP in ffTK (Sun Dec 27 2020 - 22:00:35 CST)
- Windows VMD 1.9.4a Version Failing (Sun Dec 27 2020 - 19:16:24 CST)
- Re: VMD crash due to large volume of .dcd file (Sat Nov 28 2020 - 16:53:30 CST)
- Re: Re: "atomsel: set: bad data in 0th element" ffTK (Thu Nov 12 2020 - 18:42:29 CST)
- Re: Combining fragments for parameterization (Fri Oct 30 2020 - 23:47:35 CDT)
- "atomsel: set: bad data in 0th element" ffTK (Thu Oct 22 2020 - 00:25:01 CDT)
- Combining fragments for parameterization (Thu Oct 15 2020 - 00:50:30 CDT)
- Re: FFTK: Water Interactions, Steric Clashes (Wed Oct 07 2020 - 23:20:54 CDT)
- FFTK: Water Interactions, Steric Clashes (Tue Oct 06 2020 - 22:13:31 CDT)
Emmanouil_Bambakopoulos
- about dynamical change color of atoms (Thu Apr 01 2004 - 09:35:40 CST)
Emmanuel Baribefe Naziga
- Re: trajectory of water within 5 A of protein (Tue May 10 2011 - 10:26:52 CDT)
Emmanuel Levy
- Re: snapshot not compatible with -dispdev text? (Mon Mar 10 2008 - 18:19:49 CDT)
- snapshot not compatible with -dispdev text? (Mon Mar 10 2008 - 17:08:02 CDT)
- Re: Automatically zoom so that the protein fill the display (Mon Mar 10 2008 - 15:03:40 CDT)
- Re: Automatically zoom so that the protein fill the display (Mon Mar 10 2008 - 14:28:30 CDT)
- Re: Automatically zoom so that the protein fill the display (Mon Mar 10 2008 - 14:30:51 CDT)
- Automatically zoom so that the protein fill the display (Mon Mar 10 2008 - 13:21:46 CDT)
- Electron microscopy surface with VMD? (Thu Jul 12 2007 - 16:37:18 CDT)
- Exporting a protein surface into a mesh (plain text file) (Mon Oct 09 2006 - 11:59:57 CDT)
Emmanuel Vamvakopoulos
- SGI problem! (Fri Oct 29 1999 - 07:57:27 CDT)
- how is dcd trajectory format ! (Fri Aug 27 1999 - 14:18:04 CDT)
- about shape order parameter (Sat May 24 2003 - 07:12:07 CDT)
Emmanuel, Alaina
- Re: Announcement: User defined movie animation (Fri Nov 28 2014 - 10:58:51 CST)
emmanuel.levy1_at_free.fr
- Animate the "beta" field (Sat May 29 2004 - 14:05:16 CDT)
emra Heshmati
- H- bond (Wed Oct 17 2007 - 12:16:47 CDT)
- electrostatic energy (Wed Aug 15 2007 - 08:20:16 CDT)
- surface area (Wed Feb 07 2007 - 22:40:56 CST)
Endri Kastrati
- VMD process Windows (Fri May 10 2019 - 00:01:22 CDT)
- Library to display molecule into Qt widget (Thu Oct 11 2018 - 20:00:27 CDT)
eneas_at_usal.es
- Energy contribution analysis (Wed Aug 28 2013 - 05:42:43 CDT)
Engelman, Joshua
- Re: Movie Plugin (Mon Apr 23 2012 - 16:32:01 CDT)
- Re: Movie Plugin (Sat Apr 21 2012 - 16:50:59 CDT)
- Movie Plugin (Sat Apr 21 2012 - 15:54:54 CDT)
- HOOMD problems (Fri Apr 20 2012 - 15:35:52 CDT)
Enrico Martinez
- Re: Using Molefacture plugin in batch mode (Wed Sep 07 2022 - 08:53:25 CDT)
- Re: Using Molefacture plugin in batch mode (Wed Sep 07 2022 - 02:44:47 CDT)
- Using Molefacture plugin in batch mode (Tue Sep 06 2022 - 03:22:44 CDT)
Enrico Santori
- Re: Virtual Reality and VMD (Tue Dec 14 2004 - 09:32:30 CST)
- Virtual Reality and VMD (Tue Dec 14 2004 - 02:31:00 CST)
Enzo Claudino
- Angles between two groups of atoms (Wed Feb 03 2021 - 12:19:00 CST)
Enzo Vitale
- adding new atoms to a molecule from a script (Thu Oct 05 2006 - 05:20:55 CDT)
- different number of atoms in different frames of a trajectory (Mon Sep 04 2006 - 11:09:33 CDT)
- search path and naming conventions for custom TCL scripts (Wed May 03 2006 - 09:13:42 CDT)
- coordinates of an atom (Tue May 02 2006 - 09:39:10 CDT)
- hiding and renaming of graphical objects (Fri Apr 28 2006 - 11:54:30 CDT)
EPF (Esben Peter Friis)
- RE: How to read i8(64 bit) .crd file with 32 bit VMD (Sun May 23 2004 - 15:31:55 CDT)
- RE: NVIDIA Quadro - CrystalEyes - Linux (Tue Sep 30 2003 - 08:45:41 CDT)
- RE: NVIDIA Quadro - CrystalEyes - Linux (Tue Sep 30 2003 - 09:27:56 CDT)
EPF $Esben Peter Friis$
- RE: namd-l: Aligning structures (Fri Mar 10 2006 - 01:34:40 CST)
- RE: VMD on Linux Fedora Core 2 (Wed Oct 13 2004 - 10:20:43 CDT)
Epiphaniou, Nicholas
- Colouring Atoms according to the centro-symmetric parameter (Thu Mar 01 2007 - 12:59:00 CST)
- Error when compiling Plugins from source code (Thu Jan 25 2007 - 04:57:09 CST)
Eric A Brenner
- Re: Trying to Use AutoPSF on Hundreds of pdb Files (Mon Dec 12 2016 - 11:01:25 CST)
- Re: Trying to Use AutoPSF on Hundreds of pdb Files (Fri Dec 09 2016 - 18:40:15 CST)
- Re: Trying to Use AutoPSF on Hundreds of pdb Files (Thu Dec 08 2016 - 20:14:13 CST)
- Trying to Use AutoPSF on Hundreds of pdb Files (Thu Dec 08 2016 - 17:27:58 CST)
Eric Brown
- Python, Numeric, and Mac OS X problem (Mon Mar 14 2005 - 06:14:29 CST)
- Python, Numeric, and Mac OS X problem (Mon Mar 14 2005 - 05:18:08 CST)
Eric Germaneau
- Not calculate bonds by default. (Fri Mar 11 2011 - 07:12:04 CST)
Eric Grzelak
- How to set the default mol style as VDW? (Wed Sep 01 2010 - 15:07:49 CDT)
Eric H. Lee
- Re: how to label the distances using tk console mode (Tue Dec 15 2009 - 20:54:17 CST)
- Re: how to label the distances using tk console mode (Tue Dec 15 2009 - 20:09:58 CST)
- Re: colour residues (Mon Oct 12 2009 - 21:31:18 CDT)
- Re: colour residues (Mon Oct 12 2009 - 18:26:11 CDT)
- Re: catdcd (Mon Oct 12 2009 - 10:05:09 CDT)
- Re: NAMD tutorial for Windows problem reading pgn file from vmd tkconsole (Fri Aug 21 2009 - 17:13:21 CDT)
- Re: NAMD tutorial for Windows problem reading pgn file from vmd tkconsole (Fri Aug 21 2009 - 16:40:52 CDT)
- Re: need convert when using VMD to make a movie under Mac (Mon Jul 20 2009 - 18:34:53 CDT)
- Re: namd-l: molecule jumps from one site to the other? (Mon Jul 13 2009 - 21:33:42 CDT)
- Re: Transparency settings (Wed Jun 10 2009 - 09:23:55 CDT)
- Re: atom selection (Sun Jun 07 2009 - 23:46:39 CDT)
- Re: NAMDEnergy (Sun Jun 07 2009 - 15:37:30 CDT)
- Re: BMP snapshot (Thu May 07 2009 - 14:26:24 CDT)
- Re: Graphical representation (Sun Mar 29 2009 - 14:22:18 CDT)
- Re: how to make a mivie by VMD (Wed Mar 25 2009 - 20:37:16 CDT)
- Re: how to make a mivie by VMD (Wed Mar 25 2009 - 17:44:43 CDT)
- Re: odd render problems with Vista (Sun Jan 11 2009 - 20:53:13 CST)
- Re: fasta2pdb (Mon Nov 10 2008 - 15:16:00 CST)
- Re: Problem in text mode (Thu Oct 16 2008 - 01:43:01 CDT)
- Re: VMD crasch (Thu Jul 31 2008 - 16:11:33 CDT)
- Re: Maximum velocities (Thu Jul 03 2008 - 16:17:54 CDT)
- Re: rmsd per residue (Mon Jun 30 2008 - 14:42:18 CDT)
- Re: displaying hydrogen bonds when hydrogens are not available (Thu Jun 19 2008 - 09:46:51 CDT)
Eric Hajjar
- Re: Display the electrostatic character (delphimap) on the structure file (Wed May 24 2006 - 02:48:31 CDT)
- Re: Display the electrostatic character (delphimap) on the structure file (Tue May 16 2006 - 01:51:14 CDT)
- Re: Display the electrostatic character (delphimap) on the structure file (Thu May 11 2006 - 01:18:54 CDT)
- Display the electrostatic character (delphimap) on the structure file (Tue May 09 2006 - 05:18:37 CDT)
- VMD compatibility with graphics card (Thu Dec 02 2004 - 03:27:08 CST)
eric hu
- movie from amber traj (Tue Jan 14 2003 - 12:46:38 CST)
- rotate a molecule (Thu Dec 05 2002 - 17:09:28 CST)
- xyz movie (Thu Oct 31 2002 - 17:58:15 CST)
- Re: molden xyz movie (Thu Oct 10 2002 - 20:27:11 CDT)
- molden xyz movie (Thu Oct 10 2002 - 17:57:13 CDT)
- Re: vmd on mac 9.1 (Wed Jul 17 2002 - 11:00:35 CDT)
- vmd on mac 9.1 (Tue Jul 16 2002 - 13:39:14 CDT)
- rending softwares for win98 (Thu Nov 16 2000 - 17:26:20 CST)
- Re: a few questions about VMD (Fri Sep 22 2000 - 16:31:06 CDT)
- a few questions about VMD (Wed Sep 20 2000 - 17:49:07 CDT)
Eric Johnson
- Re: visualizing CCP4 maps in VMD (Mon Nov 07 2005 - 14:51:57 CST)
Eric Lang
- Re: Dipole Watcher Plugin - atom selection not updated at every frame when drawing dipoles (Thu Oct 18 2018 - 08:39:14 CDT)
- Dipole Watcher Plugin - atom selection not updated at every frame when drawing dipoles (Thu Oct 18 2018 - 06:31:41 CDT)
Eric Ledieu
- error 1114 when loading plugins (Tue Apr 05 2022 - 12:07:49 CDT)
Eric Lovejoy
- calculate end-to-end distance with trajectory files (Sat Oct 20 2012 - 16:44:13 CDT)
Eric Peterson
- Tk console issues (Wed Jan 17 2007 - 15:48:58 CST)
- Re: VMD scene information (Wed Jan 10 2007 - 17:19:39 CST)
- VMD scene information (Wed Jan 10 2007 - 12:23:29 CST)
- Solvate and VMD on OS X (Fri Nov 12 2004 - 20:20:28 CST)
Eric Schibli
- Molefacture & Six-Character Atom Types (Wed Oct 28 2015 - 21:52:09 CDT)
- FFTK abort charge calculation. (Tue Oct 27 2015 - 16:38:56 CDT)
Eric Smoll
- function returned by atomselect; use global atomselect function from proc scope (Mon Apr 10 2017 - 10:30:03 CDT)
- function returned by atomselect; use global atomselect function from proc scope (Mon Apr 10 2017 - 10:27:23 CDT)
- Capture query data (Fri Dec 02 2016 - 06:20:52 CST)
- Rotate molecular system without rotating objects added with the graphics command (Thu Nov 03 2016 - 17:07:14 CDT)
- generating images without shading (Wed Aug 31 2016 - 13:52:43 CDT)
- (no subject) (Wed Jun 15 2016 - 15:41:27 CDT)
- "user add key" feature (Wed Jan 20 2016 - 18:02:41 CST)
- Recommended method to attach labels to atoms in VMD (Wed Jan 13 2016 - 15:33:47 CST)
- Consistent size (Wed Oct 14 2015 - 21:33:58 CDT)
- Segmentation fault error only when executing command within script (Thu Sep 24 2015 - 21:15:28 CDT)
- Rendering options (Wed Sep 02 2015 - 15:17:11 CDT)
- Set "center" in script (Sat Aug 29 2015 - 01:10:04 CDT)
- How to set a common camera state (Fri Aug 28 2015 - 23:15:22 CDT)
- script rotation of system with graphics (Wed Jul 08 2015 - 19:17:50 CDT)
- Re: Dynamic molecular connectivity (Sat Jun 06 2015 - 14:55:07 CDT)
- Dynamic molecular connectivity (Fri Jun 05 2015 - 22:31:53 CDT)
- movie maker extension (Mon Feb 02 2015 - 15:55:23 CST)
- write bonding/connectivity to file (Thu Jan 08 2015 - 15:49:09 CST)
- Question (Mon Dec 15 2014 - 14:20:04 CST)
- tcl and vmd (Thu Dec 11 2014 - 16:43:18 CST)
- Re: "graphics top line" and "render POV3" (Thu Oct 16 2014 - 14:07:32 CDT)
- Re: "graphics top line" and "render POV3" (Thu Oct 16 2014 - 13:53:04 CDT)
- Re: "graphics top line" and "render POV3" (Thu Oct 16 2014 - 13:01:57 CDT)
- Re: "graphics top line" and "render POV3" (Wed Oct 15 2014 - 22:25:37 CDT)
- "graphics top line" and "render POV3" (Wed Oct 15 2014 - 21:46:05 CDT)
- log colorscale (Sun Oct 05 2014 - 15:28:58 CDT)
- Re: "OpenGL Display" and "VMD Main" windows; size and location on launch (Sun Sep 28 2014 - 15:27:09 CDT)
- "OpenGL Display" and "VMD Main" windows; size and location on launch (Sun Sep 28 2014 - 15:06:37 CDT)
- Re: velocities in trr (Wed Sep 10 2014 - 15:03:39 CDT)
- velocities in trr (Wed Sep 10 2014 - 14:28:56 CDT)
- update selection used in "animate write" (Sun Sep 07 2014 - 23:43:05 CDT)
- Selection along line in 3D (Sat Sep 06 2014 - 01:40:10 CDT)
- vmd without OpenGL window (Wed Aug 20 2014 - 13:41:57 CDT)
- vmd nearclip setting different from that used in povray render (Wed Aug 06 2014 - 16:52:02 CDT)
- Script commands that control the display of periodic images (Sat Feb 08 2014 - 21:46:40 CST)
Erica Smith
- DCD unit cell data (Wed Oct 15 2003 - 15:45:51 CDT)
Erik
- lammps charge data, adding bond (Wed Feb 27 2013 - 19:50:07 CST)
- Re: cant open .car file (Mon Dec 03 2012 - 21:28:30 CST)
- Re: Question regarding dihedral fitting using fftk (Fri Nov 30 2012 - 12:24:42 CST)
- cant open .car file (Fri Nov 30 2012 - 12:25:30 CST)
Erik Abrahamsson
- Re: Elliptic molecules (Tue Jun 30 2009 - 18:25:41 CDT)
Erik Nordgren
- choosing an optimal workstation video card for VMD (Tue May 06 2014 - 11:08:40 CDT)
- Re: Understand a script (Wed Jul 27 2011 - 14:39:02 CDT)
- Re: loading saved state from command line (Mon Jul 25 2011 - 19:28:30 CDT)
- loading saved state from command line (Mon Jul 25 2011 - 19:12:03 CDT)
- Re: why atom positions are reset after readpsf, coordpdb commands? (Thu Dec 16 2010 - 13:25:22 CST)
- subtlety with PSFGEN - angle/dihedral regeneration (Wed Nov 24 2010 - 20:55:06 CST)
erik vogan
- Re: Pretty Picture (Wed Jun 21 2000 - 22:24:30 CDT)
Erik Winardi
- test VMD mailist post (Thu Nov 08 2012 - 14:42:36 CST)
Erin L.
- .xsf triclinic cell contents (Thu Nov 18 2010 - 14:23:06 CST)
Erin Ziegler
- One of a kind replicas (Wed Apr 23 2008 - 21:53:24 CDT)
Erkan Tuzel
- .xyz file, namelist index too large error (Wed Jun 06 2007 - 19:39:48 CDT)
Ern Ong
- Calculate the bond and angle energy of a glucosidic linkage using NAMD Energy plugin (Mon Feb 25 2019 - 04:39:21 CST)
- RE: Cannot merge psf and pdb files using psfgen (Wed Feb 13 2019 - 22:20:53 CST)
- Cannot merge psf and pdb files using psfgen (Wed Feb 13 2019 - 05:12:41 CST)
- Cannot merge psf and pdb files using psfgen (Wed Feb 13 2019 - 03:52:42 CST)
- VMD ffTK: The determination of a correct spin multiplicity value (Mon Jan 22 2018 - 02:14:54 CST)
- VMD ffTK plugin: Error termination occurred at Gaussian input files generated for water interaction (Sat Jan 20 2018 - 07:09:26 CST)
- catdcd plugin for Windows users (Tue Jan 16 2018 - 00:51:57 CST)
- ffTK: neutral pyruvate group and charged pyruvate group at beta-D-mannose (Wed Jul 26 2017 - 01:37:37 CDT)
- ffTK: neutral pyruvate group and charged pyruvate group at beta-D-mannose (Wed Jul 26 2017 - 01:40:49 CDT)
- ffTK has halted on error. The optimizer has returned an empty result, indicating an abnormal termination. (Mon Dec 26 2016 - 22:31:47 CST)
- RE: How to determine periodicity and phase shift for ffTK dihedral parameter optimization? (Thu Dec 22 2016 - 18:19:58 CST)
- How to determine periodicity and phase shift for ffTK dihedral parameter optimization? (Wed Dec 21 2016 - 03:02:05 CST)
- RE: VMD HBonds plugin (Wed Dec 07 2016 - 00:16:32 CST)
- RE: VMD HBonds plugin (Tue Dec 06 2016 - 22:26:37 CST)
- RE: VMD HBonds plugin (Tue Dec 06 2016 - 22:17:45 CST)
- VMD HBonds plugin (Tue Dec 06 2016 - 21:38:26 CST)
- RE: ffTK: How to determine the optimized bond and angle parameters (Mon Nov 14 2016 - 23:32:47 CST)
- ffTK: How to determine the optimized bond and angle parameters (Sun Nov 13 2016 - 02:43:12 CST)
Ern Seang Ong
- Merge PDB files to create a single PDB and PSF file (Mon Sep 14 2015 - 02:10:22 CDT)
- APPCRASH when loading a big trajectory file (.dcd) into VMD (Tue Sep 01 2015 - 17:49:45 CDT)
- How to extract data from NAMD log file for viscosity calculation (Tue Aug 18 2015 - 20:38:57 CDT)
- RE: Problems in running AutoIMD (Sun May 17 2015 - 20:24:46 CDT)
- RE: Problems in running AutoIMD (Sat May 09 2015 - 00:08:44 CDT)
- Problems in running AutoIMD (Fri May 01 2015 - 00:49:39 CDT)
Ern.Ong_at_student.adfa.edu.au
- RE: ffTK: How to determine the optimized bond and angle parameters (Thu Nov 17 2016 - 03:38:59 CST)
Ernesto Aleksei Delgado Hurtado
- Re: FFTK - Dihedral doesn't fit the QM target data (Mon Mar 11 2024 - 17:21:46 CDT)
- Re: fftk, charge optimization, fragmentation (Thu Jan 19 2023 - 18:09:44 CST)
- Re: Acetylation AutoPSF (Mon Aug 26 2019 - 17:54:26 CDT)
- Re: BOND distance (Sat Mar 30 2019 - 21:46:36 CDT)
- Re: ORCA Plugin (Sun Mar 24 2019 - 11:54:16 CDT)
- Re: 1CA2 autoionization (Tue Feb 19 2019 - 12:17:23 CST)
Ernesto E. Di Iorio
- Re: Conversion of trajectory files (Wed Nov 10 2004 - 04:23:19 CST)
Ernesto Moreno
- Re: viewing CHARMM trajectory (Tue Sep 12 2000 - 09:37:47 CDT)
Eros Albertazzi
- vmd on Ubuntu: tcl howto (Wed May 23 2012 - 05:37:57 CDT)
Errol Lusk
- Tag Heuer replicas better than originals (Sun Apr 20 2008 - 18:30:56 CDT)
Esam Tolba
- Error in loading large trajectories (Thu Jan 10 2013 - 15:56:15 CST)
- Heat mapper (Mon Oct 08 2012 - 05:53:04 CDT)
- Heat mapper (Thu Oct 04 2012 - 16:42:25 CDT)
- Color code the structure by RMSF values (Wed Sep 19 2012 - 11:40:26 CDT)
- Re: how to change working directory of VMD? (Tue Jul 19 2011 - 18:16:29 CDT)
- how to change working directory of VMD? (Mon Jul 18 2011 - 14:02:17 CDT)
- How to change the VMD working Directory (Thu Jul 14 2011 - 09:10:17 CDT)
- Re: error in movie generator (Tue May 17 2011 - 03:57:06 CDT)
- error in movie generator (Mon May 16 2011 - 10:01:27 CDT)
Esben A. Gad
- Re: Re: PSF works in NAMD but not in VMD (Wed Jun 25 2008 - 06:42:53 CDT)
- Re: Re: PSF works in NAMD but not in VMD (Tue Jun 24 2008 - 03:08:07 CDT)
- Re: Re: PSF works in NAMD but not in VMD (Mon Jun 23 2008 - 07:20:08 CDT)
- Re: PSF works in NAMD but not in VMD (Fri Jun 20 2008 - 06:05:22 CDT)
- PSF works in NAMD but not in VMD (Wed Jun 18 2008 - 03:17:04 CDT)
Esra Bozkurt
- SASA Algorithm? (Wed Apr 17 2013 - 11:04:24 CDT)
- VMD : Force Field Toolkit : Help (Mon Dec 10 2012 - 13:21:06 CST)
Esteban Gabriel Vega Hissi
- Re: visualizing trr file (Fri Mar 26 2010 - 16:28:57 CDT)
- Re: positioning of a compound (Wed Aug 12 2009 - 16:07:37 CDT)
Estefania Gonzalez Solveyra
- Change browsing directory in mac (Fri Nov 18 2016 - 11:31:28 CST)
Estela Gibbs
- Spring quality watches offer (Tue Jun 10 2008 - 18:50:16 CDT)
Esther Brugger
- Tinker trajectory file (Mon Apr 16 2007 - 16:47:00 CDT)
- read the pdb file using VMD (Mon Mar 05 2007 - 17:00:36 CST)
- H-Bond in VMD (Thu Feb 08 2007 - 10:48:38 CST)
- H-Bond display in VMD (Tue Feb 06 2007 - 12:41:47 CST)
- Re: problem for saving as jpg file (Wed Nov 01 2006 - 10:51:27 CST)
- problem for saving as jpg file (Wed Nov 01 2006 - 09:51:17 CST)
- Re: installation problem (Wed Nov 01 2006 - 08:59:39 CST)
- installation problem (Tue Oct 31 2006 - 17:59:07 CST)
Ethan Croitoru
- Re: Creating a .tpr file from NAMD files Error (Wed Aug 05 2020 - 13:30:05 CDT)
- Creating a .tpr file from NAMD files Error (Wed Aug 05 2020 - 10:23:49 CDT)
Euclid Sun
- VMD has problem displaying glsl rendermode (Mon Apr 12 2010 - 09:04:29 CDT)
Eugen Leitl
- Re: 3Dconnexion SpaceTraveler works (Fri Jul 14 2006 - 03:43:21 CDT)
- 3Dconnexion SpaceTraveler works (Wed Jul 05 2006 - 08:21:00 CDT)
- 3Dconnexion SpaceTraveler works (Wed Jul 05 2006 - 07:54:46 CDT)
- Re: Solutions for stereo - is CRT technology dead? (Mon May 22 2006 - 07:03:57 CDT)
- Re: latest beta nVidia driver for Windows looks good so far... (Tue Apr 04 2006 - 02:04:43 CDT)
- Re: babel compilation error (Fri Dec 09 2005 - 11:30:24 CST)
- Re: spaceballs, etc. (Fri Dec 09 2005 - 03:26:35 CST)
- spaceballs, etc. (Thu Dec 08 2005 - 16:33:53 CST)
- new macs out (Wed Oct 19 2005 - 15:10:22 CDT)
- Re: problem with coloring surface by electrostatic potential (Wed Sep 21 2005 - 03:50:47 CDT)
- Re: a question about get the coordinates in vector form (Fri Apr 15 2005 - 15:45:24 CDT)
- New Sharp 3D Notebook Available with Linux (Tue Mar 22 2005 - 05:35:19 CST)
- which nForce to use? (Tue Jan 25 2005 - 03:23:18 CST)
- Re: Virtual Reality and VMD (Tue Dec 14 2004 - 10:41:33 CST)
- Re: [linux-elitists] ATI Radeon support (fwd from deejoe@raccoon.com) (Tue Dec 14 2004 - 03:33:02 CST)
- Re: VMD on Linux Fedora Core 2 (Fri Oct 15 2004 - 01:24:29 CDT)
- Re: VMD on Linux Fedora Core 2 (Wed Oct 13 2004 - 11:28:18 CDT)
- Re: [MMTK] Visualization to an image file (fwd from hinsen@cnrs-orleans.fr) (Mon Jul 12 2004 - 08:36:58 CDT)
- Re: (Wed Nov 19 2003 - 04:13:28 CST)
- Re: Highlighting nearest atom ? (wrt to a tool) (Wed Nov 12 2003 - 04:22:51 CST)
- Re: Highlighting nearest atom ? (wrt to a tool) (fwd from eugen@leitl.org) (Wed Nov 12 2003 - 04:51:06 CST)
- Re: [PyMOL] 3D on linux (fwd) (Thu Jan 30 2003 - 09:40:15 CST)
- Re: conect2psf (Wed Jul 24 2002 - 04:14:53 CDT)
Eugene Leitl
- Re: Pegasus Technologies FreeD drivers? (Wed Dec 08 1999 - 15:05:42 CST)
- Pegasus Technologies FreeD drivers? (Fri Nov 26 1999 - 19:39:54 CST)
- membrane modeling (Sat Mar 25 2000 - 19:03:56 CST)
- NVIDIA, SGI and VA Linux To Bring Graphics Standard To Desktop Linux Market (Wed Jan 19 2000 - 19:21:19 CST)
- Stereo on SGI Indigo2? - Linux? (Sat Jan 15 2000 - 19:35:26 CST)
- 6DOF controllers (Sat Jan 08 2000 - 20:42:01 CST)
Eugene Valkov
- Calculating and drawing symmetry axes (Thu Dec 02 2004 - 13:37:14 CST)
Eugenio Gil
- Fixing coordinates for visualization (Thu Mar 14 2019 - 08:22:14 CDT)
Eunice Ramirez Melendez
- (no subject) (Mon Dec 13 2004 - 19:20:55 CST)
Evan Thompson
- MacOSX and the solvate package (Fri Oct 11 2002 - 20:02:59 CDT)
Evandro Semighini
- RMSD per residue of docked molecule (Wed Nov 04 2015 - 07:08:34 CST)
- Re: fftk autoDetect indices and (Tue Jul 14 2015 - 07:30:44 CDT)
- Re: Questions regarding fftk and Gaussian (Mon Jul 06 2015 - 09:16:38 CDT)
- Re: Questions regarding fftk and Gaussian (Thu Jun 25 2015 - 14:28:21 CDT)
- Re: How to find distance between n-terminal c-alpha and c-terminal c-alpha. (Wed May 20 2015 - 08:29:26 CDT)
- Re: Questions regarding fftk and Gaussian (Tue May 19 2015 - 15:19:40 CDT)
- Re: Questions regarding fftk and Gaussian (Tue May 19 2015 - 12:45:53 CDT)
- Questions regarding fftk and Gaussian (Tue May 19 2015 - 08:06:47 CDT)
Evelyn Maizels
- Re: RSCB assembly formatting change - chain names with hyphens and numbers not recognized in VMD (Fri Feb 18 2022 - 10:14:25 CST)
- RSCB assembly formatting change - chain names with hyphens and numbers not recognized in VMD (Thu Feb 17 2022 - 19:17:06 CST)
- vmd 1.9.3 won't open in mac after catalina update this morning (Tue Oct 08 2019 - 11:15:22 CDT)
Evgeniya Volkova
- Unit cell for clay material (Sat Jul 25 2015 - 15:55:00 CDT)
Evgeny Bulat
- Python script to fix autoionize issues related to long atom type names (Tue Jun 26 2012 - 16:42:37 CDT)
- VMD Psfgen issue (Tue Jun 05 2012 - 12:55:53 CDT)
Ezequiel Quintana Morales
- Strange behaviour of MSMS (Tue Oct 16 2007 - 07:33:07 CDT)
Fabian Boes
- AMBER9 netcdf trajectory loading (Fri Jul 21 2006 - 08:00:30 CDT)
Fabian Gonzalez
- Trajectory Smoothing Window Zize with implicit solvent (Tue Oct 31 2017 - 09:50:54 CDT)
fabio trovato
- Error tachyon rendering Mac Catalina (Sat Nov 28 2020 - 19:22:27 CST)
- Re: [EXT] VMD for Mac stopped working after updating to Catalina (Thu Nov 07 2019 - 03:07:59 CST)
- Compilation and installation of VMD on Mac OS Catalina (Sun Nov 03 2019 - 05:36:37 CST)
- Molecule occupies the lower-bottom corner of the main window (Sat Nov 02 2019 - 11:03:40 CDT)
- VMD for Mac stopped working after updating to Catalina (Fri Nov 01 2019 - 20:43:09 CDT)
- Re: MultiSeq conflicting with DYLD_LYBRARY_PATH (Thu Jan 18 2018 - 06:40:54 CST)
- MultiSeq conflicting with DYLD_LYBRARY_PATH (Thu Jan 18 2018 - 04:05:02 CST)
- Re: Problem with the script mono2poly.tcl (Sat Mar 14 2009 - 04:56:17 CDT)
- Problem with the script mono2poly.tcl (Fri Mar 13 2009 - 11:46:44 CDT)
fabri
- vmd 1.8.3 on my mac (Sat Feb 19 2005 - 03:21:14 CST)
fabrizio cleri
- Re: Apple hardware configuration (Sat Feb 26 2005 - 02:32:42 CST)
- Apple hardware configuration (Fri Feb 25 2005 - 05:29:24 CST)
fabrizio.benedetti_at_unil.ch
- convert dcd to coordinate, each frame, conserving the identity (Fri Aug 10 2012 - 02:23:30 CDT)
Faezeh Pousaneh
- Re: Energy between desired selected molecules (Tue Jul 05 2016 - 13:40:07 CDT)
- Energy between desired selected molecules (Fri Jul 01 2016 - 02:41:40 CDT)
- Density profile tool plugin (Thu Jun 16 2016 - 02:12:50 CDT)
Fahimeh Baftizadeh
- Re: VMD crashes with malloc error (Wed Feb 27 2013 - 10:19:02 CST)
- VMD crashes with malloc error (Tue Feb 26 2013 - 12:42:59 CST)
- Re: volumetric trajectory (Fri Jan 14 2011 - 12:26:40 CST)
- Re: volumetric trajectory (Mon Jan 10 2011 - 15:29:46 CST)
- volumetric trajectory (Mon Jan 10 2011 - 04:50:46 CST)
Faisal, H M Nasrullah
- Ultra-violet environment simulation in NAMD (Mon Apr 05 2021 - 10:55:08 CDT)
- model with TIP4 water minimization getting crashed every time (Thu Jan 07 2021 - 21:56:25 CST)
- Re: namd-l: Query regarding 'Protein:ligand Standard Binding Free Energies' tutorial (Tue Dec 22 2020 - 20:52:34 CST)
- Query regarding 'Protein:ligand Standard Binding Free Energies' tutorial (Tue Dec 22 2020 - 14:39:15 CST)
- Re: Converting electron density data from .map to .dx in vmd (Wed Oct 07 2020 - 09:48:20 CDT)
- Re: Converting electron density data from .map to .dx in vmd (Tue Oct 06 2020 - 22:07:28 CDT)
- Converting electron density data from .map to .dx in vmd (Wed Sep 30 2020 - 11:16:29 CDT)
- Converting electron density data from .map to .dx in vmd (Tue Sep 29 2020 - 08:54:29 CDT)
- Fw: Converting electron density data from .map to .dx in vmd (Mon Sep 28 2020 - 16:36:57 CDT)
- Re: Converting electron density data from .map to .dx in vmd Faisal, H M Nasrullah (Mon Sep 28 2020 - 16:31:59 CDT)
- Converting electron density data from .map to .dx in vmd (Mon Sep 28 2020 - 16:33:26 CDT)
- Converting electron density data from .map to .dx in vmd Faisal, H M Nasrullah (Mon Sep 28 2020 - 13:58:18 CDT)
- Converting electron density data from .map to .dx in vmd (Mon Sep 28 2020 - 13:56:46 CDT)
- Copying the new alpha sources of VMD into the installation directory (Tue Aug 25 2020 - 19:09:19 CDT)
- MDFF tutorial is not working (Thu Aug 20 2020 - 09:09:24 CDT)
- Any tutorial/manual for Dowser for membrane protein modeling (Tue Aug 18 2020 - 12:14:05 CDT)
- Error in fftk during bond opt using VMD 1.9.3 (Mon Aug 17 2020 - 10:08:37 CDT)
Falgun Shah
- Re: regarding draw_arrow.tcl (Fri Mar 13 2009 - 10:40:47 CDT)
- Re: regarding draw_arrow.tcl (Fri Mar 13 2009 - 08:56:31 CDT)
- regarding draw_arrow.tcl (Mon Mar 09 2009 - 17:55:58 CDT)
- motion correlation map (Sun Mar 08 2009 - 12:41:18 CDT)
- use of spring tcl script (Thu Mar 05 2009 - 20:49:30 CST)
- Re: images for publication (Wed Mar 04 2009 - 00:20:59 CST)
- Re: images for publication (Wed Mar 04 2009 - 00:06:27 CST)
- displaying residues within 5 A of ligand in vmd (Tue Mar 03 2009 - 09:53:29 CST)
- images for publication (Sun Mar 01 2009 - 15:23:12 CST)
- paratool: gaussian output error (Sat Feb 28 2009 - 17:15:25 CST)
- charm27 forcefield_topology (Wed Feb 25 2009 - 11:02:02 CST)
- about measuring volume of the binding site (Sat Feb 14 2009 - 15:58:14 CST)
- selecting set of residue (Mon Feb 02 2009 - 14:44:45 CST)
fan li
- Re: Randomly select molecules and delete them (Tue Jul 06 2021 - 15:06:26 CDT)
- Randomly select molecules and delete them (Tue Jul 06 2021 - 05:23:48 CDT)
- Re: Molefacture and writegmxtop stops with no error (Sun Mar 14 2021 - 13:12:00 CDT)
- Set molecule ID by topo tools (Fri Oct 09 2020 - 11:26:04 CDT)
- How to change the center of Radial coloring method (Tue Jun 23 2020 - 14:50:09 CDT)
- how to keep the bond , angle , dihedral and improper type after solvating the lammps data (Fri Jun 12 2020 - 14:19:23 CDT)
- Re: Atomselection with the position selected conditions inside the loop is not working properly (Thu Aug 16 2018 - 12:18:18 CDT)
- Re: Atomselection with the position selected conditions inside the loop is not working properly (Thu Aug 16 2018 - 10:24:54 CDT)
- Re: Atomselection with the position selected conditions inside the loop is not working properly (Thu Aug 16 2018 - 08:05:38 CDT)
- Atomselection with the position selected conditions inside the loop is not working properly (Thu Aug 16 2018 - 05:47:22 CDT)
- Unexpected results after loop added to the script (Tue Aug 14 2018 - 11:32:26 CDT)
- How to define charge group and pass it to topo writegmxtop (Mon Jul 02 2018 - 05:17:56 CDT)
- How can I redefine fragments in VMD (Tue May 22 2018 - 11:43:38 CDT)
- Re: How can I create the water Solvate in vmd (Wed May 16 2018 - 16:56:21 CDT)
- How can I create the water Solvate in vmd (Tue May 15 2018 - 16:59:11 CDT)
- Problem using topo writegmxtop (Sat Apr 21 2018 - 08:57:35 CDT)
Fan,Huajun
- Problem installation on RedHat (Mon Feb 20 2006 - 21:18:32 CST)
fariba taghavi
- Re: how to calculate water density in the 'hole'? (Sat Jun 30 2012 - 10:36:44 CDT)
- Re: how to calculate water density in the 'hole'? (Thu Jun 28 2012 - 01:09:05 CDT)
- Re: diffusion coefficient plug-in in VMD (Tue May 08 2012 - 09:14:54 CDT)
- diffusion coefficient plug-in in VMD (Tue May 08 2012 - 07:06:31 CDT)
- 3D density in the specific part of the simulation box (Tue May 01 2012 - 00:48:35 CDT)
faride badalkhani
- Re: radial atom distribution (Mon Jan 27 2020 - 14:20:37 CST)
- radial atom distribution (Mon Jan 27 2020 - 06:12:50 CST)
- RDF analysis using GROMACS trajectory (Mon Aug 07 2017 - 08:02:05 CDT)
- Re: VMD TkConsole font size (Tue Jun 28 2016 - 08:38:51 CDT)
- radius of gyration autocorrelation function (Tue Jun 07 2016 - 15:40:10 CDT)
- radius of gyration autocorrelation function (Thu Jun 02 2016 - 14:23:28 CDT)
- non-standard solvents (Thu Jun 02 2016 - 12:54:20 CDT)
farrokh yousefi
- Re: ellipsoidal particles (Mon Apr 22 2013 - 02:28:15 CDT)
- ellipsoidal particles (Sun Apr 21 2013 - 10:33:18 CDT)
fatehi_at_eng.uk.ac.ir
- an continuous increased pattern for RMSD curve after long run (Tue Oct 03 2017 - 13:08:44 CDT)
- Re: veldcd file (Sat Jan 07 2017 - 06:30:21 CST)
- veldcd file (Thu Jan 05 2017 - 02:52:29 CST)
Fateme Aghaei
- coloring (Fri Dec 30 2022 - 15:45:45 CST)
Fateme Sadat Emami
- Re: [apbs-users] Missing library on mac (Wed May 07 2014 - 14:45:22 CDT)
- APBS plugin - lib error (Tue May 06 2014 - 20:59:58 CDT)
- surface charge calculations (Fri Apr 25 2014 - 13:28:40 CDT)
- background color (Mon Jan 27 2014 - 11:08:58 CST)
Fatemesadat Emami
- XRD from a structure (Wed Mar 19 2014 - 16:01:03 CDT)
- Re: Creating a Regular Structure (Wed Jan 22 2014 - 18:03:05 CST)
- Re: Creating a Regular Structure (Wed Jan 22 2014 - 17:59:10 CST)
- Creating a Regular Structure (Wed Jan 22 2014 - 17:38:31 CST)
- Re: atoms selection/special characters (Fri Dec 20 2013 - 20:52:32 CST)
- atoms selection/special characters (Fri Nov 29 2013 - 18:13:17 CST)
- write new dcd after duplicating periodic images? (Fri Jan 11 2013 - 15:12:35 CST)
- periodic images in the hydrogen bond tool (Fri Jan 11 2013 - 14:15:37 CST)
- Tachyon does not capture the dark colors! (Wed Dec 19 2012 - 13:25:20 CST)
- visualizing certain sanpshots on top of each other (Mon Dec 10 2012 - 13:23:23 CST)
- delete the most recent atomselect? (Thu Nov 29 2012 - 14:21:23 CST)
- long bonds in surface structure is not shown in vmd !? (Fri Aug 10 2012 - 19:28:42 CDT)
- periodic bonds in vmd (Tue Jul 17 2012 - 14:38:41 CDT)
- periodic bonds in vmd (Tue Jul 17 2012 - 13:10:59 CDT)
- Problem with tachyon (Mon Jul 02 2012 - 16:25:43 CDT)
- remove a selection in vmd? (Sat Jun 30 2012 - 21:50:36 CDT)
- TkConsole functions (Tue Jun 26 2012 - 14:38:16 CDT)
- libGLU.so missing? (Fri May 18 2012 - 18:55:21 CDT)
- change residue colors? (Fri Sep 10 2010 - 14:37:23 CDT)
- Re: adding atomselections? (Sat May 08 2010 - 22:15:43 CDT)
- Re: adding atomselections? (Sat May 08 2010 - 19:42:24 CDT)
- adding atomselections? (Sat May 08 2010 - 18:28:48 CDT)
- selecting from different molecules simultaneously (Wed May 05 2010 - 18:35:26 CDT)
- Tachyon? (Fri Apr 30 2010 - 11:41:25 CDT)
- Load and change representation? (Sat Apr 17 2010 - 16:51:53 CDT)
- Load and change representation? (Fri Apr 16 2010 - 23:37:32 CDT)
- Re: Add a surface to a pdb file (Mon Mar 08 2010 - 13:47:43 CST)
- Re: Add a surface to a pdb file (Mon Mar 08 2010 - 10:05:36 CST)
- Re: Add a surface to a pdb file (Mon Mar 08 2010 - 09:57:02 CST)
- Add a surface to a pdb file (Mon Mar 08 2010 - 08:59:14 CST)
Federico Filomia
- Re: Nvidia quadro Fx1300 problem (Mon Aug 01 2011 - 02:25:42 CDT)
- Nvidia quadro Fx1300 problem (Fri Jul 29 2011 - 03:55:25 CDT)
Fei Chen
- Re: What's the main reason of the structure or function of a protein? (Wed Mar 05 2008 - 19:48:49 CST)
- What's the main reason of the structure or function of a protein? (Wed Mar 05 2008 - 07:53:18 CST)
Fei Xu
- create new colors (Thu Mar 07 2002 - 10:49:25 CST)
- selection and coloring (Mon Mar 04 2002 - 10:06:35 CST)
- coloring method (Thu Feb 28 2002 - 15:44:11 CST)
- AtomSel and Graphics (Fri Feb 22 2002 - 11:26:51 CST)
- python script of atomsel expression (Tue Feb 19 2002 - 09:42:25 CST)
Felicia Jiang
- measuring angle between two domains of protein (Thu Sep 22 2016 - 17:18:19 CDT)
Felipe Merino
- Re: Center of Mass RMSD in a trajectory (Mon Apr 03 2017 - 03:51:46 CDT)
- Re: Rendering usong Tachyon with Tcl scripting (Tue May 10 2016 - 08:37:18 CDT)
- Re: Generating PSF for several proteins in one shot (Fri Jul 24 2015 - 07:12:09 CDT)
- Re: problem with output format (Thu Jun 11 2015 - 06:50:13 CDT)
- Re: Splitting homotetramer subunits (Wed Jun 10 2015 - 02:50:54 CDT)
- Re: Splitting homotetramer subunits (Tue Jun 09 2015 - 10:10:30 CDT)
- Re: MSD calculation - Memory saving. (Fri Mar 27 2015 - 08:30:05 CDT)
- Re: Creating multiple views from same trajectory file for movie generation (Wed Oct 01 2014 - 08:36:35 CDT)
- Re: AW: how to make the structures in the movie look better (Mon Sep 29 2014 - 09:28:49 CDT)
- Re: REï¼š visualize gromacs trajectory in vmd (Wed Apr 02 2014 - 10:47:30 CDT)
- complex buried area (Wed Apr 03 2013 - 11:07:38 CDT)
Felipe Montecinos
- Re: Multiseq display settings (Mon May 02 2016 - 09:49:21 CDT)
- Re: Multiseq display settings (Fri Jul 10 2015 - 13:16:57 CDT)
- Multiseq display settings (Fri Jul 10 2015 - 11:28:23 CDT)
Felix Frolow
- Re: VMD 1.9.1 beta 2 to be posted tonight... (Thu Jan 26 2012 - 06:32:50 CST)
- RE: POV-Ray (Wed Nov 12 2003 - 01:57:42 CST)
Felix Rausch
- VMD crashes KDE at startup (Fri Apr 19 2013 - 06:41:40 CDT)
Felix Rodrigues Gulias
- Question about geometrical figures (Fri Feb 01 2008 - 11:03:42 CST)
Feng Chen
- Question regarding VMD In-situ Remote Visualization on clusters (Mon Feb 05 2018 - 11:28:41 CST)
Ferdinand Benton
- No prescr1ption? No problem! (Sun Aug 19 2007 - 10:50:20 CDT)
Fernanda S.
- Re: installation (Sun Feb 15 2009 - 13:32:20 CST)
- Re: installation (Sun Feb 15 2009 - 08:05:10 CST)
- Re: installation (Sat Feb 14 2009 - 17:18:57 CST)
- installation (Thu Feb 12 2009 - 13:08:19 CST)
Fernandez-Alonso, F (Felix)
- VMD on Linux Fedora Core 2 (Wed Oct 13 2004 - 06:53:05 CDT)
- accessing VMD help (Fri Oct 31 2003 - 07:42:15 CST)
Fernando Amrein
- Cannot open parm7 file through tcl script, but can open via graphic interface (Mon Mar 27 2023 - 19:15:54 CDT)
Fernando Bonilla Millan
- winvmd stopped working (Fri Jun 02 2017 - 16:40:26 CDT)
Fernando Vallejos-Burgos
- Re: increase the resolution of images (Tue Sep 29 2020 - 18:06:33 CDT)
- Re: DCD Question (Sun Apr 29 2018 - 18:37:16 CDT)
- Re: Molecule builder for large number of molecules (Mon Jul 31 2017 - 09:17:47 CDT)
- VMD and Spacenavigator in OSX (Sun Nov 13 2016 - 18:45:27 CST)
- Re: Visual of a box and/or scale of distance in VMD graphics (Fri Oct 07 2016 - 06:03:34 CDT)
- Re: I want to change back ground color (Tue Jul 05 2016 - 02:22:17 CDT)
- Re: GPU acceleration on tachyon rendering (Tue Jun 28 2016 - 23:16:54 CDT)
- Re: System requirement for MD 10ns (Tue Jun 28 2016 - 08:27:42 CDT)
- Render VR scenes in VMD 1.9.2 (possible?) (Wed Jun 22 2016 - 22:07:49 CDT)
ffavela_at_fis.cinvestav.mx
- membrane builder (Tue May 13 2008 - 17:30:57 CDT)
Fikret Aydin
- Using more than 9 atom types for coloring method and visualizing half of a structure (Fri Aug 08 2014 - 12:58:12 CDT)
Filip Persson
- Obtain solvent-accessible surface vertices (Mon May 20 2013 - 10:47:47 CDT)
- append glow lights to a VMD/Tachyon scene (Fri Feb 17 2012 - 03:11:53 CST)
- draw intersection volume between two spheres (Wed Sep 07 2011 - 08:30:33 CDT)
- define water cavity using atom selection in graphical representations window (Tue Sep 06 2011 - 03:08:20 CDT)
- Novint Falcon in VMD - help with setup (Wed Jul 20 2011 - 05:12:44 CDT)
- VMD scripting: Perform PBCwrap+fitframes on several dcd files (Fri Jul 01 2011 - 08:03:26 CDT)
Filippo Federici
- Re: CUDA issues (Fri Mar 05 2010 - 01:38:40 CST)
- Re: CUDA issues (Thu Mar 04 2010 - 10:29:44 CST)
- CUDA issues (Thu Mar 04 2010 - 01:18:14 CST)
Filippo Federici Canova
- Re: CUDA issues (Thu Mar 04 2010 - 11:54:09 CST)
Fiona Reid
- Re: Compiling CATDCD and VMD plugins on AIX5.2 (Thu Oct 20 2005 - 10:44:32 CDT)
- Compiling CATDCD and VMD plugins on AIX5.2 (Thu Oct 20 2005 - 04:13:27 CDT)
flavio seixas
- Re: Surface Area Calculation (Wed Jan 08 2014 - 06:40:10 CST)
- Surface Area Calculation (Tue Jan 07 2014 - 12:40:57 CST)
- Re: generated pdb file via vmd (Thu Dec 12 2013 - 16:22:45 CST)
- Fw: PSF not generating (Thu Jun 20 2013 - 11:25:52 CDT)
- Re: PSF not generating (Tue Jun 18 2013 - 17:58:17 CDT)
- Re: Radius of gyration from Big DCD (Fri Sep 28 2012 - 09:58:31 CDT)
- Re: Radius of gyration from Big DCD (Fri Sep 28 2012 - 08:07:27 CDT)
- Radius of gyration from Big DCD (Thu Sep 27 2012 - 14:08:31 CDT)
- Re: Big DCD file help (Tue Sep 25 2012 - 13:13:00 CDT)
- Fw: RE: Big DCD file help (Tue Sep 25 2012 - 12:47:41 CDT)
- RE: Big DCD file help (Tue Sep 25 2012 - 11:56:05 CDT)
- Big DCD file help (Tue Sep 25 2012 - 10:16:29 CDT)
- Big DCD file (Tue Sep 25 2012 - 07:37:40 CDT)
- RMSF plugin to share (Fri Aug 10 2012 - 11:37:42 CDT)
- Re: B-factor plugin (Fri Aug 10 2012 - 09:17:57 CDT)
- B-factor plugin (Thu Aug 09 2012 - 14:13:26 CDT)
- Question about H-bond plugin (Mon Jul 30 2012 - 15:36:06 CDT)
- Re: patch SAM in psfgen (Sat Jun 23 2012 - 14:13:14 CDT)
- Re: generating psf files for bicarbonate (Fri Jun 22 2012 - 13:21:35 CDT)
- patch SAM in psfgen (Fri Jun 22 2012 - 09:37:17 CDT)
- Re: Protein-ligand contact (Mon Apr 30 2012 - 18:29:17 CDT)
- Re: Anaglyph stereo with other colors (Sat Apr 21 2012 - 13:36:01 CDT)
- Re: PSFGEN and Reading Bonds from PDB Files (Sun Feb 05 2012 - 18:24:40 CST)
- Re: problem generating NAD (Fri Dec 23 2011 - 17:42:12 CST)
- Protein-ligand contact (Tue Dec 20 2011 - 08:10:15 CST)
- Re: topology and parameter files for H2 and O2 (Wed Dec 07 2011 - 13:49:51 CST)
- average structure script (Fri Nov 25 2011 - 09:52:40 CST)
- How to save Automatic psf builder script (Thu Nov 24 2011 - 12:03:15 CST)
Fletcher Quick
- porsche design is your style; (Thu Jun 18 2009 - 14:18:17 CDT)
floquet_at_icsn.cnrs-gif.fr
- MSMS calculations (Thu Aug 25 2005 - 03:52:29 CDT)
- PME values (Tue Aug 23 2005 - 09:38:16 CDT)
- Plugins update (Tue Aug 23 2005 - 04:00:39 CDT)
Florentina Tofoleanu
- Re: water molecules around proteins (Thu Mar 11 2010 - 14:54:57 CST)
- Re: water molecules around proteins (Wed Mar 10 2010 - 16:27:37 CST)
- Re: Secondary structure with Timeline (Tue Dec 01 2009 - 12:18:05 CST)
- Secondary structure with Timeline (Thu Nov 26 2009 - 06:19:15 CST)
- Hydrogen bonds with different evaluations (Thu Nov 26 2009 - 05:16:34 CST)
- VMD Periodic cells (Wed Aug 12 2009 - 07:03:53 CDT)
- Distance between COM for 2 chains for each frame of trajectory (Wed May 20 2009 - 11:34:18 CDT)
Florian Barth
- Re: coloring of trajectory (Thu Mar 11 2004 - 11:56:38 CST)
- coloring of trajectory (Wed Mar 10 2004 - 07:10:27 CST)
Florian Haberl
- Re: pdb - generation (Tue Mar 21 2006 - 09:06:57 CST)
- installing problem python 2.2.2 for ied on amd64 (Thu Feb 02 2006 - 08:50:36 CST)
- Re: Python, Numeric, and Mac OS X problem (Mon Mar 14 2005 - 06:47:10 CST)
- Re: openGL error (Fri Feb 04 2005 - 10:15:08 CST)
- Re: parm7 plugin (Wed Jan 26 2005 - 10:27:24 CST)
- Re: PBS script for LINUX cluster (Wed Jan 19 2005 - 02:56:39 CST)
- Python and numpy (Tue Jan 11 2005 - 07:31:37 CST)
- VMD and windows (Mon Jan 10 2005 - 01:37:40 CST)
- Fwd: Re: putting Lipid layers around a protein (Tue Nov 16 2004 - 03:32:41 CST)
Florian Mrugalla
- Re: Problem with psfgen (Tue Aug 23 2011 - 10:14:24 CDT)
- Problem with psfgen (Tue Aug 23 2011 - 07:41:02 CDT)
florian.naegele_at_uni-ulm.de
- Molecular orbitals from molden files (Thu Feb 17 2022 - 03:39:37 CST)
FOK LO MING
- convert pdb to psf (Tue Sep 30 2003 - 03:54:34 CDT)
Forest Jefferson
- tag heuer rep watch for you; (Sat Jun 20 2009 - 05:44:49 CDT)
Foster, Clay A.
- Isosurface Render - No Color? (Mon Jun 20 2016 - 18:06:37 CDT)
- ParseFEP Error (Thu Jul 31 2014 - 17:44:45 CDT)
Fotis Baltoumas
- Re: CG Martini File for Cholesterol (Mon May 20 2019 - 11:07:44 CDT)
- Re: IFD complex for solvation (Tue Oct 09 2018 - 05:18:14 CDT)
- Re: RBCG Builder (Tue Sep 25 2018 - 02:01:04 CDT)
- Re: RBCG Builder (Mon Sep 24 2018 - 14:37:34 CDT)
- Re: Fwd: problemas con la opt de los enlaces (Tue Jul 17 2018 - 16:30:45 CDT)
- Re: NAMD Energy Plugin: Cutoff error (Wed May 23 2018 - 09:37:49 CDT)
- Re: the number of hydrogen bonds per residue (Fri May 04 2018 - 11:16:45 CDT)
- Re: Regarding installation of DruGui (Tue Mar 27 2018 - 04:11:36 CDT)
- Re: NeutronRefTools ? (Fri Jun 16 2017 - 06:40:41 CDT)
- Re: CG builder in script (Wed Jun 14 2017 - 04:50:49 CDT)
- Re: geometry optimization with SQM (Thu Dec 08 2016 - 13:26:21 CST)
- Re: Problems with vmd plugin namdenergy output (Mon Nov 02 2015 - 04:48:11 CST)
- Re: where are the files provided with MDFF TUTORIAL? (Mon May 11 2015 - 01:23:30 CDT)
- Re: Problem creating tetramer from a monomer (Fri Feb 27 2015 - 02:41:47 CST)
- Re: NAMDEnergy fails to locate supporting files (Mon Feb 09 2015 - 06:53:41 CST)
- Re: namd-l: Analysis plugins for Martini Coarse Grained protein simulations (Sat Feb 07 2015 - 05:25:50 CST)
- Re: creating an index file for POPC in water (Fri Oct 03 2014 - 15:24:52 CDT)
- Re: Dynamical Network Analysis (NetworkView): Changing contact cutoff values for edges (Tue Aug 26 2014 - 11:01:55 CDT)
- Dynamical Network Analysis (NetworkView): Changing contact cutoff values for edges (Tue Aug 26 2014 - 10:39:47 CDT)
- Re: alchemical transformations (Mon Apr 21 2014 - 03:36:26 CDT)
- Re: namd-l: MMPBSA Energy Calculations using VMD (Post-Processing) (Thu Apr 10 2014 - 10:09:00 CDT)
fouchni_at_uni-osnabrueck.de
- Changing a structure of macromolecule with VMD (Sun Feb 24 2008 - 08:38:44 CST)
- Residue replacement question] (Fri Feb 22 2008 - 04:20:04 CST)
- Residue replacement question (Wed Feb 20 2008 - 04:15:33 CST)
Fran Villa
- Your C0deine 0rder #247424 (Fri Mar 06 2009 - 19:51:11 CST)
Franca Fraternali
- Re: gromos96 files (Thu Mar 11 2004 - 03:47:43 CST)
- gromos96 files (Wed Mar 10 2004 - 04:55:47 CST)
Francesca Lønstad Bleken
- Re: selection atoms depending on bonding, selection of 'new' molecules (Fri Oct 14 2016 - 10:58:01 CDT)
- selection atoms depending on bonding, selection of 'new' molecules (Fri Oct 14 2016 - 05:39:58 CDT)
- selection atoms depending on bonding, selection of 'new' molecules (Fri Oct 14 2016 - 04:30:56 CDT)
- RE: visualising unit cell "plus a little more" (Thu Sep 24 2015 - 01:37:00 CDT)
- visualising unit cell "plus a little more" (Wed Sep 23 2015 - 04:34:52 CDT)
Francesca Mocci
- Re: problem in visualizing gaussian log file (Thu Sep 14 2006 - 09:26:43 CDT)
- problem in visualizing gaussian log file (Thu Sep 14 2006 - 05:41:51 CDT)
- Re: x-plor map file and readedm (Wed Nov 12 2003 - 05:47:26 CST)
- x-plor map file and readedm (Tue Nov 11 2003 - 09:11:11 CST)
Francesca Ricci-Tam
- How to remove hydrogens from a pdb file? (Thu May 06 2010 - 23:17:19 CDT)
Francesco Coppola
- BFEE (Wed Feb 08 2023 - 11:33:42 CST)
- Creation of SiC NP (Fri Oct 08 2021 - 11:37:59 CDT)
Francesco Gervasio
- Drawing electron density surfaces (from cube files) (Fri Jan 25 2002 - 07:01:41 CST)
Francesco Greco
- Script to generate PSF: ERROR, additional atoms (Wed Jun 08 2016 - 07:52:42 CDT)
- PLO2 Patch (Sat Oct 24 2015 - 09:44:14 CDT)
Francesco Iori
- PME units (Tue Oct 03 2006 - 11:36:54 CDT)
- catdcd (Wed Jul 13 2005 - 04:05:40 CDT)
francesco oteri
- Re: protein schematic representaton (Wed Jun 12 2013 - 09:24:32 CDT)
- protein schematic representaton (Mon Jun 10 2013 - 13:23:17 CDT)
- Re: Improper parameters for CNT (Mon Apr 15 2013 - 01:54:48 CDT)
- spectrum simulation (Sun Feb 24 2013 - 14:57:13 CST)
- PYTHONPATH Word too long (Tue Jan 29 2013 - 09:56:21 CST)
- Re: helical content script (Tue May 01 2012 - 07:09:03 CDT)
- Re: Hydrophobic mismatch script (Mon Apr 23 2012 - 05:17:13 CDT)
- Re: RMSD vs RMSF (Thu Oct 06 2011 - 15:37:05 CDT)
- xtc plugin writing ability (Fri Aug 05 2011 - 07:39:59 CDT)
- Re: Protein cavities (Sun May 29 2011 - 07:09:59 CDT)
- psf and top (Thu Mar 10 2011 - 09:10:05 CST)
- feature request (Wed Feb 23 2011 - 15:37:34 CST)
- latest vmd (Sat Feb 12 2011 - 18:23:52 CST)
- Truncated octahedron Box (Wed Jan 12 2011 - 04:43:17 CST)
- Re: selection of amino acids with certain distance each others (Sun Dec 19 2010 - 14:39:53 CST)
- Re: automatic PSF builder (Sun Dec 12 2010 - 10:00:52 CST)
- namdenergy problem (Wed Dec 01 2010 - 06:23:23 CST)
Francesco Pietra
- Total charge from *.psf alone (Thu Dec 21 2023 - 15:07:35 CST)
- Fwd: Re: namd-l: Selecting atom of given residue in namdenergy plugin (Wed Apr 19 2023 - 12:41:18 CDT)
- Re: Re: namd-l: Selecting atom of given residue in namdenergy plugin (Wed Apr 19 2023 - 12:17:37 CDT)
- Selecting atom of given residue in namdenergy plugin (Wed Apr 19 2023 - 05:39:58 CDT)
- Puzzle with "small molecule" ligand structure in nucleotide environments (Sun Feb 06 2022 - 01:59:52 CST)
- Problems with charmm36 modified nucleotides for psfgen and namd (Thu Jan 20 2022 - 08:26:48 CST)
- Fwd: Problems with charmm36 modified nucleotides for psfgen and namd (Thu Jan 20 2022 - 08:43:12 CST)
- Fwd: Problems with charmm36 modified nucleotides for psfgen and namd (Thu Jan 20 2022 - 08:31:36 CST)
- Where to find top_all36_cgenff.rtf/prm version 4.5? (Wed Jan 19 2022 - 08:39:20 CST)
- Re: Failure of autopsf with modified nucleotides (Thu Jan 06 2022 - 14:28:13 CST)
- Re: Failure of autopsf with modified nucleotides (Thu Jan 06 2022 - 09:44:32 CST)
- Fwd: Failure of autopsf with modified nucleotides (Thu Jan 06 2022 - 09:01:58 CST)
- Re: Failure of autopsf with modified nucleotides (Thu Jan 06 2022 - 08:45:26 CST)
- Failure of autopsf with modified nucleotides (Thu Jan 06 2022 - 03:12:44 CST)
- VMD GUI (Thu Nov 25 2021 - 02:15:38 CST)
- Autoionize with non water solvent (Sat Nov 20 2021 - 09:11:49 CST)
- Fwd: Re: namd-l: namd minimization looking for wrong angle (Sat Nov 20 2021 - 08:57:32 CST)
- Re: Re: namd-l: namd minimization looking for wrong angle (Fri Nov 19 2021 - 15:15:00 CST)
- Re: Re: namd-l: namd minimization looking for wrong angle (Fri Nov 19 2021 - 10:55:59 CST)
- Re: Re: namd-l: namd minimization looking for wrong angle (Fri Nov 19 2021 - 03:32:39 CST)
- Re: namd-l: namd minimization looking for wrong angle (Thu Nov 18 2021 - 04:02:10 CST)
- namd minimization looking for wrong angle (Thu Nov 18 2021 - 02:27:31 CST)
- Fwd: autopsfgen looking for wrong angle (Thu Nov 18 2021 - 02:28:25 CST)
- autopsfgen looking for wrong angle (Thu Nov 18 2021 - 02:21:33 CST)
- chloroform box ChARMM (Wed Nov 17 2021 - 04:41:24 CST)
- Re: Fwd: Fwd: namd-l: impropers for protonated 1-methyladenosine (Thu Oct 21 2021 - 07:56:06 CDT)
- Re: Fwd: Fwd: namd-l: impropers for protonated 1-methyladenosine (Thu Oct 21 2021 - 04:15:56 CDT)
- Fwd: Fwd: namd-l: impropers for protonated 1-methyladenosine (Wed Oct 20 2021 - 08:40:14 CDT)
- Fwd: Fwd: autopsf with many modifiers (Tue Sep 14 2021 - 04:30:38 CDT)
- Fwd: Fwd: autopsf with many modifiers (Tue Sep 14 2021 - 03:04:07 CDT)
- Re: Fwd: autopsf with many modifiers (Mon Sep 13 2021 - 12:45:15 CDT)
- Fwd: autopsf with many modifiers (Mon Sep 13 2021 - 09:25:31 CDT)
- Fwd: autopsf with many modifiers (Mon Sep 13 2021 - 04:58:30 CDT)
- autopsf with many modifiers (Sat Sep 11 2021 - 09:21:24 CDT)
- Errors in exporting average structure to a .pdb file (Tue Jul 20 2021 - 11:28:24 CDT)
- Re: vecsub: two vectors don't have the same size (Fri Apr 16 2021 - 10:30:35 CDT)
- vecsub: two vectors don't have the same size (Fri Apr 16 2021 - 04:36:38 CDT)
- Re: histidine protonation (Thu Apr 15 2021 - 09:35:08 CDT)
- Re: histidine protonation (Sun Apr 04 2021 - 08:53:46 CDT)
- Re: histidine protonation (Sat Apr 03 2021 - 09:22:03 CDT)
- Re: histidine protonation (Sat Apr 03 2021 - 02:11:17 CDT)
- histidine protonation (Fri Apr 02 2021 - 11:52:43 CDT)
- Fwd: Fwd: Fake angles created by AutoPSF (Thu Dec 24 2020 - 03:24:44 CST)
- Re: Fwd: Fake angles created by AutoPSF (Thu Dec 24 2020 - 01:03:23 CST)
- Fwd: Fake angles created by AutoPSF (Wed Dec 23 2020 - 08:55:08 CST)
- Fake angles created by AutoPSF (Wed Dec 23 2020 - 08:52:35 CST)
- ProDy issue with QMonly.psf/dcd from QMMM NAMD-ORCA simulations (Sat Dec 12 2020 - 10:39:41 CST)
- Re: [EXTERNAL]Re: h-bond plugin with QMMM (Thu Dec 03 2020 - 13:44:20 CST)
- h-bond plugin with QMMM (Wed Dec 02 2020 - 03:56:05 CST)
- Fwd: Restraining selected atoms with multimer (Wed Nov 04 2020 - 04:46:42 CST)
- Restraining selected atoms with multimer (Wed Nov 04 2020 - 04:36:11 CST)
- Re: Autopsf Failed on end of segment (Tue Nov 03 2020 - 12:52:28 CST)
- Autopsf Failed on end of segment (Tue Nov 03 2020 - 06:55:01 CST)
- Re: Displaying disulfide bonds with updated VMD (Sun Aug 02 2020 - 01:16:00 CDT)
- Displaying disulfide bonds with updated VMD (Sat Aug 01 2020 - 12:04:20 CDT)
- Fwd: Fwd: namd-l: Re: scripts to generate initial boxes of solvents (Tue Jul 07 2020 - 01:58:10 CDT)
- Re: Fwd: namd-l: Re: scripts to generate initial boxes of solvents (Tue Jul 07 2020 - 01:01:15 CDT)
- Fwd: Fwd: namd-l: Re: scripts to generate initial boxes of solvents (Mon Jul 06 2020 - 11:57:16 CDT)
- Fwd: namd-l: Re: scripts to generate initial boxes of solvents (Mon Jul 06 2020 - 11:09:14 CDT)
- Re: getting VMD to obey me (Mon Jul 06 2020 - 04:39:22 CDT)
- getting VMD to obey me (Sun Jul 05 2020 - 10:38:46 CDT)
- Re: NAMD energy plugin reference (Mon Jun 08 2020 - 11:00:54 CDT)
- Re: NAMD energy plugin reference (Mon Jun 08 2020 - 09:53:58 CDT)
- Re: Fwd: Fwd: Fwd: Electrostatic potential maps (Fri May 29 2020 - 05:07:20 CDT)
- Fwd: Fwd: Electrostatic potential maps (Mon May 25 2020 - 04:48:46 CDT)
- Re: Fwd: Electrostatic potential maps (Mon May 25 2020 - 04:41:32 CDT)
- Re: Fwd: Electrostatic potential maps (Mon May 25 2020 - 03:03:03 CDT)
- Fwd: Electrostatic potential maps (Sun May 24 2020 - 08:58:49 CDT)
- Electrostatic potential maps (Sat May 23 2020 - 03:20:02 CDT)
- Fwd: Bypassing MM parameterization of ligand in QMMM (Wed May 06 2020 - 03:10:29 CDT)
- Bypassing MM parameterization of ligand in QMMM (Wed May 06 2020 - 02:49:55 CDT)
- Fwd: ATOM LPH (Wed Apr 15 2020 - 05:10:09 CDT)
- Fwd: ATOM LPH (Tue Apr 14 2020 - 14:48:26 CDT)
- Fwd: ATOM LPH (Tue Apr 14 2020 - 14:52:10 CDT)
- ATOM LPH (Tue Apr 14 2020 - 12:57:04 CDT)
- Re: VMD rendering colors (Sat Feb 15 2020 - 01:46:54 CST)
- Re: VMD rendering colors (Fri Feb 14 2020 - 11:30:02 CST)
- VMD rendering colors (Thu Feb 13 2020 - 11:28:10 CST)
- Re: Fwd: Visulizing subunits (Wed Feb 12 2020 - 11:14:57 CST)
- Re: Fwd: Visulizing subunits (Wed Feb 12 2020 - 04:19:01 CST)
- Fwd: Fwd: Visulizing subunits (Wed Feb 12 2020 - 03:54:49 CST)
- Fwd: Fwd: Visulizing subunits (Wed Feb 12 2020 - 02:31:20 CST)
- Re: Fwd: Visulizing subunits (Wed Feb 12 2020 - 02:21:55 CST)
- Fwd: Visulizing subunits (Tue Feb 11 2020 - 10:10:07 CST)
- Visulizing subunits (Tue Feb 11 2020 - 09:11:47 CST)
- Re: AutoPSF error vecsub (Mon Feb 03 2020 - 03:32:49 CST)
- Re: AutoPSF error vecsub (Sun Feb 02 2020 - 09:53:28 CST)
- AutoPSF error vecsub (Sat Feb 01 2020 - 14:59:02 CST)
- settings for labels (Thu Jan 16 2020 - 09:41:16 CST)
- Fwd: RMSD pluging error (Mon Dec 30 2019 - 10:21:28 CST)
- RMSD pluging error (Mon Dec 30 2019 - 10:16:46 CST)
- Re: Autopsfgen verbose error output? (Wed May 01 2019 - 16:56:22 CDT)
- Autopsfgen verbose error output? (Wed May 01 2019 - 13:24:31 CDT)
- Fwd: Extensions not working (Sun Dec 09 2018 - 01:29:24 CST)
- Extensions not working (Sat Dec 01 2018 - 09:17:03 CST)
- Re: Patching for bond between protein and organic ligand (Tue Nov 13 2018 - 01:13:54 CST)
- Re: psfgen patching protein-ligand (Mon Nov 12 2018 - 10:23:41 CST)
- Fwd: psfgen patching protein-ligand (Mon Nov 12 2018 - 10:27:33 CST)
- Patching for bond between protein and organic ligand (Mon Nov 12 2018 - 01:50:29 CST)
- Re: unknown residue type (Mon Nov 05 2018 - 00:36:38 CST)
- unknown residue type (Sun Nov 04 2018 - 03:08:49 CST)
- Re: Fwd: Unknown atom type CG205 with CGenFF by psfgen (Fri Oct 26 2018 - 14:30:59 CDT)
- Fwd: Unknown atom type CG205 with CGenFF by psfgen (Fri Oct 26 2018 - 10:11:20 CDT)
- Unknown atom type CG205 with CGenFF by psfgen (Fri Oct 26 2018 - 10:09:08 CDT)
- Problems with CGenFF and oxetane ring (Tue Oct 23 2018 - 11:04:27 CDT)
- Re: psfgen patching protein-ligand (Tue Oct 23 2018 - 08:50:35 CDT)
- Fwd: psfgen patching protein-ligand (Mon Oct 22 2018 - 12:07:43 CDT)
- Re: psfgen patching protein-ligand (Mon Oct 22 2018 - 12:03:17 CDT)
- Re: psfgen patching protein-ligand (Tue Oct 16 2018 - 15:10:45 CDT)
- Re: psfgen patching protein-ligand (Tue Oct 16 2018 - 10:47:35 CDT)
- psfgen patching protein-ligand (Tue Oct 16 2018 - 10:13:08 CDT)
- Re: topotools in place of patching (Fri Oct 05 2018 - 12:00:09 CDT)
- topotools in place of patching (Thu Oct 04 2018 - 09:07:48 CDT)
- Re: Frame out of range when trying to edit .psf (Sun Jun 24 2018 - 03:29:24 CDT)
- Frame out of range when trying to edit .psf (Sat Jun 23 2018 - 11:46:37 CDT)
- Fwd: catdcd error opening reading index file (Sat Jun 23 2018 - 09:45:23 CDT)
- Fwd: catdcd error opening reading index file (Sat Jun 23 2018 - 09:01:53 CDT)
- catdcd error opening reading index file (Sat Jun 23 2018 - 04:11:57 CDT)
- Fwd: topotools/topogromacs (Wed Jun 13 2018 - 09:35:04 CDT)
- Re: topotools/topogromacs (Wed Jun 13 2018 - 09:30:15 CDT)
- Re: topotools/topogromacs (Wed Jun 13 2018 - 08:42:25 CDT)
- topotools/topogromacs (Mon Jun 11 2018 - 15:30:51 CDT)
- Re: namd-l: Re: Fwd: FEP with intermediary segments (Fri May 04 2018 - 10:51:45 CDT)
- Fwd: FEP with intermediary segments (Fri May 04 2018 - 00:37:18 CDT)
- FEP with intermediary segments (Thu Apr 26 2018 - 10:20:21 CDT)
- Re: Re: namd-l: Re: Bug with FEP? (Tue Apr 17 2018 - 00:05:38 CDT)
- Re: namd-l: Re: Bug with FEP? (Sun Apr 15 2018 - 02:48:10 CDT)
- Re: Proper use of psfgen "mutate"? (Tue Apr 10 2018 - 09:20:20 CDT)
- ParseFEP error with FEP in segments at different lambda schedule (Sun Apr 08 2018 - 08:46:35 CDT)
- Re: Fwd: ParseFEP for restating FEP (Mon Mar 26 2018 - 15:57:11 CDT)
- Fwd: Fwd: ParseFEP for restating FEP (Sun Mar 25 2018 - 04:24:50 CDT)
- Re: Fwd: ParseFEP for restating FEP (Fri Mar 23 2018 - 15:31:58 CDT)
- Fwd: ParseFEP for restating FEP (Fri Mar 23 2018 - 09:00:15 CDT)
- ParseFEP for restating FEP (Fri Mar 23 2018 - 02:05:41 CDT)
- Re: Adding Hydroxide Ions to the simulation box (Tue Mar 20 2018 - 10:55:21 CDT)
- Re: namd-l: Fwd: parseFEP domain error (Wed Mar 07 2018 - 08:39:49 CST)
- Fwd: parseFEP domain error (Mon Mar 05 2018 - 14:17:56 CST)
- Fwd: parseFEP domain error (Sat Mar 03 2018 - 11:44:06 CST)
- parseFEP domain error (Fri Mar 02 2018 - 09:47:42 CST)
- Re: libX11.so.6 error (Wed Sep 13 2017 - 11:31:25 CDT)
- libX11.so.6 error (Wed Sep 13 2017 - 10:04:00 CDT)
- Re: Fwd: vmd1.9.23 rlwrap: No match (Sat Dec 17 2016 - 02:42:26 CST)
- Fwd: vmd1.9.23 rlwrap: No match (Fri Dec 16 2016 - 03:49:21 CST)
- vmd1.9.23 rlwrap: No match (Fri Dec 16 2016 - 01:43:12 CST)
- Re: namd-l: Re: CHARMM36 alleged missing CC CT1 NH2 angle params (Tue May 17 2016 - 11:43:05 CDT)
- Re: CHARMM36 alleged missing CC CT1 NH2 angle params (Mon May 16 2016 - 08:54:31 CDT)
- Re: namd-l: Re: CHARMM36 alleged missing CC CT1 NH2 angle params (Mon May 16 2016 - 08:54:45 CDT)
- Re: CHARMM36 alleged missing CC CT1 NH2 angle params (Mon May 16 2016 - 04:30:29 CDT)
- CHARMM36 alleged missing CC CT1 NH2 angle params (Mon May 16 2016 - 02:45:55 CDT)
- Re: Number of pdb and psf atoms are not the same! (Wed Dec 16 2015 - 10:14:12 CST)
- Number of pdb and psf atoms are not the same! (Wed Dec 16 2015 - 09:23:41 CST)
- Re: Re: namd-l: VMD-NAMD and PDB element column (Mon Dec 14 2015 - 14:52:18 CST)
- Re: Re: namd-l: VMD-NAMD and PDB element column (Mon Dec 14 2015 - 14:42:21 CST)
- Re: Re: namd-l: VMD-NAMD and PDB element column (Sun Dec 13 2015 - 15:59:37 CST)
- Re: Re: namd-l: VMD-NAMD and PDB element column (Sun Dec 13 2015 - 13:39:11 CST)
- VMD-NAMD and PDB element column (Sat Dec 12 2015 - 09:09:55 CST)
- Re: namd-l: Problems with GLUP and ASPP with CHARMM36 (Fri Dec 11 2015 - 09:21:34 CST)
- Re: namd-l: Problems with GLUP and ASPP with CHARMM36 (Fri Dec 11 2015 - 09:35:48 CST)
- Problems with GLUP and ASPP with CHARMM36 (Fri Dec 11 2015 - 05:07:03 CST)
- PRES and water-ions issues with charmm36 (Thu Dec 10 2015 - 15:30:14 CST)
- Re: namd-l: Fwd: TIP4P and CHARMM27 (Thu Dec 03 2015 - 12:19:58 CST)
- Re: namd-l: Fwd: TIP4P and CHARMM27 (Wed Dec 02 2015 - 11:47:58 CST)
- Re: namd-l: Fwd: TIP4P and CHARMM27 (Tue Dec 01 2015 - 03:22:31 CST)
- Re: namd-l: Fwd: TIP4P and CHARMM27 (Fri Nov 27 2015 - 15:54:56 CST)
- Re: namd-l: Fwd: TIP4P and CHARMM27 (Fri Nov 27 2015 - 11:35:25 CST)
- Re: namd-l: Fwd: TIP4P and CHARMM27 (Fri Nov 27 2015 - 10:18:28 CST)
- Fwd: TIP4P and CHARMM27 (Fri Nov 27 2015 - 09:17:35 CST)
- TIP4P and CHARMM27 (Thu Nov 26 2015 - 15:50:52 CST)
- gromacs to charmm conversion (Fri Oct 23 2015 - 02:34:15 CDT)
- about opls-aam ff for small molecules (Wed Oct 07 2015 - 16:16:15 CDT)
- Re: ffTK & transition metals (Sun Oct 04 2015 - 06:01:37 CDT)
- Re: ffTK & transition metals (Fri Oct 02 2015 - 01:03:27 CDT)
- ffTK & transition metals (Sun Sep 27 2015 - 13:20:28 CDT)
- Re: ffTK and geometry optimization level (Sun Aug 23 2015 - 04:09:15 CDT)
- Re: ffTK and geometry optimization level (Thu Aug 20 2015 - 12:50:55 CDT)
- ffTK and geometry optimization level (Thu Aug 20 2015 - 10:13:52 CDT)
- Fwd: ffTK problems with Gaussian OPT (Sun Aug 16 2015 - 05:54:24 CDT)
- ffTK problems with Gaussian OPT (Sun Aug 16 2015 - 05:43:43 CDT)
- rlwrap/ffTK issues with vmd 1.9.2 (Wed Aug 12 2015 - 02:49:01 CDT)
- Re: Resuming changes in MOLEFACTURE (Tue Aug 11 2015 - 03:54:19 CDT)
- Resuming changes in MOLEFACTURE (Mon Aug 10 2015 - 12:25:43 CDT)
- Fwd: Removing all non polar hydrogens (Sat Jun 27 2015 - 01:46:05 CDT)
- Re: Removing all non polar hydrogens (Sat Jun 27 2015 - 01:32:59 CDT)
- Removing all non polar hydrogens (Fri Jun 26 2015 - 12:57:00 CDT)
- Fwd: unwap/wrap failure in recomposing splitted system from periodic cells (Fri Jun 12 2015 - 10:57:06 CDT)
- Fwd: unwap/wrap failure in recomposing splitted system from periodic cells (Fri Jun 12 2015 - 11:13:50 CDT)
- Re: unwap/wrap failure in recomposing splitted system from periodic cells (Fri Jun 12 2015 - 10:53:34 CDT)
- Re: unwap/wrap failure in recomposing splitted system from periodic cells (Fri Jun 12 2015 - 02:33:33 CDT)
- unwap/wrap failure in recomposing splitted system from periodic cells (Thu Jun 11 2015 - 12:24:23 CDT)
- Re: Splitting homotetramer subunits (Wed Jun 10 2015 - 02:24:57 CDT)
- Splitting homotetramer subunits (Tue Jun 09 2015 - 06:04:37 CDT)
- Re: Comparing distance.tcl/bigdcd.tcl with resid/CA vs index (Thu Jun 04 2015 - 12:00:24 CDT)
- Comparing distance.tcl/bigdcd.tcl with resid/CA vs index (Thu Jun 04 2015 - 09:32:47 CDT)
- Re: bigdcd for distance problems (Wed Jun 03 2015 - 16:04:13 CDT)
- bigdcd for distance problems (Wed Jun 03 2015 - 12:08:44 CDT)
- Re: Failure to run tcl script at the mainframe (Mon Jun 01 2015 - 01:49:30 CDT)
- Re: Failure to run tcl script at the mainframe (Sat May 30 2015 - 12:30:29 CDT)
- Failure to run tcl script at the mainframe (Sat May 30 2015 - 10:19:32 CDT)
- Re: (Fri May 29 2015 - 12:30:43 CDT)
- (no subject) (Fri May 29 2015 - 09:35:57 CDT)
- template script for cavity volume (Tue May 12 2015 - 13:06:29 CDT)
- Re: Fwd: Reading chemical bonds by VMD from AMBER parm7 files (Mon Feb 02 2015 - 14:16:08 CST)
- Fwd: Reading chemical bonds by VMD from AMBER parm7 files (Sat Jan 31 2015 - 15:42:05 CST)
- Re: Reading chemical bonds by VMD from AMBER parm7 files (Wed Jan 21 2015 - 11:52:10 CST)
- Reading chemical bonds by VMD from AMBER parm7 files (Sat Jan 10 2015 - 12:12:07 CST)
- Re: VMD 1.9.2 released! (Wed Dec 31 2014 - 09:17:55 CST)
- Re: Re: FFTK work's with molecules containing new atom types (Tue Dec 16 2014 - 09:56:42 CST)
- Re: FFTK work's with molecules containing new atom types (Tue Dec 16 2014 - 01:21:43 CST)
- Re: FFTK most probably doesn't work with molecules containing new atom types (Sun Dec 14 2014 - 03:26:50 CST)
- Re: FFTK most probably doesn't work with molecules containing new atom types (Sat Dec 13 2014 - 16:44:12 CST)
- Misleading failure of VMD with charge/CGenFF from waterbox (Sun Nov 23 2014 - 03:21:38 CST)
- Fwd: Re: namd-l: problems with in text mode towards pdf and pdb files (Fri Nov 21 2014 - 10:42:05 CST)
- Re: namd-l: problems with in text mode towards pdf and pdb files (Fri Nov 21 2014 - 10:06:28 CST)
- Re: namd-l: problems with in text mode towards pdf and pdb files (Fri Nov 21 2014 - 09:39:56 CST)
- problems with in text mode towards pdf and pdb files (Fri Nov 21 2014 - 09:09:52 CST)
- Re: psfgen: no element symbol in pdb when occupancy zero (Fri Nov 14 2014 - 11:07:45 CST)
- psfgen: no element symbol in pdb when occupancy zero (Fri Nov 14 2014 - 04:00:01 CST)
- Re: rmsdtt, itrajcomp and other plugins open sourced in github (Tue Jun 17 2014 - 00:26:45 CDT)
- Re: show_replicas.vmd can't find basesel (Tue Sep 17 2013 - 02:31:30 CDT)
- show_replicas.vmd can't find basesel (Mon Sep 16 2013 - 12:49:15 CDT)
- Error with show_replicas.vmd (Tue Sep 03 2013 - 04:44:55 CDT)
- MOLEFACTURE with more than 200 atoms (Tue Aug 27 2013 - 05:24:23 CDT)
- Fwd: matching part of two models (Mon Aug 26 2013 - 03:46:55 CDT)
- matching part of two models (Mon Aug 26 2013 - 01:47:33 CDT)
- SOLVED Fwd: Merge structures coordinate failure (Sun Jul 28 2013 - 05:06:14 CDT)
- Merge structures coordinate failure (Sat Jul 27 2013 - 13:04:11 CDT)
- FFTK partial charges against water (Wed Jul 24 2013 - 08:32:42 CDT)
- Re: Fwd: FFTK scan torsions aromatics (Wed Jul 24 2013 - 05:16:30 CDT)
- Fwd: Fwd: FFTK scan torsions aromatics (Tue Jul 23 2013 - 09:50:51 CDT)
- Fwd: FFTK scan torsions aromatics (Tue Jul 23 2013 - 03:12:05 CDT)
- FFTK scan torsions aromatics (Tue Jul 23 2013 - 02:14:14 CDT)
- FFTK scan torsions MP2 vs RHF (Mon Jul 22 2013 - 11:24:55 CDT)
- Fwd: FFTK about Water Interaction (Fri Jul 19 2013 - 11:50:29 CDT)
- FFTK about Water Interaction (Thu Jul 18 2013 - 11:18:21 CDT)
- charmm36 and charmm27 together with namd? (Thu Jul 18 2013 - 01:54:35 CDT)
- Fwd: FFTK and CGenFF (Wed Jul 17 2013 - 12:48:36 CDT)
- FFTK and CGenFF (Wed Jul 17 2013 - 10:14:04 CDT)
- Re: membrane in xplor format (Fri Jul 12 2013 - 09:39:55 CDT)
- membrane in xplor format (Fri Jul 12 2013 - 05:14:50 CDT)
- Showing bonds created with"bond" command of LEaP (Mon Jun 03 2013 - 09:42:28 CDT)
- Re: Fwd: VMD Crash with Ubuntu 12.04 LTS and NVidia 310.44 driver. (Sat May 04 2013 - 01:37:42 CDT)
- fftk source code (Wed Apr 10 2013 - 01:05:13 CDT)
- Re: FFTK bond optimization +idlepoll request (Mon Apr 01 2013 - 00:39:22 CDT)
- FFTK bond optimization +idlepoll request (Sun Mar 31 2013 - 13:14:38 CDT)
- Re: FFTK Atom types (Wed Mar 27 2013 - 10:54:21 CDT)
- Fwd: FFTK Atom types (Wed Mar 27 2013 - 03:34:30 CDT)
- FFTK Atom types (Wed Mar 27 2013 - 02:21:13 CDT)
- Fwd: FFTK plugin, Water Inter issue (Tue Mar 26 2013 - 12:20:12 CDT)
- FFTK plugin, Water Inter issue (Tue Mar 26 2013 - 12:15:00 CDT)
- Morse potentail with charmm 27 (Sun Mar 24 2013 - 11:04:56 CDT)
- About PLUMED with NAMD VMD (Wed Feb 27 2013 - 02:16:28 CST)
- Fwd: namd-l: About "add solvation" (Mon Jan 21 2013 - 03:49:06 CST)
- Re: Failure getting correct charge on the system (Mon Aug 13 2012 - 05:13:41 CDT)
- Re: Failure getting correct charge on the system (Mon Aug 13 2012 - 04:38:46 CDT)
- Failure getting correct charge on the system (Mon Aug 13 2012 - 02:34:56 CDT)
- Re: namd/vmd support to GTX-6## series (Thu Jun 21 2012 - 12:36:27 CDT)
- (no subject) (Sun Jun 10 2012 - 12:45:22 CDT)
- namd/vmd support to GTX-6## series (Wed Jun 06 2012 - 03:43:38 CDT)
- Re: namd-l: Re: FFTK VMD plugin issue (arising from VECSCALE TCL issues of either NAMD or VMD ?) (Tue Jun 05 2012 - 12:54:05 CDT)
- FFTK VMD plugin issue (arising from VECSCALE TCL issues of either NAMD or VMD ?) (Tue Jun 05 2012 - 02:16:40 CDT)
- Re: Re: FFTK OptCharges (Mon Jun 04 2012 - 13:28:23 CDT)
- FFTK OptCharges (Mon Jun 04 2012 - 04:10:40 CDT)
- FFTK for adjusting partial charge only (Tue May 29 2012 - 10:29:53 CDT)
- FFTK plugin: in which order should the components be run? (Mon May 21 2012 - 04:20:58 CDT)
- Add-H for crystallization water only (Wed May 09 2012 - 15:08:09 CDT)
- Re: namd-l: psfgen tyrosine anion-Fe bond (Sun Apr 01 2012 - 12:14:27 CDT)
- Re: namd-l: psfgen tyrosine anion-Fe bond (Sun Apr 01 2012 - 12:03:17 CDT)
- psfgen tyrosine anion-Fe bond (Sun Apr 01 2012 - 09:53:13 CDT)
- autopsf: can't read "logfilename" (Sat Mar 24 2012 - 11:46:15 CDT)
- Fwd: Re: [AMBER] Viewing with VMD bonds set by the "bond" command (Fri Mar 09 2012 - 01:39:17 CST)
- Re: [AMBER] Viewing with VMD bonds set by the "bond" command (Thu Mar 08 2012 - 12:27:58 CST)
- Re: [AMBER] Viewing with VMD bonds set by the "bond" command (Thu Mar 08 2012 - 03:48:48 CST)
- Re: Re: About FFTP with transition metal complexes (Wed Feb 29 2012 - 05:52:03 CST)
- About FFTP with transition metal complexes (Sat Feb 18 2012 - 00:23:01 CST)
- Re: About the syntax in Autopsf - Add Patch for PRES PLIG (Sun Oct 30 2011 - 10:34:43 CDT)
- About the syntax in Autopsf - Add Patch for PRES PLIG (Sun Oct 30 2011 - 03:28:27 CDT)
- Epsilon, Rmin for copper ions (Sat Sep 24 2011 - 03:55:34 CDT)
- Fwd: Copper ions paratool (Fri Sep 23 2011 - 10:12:04 CDT)
- Fwd: Saved project and paratool (Fri Sep 23 2011 - 06:00:05 CDT)
- stream files and paratool (Fri Sep 23 2011 - 03:10:52 CDT)
- fonts for paratool (Sun Sep 18 2011 - 09:11:38 CDT)
- Problems running VMD-CUDA with GNU-Linux (Tue Aug 02 2011 - 16:52:01 CDT)
- SOLVED: Failure to run namd-cuda with gtx-470 (Fri Jul 22 2011 - 09:56:34 CDT)
- Computer hangs on trying to launch VMD CUDA (Mon Jul 04 2011 - 02:19:02 CDT)
- Re: Re: Fwd: "cuda error cudastreamcreate", (Fri Jun 17 2011 - 02:36:49 CDT)
- Re: Fwd: "cuda error cudastreamcreate", (Fri Jun 17 2011 - 00:50:05 CDT)
- Fwd: molefacture "force tetrahedral" failure: SOLVED with chimera-vmd (Wed May 04 2011 - 02:45:21 CDT)
- molefacture "force tetrahedral" failure (Wed May 04 2011 - 01:33:01 CDT)
- Fwd: (my) problems using molefacture dihedral (Sun Apr 03 2011 - 09:14:44 CDT)
- Fwd: (my) problems using molefacture dihedral (Sun Apr 03 2011 - 08:49:53 CDT)
- (my) problems using molefacture dihedral (Sat Apr 02 2011 - 15:36:21 CDT)
- Re: Fwd: charmmgen to autopsf (Tue Mar 22 2011 - 13:38:37 CDT)
- Fwd: charmmgen to autopsf (Tue Mar 22 2011 - 11:03:05 CDT)
- Re: charmmgen to autopsf (Tue Mar 22 2011 - 05:32:21 CDT)
- Re: charmmgen to autopsf (Mon Mar 21 2011 - 11:50:13 CDT)
- Fwd: charmmgen to autopsf (Mon Mar 21 2011 - 07:20:00 CDT)
- charmmgen to autopsf (Mon Mar 21 2011 - 05:12:05 CDT)
- Re: segid & chain id (Thu Mar 17 2011 - 11:05:17 CDT)
- Fwd: .pdbqt file type (Thu Mar 17 2011 - 05:16:04 CDT)
- segid & chain id (Thu Mar 17 2011 - 02:27:23 CDT)
- Re: .pdbqt file type (Thu Mar 17 2011 - 02:38:19 CDT)
- .pdbqt file type (Wed Mar 16 2011 - 12:15:51 CDT)
- Fwd: Re: namd-l: hBond colvars and patching (Tue Mar 08 2011 - 00:34:36 CST)
- Re: namd-l: hBond colvars and patching (Mon Mar 07 2011 - 00:12:54 CST)
- hBond colvars and patching (Sun Mar 06 2011 - 14:05:47 CST)
- Fwd: namd-l: hBond component in colvars and patching (Sun Mar 06 2011 - 02:36:10 CST)
- hBond component in colvars and patching (Sat Mar 05 2011 - 14:38:45 CST)
- Fwd: autopsf-patches C++ error 'expected integer but got "" ""' SOLVED, MY FAULT (Fri Feb 25 2011 - 07:59:56 CST)
- Re: autopsf-patches C++ error 'expected integer but got "" ""' (Wed Feb 23 2011 - 15:03:16 CST)
- Re: autopsf-patches C++ error 'expected integer but got "" ""' (Wed Feb 23 2011 - 10:42:55 CST)
- autopsf-patches C++ error 'expected integer but got "" ""' (Wed Feb 23 2011 - 10:21:11 CST)
- Fwd: autopsf error: failed on end of segment (Wed Dec 22 2010 - 00:50:35 CST)
- autopsf error: failed on end of segment (Tue Dec 21 2010 - 11:49:14 CST)
- Re: k3b also launches vmd (Thu Nov 11 2010 - 02:10:36 CST)
- Re: k3b also launches vmd (Wed Nov 10 2010 - 13:33:43 CST)
- k3b also launches vmd (Wed Nov 10 2010 - 03:05:03 CST)
- about paratool (Thu Jun 03 2010 - 02:50:05 CDT)
- Cutting a bond (Wed May 19 2010 - 13:52:18 CDT)
- Fwd: trajectory_path.tcl queries (Sun Mar 14 2010 - 04:51:02 CDT)
- trajectory_path.tcl queries (Sun Mar 07 2010 - 02:55:03 CST)
- Re: namd-l: Can't find C-PDB bond parameters (Mon Feb 15 2010 - 11:44:52 CST)
- Can't find C-PDB bond parameters (Mon Feb 15 2010 - 03:46:29 CST)
- Re: CAN'T FIND BOND PARAMETERS FOR BOND C - CPB IN PARAMETER FILES (Sun Feb 14 2010 - 11:32:57 CST)
- CAN'T FIND BOND PARAMETERS FOR BOND C - CPB IN PARAMETER FILES (Sun Feb 14 2010 - 10:26:01 CST)
- Fwd: obscurity in sbcg tutorial description (Sat Jan 09 2010 - 16:01:21 CST)
- obscurity in sbcg tutorial description (Sat Jan 09 2010 - 03:37:49 CST)
- Fwd: Failure of AutoSCFBuilder to recognize all monomers (Sun Jan 03 2010 - 09:24:22 CST)
- Failure of AutoSCFBuilder to recognize all monomers (Sun Jan 03 2010 - 04:54:24 CST)
- Fwd: sbcg with multimers (Thu Dec 31 2009 - 04:40:14 CST)
- sbcg with multimers (Wed Dec 30 2009 - 15:22:43 CST)
- Fwd: Fwd: Re: namd-l: Fwd: conf file for coarse grained simulation (Thu Dec 17 2009 - 12:27:15 CST)
- Fwd: Fwd: Re: namd-l: Fwd: conf file for coarse grained simulation (Thu Dec 17 2009 - 02:34:23 CST)
- Re: namd-l: Fwd: conf file for coarse grained simulation (Tue Dec 15 2009 - 10:01:30 CST)
- Re: namd-l: Fwd: conf file for coarse grained simulation (Tue Dec 15 2009 - 02:40:55 CST)
- Re: namd CG minimization error: unable to find angle parameters for nxg nxx nxg (Fri Dec 11 2009 - 09:52:43 CST)
- namd CG minimization error: unable to find angle parameters for nxg nxx nxg (Thu Dec 10 2009 - 10:27:13 CST)
- Re: Restraints on coarse grained model (Wed Dec 09 2009 - 12:49:28 CST)
- Fwd: Restraints on coarse grained model (Wed Dec 09 2009 - 03:07:36 CST)
- Restraints on coarse grained model (Tue Dec 08 2009 - 13:23:59 CST)
- Fwd: CG lipid bilayer vmd 1.8.7 (Mon Dec 07 2009 - 01:31:46 CST)
- Fwd: CG lipid bilayer vmd 1.8.7 (Mon Dec 07 2009 - 02:01:28 CST)
- Re: CG lipid bilayer vmd 1.8.7 (Sun Dec 06 2009 - 13:24:06 CST)
- Fwd: Failure with AutoPSF (PDB has x, y, z zero) (Sat Dec 05 2009 - 14:25:41 CST)
- Fwd: Failure with AutoPSF (PDB has x, y, z zero) (Sat Dec 05 2009 - 12:51:22 CST)
- Failure with AutoPSF (PDB has x, y, z zero) (Fri Dec 04 2009 - 12:35:12 CST)
- in search of lipid files (Thu Dec 03 2009 - 16:11:43 CST)
- Re: CG lipid bilayer vmd 1.8.7 (Thu Dec 03 2009 - 02:57:24 CST)
- CG lipid bilayer vmd 1.8.7 (Wed Dec 02 2009 - 12:13:53 CST)
- Re: namd-l: Re: problems with CG protein-lipidbilayer-water system (Sun Nov 22 2009 - 15:32:18 CST)
- problems with CG protein-lipidbilayer-water system (Sat Nov 21 2009 - 12:00:54 CST)
- coarse-grained solvate usage (Fri Nov 20 2009 - 05:12:35 CST)
- Error: failed on end of segment with RBCG (Sun Nov 15 2009 - 03:18:57 CST)
- (no subject) (Fri Nov 13 2009 - 03:23:21 CST)
- Re: version 1.8.7 for amd64 and cg tools (Fri Nov 13 2009 - 00:02:43 CST)
- Fwd: version 1.8.7 for amd64 and cg tools (Thu Nov 12 2009 - 23:33:42 CST)
- version 1.8.7 for amd64 and cg tools (Thu Nov 12 2009 - 23:15:31 CST)
- CG Builder (Mon Nov 09 2009 - 14:06:44 CST)
- Graphical representation (Sun Mar 29 2009 - 13:59:15 CDT)
- howto select stain reveal map (Thu Mar 26 2009 - 02:30:29 CDT)
- vmd_plot (Wed Mar 25 2009 - 06:16:36 CDT)
- Re: proximity of residues (Wed Jan 23 2008 - 09:19:12 CST)
- proximity of residues (Wed Jan 23 2008 - 01:40:51 CST)
- Re: RMSD with protein ligand (Thu Jan 17 2008 - 11:11:35 CST)
- RMSD with protein ligand (Thu Jan 17 2008 - 00:49:37 CST)
- Re: Cluster analysis (Mon Jan 07 2008 - 15:44:15 CST)
- Re: Cluster analysis (Mon Jan 07 2008 - 12:08:27 CST)
- Re: Cluster analysis (Mon Jan 07 2008 - 04:35:30 CST)
- Cluster analysis (Sun Jan 06 2008 - 04:27:19 CST)
- Membrane POPC (Sat Dec 01 2007 - 17:07:50 CST)
- Delete overlapping residues (Sat Nov 24 2007 - 10:50:32 CST)
- Re: combine.tcl membrane plugin (Thu Nov 15 2007 - 09:50:36 CST)
- Re: combine.tcl membrane plugin (Thu Nov 15 2007 - 03:15:33 CST)
- combine.tcl membrane plugin (Wed Nov 14 2007 - 12:05:12 CST)
- Re: merging two pdb files (Thu Nov 08 2007 - 11:48:23 CST)
- combine.tcl error (Sun Oct 14 2007 - 03:23:23 CDT)
- solvation (Thu Aug 30 2007 - 15:05:59 CDT)
- Re: Paratool Reference (was Re: Paratool Window) (Tue Aug 21 2007 - 10:29:41 CDT)
- chime vs vmd (Sun Aug 12 2007 - 11:11:05 CDT)
- Adjusting R/S configuration (Sat Aug 11 2007 - 02:21:47 CDT)
- Re: chloroform box (Sun Aug 05 2007 - 02:28:15 CDT)
- Re: chloroform box (Sat Aug 04 2007 - 09:08:41 CDT)
- chloroform box (Sat Aug 04 2007 - 00:52:20 CDT)
- Fwd: atom serial number (Sun Jul 01 2007 - 02:59:07 CDT)
- atom serial number (Sun Jul 01 2007 - 02:33:20 CDT)
- vmd and amber (Thu Jun 28 2007 - 16:08:37 CDT)
- Re: paratool/gaff (Thu Jun 14 2007 - 01:45:23 CDT)
- Paratool Add/Edit Internal Coordinates window (Tue Jun 12 2007 - 00:29:05 CDT)
- Re: paratool/gaff (Wed Jun 06 2007 - 10:07:13 CDT)
- Re: Fwd: vmd installation Linux Debian i386 (Tue Jun 05 2007 - 17:47:06 CDT)
- Fwd: vmd installation Linux Debian i386 (Tue Jun 05 2007 - 12:55:05 CDT)
- Re: Installing VMD 1.8.6 (Tue Jun 05 2007 - 01:16:14 CDT)
- Re: Installing VMD 1.8.6 (Mon Jun 04 2007 - 16:14:29 CDT)
- Re: Fwd: Linux installation issue (Sun May 27 2007 - 02:44:32 CDT)
- Fwd: Linux installation issue (Sat May 26 2007 - 09:57:40 CDT)
- Fwd: Linux installation issue (Sat May 26 2007 - 09:47:51 CDT)
- Linux installation issue (Sat May 26 2007 - 09:38:53 CDT)
- VMD installation (Thu May 24 2007 - 16:04:29 CDT)
- Re: paratool/gaff (Thu May 24 2007 - 02:48:06 CDT)
- paratool/gaff (Thu May 24 2007 - 01:14:37 CDT)
- About paratool (Wed May 23 2007 - 09:38:40 CDT)
- Re: Fwd: vmd first installation (Fri May 11 2007 - 11:05:08 CDT)
- Re: Fwd: vmd first installation (Fri May 11 2007 - 02:50:29 CDT)
- Fwd: vmd first installation (Wed May 09 2007 - 16:59:08 CDT)
- vmd first installation (Wed May 09 2007 - 01:24:48 CDT)
francesco quilli
- Re: FFTK - Dihedral doesn't fit the QM target data (Thu Mar 21 2024 - 08:27:40 CDT)
- Re: FFTK - Dihedral doesn't fit the QM target data (Thu Mar 14 2024 - 02:55:24 CDT)
- FFTK - Dihedral doesn't fit the QM target data (Mon Mar 11 2024 - 10:12:52 CDT)
- ffTK charge optimization error (Mon Jan 08 2024 - 08:38:31 CST)
FRANCESCO TORRICELLA
- autopsf ERROR (Thu Nov 08 2018 - 08:58:57 CST)
Francis Reyes
- Moving domains in VMD (Thu Feb 23 2006 - 09:08:45 CST)
- PDB Parser cannot interpret ^M ? (Tue Feb 14 2006 - 22:53:06 CST)
- Loading structures into sequence alignment extension? (Mon Feb 13 2006 - 11:31:40 CST)
- (no subject) (Thu Feb 17 2005 - 16:33:15 CST)
- Keyboard mapping incorrect for OS X (Thu Feb 17 2005 - 13:50:00 CST)
francisca andrea salas sepulveda
- QMMM simulation orbitals visualization step by step (Tue Jan 11 2022 - 08:17:20 CST)
Francisco José Taberner Sanchis
- Cartoons and secondary structure prediction (Tue May 03 2011 - 05:51:24 CDT)
- Problem with cartoon and secondary structure (Tue May 03 2011 - 05:13:18 CDT)
- Fwd: Problem with cartoon and secondary structure (Tue May 03 2011 - 03:26:18 CDT)
Francisco Ramos
- 1.9.4_a43: chemical2vmd should use /tmp instead of /usr/tmp (Thu Sep 17 2020 - 06:33:30 CDT)
- 1.9.4_a43 mixes g++ and gcc during building and ignores LDFLAGS (Thu Sep 17 2020 - 06:26:43 CDT)
- 1.9.4_a43 parallel build issues with high -j (Wed Sep 16 2020 - 06:32:59 CDT)
- Re: VMD python3 version (Sat Sep 05 2020 - 12:04:17 CDT)
Francois Martz
- Re: writepdb, wrong lines in output (Thu Mar 15 2012 - 04:51:54 CDT)
- writepdb, wrong lines in output (Wed Mar 14 2012 - 12:15:22 CDT)
francy_at_mvcch3.unica.it
- windows 98/ vmd14a2.exe & vmd14b1.exe (Fri Oct 22 1999 - 12:52:43 CDT)
Frank Barry
- Re: rlwrap problem on (Tue Nov 08 2011 - 14:34:21 CST)
- rlwrap problem on (Tue Nov 01 2011 - 10:50:26 CDT)
Frank Zack
- Re: vmd killed - memory problems? (Fri Nov 27 2015 - 11:12:59 CST)
- Re: vmd killed - memory problems? (Fri Nov 27 2015 - 10:35:04 CST)
- vmd killed - memory problems? (Thu Nov 26 2015 - 06:30:57 CST)
- Re: Delete atoms from selection (Mon Oct 19 2015 - 08:47:05 CDT)
- Delete atoms from selection (Mon Oct 19 2015 - 08:34:16 CDT)
- set $sel {x y z} not working? (Sun Oct 11 2015 - 09:07:29 CDT)
- mergemols not combining topology information (Mon Sep 21 2015 - 07:06:02 CDT)
François-Xavier Coudert
- Re: HBonds criterion (Wed Sep 27 2006 - 03:17:01 CDT)
- HBonds criterion (Tue Sep 26 2006 - 11:18:22 CDT)
Fred (Rui FENG)
- Re: Does command "animate delete all" free memory? (Thu Feb 26 2009 - 17:00:49 CST)
- Re: Does command "animate delete all" free memory? (Thu Feb 26 2009 - 15:57:56 CST)
- Does command "animate delete all" free memory? (Thu Feb 26 2009 - 15:00:53 CST)
- Re: The maximal size which can be displayed by VMD? (Wed Jul 02 2008 - 20:55:07 CDT)
- The maximal size which can be displayed by VMD? (Wed Jul 02 2008 - 16:06:18 CDT)
- Does VMD support to draw a velocity field diagram? (Thu Mar 13 2008 - 16:26:13 CDT)
Fred de Lamotte
- Re: vmd-l digest V1 #514 (Sat Apr 29 2006 - 08:43:56 CDT)
- Re: VMD does not run on MacOS X 10.4 Tiger (Tue May 17 2005 - 01:38:52 CDT)
Fred Moore
- new machine problems. (Mon Aug 13 2007 - 17:58:46 CDT)
- RDF calculations (Fri Jul 13 2007 - 15:16:40 CDT)
- representation selection funnies (Tue Mar 27 2007 - 14:06:21 CDT)
- coloring names (Fri Mar 23 2007 - 13:24:37 CDT)
Fred Salsbury
- How to improve the running of VMD with data on remote servers (Mon Oct 27 2003 - 17:52:47 CST)
- Re: Graphics workstation and Xenon problems with VMD? (Wed Aug 27 2003 - 13:24:11 CDT)
- Re: Graphics workstation and Xenon problems with VMD? (Wed Aug 27 2003 - 06:22:05 CDT)
- Graphics workstation and Xenon problems with VMD? (Tue Aug 26 2003 - 19:49:41 CDT)
Freda Lim (IHPC)
- RE: How do you construct a .cgc file that actually works? (Thu Feb 06 2014 - 04:25:14 CST)
- How do you construct a .cgc file that actually works? (Wed Feb 05 2014 - 00:12:20 CST)
Frederick R. Phelan Jr.
- Re: LAMMPS Vizualization (Mon Mar 14 2005 - 17:26:48 CST)
- LAMMPS Vizualization (Mon Mar 14 2005 - 10:21:52 CST)
Frederick Sachs
- High res stl files (Tue Nov 28 2006 - 13:47:11 CST)
Frederico De Santana Pontes
- Re: How to evaluate VMD performance properly? (Thu Nov 23 2023 - 05:23:51 CST)
- Re: How to evaluate VMD performance properly? (Tue Nov 21 2023 - 07:39:39 CST)
- Re: How to evaluate VMD performance properly? (Tue Nov 21 2023 - 03:39:12 CST)
- How to evaluate VMD performance properly? (Mon Nov 20 2023 - 06:03:40 CST)
Fredrik Sjunnesson
- Python: radius always 1 for cylinder and cones (Wed Feb 06 2002 - 16:04:13 CST)
Fujie Tang
- Re: [External] Re: troubles in setting pbc on m1 mac version (Thu Jul 15 2021 - 16:27:57 CDT)
- Re: [External] Re: troubles in setting pbc on m1 mac version (Thu Jul 15 2021 - 08:53:54 CDT)
- troubles in setting pbc on m1 mac version (Wed Jul 14 2021 - 12:01:27 CDT)
fulvio ciriaco
- covalent atomic radii customization (Thu Oct 08 2020 - 14:18:30 CDT)
Fung Wai Keung
- How to make VMD to work with Phantom Haptic Device (Tue May 11 2004 - 06:29:24 CDT)
- How to make VMD work with Phantom haptic device? (Mon Mar 08 2004 - 01:51:40 CST)
- File format of DCD Trajectory file (Mon Sep 29 2003 - 01:10:13 CDT)
Funzo_at_seznam.cz
- Re: Where to save the script (Mon Aug 06 2018 - 04:02:58 CDT)
- Where to save the script (Sun Aug 05 2018 - 10:38:14 CDT)
- Re: Porcupine plot with nmwiz (Tue Jul 31 2018 - 11:06:17 CDT)
- Porcupine plot with nmwiz (Thu Jul 26 2018 - 09:34:19 CDT)
Fux Samuel (ID SIS)
- isosurface stays gray after using "surface_color" command and "rebuild" (Wed Jan 11 2017 - 07:18:39 CST)
fvlieffe
- FFTK and the divide and conquer strategy (Thu Feb 04 2016 - 03:37:02 CST)
- fftk: prepare from CGENFF and improper (Fri Oct 16 2015 - 08:01:49 CDT)
- fftk Bond guassian input for hessian calculation (Tue Sep 15 2015 - 06:07:14 CDT)
- fftk charge validation (Wed Sep 09 2015 - 04:58:59 CDT)
- fftk autoDetect indices and (Tue Jul 14 2015 - 07:13:10 CDT)
FX
- Linux HiDPI screens (Mon Nov 07 2022 - 08:33:18 CST)
- Re: Installation problem on MacOS Monterey (Sun Sep 11 2022 - 14:35:32 CDT)
- Re: Open VMD in current terminal directory (Fri Dec 17 2021 - 00:42:05 CST)
- Re: CIF file reader (Wed Dec 01 2021 - 04:14:59 CST)
- Re: Quicksurf crashes VMD on newest Mac version (Mon May 10 2021 - 16:05:59 CDT)
- Re: Quicksurf crashes VMD on newest Mac version (Mon May 10 2021 - 14:50:46 CDT)
- Re: 1.9.4a43-Catalina-Rev6 TkConsole Up Arrow History (Mon Jul 13 2020 - 11:03:01 CDT)
- Re: VMD 1.9.4a42 test builds posted... (Sat May 30 2020 - 04:04:48 CDT)
- Re: Early VMD 1.9.4 alpha builds for MacOS X Catalina (e.g., 10.15.4) (Sun May 03 2020 - 07:16:23 CDT)
- Re: Early VMD 1.9.4 alpha builds for MacOS X Catalina (e.g., 10.15.4) (Tue Apr 28 2020 - 13:18:37 CDT)
- Re: Problem with Surf representation in the latest version macOS Catalina (Tue Apr 28 2020 - 11:35:09 CDT)
- Re: Problem with Surf representation in the latest version macOS Catalina (Tue Apr 28 2020 - 05:07:10 CDT)
- Re: Early VMD 1.9.4 alpha builds for MacOS X Catalina (e.g., 10.15.4) (Sun Apr 26 2020 - 14:49:37 CDT)
- Re: Early VMD 1.9.4 alpha builds for MacOS X Catalina (e.g., 10.15.4) (Sun Apr 26 2020 - 04:49:57 CDT)
- Re: Early VMD 1.9.4 alpha builds for MacOS X Catalina (e.g., 10.15.4) (Sun Apr 26 2020 - 04:27:14 CDT)
- Re: Early VMD 1.9.4 alpha builds for MacOS X Catalina (e.g., 10.15.4) (Sat Apr 25 2020 - 08:25:09 CDT)
- Re: Early VMD 1.9.4 alpha builds for MacOS X Catalina (e.g., 10.15.4) (Sat Apr 18 2020 - 07:16:45 CDT)
- Re: Early VMD 1.9.4 alpha builds for MacOS X Catalina (e.g., 10.15.4) (Fri Apr 17 2020 - 17:42:29 CDT)
- Register some cell information in XYZ files (Mon Apr 06 2020 - 05:01:55 CDT)
- Re: CIF file reader (Sat Apr 04 2020 - 11:10:20 CDT)
- Re: Segfault in VMD 1.9.4a38 in DrawMolItem::draw_volume_isosurface_points (Fri Apr 03 2020 - 10:26:17 CDT)
- Segfault in VMD 1.9.4a38 in DrawMolItem::draw_volume_isosurface_points (Fri Apr 03 2020 - 06:18:01 CDT)
- Re: CIF file reader (Sat Mar 28 2020 - 19:35:14 CDT)
- Re: CIF file reader (Sat Mar 28 2020 - 13:29:56 CDT)
- CIF file reader (Sun Mar 22 2020 - 17:00:35 CDT)
- Re: Re: VMD 1.9.4a38 build for macOS Catalina (Mon Dec 09 2019 - 02:24:35 CST)
- Re: Re: VMD 1.9.4a38 build for macOS Catalina (Sun Dec 08 2019 - 07:14:24 CST)
- Re: Re: VMD 1.9.4a38 build for macOS Catalina (Sun Dec 08 2019 - 05:10:39 CST)
- Re: Re: VMD 1.9.4a38 build for macOS Catalina (Sun Dec 08 2019 - 04:31:13 CST)
- Re: Re: VMD 1.9.4a38 build for macOS Catalina (Sat Dec 07 2019 - 11:43:51 CST)
- Re: Re: VMD 1.9.4a38 build for macOS Catalina (Sat Dec 07 2019 - 11:28:12 CST)
- Re: Re: VMD 1.9.4a38 build for macOS Catalina (Sat Dec 07 2019 - 11:12:27 CST)
- Re: VMD 1.9.4a38 build for macOS Catalina (Sat Dec 07 2019 - 07:32:21 CST)
- Re: VMD 1.9.4a38 build for macOS Catalina (Thu Dec 05 2019 - 07:58:46 CST)
- VMD 1.9.4a38 build for macOS Catalina (Thu Dec 05 2019 - 04:46:46 CST)
- Re: VMD 1.9.3 on 64-bit macOS (Fri Dec 16 2016 - 04:21:15 CST)
- Re: VMD 1.9.3 on 64-bit macOS (Thu Dec 15 2016 - 06:42:20 CST)
- Re: VMD 1.9.3 on 64-bit macOS (Thu Dec 15 2016 - 05:05:59 CST)
- Some macOS code simplification (Fri Dec 02 2016 - 07:42:09 CST)
- VMD 1.9.3 on 64-bit macOS (Fri Dec 02 2016 - 05:25:07 CST)
- Re: "measure symmetry" and SymmetryTools fail to find simple symmetry (Fri Nov 22 2013 - 07:13:43 CST)
- Re: "measure symmetry" and SymmetryTools fail to find simple symmetry (Wed Nov 20 2013 - 18:00:44 CST)
- Re: "measure symmetry" and SymmetryTools fail to find simple symmetry (Sat Nov 16 2013 - 15:58:20 CST)
- "measure symmetry" and SymmetryTools fail to find simple symmetry (Thu Nov 14 2013 - 10:42:58 CST)
- Re: How to diagnose SpaceNavigator not working with VMD? (Mon Oct 07 2013 - 04:39:13 CDT)
- Re: How to diagnose SpaceNavigator not working with VMD? (Thu Oct 03 2013 - 03:35:00 CDT)
- How to diagnose SpaceNavigator not working with VMD? (Tue Oct 01 2013 - 07:02:56 CDT)
- Re: Support for Retina displays? (Sun Sep 30 2012 - 14:26:29 CDT)
- Support for Retina displays? (Sun Sep 30 2012 - 05:40:23 CDT)
- Isosurfaces and volume slices (Thu Jun 28 2012 - 08:22:29 CDT)
- Re: Mac OS compilation? what could be going wrong? (Wed Apr 11 2012 - 14:25:47 CDT)
- Re: Mac OS compilation? what could be going wrong? (Wed Apr 11 2012 - 11:58:36 CDT)
- Re: Mac OS compilation? what could be going wrong? (Wed Apr 11 2012 - 11:57:08 CDT)
- Re: Mac OS compilation? what could be going wrong? (Tue Apr 10 2012 - 03:50:32 CDT)
- Re: Mac OS compilation? what could be going wrong? (Mon Apr 09 2012 - 14:06:06 CDT)
- Mac OS compilation… what could be going wrongQ?= (Sun Apr 08 2012 - 12:03:42 CDT)
- New "surf" calculations in VMD 1.9.1 beta (Wed Jan 18 2012 - 06:12:08 CST)
- Re: VMD 1.9.1 beta 1 posted for download... (Thu Jan 05 2012 - 15:28:58 CST)
- Improve OFF plugin: handle colors (Mon Dec 05 2011 - 07:20:06 CST)
- Patchlet for MacOS 32/64-bit compilation (Sat Jul 02 2011 - 05:13:21 CDT)
- A patch for OFF import and a question about representation of surfaces (Sat Jul 02 2011 - 05:08:08 CDT)
- Re: transparent background (Fri Feb 20 2009 - 18:52:47 CST)
- Re: [patch] Autodetection of formats supported by openbabel (Mon Nov 24 2008 - 17:05:26 CST)
- [patch] Autodetection of formats supported by openbabel (Thu Nov 20 2008 - 05:07:17 CST)
- Re: Tetrahedral representation (Thu Jul 17 2008 - 06:19:09 CDT)
- Tetrahedral representation (Wed Jul 16 2008 - 17:20:22 CDT)
FX Coudert
- Re: HBonds criterion (Tue Sep 26 2006 - 14:38:39 CDT)
FyD
- Empirical force fields: release new version of RED Server Dev/PyRED (Mon May 05 2014 - 06:07:18 CDT)
- New empirical force field tools: Release of R.E.D. Server Dev./R.E.D. Python (Fri Nov 22 2013 - 04:18:53 CST)
- Re: mol2 file format & displaying atom connectivities (Fri Sep 06 2013 - 08:55:42 CDT)
- mol2 file format & displaying atom connectivities (Fri Sep 06 2013 - 06:35:52 CDT)
- Re: Re: Viewing with VMD bonds set by the "bond" command (Fri Mar 09 2012 - 12:10:27 CST)
- Release of the R.E.D.-III.5 tools (Wed Feb 22 2012 - 05:00:23 CST)
- q4md-forcefieldtools.org announcement (Fri Nov 25 2011 - 07:33:39 CST)
- Release of R.E.D. Server 2.0 (Thu Nov 04 2010 - 04:50:36 CDT)
- Release of the R.E.D.-III.4 tools (Wed Jul 07 2010 - 02:04:36 CDT)
- R.E.D.-III.3 tools release - q4md-forcefieldtools.org (Sun Oct 04 2009 - 09:37:06 CDT)
- Release of R.E.D. Server (Thu Apr 09 2009 - 03:31:30 CDT)
- vmd error related to opengl (Fri Feb 27 2009 - 18:12:02 CST)
- Release of the R.E.D.-III.1 tools (Mon Jan 12 2009 - 05:59:14 CST)
- Tripos mol2 file in VMD (Mon Nov 05 2007 - 14:57:03 CST)
- Re: Tripos mol2 file in VMD (Mon Nov 05 2007 - 15:14:20 CST)
- Download vmd for 64-bit Intel Itanium (Mon Nov 05 2007 - 15:00:36 CST)
- Force field atom types (Sun Oct 28 2007 - 05:23:11 CDT)
- Automatic loading of mol2 files (Wed May 23 2007 - 10:42:17 CDT)
- Release of the R.E.D.-III tools (Sun Apr 15 2007 - 05:22:35 CDT)
- R/S asymmetric carbon (Fri Dec 01 2006 - 04:02:39 CST)
- Re: visualizing charges (Mon Sep 25 2006 - 04:47:27 CDT)
- Re: visualizing charges (Sat Sep 23 2006 - 01:37:06 CDT)
- Atom name label (Wed Mar 08 2006 - 04:26:17 CST)
- Release of RESP ESP charge DDatabase (Mon Jan 16 2006 - 10:06:08 CST)
- Re: VMD & FC 4.0 (Wed Jul 13 2005 - 15:56:59 CDT)
- VMD & FC 4.0 (Wed Jul 13 2005 - 14:42:37 CDT)
G.H. Zuo
- Re: The display windows is out of my screen (Mon Feb 16 2009 - 00:23:10 CST)
- The display windows is out of my screen (Sun Feb 15 2009 - 00:21:05 CST)
Gabby Leonard
- Re: Trajectory Smoothing and length of hydrogen bonds (Thu May 11 2023 - 16:27:33 CDT)
- Trajectory Smoothing and length of hydrogen bonds (Thu May 11 2023 - 14:54:23 CDT)
Gabi Heller
- FFTK Bond/Angle Optimization issue with namd2 (Fri Feb 16 2018 - 06:05:00 CST)
gaborekt_at_duq.edu
- Re: Normalization of RDFs in gofr plugin (Tue Jun 28 2011 - 16:05:59 CDT)
- Normalization of RDFs in gofr plugin (Tue Jun 28 2011 - 12:34:37 CDT)
Gabrielle Garcia
- Re: VMD for MacBook Pro -- NetCDF (Wed May 06 2015 - 16:14:03 CDT)
- Re: VMD for MacBook Pro -- NetCDF (Wed May 06 2015 - 15:58:43 CDT)
- Re: VMD for MacBook Pro -- NetCDF (Wed May 06 2015 - 15:28:08 CDT)
- Re: VMD for MacBook Pro -- NetCDF (Wed May 06 2015 - 15:12:09 CDT)
- VMD for MacBook Pro -- NetCDF (Wed May 06 2015 - 13:44:05 CDT)
gadde suneetha
- how to make a movie using Principal Component Analysis (Wed May 16 2007 - 20:02:48 CDT)
- problem during movie making (Fri Mar 30 2007 - 07:44:48 CDT)
- how to view the dynamics in power point presentation (Thu Mar 29 2007 - 06:25:29 CDT)
- doubts in movie making using vmd. (Wed Mar 28 2007 - 19:05:05 CDT)
- How to make a movie in VMD using principle component analysis (Wed Mar 28 2007 - 07:42:56 CDT)
Gadi Oron
- Re: high resolution ps or eps picture (Thu May 13 2004 - 04:48:55 CDT)
- Re: No Subject (Sun Apr 18 2004 - 03:50:37 CDT)
- Re: how to save coordinates after moving molecule in VMD? (Thu Apr 01 2004 - 07:48:21 CST)
- Re: Cartoon representation for large molecules (Thu Jan 01 2004 - 03:52:04 CST)
- solvate documentation. (Thu Oct 17 2002 - 07:05:06 CDT)
Gaetano Calabró
- Change transparency along a trajectory (Mon Dec 09 2013 - 05:55:12 CST)
gagandeep singh
- Re: Unable to install vmdICE plugin in VMD (Wed May 27 2020 - 15:00:35 CDT)
- Re: Unable to install vmdICE plugin in VMD (Wed May 27 2020 - 18:33:12 CDT)
- Re: Unable to install vmdICE plugin in VMD (Wed May 27 2020 - 09:39:36 CDT)
- Unable to install vmdICE plugin in VMD (Wed May 27 2020 - 15:37:11 CDT)
GAGANJYOT KAUR BAKSHI
- converting NAMD trajectories (Tue Jul 25 2023 - 01:46:59 CDT)
- Re: Converting namd trajectory to desmond trajectory (Wed Jun 14 2023 - 14:40:04 CDT)
- Converting namd trajectory to desmond trajectory (Tue Jun 13 2023 - 14:56:58 CDT)
- Re: Convert trajectory (Thu May 25 2023 - 01:40:01 CDT)
- Convert trajectory (Wed May 24 2023 - 21:08:06 CDT)
- Restarting a simulation (Wed May 03 2023 - 06:29:22 CDT)
- Node selection in network view (Tue Apr 04 2023 - 00:29:10 CDT)
- Viewing post script images (Mon Feb 13 2023 - 05:43:29 CST)
- Re: Image render in VMD (Tue Jan 31 2023 - 09:04:48 CST)
- Image render in VMD (Tue Jan 31 2023 - 05:31:53 CST)
- Regarding Network Analysis (Wed Jan 18 2023 - 02:01:29 CST)
Gajanan Kanagalingam
- Change Label Font (Sun Jun 30 2019 - 04:14:13 CDT)
Galip Gurkan Yardimci
- calling scripts from the command line (Thu Dec 01 2005 - 04:36:45 CST)
Gamot, Ritchie
- RE: visualizing janus particles in VMD (Mon Aug 11 2014 - 04:54:30 CDT)
- visualizing janus particles in VMD (Sat Aug 09 2014 - 13:24:42 CDT)
- Loop through atoms in a molecule (Tue Jul 31 2012 - 06:51:52 CDT)
ganderle_at_optonline.net
- installation problem: InstallShield (Tue May 23 2006 - 14:26:50 CDT)
Ganesh Kamath
- Is there a way to view .Hin files in VMD (Fri Sep 26 2014 - 12:38:17 CDT)
- Re: A question with dipwatch.tcl script in VMD (Sat Aug 17 2013 - 20:32:42 CDT)
- A question with dipwatch.tcl script in VMD (Sat Aug 17 2013 - 14:10:52 CDT)
- Re: Question about generating a .js file (Thu Sep 20 2012 - 17:25:29 CDT)
- Question about generating a .js file (Fri Sep 07 2012 - 09:57:39 CDT)
- Question about reflecting wall in NAMD (Fri Aug 31 2012 - 09:21:29 CDT)
- Error while running NAMD after using patch in psfgen (Wed Aug 22 2012 - 15:16:14 CDT)
- Cartesian coordinates to polar coordinates (Tue Aug 14 2012 - 17:20:30 CDT)
- Question about Drude polarizable model (Tue Jul 24 2012 - 11:19:03 CDT)
- Valence bond force field in NAMD (Thu Apr 19 2012 - 09:26:35 CDT)
- Lipid order parameters (Mon Feb 27 2012 - 14:21:13 CST)
- Generating a psf file using VMD (Thu Jan 19 2012 - 16:56:47 CST)
- Fwd: Question regarding HBond analysis (Tue Jan 17 2012 - 12:26:01 CST)
- Question regarding HBond analysis (Mon Jan 16 2012 - 17:05:19 CST)
Ganesh Shahane
- (no subject) (Sun Apr 21 2013 - 02:10:12 CDT)
Ganne, Akshatha
- Fixing Martini PSF (Mon Jul 09 2018 - 18:00:38 CDT)
Gao, Fan, Ph.D.
- Beginner with cyclic peptide (Tue Apr 29 2008 - 11:25:34 CDT)
Gard Nelson
- vmd won't display in lines (Fri Dec 18 2009 - 16:17:45 CST)
Gardezi,Shahbaz
- Trouble in installing VMD (Fri Apr 17 2020 - 22:11:55 CDT)
Garf
- Re: Thanks :) (Wed Dec 08 2004 - 10:02:08 CST)
- Re: Hi (Fri Nov 05 2004 - 15:29:42 CST)
- Re: Thank you! (Fri Oct 29 2004 - 04:13:47 CDT)
gargiulo
- Re: Colouring rings in paperchain (Wed Feb 27 2013 - 02:52:53 CST)
- Colouring rings in paperchain (Wed Feb 06 2013 - 09:04:01 CST)
Garold Murdachaew
- placing text labels near atoms using draw text (Mon Feb 27 2017 - 10:35:04 CST)
Gary Turner
- Re: Newby unable to see secondary structure in New Cartoon (Tue Nov 06 2018 - 14:44:59 CST)
- Newby unable to see secondary structure in New Cartoon (Sat Nov 03 2018 - 12:40:19 CDT)
gaurav nandrajog
- Re: solvating a water molecule (Tue Sep 09 2008 - 01:01:33 CDT)
Gaurav Sharma
- DNA and low pH (Wed Jan 31 2007 - 15:06:46 CST)
- SASA calculation for a trajectory (Tue Aug 08 2006 - 20:50:32 CDT)
- Re: Nanotube Simulations (Tue Aug 02 2005 - 13:56:15 CDT)
- Nanotube Simulations (Tue Aug 02 2005 - 08:51:14 CDT)
- PDB Files for Carbon Nanotubes (Sun Jul 17 2005 - 17:22:55 CDT)
- Re: Unprotonating GLU, ASP (Tue Feb 15 2005 - 17:13:16 CST)
- Unprotonating GLU, ASP (Tue Feb 15 2005 - 10:42:06 CST)
- Autoionize plugin problem (Tue Dec 14 2004 - 12:52:03 CST)
- VMD-VRPN-PHANTOM problem ? (Thu Sep 02 2004 - 02:47:24 CDT)
Gavin Melaugh
- differing particle numbers in each frame (Fri Feb 08 2013 - 06:55:05 CST)
Gavin Murphy
- measure fit alignment problems (Thu Nov 18 2004 - 22:37:35 CST)
Gavin Seddon
- opengl not found (Mon Jan 16 2006 - 10:00:14 CST)
Gawtak Kim
- Re: Windows Server 2019 support issue of VMD and NAMD (Mon Nov 09 2020 - 17:27:41 CST)
- Windows Server 2019 support issue of VMD and NAMD (Sun Nov 08 2020 - 20:44:53 CST)
- Re: Gaussian16 support issue of ffTK (Thu Feb 06 2020 - 22:19:58 CST)
- Re: Gaussian16 support issue of ffTK (Wed Feb 05 2020 - 23:13:25 CST)
- Gaussian16 support issue of ffTK (Wed Feb 05 2020 - 01:31:49 CST)
gbellesia_at_chem.ucsb.edu
- vmd 1.8.7 - console window fullscreen (Thu Dec 24 2009 - 16:20:17 CST)
gcmc jie
- draw hydrophobic contact (Thu Nov 30 2006 - 13:41:10 CST)
geetha9999_at_aol.com
- top_all22_prot.inp & par_all22_prot.inp (Sun Feb 14 2010 - 09:49:24 CST)
- amino acid mutation plugin (Thu Feb 11 2010 - 13:37:08 CST)
Geist, Norman
- Re: Image render in VMD (Tue Jan 31 2023 - 08:22:44 CST)
- Re: get "x y z" from smoothed coordinates (Thu Jan 19 2023 - 04:05:29 CST)
- Re: How to reduce the size of a .dcd file? (Mon Aug 29 2022 - 06:07:00 CDT)
- Re: How to reduce the size of a .dcd file? (Mon Aug 29 2022 - 04:07:18 CDT)
- Re: How to reduce the size of a .dcd file? (Mon Aug 29 2022 - 01:47:51 CDT)
- Re: CaFE Plugin - Didn't Find vDW Parameter for Atom Type HT1 Error (Thu Aug 18 2022 - 12:50:18 CDT)
- Re: How to reduce the size of a .dcd file? (Sun Jun 19 2022 - 13:51:13 CDT)
- Re: How to reduce the size of a .dcd file? (Thu Jun 16 2022 - 07:01:13 CDT)
- Re: simple script question (Sun Jun 12 2022 - 14:11:15 CDT)
- Re: simple script question (Fri Jun 10 2022 - 02:05:21 CDT)
- Re: Script Modification to Print Phi and Psi Angles (Wed Jun 08 2022 - 00:19:52 CDT)
- Re: Script Modification to Print Phi and Psi Angles (Tue Jun 07 2022 - 01:01:55 CDT)
- Re: Script Modification to Print Phi and Psi Angles (Tue Jun 07 2022 - 00:59:28 CDT)
- Re: how to analyse a trajectory without loading it (Tue Apr 26 2022 - 23:00:20 CDT)
- Re: Hydrogen mass repartition PSFGen2.0 (Sat Aug 07 2021 - 15:19:47 CDT)
- Re: Hydrogen mass repartition PSFGen2.0 (Sat Aug 07 2021 - 15:17:34 CDT)
- Re: Hydrogen mass repartition PSFGen2.0 (Sat Aug 07 2021 - 13:43:23 CDT)
- Re: Rendering using GPU (Thu Apr 15 2021 - 03:45:48 CDT)
- Re: Movie Making Troubles (Wed Dec 09 2020 - 02:45:35 CST)
- Re: Re: namd-l: Is there someway to render protein picture without background color? (Thu Sep 26 2019 - 03:14:48 CDT)
- Re: beta barrel structure generation (Sat Dec 22 2018 - 02:06:44 CST)
Gemma Kinsella
- (no subject) (Tue Jun 24 2003 - 10:11:04 CDT)
- (no subject) (Tue Jun 24 2003 - 10:07:26 CDT)
- Re: Protein Reorientation (Mon Mar 03 2003 - 08:39:51 CST)
Genform GK
- Re: problem in reading .nc NETCDF FILE (Fri Sep 25 2009 - 00:21:15 CDT)
- problem in reading .nc NETCDF FILE (Wed Sep 23 2009 - 23:02:10 CDT)
Geng
- RE: color bar problem in VMD (Thu Jun 29 2017 - 17:19:24 CDT)
- RE: color bar problem in VMD (Thu Jun 29 2017 - 16:34:57 CDT)
- color bar problem in VMD (Thu Jun 29 2017 - 12:44:11 CDT)
genie lfs
- Re: Change only the CA coordinates in a pdb file via tcl (Mon Jun 14 2010 - 15:45:07 CDT)
- Bug in VMD-1.8.7 multiseq functionality (Wed Jun 02 2010 - 04:54:48 CDT)
- water molecules in residue interaction (Thu May 18 2006 - 06:12:53 CDT)
- bad angels (Mon Apr 24 2006 - 05:06:32 CDT)
- Re: merging two pdbs??? (Thu Apr 13 2006 - 02:36:54 CDT)
- merging two pdbs??? (Thu Apr 13 2006 - 01:26:36 CDT)
Geoff Wood
- Re: python Numeric library problem (Mon Sep 24 2007 - 15:05:54 CDT)
Georcki Ropon
- Re: Using BigDCD on Simulation Files Located on Mapped Network Drive (Thu Oct 13 2022 - 14:31:37 CDT)
- Check DCD finish (Tue Mar 01 2022 - 11:06:02 CST)
- Place multiple proteins into membrane (Tue Jan 11 2022 - 14:31:08 CST)
- Paper request : Assembly and Analysis of Cell-Scale Membrane Envelopes (Mon Dec 06 2021 - 15:40:55 CST)
- Re: How can I incorporate non-natural amino acids into proteins? (Tue Nov 30 2021 - 21:22:00 CST)
- Re: Autoionize with non water solvent (Sat Nov 20 2021 - 13:35:42 CST)
- Re: Change Atom serial Atom (Thu Nov 18 2021 - 11:07:13 CST)
- Re: Change Atom serial Atom (Wed Nov 17 2021 - 20:57:10 CST)
- Re: Change Atom serial Atom (Wed Nov 17 2021 - 20:42:25 CST)
- Re: Change Atom serial Atom (Wed Nov 17 2021 - 20:18:09 CST)
- Re: Change Atom serial Atom (Wed Nov 17 2021 - 20:22:44 CST)
- Change Atom serial Atom (Wed Nov 17 2021 - 19:04:32 CST)
- Where found QwikMD 2.0? (Sat Nov 06 2021 - 23:28:08 CDT)
- Remote IMD simulation (Sat Nov 06 2021 - 12:03:57 CDT)
- Change Tkconsole brackground (Sun Oct 10 2021 - 14:19:12 CDT)
- Re: Asymmetric concentration gradient (Tue Aug 24 2021 - 13:05:05 CDT)
- Hexameric periodic box (Fri Aug 20 2021 - 17:36:43 CDT)
- Re: How to generate random velocities? (Wed Aug 11 2021 - 11:41:51 CDT)
- Re: Hydrogen mass repartition PSFGen2.0 (Sat Aug 07 2021 - 11:55:41 CDT)
- Re: Jarzynski analysis (Tue Jul 27 2021 - 11:23:34 CDT)
- Re: Unwrap for diffusion phenomena? (Fri Jul 16 2021 - 00:51:47 CDT)
Georg Spiekermann
- workaround for DynamicBonds (Mon Aug 16 2010 - 10:12:10 CDT)
- Polyhedra with two selections? (Mon Nov 30 2009 - 04:01:12 CST)
George Gerogiokas
- loading multiple trajectories with stride command in the terminal (Fri Jul 25 2014 - 08:27:36 CDT)
George Lai
- Re: calculate HBOND (Tue Nov 13 2012 - 12:54:23 CST)
- calculate HBOND (Mon Nov 12 2012 - 19:48:50 CST)
George M Giambasu
- autoionize "error procesing bonds" (Mon Mar 20 2006 - 16:50:28 CST)
George Madalin Giambasu
- Re: Re: convert prmtop to psf (Mon Jun 21 2010 - 18:09:28 CDT)
- Re: Secondary Structure Depiction (Tue Apr 21 2009 - 11:12:54 CDT)
- Re: namd-l: Truncated Octahedron for VMD and NAMD simulation (Thu May 15 2008 - 15:23:51 CDT)
- Re: RNA (Mon May 14 2007 - 15:40:29 CDT)
- Re: VMD installation (Fri Apr 13 2007 - 11:39:50 CDT)
- Re: reading charmm files (Mon Mar 05 2007 - 08:57:11 CST)
George Mogami
- Re: Tk startup error in X forwarding (Wed Feb 05 2020 - 23:00:10 CST)
- Tk startup error in X forwarding (Tue Feb 04 2020 - 19:44:13 CST)
George Omolloh
- VMD Mutate to nonstandard amino acid residue (Tue Aug 06 2013 - 15:06:26 CDT)
George Patargias
- Re: Select phi, psi dihedrals with TopoTools (Wed Jan 21 2015 - 11:38:00 CST)
- Select phi, psi dihedrals with TopoTools (Wed Dec 10 2014 - 08:12:25 CST)
- Re: VRPN support for the Windows VMD 1.9.1 (Tue Oct 21 2014 - 01:59:12 CDT)
- Re: VRPN support for the Windows VMD 1.9.1 (Mon Oct 20 2014 - 09:15:34 CDT)
- Re: VRPN support for the Windows VMD 1.9.1 (Fri Oct 17 2014 - 02:45:52 CDT)
- VRPN support for the Windows VMD 1.9.1 (Thu Oct 16 2014 - 09:27:53 CDT)
- Applying forces in VMD (Thu Oct 16 2014 - 04:06:22 CDT)
- Re: VMD with Falcon (Thu Oct 16 2014 - 01:54:17 CDT)
- Re: VMD with Falcon (Wed Oct 15 2014 - 10:34:41 CDT)
- VMD with Falcon (Wed Oct 15 2014 - 10:07:29 CDT)
- Re: IMD with Novint Falcon (Fri Jan 18 2013 - 10:08:17 CST)
- Re: IMD with Novint Falcon (Thu Nov 01 2012 - 03:26:28 CDT)
- Re: IMD with Novint Falcon (Tue Oct 30 2012 - 05:57:26 CDT)
- IMD with Novint Falcon (Fri Oct 26 2012 - 06:01:47 CDT)
George Tzotzos
- Problem loading Amber trajectory (Sun Aug 13 2017 - 08:40:50 CDT)
- Re: APBS for small molecules (Tue May 15 2012 - 11:01:03 CDT)
- RMSD (Sun Mar 18 2012 - 06:47:36 CDT)
- Recall: Hbond analysis message (Tue Dec 20 2011 - 13:52:02 CST)
- Hbond analysis (Tue Dec 20 2011 - 13:46:38 CST)
- RMSD calculator extension (Tue Aug 23 2011 - 08:59:19 CDT)
- Fwd: Dowser plugin: Error message (Mon Aug 22 2011 - 16:34:31 CDT)
- Re: Displaying protein AND ligand from an amber trajectory (Fri May 20 2011 - 09:16:14 CDT)
- Displaying protein AND ligand from an amber trajectory (Fri May 20 2011 - 08:31:17 CDT)
Georgia Tsagkaropoulou
- [lammps-users] NPT/ Missing bonds / atoms & atom overlap (Wed Dec 09 2015 - 11:19:25 CST)
Georgios Gerogiokas
- Re: extracting grid points from an isosurface (Tue Aug 06 2013 - 10:49:58 CDT)
- extracting grid points from an isosurface (Tue Aug 06 2013 - 03:44:15 CDT)
Georgios Scheiner-Bobis
- VMD (Tue Jul 08 2003 - 03:39:38 CDT)
Georgios Villias
- Windows/Cannot generate .dx file! (Mon Jan 15 2007 - 10:12:43 CST)
Gerald Mathias
- render "color by volume" (Tue Jun 17 2008 - 13:27:15 CDT)
gergely.gyimesi_at_ibmm.unibe.ch
- Re: vmd and yosemite (Wed Dec 10 2014 - 03:18:22 CST)
- vmd and yosemite (Wed Dec 10 2014 - 02:38:55 CST)
Germain Salvato Vallverdu
- RE: How can I add bonds ? (Thu Jan 27 2011 - 16:38:08 CST)
- RE: How can I add bonds ? (Thu Jan 27 2011 - 15:10:57 CST)
- RE: How can I add bonds ? (Thu Jan 27 2011 - 14:31:08 CST)
- How can I add bonds ? (Mon Jan 24 2011 - 09:01:39 CST)
- Re: RMSD Question (Mon Nov 29 2010 - 02:56:05 CST)
- VASP crystal structure visualisation (Thu Nov 25 2010 - 08:32:11 CST)
- VASP crystal structure visualisation (Thu Nov 25 2010 - 06:41:35 CST)
Germain Vallverdu
- Re: How can I add bonds ? (Wed Jan 26 2011 - 08:57:30 CST)
- Draw a box cell for a crystal (Wed Sep 15 2010 - 06:43:35 CDT)
- Re : ellipsoidal particles (Sun May 02 2010 - 15:29:22 CDT)
- ellipsoidal particles (Sun May 02 2010 - 14:10:43 CDT)
Germán Andrés Miño
- Units reported by VMD SASA ??? (Mon Oct 22 2012 - 19:06:35 CDT)
Gert Peters
- (no subject) (Sun Nov 18 2012 - 12:50:32 CST)
Ghaleb El Masri
- Calculating volumes enclosed by SAS (Fri Nov 21 2008 - 14:44:39 CST)
Ghalib Bello
- NAMDENERGY: function of 'cutoff' parameter when -pme option is enabled (Mon May 05 2008 - 23:02:45 CDT)
Ghazaleh Zamani Maimian
- error during the Gaussian optimization of the Water interaction in fftk (Fri Nov 25 2016 - 03:25:42 CST)
Ghislain Deslongchamps
- VMD 1.8.2 on MacOS 10.3 (Mon Jan 05 2004 - 19:32:22 CST)
Ghosh, Shreya
- PSF and PDB files do not show up (Wed Jun 28 2017 - 12:45:25 CDT)
Giacomo Fiorin
- Re: Applying electric field only on ions (Mon Jan 13 2025 - 15:42:26 CST)
- Re: << Using CPK/Rasmol color scheme >> (Mon Nov 11 2024 - 18:25:58 CST)
- Re: << Using CPK/Rasmol color scheme >> (Mon Nov 11 2024 - 16:31:02 CST)
- Re: Opening file after i downloaded vmd (Wed Jul 17 2024 - 12:42:25 CDT)
- Re: Opening file after i downloaded vmd (Wed Jul 17 2024 - 09:54:02 CDT)
- Re: bonding across periodic walls (Thu Jun 13 2024 - 16:37:32 CDT)
- Re: restarting calculations anytime within Equilibration and MD simulations steps in QwikMD (Tue Apr 30 2024 - 16:09:48 CDT)
- Re: restarting calculations anytime within Equilibration and MD simulations steps in QwikMD (Tue Apr 30 2024 - 14:42:21 CDT)
- Re: Create bonds in VMD (Tue Apr 11 2023 - 16:16:29 CDT)
- Re: Gaussian09 install on macOS Inquiry (Tue Apr 11 2023 - 10:29:57 CDT)
- Re: Gaussian09 install on macOS Inquiry (Tue Apr 11 2023 - 10:03:39 CDT)
- Re: calculation of rotation angle (Wed Mar 22 2023 - 05:27:42 CDT)
- Re: Uninstalling VMD (Mon Feb 06 2023 - 07:46:44 CST)
- Re: << Centering/aligning several molecules >> (Thu Dec 29 2022 - 14:24:54 CST)
- Re: C atom projection calculation (Thu Nov 17 2022 - 08:03:42 CST)
- Re: Maximum Stride Possible for Publishable Results (Fri Oct 07 2022 - 16:19:31 CDT)
- Re: Query regarding WISP extension in VMD (Thu Oct 06 2022 - 08:52:32 CDT)
- Re: Maximum Stride Possible for Publishable Results (Tue Oct 04 2022 - 13:31:28 CDT)
- Re: Most relevant VMD install (Thu Sep 08 2022 - 21:02:34 CDT)
- Re: Most relevant VMD install (Wed Sep 07 2022 - 07:55:56 CDT)
- Re: How to reduce the size of a .dcd file? (Tue Jun 21 2022 - 06:07:54 CDT)
- Re: Calculate Free Energy of Protein-Protein Binding (Thu May 12 2022 - 15:23:05 CDT)
- Re: VMD MPI error (Wed Apr 06 2022 - 06:56:04 CDT)
- Re: error 1114 when loading plugins (Tue Apr 05 2022 - 13:52:31 CDT)
- Re: error 1114 when loading plugins (Tue Apr 05 2022 - 13:21:56 CDT)
- Re: get coordinates for each frame in a trjectory (Sun Feb 27 2022 - 09:11:40 CST)
- Re: Questions - Running vmd on a supercomputer (Mon Feb 14 2022 - 08:52:14 CST)
- Re: tkcon behavior in OS X / selection Q (Tue Feb 08 2022 - 13:45:56 CST)
- Re: tkcon behavior in OS X / selection Q (Tue Feb 08 2022 - 13:11:58 CST)
- Re: mail about VMD installation (Fri Dec 31 2021 - 14:55:05 CST)
- Re: VMD license (Thu Dec 16 2021 - 13:18:41 CST)
- Re: Distance from surface (Mon Dec 06 2021 - 12:57:32 CST)
- Re: CIF file reader (Thu Dec 02 2021 - 10:04:56 CST)
- Re: support for gromacs topology files (Wed Nov 24 2021 - 16:47:45 CST)
- Re: Color Transition in VMD (Sat Nov 06 2021 - 10:30:33 CDT)
- Re: CAFE plugin (Wed Oct 13 2021 - 08:31:26 CDT)
- Re: Density profile of MICELLE . (Fri Oct 08 2021 - 11:05:29 CDT)
- Re: Umbrella sampling windows (Sun Sep 05 2021 - 00:32:12 CDT)
- Re: Umbrella sampling windows (Sat Sep 04 2021 - 19:50:44 CDT)
- Re: VMD not displaying Gromacs TRR format traj (Thu Aug 26 2021 - 12:44:50 CDT)
- Re: Funnel metadynamics (Fri Aug 13 2021 - 08:48:24 CDT)
- Re: VMD Compilation with LEPTON & C++11 to support COLVARS "customFunction" (Fri Mar 05 2021 - 11:46:59 CST)
- Re: 1.9.4a50 - unable to open DCDs win64 (Fri Dec 18 2020 - 09:51:52 CST)
- Re: how does contactFreq.tcl work? (Mon Oct 26 2020 - 15:49:35 CDT)
- Re: 1.9.4_a43 parallel build issues with high -j (Wed Sep 16 2020 - 12:55:38 CDT)
- Re: How do I define "collision only" atoms using MSMS? (Thu Aug 20 2020 - 10:58:44 CDT)
- Re: Any tutorial/manual for Dowser for membrane protein modeling (Wed Aug 19 2020 - 07:32:14 CDT)
- Re: Potential map of Electric field of charged gas (Wed Jun 24 2020 - 08:52:23 CDT)
- Re: Unable to install vmdICE plugin in VMD (Wed May 27 2020 - 09:28:30 CDT)
- Re: Get atoms in each ring (Mon May 25 2020 - 12:32:27 CDT)
- Re: Writing DCD files using animate (Sat May 23 2020 - 10:25:17 CDT)
- Re: Re: VMD patch, console w/ built-in command editing (Wed May 20 2020 - 11:09:16 CDT)
- Re: VMD patch, console w/ built-in command editing (Wed May 20 2020 - 10:06:50 CDT)
- Re: RDF from a trajectory generated by SIESTA (Tue May 19 2020 - 15:12:53 CDT)
- Re: VMD-L Entropy calculation in VMD (Sat May 09 2020 - 18:12:29 CDT)
- Re: MDAnalysis/VMD discrepancy (Fri May 08 2020 - 17:56:57 CDT)
- Re: visualizing bonds in lammps output reaxff (Fri May 08 2020 - 09:42:56 CDT)
- Re: qwrap installation (Tue Apr 28 2020 - 15:20:04 CDT)
- Re: Calculating Bias for Well-tempered metadynamics (Sat Apr 25 2020 - 19:51:01 CDT)
- Re: Convert problem (Sat Apr 25 2020 - 09:45:29 CDT)
- Re: Calculating Bias for Well-tempered metadynamics (Fri Apr 24 2020 - 13:37:28 CDT)
- Re: Calculating Bias for Well-tempered metadynamics (Thu Apr 23 2020 - 19:00:11 CDT)
- Re: Memory Pool Size - can I optimize this? (Mon Mar 30 2020 - 16:51:00 CDT)
- Re: CIF file reader (Sun Mar 29 2020 - 10:04:55 CDT)
- Re: CIF file reader (Sat Mar 28 2020 - 15:53:53 CDT)
- Re: rmsdtt 'batch mode' (Tue Mar 24 2020 - 13:19:16 CDT)
- Re: rmsdtt 'batch mode' (Tue Mar 24 2020 - 09:04:25 CDT)
- Re: Angular energy term (Thu Mar 05 2020 - 12:23:00 CST)
- Re: Rendering resolution (Mon Mar 02 2020 - 13:34:42 CST)
- Re: Minmax command (Sun Mar 01 2020 - 10:19:15 CST)
- Re: FFTK: What is the correct charge calculation setup for carbonyl compounds (Wed Feb 19 2020 - 10:47:26 CST)
- Re: Keeping molecules intact when unwrapping (Sun Feb 16 2020 - 12:30:19 CST)
- Re: Check and remove the overlapping between atoms (Sat Feb 15 2020 - 14:57:49 CST)
- Re: Check and remove the overlapping between atoms (Sat Feb 15 2020 - 11:14:47 CST)
- Re: atomselect: cannot parse selection text: (Fri Feb 07 2020 - 06:17:21 CST)
- Re: problem with installing OPTIX ray tracing (Tue Dec 10 2019 - 08:35:12 CST)
- Re: Filetype for Kinetic Monte Carlo (Fri Nov 22 2019 - 11:05:51 CST)
- Re: namd-l: flexible fitting for helical structure (Tue Nov 05 2019 - 20:09:25 CST)
- Re: lammps data file simulation box center and VMD origin (Wed Oct 02 2019 - 10:28:54 CDT)
- Re: (Wed Oct 02 2019 - 09:26:45 CDT)
- Re: Scripting with volumes (Fri Jul 26 2019 - 07:08:42 CDT)
- Re: vmd moveby command inside loop (Thu Jul 11 2019 - 09:43:59 CDT)
- Re: Rotating a molecule to make it parallel to another bond (Wed Jul 03 2019 - 13:32:12 CDT)
- Re: Adaptive real time selection and coloring in default display (Thu Jun 27 2019 - 11:03:11 CDT)
- Re: Problem While Visualising the Trajectory File from LAMMPS Simulation (Sat Jun 01 2019 - 18:28:42 CDT)
- Re: Get number of fragments (Mon May 27 2019 - 10:05:02 CDT)
- Re: Defining a layer for a micelle (Wed May 15 2019 - 08:47:13 CDT)
- Re: Alpha to beta conversion (Wed May 15 2019 - 08:45:46 CDT)
- Re: How to transfer Anton trajectory to AMBER trajectory. (Mon Apr 22 2019 - 12:47:02 CDT)
- Re: BOND distance (Sat Mar 30 2019 - 18:13:26 CDT)
- Re: How to fix the position of the lipid bilayer in the trajectories (Thu Mar 14 2019 - 09:46:31 CDT)
- Re: How to fix the position of the lipid bilayer in the trajectories (Wed Mar 13 2019 - 15:34:12 CDT)
- Re: extracting 1-D data from a volumetric file (Thu Feb 21 2019 - 13:31:40 CST)
- Bug fixed in volmap (Thu Jan 24 2019 - 21:30:23 CST)
- Re: gopython with python3 (Thu Nov 22 2018 - 19:45:55 CST)
- Re: gopython with python3 (Thu Nov 22 2018 - 19:25:45 CST)
- Re: Display representations with Tk Console (Thu Oct 11 2018 - 14:35:26 CDT)
- Re: Display representations with Tk Console (Thu Oct 11 2018 - 13:11:43 CDT)
- Re: VMD Tk Console Columns (Wed Oct 10 2018 - 15:19:05 CDT)
- Re: RTX for raytracing (Thu Sep 27 2018 - 09:12:41 CDT)
- Re: mail about renumbering of residues (Mon Sep 24 2018 - 06:47:57 CDT)
- Re: Query about PME data in .dx format (Fri Sep 14 2018 - 08:44:08 CDT)
- Re: 1.9.4 beta version of VMD (Sun Aug 26 2018 - 09:32:31 CDT)
- Re: Atomselection with the position selected conditions inside the loop is not working properly (Thu Aug 16 2018 - 09:09:27 CDT)
- Re: Farewell VMD (Mon Jul 30 2018 - 13:03:55 CDT)
- Re: Farewell VMD (Mon Jul 30 2018 - 08:40:36 CDT)
- Re: Mail reg compilation of vmd 1.9.3 plugin (Sat Jul 28 2018 - 08:30:00 CDT)
- Re: Dowser Availability (Mon Jul 16 2018 - 16:14:13 CDT)
- Re: Dowser Availability (Mon Jul 16 2018 - 15:53:03 CDT)
- Re: Large number of harmonic distance restraints (Tue May 29 2018 - 11:30:34 CDT)
- Re: ABF Calculations Question 1 (Fri May 25 2018 - 08:09:32 CDT)
- Re: Scan Torsions (Thu May 24 2018 - 08:33:37 CDT)
- Re: Coloring Scheme Spectrum (Mon May 07 2018 - 07:33:02 CDT)
- Re: RMSD of lipid molecules (Fri Apr 27 2018 - 12:41:46 CDT)
- Re: RMSD of lipid molecules (Fri Apr 27 2018 - 07:01:36 CDT)
- Re: Calculating Diffusion Coefficient Using VMD (Mon Apr 23 2018 - 11:12:49 CDT)
- Re: PDB Question (Mon Apr 23 2018 - 06:40:11 CDT)
- Re: About loading multiple XYZ trajectories (Wed Apr 18 2018 - 12:18:02 CDT)
- Re: vmd tcl script writing issue (Wed Apr 18 2018 - 09:57:57 CDT)
- Re: 2-Dimensional map of a lipid molecule around the protein (Mon Mar 26 2018 - 09:01:18 CDT)
- Re: 2-Dimensional map of a lipid molecule around the protein (Thu Mar 22 2018 - 10:04:10 CDT)
- Re: 2-Dimensional map of a lipid molecule around the protein (Wed Mar 21 2018 - 09:06:36 CDT)
- Re: Occupancy volume quantitation (Mon Mar 19 2018 - 07:12:06 CDT)
- Re: Occupancy volume quantitation (Mon Mar 19 2018 - 06:41:46 CDT)
- Re: Occupancy volume quantitation (Fri Mar 16 2018 - 10:10:31 CDT)
- Re: how to merge two pdb in a single file (Fri Mar 16 2018 - 09:58:51 CDT)
- Re: Query for the VolMap plugin (Thu Mar 15 2018 - 09:09:18 CDT)
- Re: Query for the VolMap plugin (Thu Mar 15 2018 - 08:39:14 CDT)
- Re: Running vmd (Sun Mar 04 2018 - 13:58:37 CST)
- Re: VMD TCL Script to save last frame of a trajectory using bash+tcl scripts (Wed Feb 21 2018 - 13:07:40 CST)
- Re: setting up POPS or POPG in VMD (Tue Feb 13 2018 - 13:29:09 CST)
- Re: "adding polymer to CNT" (Tue Feb 13 2018 - 09:38:45 CST)
- Re: Can specden produce the autocorrelation and not only the powerspectrum? (Wed Feb 07 2018 - 08:51:27 CST)
- Re: Can specden produce the autocorrelation and not only the powerspectrum? (Tue Feb 06 2018 - 13:10:44 CST)
- Re: How to copy/paste a membrane patch to create a larger membrane? (Mon Feb 05 2018 - 08:55:50 CST)
- Re: "adding polymer to CNT" (Fri Feb 02 2018 - 09:21:52 CST)
- Re: Colvars module doesn't work (Fri Jan 26 2018 - 14:58:35 CST)
- Re: VMD ffTK: The determination of a correct spin multiplicity value (Mon Jan 22 2018 - 08:31:45 CST)
- Re: Rotate a specific residue and save the coordinates in VMD (Wed Jan 17 2018 - 10:22:37 CST)
- Re: Crack generation in Grapehene sheet (Tue Dec 19 2017 - 07:49:40 CST)
- Re: Using python interpreter with VMD (Tue Dec 19 2017 - 07:33:26 CST)
- Re: FFTK, regarding (Fri Dec 15 2017 - 09:07:26 CST)
- Re: Nonbond energy between 3 part (Mon Dec 11 2017 - 21:51:19 CST)
- Re: VMD interface and TkConsole font (Fri Dec 08 2017 - 09:28:50 CST)
- Re: measure rmsf - relative to what? (Fri Dec 08 2017 - 07:16:59 CST)
- Re: VMD interface and TkConsole font (Fri Dec 08 2017 - 07:15:24 CST)
- Re: Changing the format of atom labels from %f.3 to something else (Thu Nov 30 2017 - 09:13:09 CST)
- Re: Visualising Molecular Vibrations (Tue Oct 03 2017 - 15:18:34 CDT)
- Re: Rendering 3D 360 Movies at higher resolution (Mon Oct 02 2017 - 18:06:26 CDT)
- Re: Rgarding the output for dx file of occupancy(VolMap) (Tue Sep 19 2017 - 09:47:35 CDT)
- Re: Rgarding the output for dx file of occupancy(VolMap) (Mon Sep 18 2017 - 11:20:04 CDT)
- Re: Change atom types in topotools (Thu Sep 14 2017 - 09:05:38 CDT)
- Re: polar hydrogens (Wed Sep 13 2017 - 14:04:46 CDT)
- Re: Is it possible to use colvars module in VMD python mode? (Thu Aug 31 2017 - 09:50:57 CDT)
- Re: autoionize not neutralizing the system (Mon Aug 07 2017 - 07:18:28 CDT)
- Re: autoionize not neutralizing the system (Sun Aug 06 2017 - 10:46:37 CDT)
- Re: (Thu Jul 20 2017 - 09:40:20 CDT)
- Re: regarding the python interface of vmd (Tue Jul 11 2017 - 18:46:00 CDT)
- Re: regarding the python interface of vmd (Tue Jul 11 2017 - 07:39:33 CDT)
- Re: CG builder for martini force field (Fri May 26 2017 - 01:07:00 CDT)
- Re: Unable to remove sudden RMSD jumps between two segments (Thu May 25 2017 - 22:27:42 CDT)
- Re: vmd script running from command line (Thu May 25 2017 - 09:16:25 CDT)
- Re: Unable to remove sudden RMSD jumps between two segments (Thu May 25 2017 - 09:19:09 CDT)
- Workshop on MD simulation software design (Tue Mar 21 2017 - 13:44:34 CDT)
- Re: Simulation the binding affinity between DNA or RNA with non-natural nucleic acid acid (Thu Feb 16 2017 - 07:44:40 CST)
- Re: patching residues (Thu Feb 09 2017 - 16:13:02 CST)
- Re: metadynamics potential vs pmf (Thu Feb 02 2017 - 21:21:19 CST)
- Re: metadynamics potential vs pmf (Wed Feb 01 2017 - 08:43:26 CST)
Gianfranco Abrusci
- Re: Error in PSFGEN (Mon Oct 19 2020 - 15:43:46 CDT)
- Re: Error in PSFGEN (Mon Oct 19 2020 - 15:36:50 CDT)
- Re: atomselect: cannot parse selection text: (Fri Feb 07 2020 - 05:40:54 CST)
- Re: Getting list of arguments for TCL console (Tue Nov 26 2019 - 04:20:29 CST)
- Re: For calculating the number of osmolytes molecules (Mon Sep 16 2019 - 12:37:00 CDT)
GIANG NGUYEN
- VMD receives Segmentation Fault After NVIDIA Driver Update (Fri Jun 07 2024 - 04:15:10 CDT)
Gianluca Interlandi
- Re: loading multiple pdbs as frames and the filenames (Wed Jun 26 2024 - 16:10:05 CDT)
- Re: parseFEP and solvate pulgins in VMD 1.9.3 (Mon Feb 05 2024 - 19:33:47 CST)
- Re: parseFEP and solvate pulgins in VMD 1.9.3 (Mon Feb 05 2024 - 15:30:55 CST)
- parseFEP and solvate pulgins in VMD 1.9.3 (Mon Feb 05 2024 - 12:58:01 CST)
- Re: VMD openGL over ssh from a server with NVIDIA (Fri Dec 08 2023 - 16:17:17 CST)
- Re: VMD openGL over ssh from a server with NVIDIA (Thu Nov 02 2023 - 16:46:05 CDT)
- Re: VMD openGL over ssh from a server with NVIDIA (Thu Nov 02 2023 - 15:01:03 CDT)
- Re: VMD openGL over ssh from a server with NVIDIA (Tue Oct 31 2023 - 21:41:13 CDT)
- Re: VMD openGL over ssh from a server with NVIDIA (Tue Oct 31 2023 - 17:05:44 CDT)
- VMD openGL over ssh from a server with NVIDIA (Mon Oct 30 2023 - 19:13:02 CDT)
- Re: making cluster for simulations (Wed Jun 29 2016 - 13:41:11 CDT)
- TLS handshake failed (Mon Jun 27 2016 - 20:45:45 CDT)
- CPU comparison (Fri May 20 2016 - 22:09:16 CDT)
- VMD 1.9.2 32 bit Linux (Fri Oct 02 2015 - 18:00:35 CDT)
- Re: SSD vs SSHD vs mechanical (Wed Sep 23 2015 - 17:41:11 CDT)
- Re: SSD vs SSHD vs mechanical (Wed Sep 23 2015 - 16:28:07 CDT)
- Re: SSD vs SSHD vs mechanical (Wed Sep 23 2015 - 15:33:38 CDT)
- Re: SSD vs SSHD vs mechanical (Wed Sep 23 2015 - 14:24:18 CDT)
- Re: SSD vs SSHD vs mechanical (Wed Sep 23 2015 - 13:57:22 CDT)
- SSD vs SSHD vs mechanical (Wed Sep 23 2015 - 13:22:06 CDT)
- Plugin to read DCD files (Thu Sep 17 2015 - 17:35:29 CDT)
- Re: measure sasa not consistent (Sat Apr 11 2015 - 15:16:39 CDT)
- Read CHARMM VDW radii into VMD (Sat Apr 11 2015 - 02:22:42 CDT)
- Re: measure energy (Thu Apr 09 2015 - 23:51:42 CDT)
- Re: measure sasa not consistent (Fri Apr 10 2015 - 00:10:07 CDT)
- Re: measure energy (Thu Apr 09 2015 - 17:46:00 CDT)
- Re: measure sasa not consistent (Thu Apr 09 2015 - 17:34:43 CDT)
- measure energy (Thu Apr 09 2015 - 17:39:49 CDT)
- Re: measure sasa not consistent (Thu Apr 09 2015 - 16:52:40 CDT)
- measure sasa not consistent (Thu Apr 09 2015 - 16:17:18 CDT)
- rms alignment in VMD (Fri Jan 30 2015 - 14:27:10 CST)
- Re: "measure bond" vs veclength (Wed Nov 26 2014 - 23:55:47 CST)
- "measure bond" vs veclength (Wed Nov 26 2014 - 18:06:03 CST)
- Re: Graphics card suitable for VMD (Fri Oct 31 2014 - 15:59:46 CDT)
- ParseFEP in text mode (Mon Oct 27 2014 - 21:19:54 CDT)
- Re: to set VMDFORCECPUCOUNT (Fri Sep 20 2013 - 12:50:16 CDT)
- Re: Open VMD from a remote host (Wed Sep 18 2013 - 15:33:38 CDT)
- Open VMD from a remote host (Wed Sep 18 2013 - 13:43:49 CDT)
- Molecular viewer for android or iPhone (Wed Aug 08 2012 - 12:44:36 CDT)
- Re: VMD1.9.1 is crashing my system (Fri May 11 2012 - 16:58:47 CDT)
- Re: flashing the VMD (Tue May 08 2012 - 11:23:06 CDT)
- Re: VMD Display Error - Detected X11 'Composite' extension (Thu Mar 08 2012 - 20:55:14 CST)
- RE: TCL strangeness (Thu Dec 08 2011 - 20:27:28 CST)
- TCL strangeness (Thu Dec 08 2011 - 18:09:20 CST)
- Tip to start VMD with external terminal (Thu Dec 08 2011 - 16:06:27 CST)
- Re: VMD slows down at multiple windows (Thu Nov 17 2011 - 16:32:09 CST)
- Re: Feedback wanted from Linux VMD users with ATI/AMD graphics chipsets (Fri Nov 11 2011 - 13:01:17 CST)
- Re: Feedback wanted from Linux VMD users with ATI/AMD graphics chipsets (Fri Nov 11 2011 - 12:30:08 CST)
- Re: tkinter load problem in VMD (Sun Nov 06 2011 - 00:13:41 CDT)
- tkinter load problem in VMD (Sun Nov 06 2011 - 00:04:42 CDT)
- Re: rlwrap problem on (Tue Nov 01 2011 - 14:15:49 CDT)
- Re: rlwrap problem on (Tue Nov 01 2011 - 14:14:51 CDT)
- Re: Structure preparation via VMD (Sat Oct 29 2011 - 10:55:28 CDT)
- Thinkpad X120e with Linux and VMD (Thu Oct 20 2011 - 19:48:32 CDT)
- Intel HD3000 versus ATI Mobility Radeon 6310 (Wed Aug 17 2011 - 00:09:01 CDT)
- Reading PSF with extended atom types (Wed Jun 22 2011 - 00:05:18 CDT)
- Re: Aligning two proteins of varying atom numbers (Fri May 20 2011 - 11:26:25 CDT)
- Re: PhD position in Computational Structural Biology at MPI Muenster (Sun May 15 2011 - 14:42:22 CDT)
- Re: Simple Question regarding psf generation (Tue Apr 19 2011 - 11:05:21 CDT)
- Re: Mouse event listener (Thu Mar 17 2011 - 13:21:42 CDT)
- Re: how to make default background color to white (Tue Mar 08 2011 - 12:13:10 CST)
- VMD and Monte Carlo (Mon Jan 31 2011 - 14:13:24 CST)
- License question (Sat Jan 29 2011 - 16:19:27 CST)
- psfgen 1.4.7 and CMAP extended PSF (Wed Dec 08 2010 - 19:11:17 CST)
- Re: Re: Experience with Asus Netbook (Wed Sep 29 2010 - 18:38:32 CDT)
- Re: Re: Experience with Asus Netbook (Wed Sep 29 2010 - 16:54:50 CDT)
- Re: Re: Experience with Asus Netbook (Wed Sep 29 2010 - 16:34:24 CDT)
- Re: Re: Experience with Asus Netbook (Wed Sep 29 2010 - 15:18:53 CDT)
- Re: Experience with Asus Netbook (Tue Sep 28 2010 - 15:19:47 CDT)
- Experience with Asus Netbook (Sun Sep 26 2010 - 14:01:40 CDT)
- Re: VMD 1.8.7 terminal window (Sat Sep 25 2010 - 20:02:55 CDT)
- VMD 1.8.7 terminal window (Mon Sep 20 2010 - 00:10:26 CDT)
- Re: Mouse event listener (Sun Sep 19 2010 - 20:42:36 CDT)
- Mouse event listener (Wed Sep 15 2010 - 16:11:41 CDT)
- Mouse event listener (Wed Sep 15 2010 - 15:20:37 CDT)
- Re: Error processing bonds (Fri Apr 24 2009 - 14:09:59 CDT)
- Re: Error processing bonds (Fri Apr 24 2009 - 11:12:31 CDT)
- Re: Error processing bonds (Fri Apr 24 2009 - 10:15:38 CDT)
- Error processing bonds (Fri Apr 24 2009 - 01:41:07 CDT)
- Re: namd-l: DCD for windows (Tue Mar 06 2007 - 17:32:09 CST)
- Re: namd-l: recentering protein in the waterbox (Fri Jun 18 2004 - 18:16:35 CDT)
Gianluca Lattanzi
- duplicating an equilibrated system with psfgen (Wed Oct 17 2012 - 11:11:09 CDT)
Gianluca Santarossa
- advanced python console (Tue Sep 04 2007 - 09:17:45 CDT)
- [OT] pdb files with lots of residues (Thu Jan 30 2003 - 09:10:23 CST)
- Re: Surfaces/Cavities (Thu Jan 23 2003 - 03:17:41 CST)
- Re: SCRIPT directory... (Thu Jan 16 2003 - 04:10:48 CST)
Ginger Emel
- problem generating psf file (Fri Jul 13 2012 - 11:22:50 CDT)
Gino
- about tcl program and run tcl script in namd (Sat Apr 16 2005 - 01:31:23 CDT)
Giovanni
- Re: Re: namd-l: dcd files generated with catdcd (Fri Apr 30 2004 - 13:08:33 CDT)
- dcd files generated with catdcd (Fri Apr 30 2004 - 04:11:00 CDT)
Giovanni Bellesia
- Re: Searching for Number of Resname (Thu Mar 26 2009 - 15:16:25 CDT)
- Re: namd-l: TXT program editor (Thu Aug 28 2008 - 16:21:03 CDT)
- Re: backbone dihedral angles over trajectory (Fri Aug 08 2008 - 17:36:44 CDT)
- Re: vmd MacOSX using dispdev (Fri Jul 18 2008 - 16:00:00 CDT)
- Re: ResdueType and hydrophobicity scale (Wed Jul 16 2008 - 02:13:46 CDT)
- Re: contour plots (Thu Jul 10 2008 - 01:09:36 CDT)
- ResdueType and hydrophobicity scale (Wed Jul 02 2008 - 18:16:29 CDT)
- Re: coloring according to charge of residues (Mon May 12 2008 - 10:58:45 CDT)
- Re: radial distribution function and number integrals (Wed Mar 05 2008 - 21:26:22 CST)
- Re: radial distribution function and number integrals (Wed Mar 05 2008 - 13:21:01 CST)
- radial distribution function and number integrals (Wed Mar 05 2008 - 11:45:31 CST)
- Re: Alignment (Mon Nov 05 2007 - 12:10:58 CST)
- Re: residue selection (Fri Oct 12 2007 - 14:28:29 CDT)
- residue selection (Fri Oct 12 2007 - 14:19:32 CDT)
- Re: Changing the Index values of a molecule (the differenece between gro and pdb files) (Wed Aug 15 2007 - 13:32:56 CDT)
- Re: Loading up PDB files in absolute coordinates (Fri Jun 22 2007 - 14:24:11 CDT)
- Re: list in TCL (Mon Jun 04 2007 - 19:39:37 CDT)
- Re: some parameters for TIP3P (Fri Jul 21 2006 - 16:34:57 CDT)
- Re: Is there any script to analyze radius gyration, center of mass of namd traj file dcd? (Thu Jun 22 2006 - 16:19:33 CDT)
- Re: RMSD question (Wed Aug 17 2005 - 06:04:38 CDT)
- Re: namd-l: conformational alignment (Wed Mar 30 2005 - 16:40:36 CST)
- Re: Distance calculation in TkConsole (Thu Feb 10 2005 - 08:00:15 CST)
- Re: SMD (Mon Feb 07 2005 - 13:19:24 CST)
Giovanni Settanni
- volume slice problem (Fri Jul 25 2003 - 06:04:38 CDT)
Gitte Iversen
- Superimposing two molecules in VMD (Mon Nov 29 1999 - 02:38:09 CST)
- Gromacs trajectories in VMD (Mon Nov 22 1999 - 01:22:02 CST)
giulia palermo
- problem with installing OPTIX ray tracing (Mon Dec 09 2019 - 16:33:18 CST)
Giuseppe Ermondi
- QwikMD error (Fri May 21 2021 - 07:47:45 CDT)
Giuseppe La Rosa
- Problems with reading Amber NetCDF restart files (Fri Nov 07 2014 - 07:51:26 CST)
GIUSEPPE LEONARDO LICARI
- Re: Parsing exit code from TCL script to bash bypassing VMD (Tue May 10 2022 - 03:59:03 CDT)
- Parsing exit code from TCL script to bash bypassing VMD (Mon May 09 2022 - 08:20:59 CDT)
- Test email (Fri Feb 05 2021 - 12:04:17 CST)
Giuseppe Licari
- Re: Test email (Fri Feb 05 2021 - 12:44:46 CST)
- Test email (Fri Feb 05 2021 - 12:24:38 CST)
giuseppe_at_ks.uiuc.edu
- Re: Gaussian16 support issue of ffTK (Wed Feb 05 2020 - 10:09:08 CST)
- Reminder NAMD Developer Meeting 2019 (Tue Jul 09 2019 - 10:55:30 CDT)
- NAMD Developer Meeting 2019 (Wed Jun 19 2019 - 16:59:58 CDT)
Gkourmpis, Thomas
- Polymer Building in VMD (Tue May 22 2012 - 08:21:12 CDT)
- VMD Question: How to build a polymer in VMD? (Thu Apr 26 2012 - 03:51:45 CDT)
Glenn Johnson
- bonding across periodic boundary (Tue Apr 12 2005 - 12:14:53 CDT)
- Re: VMD, NAMD and Interactive Essential Dynamics (IED) (Mon Mar 21 2005 - 12:08:26 CST)
- Re: VMD, NAMD and Interactive Essential Dynamics (IED) (Mon Mar 21 2005 - 10:39:00 CST)
Gloria Rendon
- [vmd-l] Graduate assistanship in Bioinformatics at NCSA (Wed Mar 28 2007 - 17:45:25 CDT)
Gmail2
- Re: APBS Output file missing or unreadable (Thu Nov 07 2013 - 21:31:32 CST)
Goedde, Chris
- Re: [EXT] placing graphics objects at fixed locations on the display (Tue Oct 06 2020 - 15:32:23 CDT)
- placing graphics objects at fixed locations on the display (Mon Oct 05 2020 - 14:39:02 CDT)
- Re: [EXT] Re: atomselect moveby: non-numeric in vector (Tue Feb 18 2020 - 11:28:35 CST)
- Re: [EXT] VMD for Mac stopped working after updating to Catalina (Mon Nov 04 2019 - 09:50:29 CST)
- Re: [EXT] Question for Installing Plugin for VMD on Mac (Mon Oct 07 2019 - 10:07:46 CDT)
- Re: vmd startup sequence (Fri Jun 08 2018 - 10:53:45 CDT)
- vmd startup sequence (Thu Jun 07 2018 - 17:03:51 CDT)
- Re: Diagnosing vmd startup problems (Mon May 07 2018 - 16:03:45 CDT)
- Re: Diagnosing vmd startup problems (Mon May 07 2018 - 15:44:18 CDT)
- Diagnosing vmd startup problems (Mon May 07 2018 - 11:29:36 CDT)
- Re: VMD TCL Script to save last frame of a trajectory using bash+tcl scripts (Wed Feb 21 2018 - 12:46:31 CST)
- segname field in pdb files (Tue Sep 12 2017 - 15:46:09 CDT)
Goldsmith, Jacob
- RE: RDF calculation for production steps (Thu Sep 15 2011 - 08:25:20 CDT)
- RE: autoionize adds too many ions (Wed Jul 20 2011 - 12:10:28 CDT)
- RE: changing the color of Sn atom (Wed May 11 2011 - 08:45:50 CDT)
- RE: Tcl plugin development and debugging (Tue Apr 12 2011 - 11:57:28 CDT)
- RE: tcl script (Fri Mar 11 2011 - 13:59:36 CST)
- RE: problem on making a movie (Fri Mar 11 2011 - 09:20:58 CST)
- RE: multiple topology files and resetpsf (Wed Feb 09 2011 - 07:38:42 CST)
- multiple topology files and resetpsf (Tue Feb 08 2011 - 10:11:54 CST)
Gonzalez, Aaron
- Calling VMD from Linux Cluster (Fri Aug 29 2014 - 12:34:02 CDT)
Gopinath Subramanian
- Change requested in lammps plugin for VMD (Fri May 15 2009 - 11:42:38 CDT)
Gordon S Freeman
- Writing povray files from a VMD trajectory (Tue Apr 09 2013 - 14:32:07 CDT)
Gordon Wells
- Re: everything grey with glsl (Sat Aug 10 2013 - 14:08:40 CDT)
- everything grey with glsl (Sat Aug 10 2013 - 12:39:42 CDT)
- Re: Very peculiar problem with bigdcd if not running interactively (post moved over from namd forum) (Mon Aug 20 2007 - 04:49:51 CDT)
- Re: qsub (torque/maui) and vmd (Tue Sep 05 2006 - 02:09:09 CDT)
- Re: qsub (torque/maui) and vmd (Mon Sep 04 2006 - 13:01:42 CDT)
- Re: qsub (torque/maui) and vmd (Mon Sep 04 2006 - 09:31:33 CDT)
- qsub (torque/maui) and vmd (Mon Sep 04 2006 - 08:25:54 CDT)
Gorka Lasso
- Re: MDFF and implicit solvent (Thu Sep 13 2012 - 03:19:42 CDT)
- Re: MDFF and implicit solvent (Thu Sep 13 2012 - 02:40:08 CDT)
- MDFF and implicit solvent (Wed Sep 12 2012 - 10:54:01 CDT)
gorka lasso via LinkedIn
- Invitation to connect on LinkedIn (Sat Sep 15 2012 - 12:05:12 CDT)
Goutham
- paratool error (Tue Aug 31 2010 - 20:02:30 CDT)
- vmd paratool - getting GAUSSIAN charges (Tue Aug 31 2010 - 10:51:48 CDT)
- PBC + DCD wrap/unwrap (Mon Dec 14 2009 - 13:37:36 CST)
- Re: Velocity Auto Correlation (Fri Sep 25 2009 - 02:10:04 CDT)
- Re: Velocity Auto Correlation (Thu Sep 24 2009 - 20:23:39 CDT)
- Re: Velocity Auto Correlation (Sun Sep 20 2009 - 15:23:09 CDT)
- Re: Velocity Auto Correlation (Fri Sep 18 2009 - 22:25:02 CDT)
- Re: Velocity Auto Correlation (Fri Sep 18 2009 - 15:52:44 CDT)
- Velocity Auto Correlation (Fri Sep 18 2009 - 14:53:42 CDT)
- PSF for AMBER top + crd files (Tue Sep 15 2009 - 16:35:23 CDT)
- Hydrogen Bonding energy (Thu Jul 23 2009 - 20:56:52 CDT)
- Re: pairInteraction and NAMDEnergy (Thu Apr 02 2009 - 11:21:27 CDT)
- Re: pairInteraction and NAMDEnergy (Wed Apr 01 2009 - 22:43:23 CDT)
- pairInteraction and NAMDEnergy (Wed Apr 01 2009 - 17:05:52 CDT)
- Re: openGL library (Tue Mar 31 2009 - 13:34:38 CDT)
- Re: openGL library (Tue Mar 31 2009 - 12:15:57 CDT)
- Re: helix axes (Tue Mar 31 2009 - 10:30:30 CDT)
- Re: Graphical representation (Sun Mar 29 2009 - 15:01:50 CDT)
- Re: openGL library (Fri Mar 27 2009 - 01:34:00 CDT)
- Re: openGL library (Fri Mar 27 2009 - 00:32:34 CDT)
- openGL library (Thu Mar 26 2009 - 19:48:52 CDT)
- merging atomselection (Wed Mar 25 2009 - 16:54:33 CDT)
- Command line argument (Wed Mar 25 2009 - 10:12:19 CDT)
- Re: adding lipid bilayers (Fri Mar 06 2009 - 08:38:25 CST)
- adding lipid bilayers (Fri Mar 06 2009 - 00:46:47 CST)
- Re: Hydrophobicity Scale (Thu Mar 05 2009 - 19:36:46 CST)
- Hydrophobicity Scale (Thu Mar 05 2009 - 18:58:41 CST)
gozorows_at_uci.edu
- Re: calculating b-factors from trajectories (Wed May 23 2007 - 14:00:53 CDT)
- calculating b-factors from trajectories (Tue May 22 2007 - 17:53:27 CDT)
gpat_at_bioacademy.gr
- Re: Haptic devices for IMD (Fri Jan 20 2012 - 05:01:35 CST)
- Haptic devices for IMD (Wed Jan 18 2012 - 09:56:21 CST)
Grace Brannigan
- Re: Fast PBC wrapping in VMD (Wed Nov 16 2016 - 09:11:51 CST)
- Re: center of mass (Fri Jul 05 2013 - 14:26:47 CDT)
- Re: Regarding fit_angle.tcl script (Sat Jan 12 2013 - 01:01:27 CST)
- Re: Hole program for vmd hole tcl script (Wed Nov 21 2012 - 11:32:27 CST)
- Re: file splitting (Thu May 17 2012 - 10:40:25 CDT)
Grace Clay
- Spring quality watches offer (Mon Apr 14 2008 - 11:47:27 CDT)
Graham Jackson
- display residues near ligand (Sat Aug 11 2018 - 02:38:55 CDT)
- vmd keeps crashing (Fri Jun 22 2018 - 04:31:28 CDT)
- ribbon on different thickness (Wed Jun 13 2018 - 10:29:45 CDT)
GRANT KENNY
- Query on preferred encoder/settings for producing MPEG files (Sun Oct 27 2019 - 10:00:27 CDT)
Grant Schauer
- namdenergy and bigdcd (Fri Jun 03 2016 - 15:55:26 CDT)
- Re: Large positive non-integer charge (Thu May 12 2011 - 18:03:12 CDT)
- Re: Large positive non-integer charge (Thu May 12 2011 - 14:16:14 CDT)
- Large positive non-integer charge (Thu May 12 2011 - 13:16:46 CDT)
- Re: VMD-Main window doesn't load after change in .vmdrc (Mon Jun 04 2007 - 22:20:30 CDT)
- VMD-Main window doesn't load after change in .vmdrc (Mon Jun 04 2007 - 20:22:55 CDT)
Grazia Daminelli
- reading charmm files (Mon Mar 05 2007 - 07:48:22 CST)
- IC from paratool (Mon Feb 26 2007 - 02:35:27 CST)
greddy1_at_umd.edu
- Eigen values of Moment of Intertia Tensor (Fri Apr 25 2008 - 15:12:19 CDT)
- Eigen values of Moment of Intertia Tensor (Fri Apr 25 2008 - 10:19:52 CDT)
- Bug in the tcl script (Tue Feb 13 2007 - 13:18:58 CST)
- Bug in the Tcl script (Fri Feb 09 2007 - 19:51:24 CST)
Greg Moore
- distance to solvent accessible surface (Wed Jun 04 2003 - 15:29:42 CDT)
Gregor Kladnik
- Re: Trouble installing VMD on LINUX machine SOLVED (Thu Sep 18 2008 - 11:18:40 CDT)
- Trouble installing VMD on LINUX machine (Thu Sep 18 2008 - 06:43:14 CDT)
Gregorio Alanislobato
- Re: REMD + RBCG (Tue Aug 17 2010 - 19:51:10 CDT)
- Re: REMD + RBCG (Tue Aug 17 2010 - 18:26:08 CDT)
- Re: RSMD of coarse grained molecules (Tue Aug 17 2010 - 16:14:46 CDT)
- REMD + RBCG (Tue Aug 17 2010 - 16:12:22 CDT)
- Re: RSMD of coarse grained molecules (Mon Aug 16 2010 - 20:29:13 CDT)
- RSMD of coarse grained molecules (Mon Aug 16 2010 - 12:13:59 CDT)
- Inserting amino acids to a protein (Thu Aug 05 2010 - 14:24:56 CDT)
Gregorio Fernandez
- Re: problems with MDFF (Mon Apr 09 2012 - 06:21:33 CDT)
- problems with MDFF (Fri Apr 06 2012 - 02:42:22 CDT)
Greipel.Joachim_at_mh-hannover.de
- AW: Building NAMD 2.12 from Source with IB and CUDA (Thu Mar 02 2017 - 05:53:58 CST)
- Building NAMD 2.12 from Source with IB and CUDA (Thu Mar 02 2017 - 02:57:01 CST)
- AW: Quad buffered stereo from Quadro M4000 to HDMI monitor (Tue Jan 17 2017 - 07:12:12 CST)
- NAMD 2.11 Cuda does not work with Quadro FX 3800 (Thu Mar 10 2016 - 01:57:06 CST)
- AW: WG: vmd and proxy settings (Thu Mar 03 2016 - 01:12:02 CST)
- WG: vmd and proxy settings (Wed Mar 02 2016 - 03:58:28 CST)
- AW: vmd and proxy settings (Wed Mar 02 2016 - 03:42:26 CST)
- AW: vmd and proxy settings (Wed Mar 02 2016 - 01:21:53 CST)
- vmd and proxy settings (Tue Mar 01 2016 - 05:59:03 CST)
- VMD: Problems loading PDB Files from behind a proxy server (Fri Oct 23 2015 - 01:15:53 CDT)
- AW: WG: VMD mismatch between CUDA runtime and GPU driver (Fri Jul 19 2013 - 01:04:54 CDT)
- WG: VMD mismatch between CUDA runtime and GPU driver (Thu Jul 18 2013 - 02:24:18 CDT)
- VMD mismatch between CUDA runtime and GPU driver (Thu Jul 18 2013 - 02:01:31 CDT)
- VMD and Remote X-Servers (Tue Dec 28 2004 - 08:39:32 CST)
Greta Bush
- The discreet replica store (Mon May 05 2008 - 01:28:30 CDT)
griadi_at_utalca.cl
- Axes dilema (Fri Aug 11 2006 - 18:11:07 CDT)
- Re: RDF.tcl (Fri Jul 28 2006 - 17:01:24 CDT)
- Average Structure and RMSD (Wed Jun 21 2006 - 11:28:33 CDT)
- Re: namd-l: bulk density in RDF.tcl (Wed Mar 29 2006 - 16:55:07 CST)
- Re: namd-l: is possible to remove the waterbox before running VMD (Thu Mar 09 2006 - 12:56:38 CST)
- Re: pbc and vmd (Mon Mar 06 2006 - 09:23:09 CST)
- OpenGL Shading Program is not available (Fri Feb 03 2006 - 20:39:37 CST)
- vmd-xplor (Tue Oct 11 2005 - 18:45:46 CDT)
- 100% of CPU usage (Wed Aug 10 2005 - 18:46:46 CDT)
- Re: VMD-1.8.3 installation erRor (Wed Aug 10 2005 - 18:29:12 CDT)
- VMD-1.8.3 installation erRor (Wed Aug 10 2005 - 14:07:57 CDT)
- Re: namd-l: Writing pdb file.. easier way? (Tue Nov 23 2004 - 12:44:03 CST)
Grischa Meyer
- NuVision glasses (Mon Sep 11 2006 - 19:41:25 CDT)
- Re: python math library (Wed Apr 12 2006 - 21:57:19 CDT)
- python math library (Tue Apr 11 2006 - 23:50:22 CDT)
Grzegorz Wieczorek
- RE: Full-Screen display (Wed Dec 05 2012 - 08:24:33 CST)
- RE: use volmap tool for probability density map (Mon Dec 03 2012 - 03:43:40 CST)
- RE: use volmap tool for probability density map (Sun Dec 02 2012 - 04:24:29 CST)
gschlau-cohen_at_berkeley.edu
- Re: creating a povray file (Wed Feb 17 2010 - 15:56:34 CST)
- creating a povray file (Wed Feb 17 2010 - 10:44:02 CST)
gtg991m_at_mail.gatech.edu
- superimpose RNA backbones (Fri Apr 01 2005 - 11:17:21 CST)
Gu, Wenze
- dynamic cross-correlation Map(DCCM)? (Sat Apr 21 2018 - 21:48:02 CDT)
- Re: How to hide water in mdcrd file? (Thu Mar 08 2018 - 15:31:44 CST)
- Re: VMD quit unexpectedly on Mac (Thu Mar 08 2018 - 15:33:45 CST)
- VMD quit unexpectedly on Mac (Thu Mar 08 2018 - 12:42:19 CST)
- How to hide water in mdcrd file? (Thu Mar 08 2018 - 12:48:00 CST)
- Problem reading mdcrd file (Sat Mar 03 2018 - 10:52:29 CST)
Guanglei Cui
- Re: electrostatic potential maps. (Wed Jun 08 2011 - 10:56:40 CDT)
- Re: VMD: 1.8.7 win32 opengl runtime error (Fri Aug 21 2009 - 21:48:43 CDT)
- VMD: 1.8.7 win32 opengl runtime error (Fri Aug 21 2009 - 09:14:56 CDT)
- Re: X_ChangeProperty: BadValue (integer parameter out of range for operation) 0x40 (Tue Jan 08 2008 - 14:40:43 CST)
- X_ChangeProperty: BadValue (integer parameter out of range for operation) 0x40 (Mon Jan 07 2008 - 08:35:14 CST)
- opendx and vmd (Sat Jan 28 2006 - 21:30:52 CST)
- coloring method (Tue Dec 06 2005 - 12:48:55 CST)
- molecule.write() (Thu Aug 25 2005 - 10:19:55 CDT)
- vmd with no x (Thu Aug 11 2005 - 16:35:37 CDT)
- Re: all within selection (Thu Aug 11 2005 - 12:32:32 CDT)
- all within selection (Thu Aug 11 2005 - 10:55:39 CDT)
- window size (Thu Feb 10 2005 - 15:10:21 CST)
- Re: parm7 plugin (Wed Jan 26 2005 - 11:06:21 CST)
- parm7 plugin (Wed Jan 26 2005 - 10:00:13 CST)
- python or Tcl/Tk (Fri Jan 21 2005 - 12:48:12 CST)
- python or tcl/tk (Fri Jan 21 2005 - 11:03:32 CST)
Guanyu Wang
- Problems of generating the psf file with a protein that has a structural calcium (Thu Apr 06 2017 - 17:46:24 CDT)
Gudrun Gygli
- measure rmsf - relative to what? (Fri Dec 08 2017 - 06:54:33 CST)
Guenegou, Guillaume [ORDFR]
- Update selection every frame command (Thu Aug 11 2011 - 04:56:11 CDT)
- Command line for thickness parameter (Tue Aug 09 2011 - 06:00:29 CDT)
- Command line for thickness parameter (Tue Aug 09 2011 - 03:46:46 CDT)
- RE: Avoid vmd closing with script (Tue Jul 26 2011 - 01:54:44 CDT)
- Avoid vmd closing with script (Mon Jul 25 2011 - 08:31:01 CDT)
- AMBER coordinates with periodic box (Tue Jul 19 2011 - 08:18:44 CDT)
Guido Polles
- Re: Compiling plugins without netcdf (Wed Jun 01 2011 - 12:59:50 CDT)
- Compiling plugins without netcdf (Wed Jun 01 2011 - 10:09:24 CDT)
- POV renderer and volume coloring problem (Thu Nov 11 2010 - 05:33:00 CST)
Guilherme da Silva
- gopython with python3 (Thu Nov 22 2018 - 11:53:11 CST)
guillaume.santini_at_free.fr
- Superimposition: atomselect for reverse topology (Sat Sep 06 2008 - 09:34:52 CDT)
GUIXA GONZALEZ, RAMON
- FLTK fonts (Sun Aug 19 2012 - 09:26:24 CDT)
Gulce Kalyoncu
- Alignment with RMSD trajectory tool (Tue May 29 2018 - 20:42:15 CDT)
- About loading multiple XYZ trajectories (Wed Apr 18 2018 - 10:51:04 CDT)
Gumbart, James C
- Re: Patching for bond between protein and organic ligand (Tue Nov 13 2018 - 19:54:19 CST)
- Re: Fwd: Unknown atom type CG205 with CGenFF by psfgen (Fri Oct 26 2018 - 12:06:15 CDT)
- Re: Pressure Control (Thu Oct 25 2018 - 12:53:03 CDT)
Gumbart, JC
- Re: Issues with fftk - Opt-charges (in VMD 1.9.4a57) (Thu Feb 06 2025 - 22:12:19 CST)
- Re: Issues with fftk - Opt-charges (in VMD 1.9.4a57) (Tue Jan 28 2025 - 19:15:28 CST)
- Re: Re: FFTK partial charge assignment weak acid ONOH (HNO2) - Water Shift settings (Sun Oct 06 2024 - 07:26:26 CDT)
- Re: FFTK error - empty string not an operand of * (Thu Sep 26 2024 - 14:21:24 CDT)
- Re: fftk, ORCA, Bond and Angle Optimization, error As a subsequent Frequencies calculation has been requested (Thu Jul 25 2024 - 12:46:36 CDT)
- Re: FFTK water molecules overlapped and charge optimisation error (Sun Jul 21 2024 - 22:13:21 CDT)
- Re: FFTK - Dihedral doesn't fit the QM target data (Fri Mar 22 2024 - 16:21:59 CDT)
- Re: FFTK - Dihedral doesn't fit the QM target data (Thu Mar 14 2024 - 07:18:31 CDT)
- Re: FFTK - Dihedral doesn't fit the QM target data (Mon Mar 11 2024 - 21:43:51 CDT)
- Re: unable to open VMD as normal (Thu Feb 08 2024 - 10:30:48 CST)
- Re: ffTK charge optimization error (Fri Jan 12 2024 - 18:13:38 CST)
- Re: ffTK charge optimization error (Tue Jan 09 2024 - 21:54:57 CST)
- Re: ffTK FATAL ERROR: UNABLE TO FIND IMPROPER PARAMETERS Inquiry (Fri Oct 20 2023 - 16:45:25 CDT)
- Re: ffTK FATAL ERROR: UNABLE TO FIND IMPROPER PARAMETERS Inquiry (Sun Oct 15 2023 - 11:19:51 CDT)
- Re: ffTK FATAL ERROR: UNABLE TO FIND IMPROPER PARAMETERS Inquiry (Fri Oct 13 2023 - 21:49:24 CDT)
- Re: CHARMM36 and water: can the H-H "bond" be added to the wat.top file used by solvate.tcl? (Wed Jul 05 2023 - 12:32:43 CDT)
- Re: ORCA within ffTK Dihedral Angle Optimization Inquiry (Sun Jun 11 2023 - 15:16:02 CDT)
- Re: VMD BFEE namdbin error (Wed May 24 2023 - 11:09:20 CDT)
- Re: Gaussian09 install on macOS Inquiry (Thu Apr 13 2023 - 12:14:05 CDT)
- Re: Gaussian09 install on macOS Inquiry (Wed Apr 12 2023 - 01:03:13 CDT)
- Re: Gaussian09 install on macOS Inquiry (Tue Apr 11 2023 - 21:36:48 CDT)
- Re: Re: ffTK Opt Torsions Refine Section EDIT ENTRY SECTION PROBLEM (Tue Mar 28 2023 - 19:31:17 CDT)
- Re: Re: ffTK Opt Torsions Refine Section EDIT ENTRY SECTION PROBLEM (Tue Mar 28 2023 - 18:54:11 CDT)
- Re: Re: ffTK Opt Torsions Refine Section EDIT ENTRY SECTION PROBLEM (Tue Mar 28 2023 - 18:04:16 CDT)
- Re: Re: ffTK Opt Torsions Refine Section EDIT ENTRY SECTION PROBLEM (Tue Mar 28 2023 - 18:06:57 CDT)
- Re: Re: No ffTK .gau Extension in Determine File Type in VMD for Visualization Problem? (Thu Mar 23 2023 - 13:29:13 CDT)
- Re: Re: No ffTK .gau Extension in Determine File Type in VMD for Visualization Problem? (Thu Mar 23 2023 - 10:50:53 CDT)
- Re: Re: No ffTK .gau Extension in Determine File Type in VMD for Visualization Problem? (Wed Mar 22 2023 - 16:40:10 CDT)
- Re: Hbonds details every frame (Fri Nov 11 2022 - 14:24:10 CST)
- Re: RE: Simple MDFF Tutorial - 1ake does not fit into map (Wed Nov 09 2022 - 18:22:54 CST)
- Re: RE: Simple MDFF Tutorial - 1ake does not fit into map (Tue Nov 08 2022 - 12:00:56 CST)
- Re: RE: Simple MDFF Tutorial - 1ake does not fit into map (Mon Nov 07 2022 - 22:49:33 CST)
- Re: RE: Simple MDFF Tutorial - 1ake does not fit into map (Sun Nov 06 2022 - 15:28:50 CST)
- Re: Most relevant VMD install (Wed Sep 07 2022 - 10:13:18 CDT)
- Re: FFTK Opt.Bonded error: unmatched open quote in list (Mon May 23 2022 - 17:33:14 CDT)
- Re: ffTK can't use empty string as operand of "*" vmd194a53win64-SetupV7.exe (Sat Apr 09 2022 - 20:40:03 CDT)
- Re: ffTK can't use empty string as operand of "*" vmd194a53win64-SetupV7.exe (Thu Apr 07 2022 - 08:34:27 CDT)
- Re: FFTK Charge Optimization Target Data (Wed Apr 06 2022 - 21:21:04 CDT)
- Re: FFTK Charge Optimization Target Data (Sun Apr 03 2022 - 15:41:48 CDT)
- Re: FFTK Charge Optimization Target Data (Thu Mar 31 2022 - 10:51:07 CDT)
- Re: Water molecule ID in Hydrogen bond plugin (Tue Mar 01 2022 - 13:30:26 CST)
- Re: tkcon behavior in OS X / selection Q (Tue Feb 08 2022 - 17:32:58 CST)
- Re: FFTK segmentation fault when guessing charge groups (Fri Dec 03 2021 - 07:07:48 CST)
- Re: protein and lipid jumping (Sun Oct 24 2021 - 23:26:45 CDT)
- Re: Early access to VMD builds with full-time interactive ray tracing display mode (Tachyon RTX RTRT) (Tue Oct 19 2021 - 19:58:12 CDT)
- Re: Hydrogen mass repartition PSFGen2.0 (Sun Aug 08 2021 - 07:40:49 CDT)
- Re: Hydrogen mass repartition PSFGen2.0 (Sat Aug 07 2021 - 17:32:23 CDT)
- Re: psfgen 2.0 and Drude (Tue Aug 03 2021 - 14:44:09 CDT)
- psfgen 2.0 and Drude (Tue Aug 03 2021 - 14:22:37 CDT)
- Re: FFTk GUI unresponsive (Tue Jul 27 2021 - 10:42:19 CDT)
- Re: RE:MolID error using fftk with VMD 1.94a49 on windows 10 (Fri Jul 16 2021 - 16:29:41 CDT)
- Re: RE:MolID error using fftk with VMD 1.94a49 on windows 10 (Tue Jul 13 2021 - 19:26:15 CDT)
- Re: FFTK kList no such variable (Mon Jul 05 2021 - 10:25:16 CDT)
- Re: FFTK: dihedral containing hydrogen? (Tue May 18 2021 - 19:03:04 CDT)
- Re: histidine protonation (Sun Apr 04 2021 - 13:39:18 CDT)
- Re: histidine protonation (Fri Apr 02 2021 - 15:43:20 CDT)
- Re: FFTK: Dihedral scan trans/cis (Mon Mar 22 2021 - 22:48:09 CDT)
- Re: Custom particle shapes (Sat Mar 06 2021 - 17:02:07 CST)
- Re: Couldn't read internal coordinate table and list index out of range (Tue Feb 23 2021 - 19:28:33 CST)
- Re: Couldn't read internal coordinate table and list index out of range (Tue Feb 23 2021 - 19:00:32 CST)
- Re: ffTK torsion scan? (Thu Feb 18 2021 - 18:12:36 CST)
- Re: ffTK torsion scan? (Mon Feb 15 2021 - 09:55:07 CST)
- Re: how to search for existing topology (Mon Feb 01 2021 - 09:57:27 CST)
- Re: Re: Unable to fit dihedral to QM target data in FFTK (Mon Feb 01 2021 - 09:49:35 CST)
- Re: FFTK Issue: Not able to visualize dihedral scan (Sun Jan 10 2021 - 06:52:25 CST)
- Re: FFTK dihedral paramterization (Thu Jan 07 2021 - 17:49:26 CST)
- Re: Error with RESP in ffTK (Wed Dec 30 2020 - 18:25:03 CST)
- Re: Error with RESP in ffTK (Mon Dec 28 2020 - 20:39:05 CST)
- Re: Error with RESP in ffTK (Mon Dec 28 2020 - 00:20:51 CST)
- Re: namd-l: Query regarding 'Protein:ligand Standard Binding Free Energies' tutorial (Tue Dec 22 2020 - 20:43:36 CST)
- Re: [EXTERNAL]Re: h-bond plugin with QMMM (Thu Dec 03 2020 - 19:11:14 CST)
- Re: charge opt not converged (Wed Nov 18 2020 - 14:35:01 CST)
- Re: Error in charge optimization (Thu Nov 12 2020 - 22:54:08 CST)
- Re: Error in charge optimization (Thu Nov 12 2020 - 15:46:45 CST)
- Re: Error in charge optimization (Wed Nov 11 2020 - 23:48:15 CST)
- Re: FFTK: Opt. Charges Error (Sun May 31 2020 - 15:20:52 CDT)
- Re: FFTK: Opt. Charges Error (Sat May 30 2020 - 11:48:23 CDT)
- Re: FFTK: Opt. Charges Error (Sat May 30 2020 - 11:49:45 CDT)
- Re: VMD charmm paramters files: par_all36m_prot.prm (Tue May 26 2020 - 13:29:05 CDT)
- Re: Regarding zinc parameters in CHARMM force field (Mon May 11 2020 - 14:12:25 CDT)
- Re: FFTK dihedral parametrization (Wed Jan 29 2020 - 11:54:19 CST)
- Re: FFTK dihedral parametrization (Mon Jan 27 2020 - 19:52:53 CST)
- Re: New OSX Requires 64-bit DMG (Fri Jan 03 2020 - 16:02:44 CST)
- Re: Re: VMD 1.9.4a38 build for macOS Catalina (Sat Dec 07 2019 - 16:29:06 CST)
- Re: Parameterization strategy with fragmentation in fftk (Sun Sep 22 2019 - 17:04:28 CDT)
- Re: planned support for Catalina? (Thu Aug 29 2019 - 17:03:28 CDT)
- planned support for Catalina? (Thu Aug 29 2019 - 14:53:05 CDT)
- Re: Regarding PBC unwrap (Sat Apr 13 2019 - 07:34:59 CDT)
- atom types depend on PSF/PDB reading order (Wed Dec 19 2018 - 18:46:23 CST)
- Re: fftk problem in opt. bonded step (Fri Dec 14 2018 - 18:04:17 CST)
- Re: fftk problem in opt. bonded step (Fri Dec 14 2018 - 16:51:59 CST)
- Re: Error at Dihedral Optimization using fftk (Wed Dec 12 2018 - 19:15:54 CST)
gumbart_at_ks.uiuc.edu
- Lovyeou (Fri Jul 24 2009 - 09:31:56 CDT)
- Loevyou (Thu Jul 23 2009 - 16:55:17 CDT)
Gunnar Schroeder
- electron density map is shifted? (Thu Jul 12 2007 - 19:14:01 CDT)
Guo Zhi
- Re: vmd 1.8.7CUDA/1.8.7/1.8.6 can not start (Tue Jan 12 2010 - 00:02:08 CST)
- Re: vmd 1.8.7CUDA/1.8.7/1.8.6 can not start (Wed Jan 06 2010 - 21:48:14 CST)
- Re: vmd 1.8.7CUDA/1.8.7/1.8.6 can not start (Sun Jan 03 2010 - 22:19:29 CST)
- Re: vmd 1.8.7CUDA/1.8.7/1.8.6 can not start (Sun Jan 03 2010 - 11:41:03 CST)
- vmd 1.8.7CUDA/1.8.7/1.8.6 can not start (Sat Jan 02 2010 - 18:16:54 CST)
- Re: Where is the memory leakage? (Sun Apr 15 2007 - 01:45:32 CDT)
- Where is the memory leakage? (Sun Apr 15 2007 - 00:54:48 CDT)
- Re: Any way to output contact map data (Wed Mar 21 2007 - 03:32:37 CDT)
- Any way to output contact map data (Tue Mar 20 2007 - 09:18:03 CDT)
- Re: how to set atom index (Thu Mar 15 2007 - 19:51:04 CDT)
- how to set atom index (Wed Mar 14 2007 - 10:33:57 CDT)
- Re: How to let vmd do secondary structure judgement for each frame and render it on play movie? (Sat Dec 16 2006 - 02:59:41 CST)
- Re: How to let vmd do secondary structure judgement for each frame and render it on play movie? (Sat Dec 16 2006 - 00:31:00 CST)
- How to let vmd do secondary structure judgement for each frame and render it on play movie? (Fri Dec 15 2006 - 22:47:23 CST)
- Re: GLSL failure in VMD 1.8.5, Nvidia 6200 card (Mon Aug 28 2006 - 21:02:46 CDT)
- GLSL failure in VMD 1.8.5, Nvidia 6200 card (Mon Aug 28 2006 - 08:57:39 CDT)
- how to save a structure after alignment? (Sun May 28 2006 - 04:33:44 CDT)
- how to enable the vmd cachemode in .vmdrc? (Sun May 21 2006 - 02:25:38 CDT)
- Re: How to pick up the lost periodic information? (Tue May 09 2006 - 22:28:42 CDT)
- Re: How to pick up the lost periodic information? (Mon May 08 2006 - 20:57:20 CDT)
- Fwd: How to pick up the lost periodic information? (Mon May 08 2006 - 09:04:46 CDT)
- How to pick up the lost periodic information? (Sun May 07 2006 - 10:32:16 CDT)
Guo, Jiasen (MU-Student)
- QUESTION about NMWizad (Thu Sep 29 2016 - 18:33:41 CDT)
Gupta, S.S. (Somil)
- Hydrogen bonds plugin for liquid water (Tue Aug 18 2015 - 04:34:10 CDT)
gurpreet singh
- speed of movie (Thu Jun 05 2008 - 05:40:55 CDT)
- problem with sidechian representation (Mon Jan 21 2008 - 00:02:37 CST)
- problem regarding stride (Sat Aug 11 2007 - 01:44:25 CDT)
Gurunath Katagi
- residue within x of <geometric centre> (Fri Jul 04 2014 - 09:48:48 CDT)
- psf file with D-proline (Wed Apr 09 2014 - 01:18:35 CDT)
- cgtools (Wed Jan 01 2014 - 04:08:07 CST)
- atom indices from x y z coordinates (Wed Jul 03 2013 - 03:00:15 CDT)
- put the water box in a grid and traverse for the atoms in each grid (Thu Apr 11 2013 - 01:53:45 CDT)
- get Ramachadran plot using textmode (Fri Dec 09 2011 - 22:00:28 CST)
- labeling bonds between two atoms (Thu Jan 14 2010 - 12:12:36 CST)
- rdf curve (Tue Dec 22 2009 - 08:17:57 CST)
- Re: RMSD for individual residue for a tetarmer (Wed Dec 09 2009 - 04:41:11 CST)
- RMSD for individual residue for a tetarmer (Fri Dec 04 2009 - 00:20:03 CST)
- ied and gypython (Thu Jul 16 2009 - 02:16:21 CDT)
- disulphide bond formation (Fri Jun 05 2009 - 10:14:11 CDT)
- Re: General question about the memory usage of VMD (Mon Jan 26 2009 - 03:10:56 CST)
- (no subject) (Mon Jan 26 2009 - 03:19:30 CST)
gurvisha sandhu
- visualizing trr file (Thu Mar 25 2010 - 03:27:23 CDT)
Gustavo Gust
- Re: bad_alloc error (Wed Nov 11 2009 - 10:17:37 CST)
- Re: bad_alloc error (Wed Nov 11 2009 - 09:58:01 CST)
- bad_alloc error (Wed Nov 11 2009 - 09:04:34 CST)
- pbwithin and within differences (Tue Oct 27 2009 - 06:48:51 CDT)
Gustavo Mercier
- Re: python2.3 and vmd (Wed Oct 27 2004 - 07:59:54 CDT)
- Default resource file (.vmdrc) (Mon Sep 13 2004 - 15:41:02 CDT)
- vmd and Konqueror web browser under Suse 9? (Mon May 31 2004 - 08:20:28 CDT)
Gustavo Scheiffer
- Re: VMD junt won't work on Windows (Fri Dec 18 2020 - 11:09:24 CST)
- Re: VMD junt won't work on Windows (Tue Dec 15 2020 - 13:03:45 CST)
- VMD junt won't work on Windows (Sat Dec 12 2020 - 01:01:30 CST)
Gustavo Seabra
- Re: Problem visualizing a pdbqt file generated by AutoDockTools (Wed Nov 25 2015 - 12:27:52 CST)
- Re: Problem visualizing a pdbqt file generated by AutoDockTools (Wed Nov 25 2015 - 10:41:57 CST)
- Problem visualizing a pdbqt file generated by AutoDockTools (Wed Nov 25 2015 - 06:59:53 CST)
- Re: Rejecting plugin... (Thu Jun 25 2009 - 15:15:25 CDT)
- Re: Rejecting plugin... (Wed Jun 24 2009 - 17:53:26 CDT)
- Rejecting plugin... (Wed Jun 24 2009 - 14:04:25 CDT)
- Movies using Cygwin's ImageMagick? (Thu May 22 2008 - 09:18:45 CDT)
- Cheap 3D Glasses (Mon Apr 23 2007 - 18:07:07 CDT)
- visualizing charges (Fri Sep 22 2006 - 13:37:34 CDT)
- Re: Selecting the "n" closest waters (Thu Jul 13 2006 - 16:59:58 CDT)
- Re: Selecting the "n" closest waters (Thu Jul 13 2006 - 16:39:59 CDT)
- Selecting the "n" closest waters (Thu Jul 13 2006 - 12:39:31 CDT)
- Re: Simple one-liner? (Wed Jun 07 2006 - 12:24:03 CDT)
- Simple one-liner? (Wed Jun 07 2006 - 10:56:02 CDT)
- How to make bold font? (Tue May 23 2006 - 13:40:02 CDT)
- Re: Using RMSD without loading all structures? (Wed May 03 2006 - 13:12:40 CDT)
- Using RMSD without loading all structures? (Wed May 03 2006 - 11:55:25 CDT)
Guy Coates
- Problems with Charmm dcd (Wed Oct 27 1999 - 07:24:17 CDT)
- Re: linux graphics adapters? (Thu Jul 13 2000 - 07:05:42 CDT)
guy.baudoux_at_gskbio.com
- libcprts.so.6 not found by VMD on RedHat EL3 (ia64). (Mon Apr 10 2006 - 08:31:38 CDT)
Gyimesi Gergely
- Re: Re: fglrx driver workaround? (Tue May 17 2005 - 14:19:07 CDT)
- Re: fglrx driver workaround? (Sun May 15 2005 - 10:16:08 CDT)
gökçe ayþe güven
- Problem with moving protein for all frames (Tue May 01 2012 - 16:14:24 CDT)
H Q
- vmd-read data from lammps (Thu May 07 2009 - 20:26:53 CDT)
- lammps and vmd (Mon Jul 10 2006 - 22:04:20 CDT)
H. Lee
- Re: modify the plugin in MACOS X (Mon Apr 03 2017 - 12:20:57 CDT)
- Re: modify the plugin in MACOS X (Mon Apr 03 2017 - 10:11:43 CDT)
- modify the plugin in MACOS X (Sat Apr 01 2017 - 08:28:11 CDT)
h9826299_at_hkusua.hku.hk
- Re: Secondary Structure Stays at the last frame (Wed Jan 18 2006 - 16:19:52 CST)
- Secondary Structure Stays at the last frame (Wed Jan 18 2006 - 15:22:41 CST)
- RMSF value of a group of atoms (Fri Dec 23 2005 - 12:02:16 CST)
- Loading a pdb traj in VMD 1.8.4 beta 6 (Fri Dec 23 2005 - 09:18:30 CST)
- Calculation of RMSF (Wed Dec 14 2005 - 17:10:28 CST)
Haberl Florian
- Re: Re: vmd not starting up on Fedora core 3 linux (Wed Mar 02 2005 - 03:44:07 CST)
Habib.Alehossein_at_csiro.au
- RE: change default drawing and coloring method (Wed May 24 2006 - 22:52:36 CDT)
Hai-Jun Su
- Same pdb file, different image (Thu Feb 22 2007 - 22:11:27 CST)
- load in multiple files once (Fri Feb 09 2007 - 15:53:18 CST)
- file "top_all22_prot.inp" (Tue Feb 06 2007 - 20:26:53 CST)
- making movie file (Mon Feb 05 2007 - 22:41:11 CST)
- visualization code (Wed Aug 09 2006 - 22:31:00 CDT)
- (no subject) (Tue Aug 08 2006 - 10:30:27 CDT)
- (no subject) (Wed Jun 21 2006 - 12:22:29 CDT)
- use phantom with VMD (Tue Sep 13 2005 - 14:39:37 CDT)
- use phantom with VMD (Sun Sep 11 2005 - 11:22:44 CDT)
- RE: CAVE (Wed Sep 07 2005 - 15:35:10 CDT)
- RE: CAVE (Wed Sep 07 2005 - 10:30:05 CDT)
- CAVE (Tue Sep 06 2005 - 23:20:07 CDT)
Haibo Yu
- resid le 250 (Wed Mar 23 2005 - 16:22:15 CST)
haider abbas
- visualization of ghemical figure (Fri Sep 16 2005 - 04:29:37 CDT)
- Re:Re:missing bond problem (Wed Apr 27 2005 - 06:28:03 CDT)
- bond missimg (Mon Apr 25 2005 - 05:25:19 CDT)
Haijun
- Re: save coordinate POSCAR (Tue May 10 2011 - 13:58:07 CDT)
- save coordinate POSCAR (Tue May 10 2011 - 12:56:09 CDT)
Hailin Huang
- Fwd: Align specific residues of two structures (Mon Mar 31 2014 - 02:07:44 CDT)
- Align specific residues of two structures (Fri Mar 28 2014 - 15:37:37 CDT)
- Segmentation fault (core dumped) (Thu Aug 01 2013 - 15:03:59 CDT)
Hall, Lisa Michelle
- Re: G(r) tcl script not including intramolecular correlations (Fri May 07 2010 - 10:46:27 CDT)
- G(r) tcl script not including intramolecular correlations (Thu May 06 2010 - 18:12:49 CDT)
hamdi
- Re: Same pdb file, different image (Fri Feb 23 2007 - 03:02:57 CST)
Hamed Mortazavi
- Re: .VMD state file does not load properly (Wed Aug 28 2013 - 11:03:01 CDT)
- Re: .VMD state file does not load properly (Wed Aug 28 2013 - 07:30:07 CDT)
- Re: .VMD state file does not load properly (Wed Aug 28 2013 - 04:58:32 CDT)
- .VMD state file does not load properly (Wed Aug 28 2013 - 03:43:30 CDT)
Hamid
- Re: AW: AW: hydrogen bond criteria (Fri Dec 06 2013 - 13:42:53 CST)
- need your hep about IR Spectrum Plugin (Sun Sep 29 2013 - 07:26:56 CDT)
Hamid
- VMD and cuda 7.5 (Sat Mar 11 2017 - 04:33:51 CST)
hamid mosaddeghi
- Fw: protein schematic representaton (Wed Jun 12 2013 - 04:29:22 CDT)
- best method for showing metal nanoparticle and protein in vmd (Fri Jun 07 2013 - 04:24:15 CDT)
- Fw: not work "selection atoms" for trajectory of dl_poly (Mon Jun 03 2013 - 00:07:38 CDT)
- not work "selection atoms" for trajectory of dl_poly (Sat Jun 01 2013 - 09:55:06 CDT)
- about visualization in VMD (Thu Feb 21 2013 - 05:32:12 CST)
- edit pdb file (Wed Feb 20 2013 - 18:03:13 CST)
- Fw: about inorganic builder and define variable (Fri Jan 18 2013 - 04:53:21 CST)
- Fw: about inorganic builder and define variable (Fri Jan 18 2013 - 03:16:37 CST)
- about inorganic builder and define variable (Thu Jan 17 2013 - 16:19:23 CST)
- CG- CNT (Sat Jan 12 2013 - 06:05:02 CST)
- Re: Re: how add new plugin to vmd (Sat Aug 11 2012 - 10:36:29 CDT)
- Re: how add new plugin to vmd (Sat Aug 11 2012 - 06:54:30 CDT)
- how add new plugin to vmd (Fri Aug 10 2012 - 15:17:20 CDT)
- bug in Hbond Option (Mon Sep 19 2011 - 00:37:41 CDT)
- Re: Hbond in VMD (Fri Sep 02 2011 - 05:46:16 CDT)
- Fw: Fw: Hbond in VMD (Wed Aug 31 2011 - 14:50:19 CDT)
- Fw: Hbond in VMD (Wed Aug 31 2011 - 12:28:09 CDT)
- Fw: Hbond in VMD (Wed Aug 31 2011 - 12:29:01 CDT)
- Hbond in VMD (Wed Aug 31 2011 - 03:12:47 CDT)
- Fw: Hbonds for a specific frame (Wed Aug 31 2011 - 01:23:37 CDT)
- request help about hbond (Mon Mar 07 2011 - 13:20:13 CST)
- request help about hbond (Mon Mar 07 2011 - 09:06:20 CST)
Hamish Swanson
- Too many nested evaluations (Mon Dec 20 2021 - 03:58:35 CST)
- FFTk GUI unresponsive (Thu Jul 22 2021 - 09:30:58 CDT)
- Re: FFTK kList no such variable (Mon Jul 05 2021 - 12:03:23 CDT)
- FFTK kList no such variable (Mon Jul 05 2021 - 05:49:38 CDT)
- Dipole Moment Measurement (Wed Dec 16 2020 - 08:04:59 CST)
Hamsa Priya Mohana sundaram
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Hamza Bouafia
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hamze rahimi
- find avgstruct (Fri Nov 04 2011 - 04:30:38 CDT)
- average pdb from dcd file (Thu Oct 27 2011 - 07:39:53 CDT)
- convert pdb format to normal pdb format (Wed Aug 24 2011 - 04:48:09 CDT)
- rmsf (Fri Aug 12 2011 - 01:32:44 CDT)
- package require help (Fri Aug 12 2011 - 01:31:22 CDT)
- MDFF problem (Tue Jul 19 2011 - 23:13:05 CDT)
- zinc-finger protein simulation (Mon Jul 18 2011 - 06:55:08 CDT)
- calculate atom distance between two chain (Mon Jul 18 2011 - 06:31:04 CDT)
- mutate amino acid (Sun Jun 19 2011 - 02:25:05 CDT)
Han Choe
- labeling a residue (Mon May 24 2004 - 03:57:42 CDT)
- amidated C-terminus and pyroglutamate (Sat Jan 31 2004 - 04:01:05 CST)
- patch in psfgen - ionic interaction and hydrogen bond (Sun Jan 25 2004 - 20:42:50 CST)
- RE: docking in VMD (Tue Jan 20 2004 - 01:24:57 CST)
- docking in VMD (Mon Jan 19 2004 - 06:03:48 CST)
Han Hu
- Graphic card (Wed Oct 17 2012 - 08:27:40 CDT)
hanif mahboobi
- Hello (Tue Sep 18 2012 - 18:41:20 CDT)
- Spam from my email (Wed Nov 23 2011 - 03:38:19 CST)
- (no subject) (Tue Nov 22 2011 - 21:55:31 CST)
- (no subject) (Tue Nov 22 2011 - 18:19:50 CST)
- moveby command (Sun Jul 31 2011 - 06:13:57 CDT)
- 2 Issues in VMD 1.9 beta3 (Fri Mar 11 2011 - 06:10:30 CST)
Hannes Barsch
- shutter glasses with VMD (Wed Mar 01 2006 - 10:33:40 CST)
Hannes Loeffler
- Re: Amber visualization problem (Wed Feb 01 2017 - 03:09:52 CST)
- Re: compiling VMD from CVS 2016 09 21 (Wed Sep 21 2016 - 12:05:37 CDT)
- Re: VMD crashing when loading prmtop files (Wed Dec 17 2014 - 09:46:39 CST)
- Re: VMD crashing when loading prmtop files (Wed Dec 17 2014 - 04:30:27 CST)
- Re: R: MM-PBSA calculation (Fri Nov 08 2013 - 03:27:34 CST)
- Re: IED 2.02 and VMD 1.8.7 (Wed Oct 13 2010 - 09:24:33 CDT)
- Re: psf gen charmm format (Mon Oct 11 2010 - 07:25:58 CDT)
- Re: Some improvements for 1.8.2 (Fri Jul 25 2003 - 20:58:52 CDT)
- animate delete (Fri Jul 11 2003 - 01:37:45 CDT)
- Re: MSD (Thu May 30 2002 - 01:29:13 CDT)
hannes.loeffler_at_stfc.ac.uk
- RE: ied with VMD 1.9.1 (Fri Jan 18 2013 - 12:35:19 CST)
Hans Martin Senn
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- Python for OS X (Fri Jul 25 2008 - 10:19:38 CDT)
- Re: GLSL Compile Error (VMD 1.8.4, Nvidia Driver 8762) (Mon Jun 26 2006 - 10:32:49 CDT)
- GLSL Compile Error (VMD 1.8.4, Nvidia Driver 8762) (Mon Jun 26 2006 - 03:01:03 CDT)
Hao Sun
- adding water box (Mon May 17 2010 - 19:09:57 CDT)
- adding water box (Mon May 17 2010 - 19:09:36 CDT)
Hao Wu
- Re: Potential bugs in ffTK dihedral optimization (Tue Nov 24 2020 - 11:17:18 CST)
- Re: Potential bugs in ffTK dihedral optimization (Thu Nov 05 2020 - 14:56:21 CST)
haosheng_at_hec.utah.edu
- Problems with NewCartoon Cartoon Representations (Tue Jan 06 2009 - 15:39:43 CST)
Harindar Keer
- known issues with measure hbonds (Thu Dec 18 2008 - 17:59:34 CST)
- script to change representaiton (Thu Mar 30 2006 - 16:37:49 CST)
- Pair interaction calculation for large number different pairs (Wed Mar 02 2005 - 18:43:45 CST)
- Re: How to activate E2SUN emitter (Thu Feb 03 2005 - 14:09:54 CST)
- Re: How to activate E2SUN emitter (Tue Feb 01 2005 - 15:42:31 CST)
- How to activate E2SUN emitter (Sun Jan 30 2005 - 15:09:37 CST)
- Chloroform Solvent Box (Tue Nov 23 2004 - 11:17:45 CST)
- Rendering (Thu Jul 29 2004 - 17:49:51 CDT)
- width for triangle (Tue Jul 06 2004 - 20:41:58 CDT)
- mpeg doesn't run on media player (Thu Jun 24 2004 - 18:26:59 CDT)
- rotating a representation (Mon Mar 08 2004 - 14:04:10 CST)
- Re: namd-l: LYC Parameter-Topology ? (Wed Nov 19 2003 - 13:01:55 CST)
Harini S H
- Re: Issues with fftk - Opt-charges (in VMD 1.9.4a57) (Thu Feb 06 2025 - 22:49:41 CST)
- Issues with fftk - Opt-charges (in VMD 1.9.4a57) (Tue Jan 28 2025 - 05:19:31 CST)
- Re: FFTK error - empty string not an operand of * (Fri Sep 27 2024 - 04:27:42 CDT)
- FFTK error - empty string not an operand of * (Wed Sep 25 2024 - 13:46:40 CDT)
- FFTK charge optimisation: ORCA issue - cant use empty string as an operand of '*' (Mon Sep 16 2024 - 08:36:56 CDT)
Harish Lnu
- Re: helical construction (Mon Dec 10 2007 - 15:31:31 CST)
- Re: helical construction (Mon Dec 10 2007 - 13:16:39 CST)
- helical construction (Mon Dec 10 2007 - 10:58:16 CST)
Harish Srinivasan
- psfgen giving wrong structure in the autopdb file (Thu Apr 06 2017 - 01:37:29 CDT)
- Unable to set coordinates in pdb - AutoPSF (Thu Dec 08 2016 - 21:10:50 CST)
- Re: Use of CUDA with AMD GPU (Tue Dec 06 2016 - 23:52:56 CST)
- Use of CUDA with AMD GPU (Tue Dec 06 2016 - 22:59:44 CST)
- Visual of a box and/or scale of distance in VMD graphics (Fri Oct 07 2016 - 01:03:17 CDT)
harish vashisth
- Re: Finding the Number of Chains Present via Scripting (Fri Jun 08 2012 - 12:49:18 CDT)
- Re: Translocate molecule within a box (Wed Nov 23 2011 - 21:43:13 CST)
- Re: Secondary structure elements in VMD (Fri Nov 04 2011 - 19:37:43 CDT)
- Re: query about "ViewChangeRender" plugin (Tue Oct 11 2011 - 10:42:09 CDT)
- query about "ViewChangeRender" plugin (Mon Oct 10 2011 - 17:04:45 CDT)
- Re: MDFF Query: how to convert XPLOR style density maps to DX or SITUS format (Sat Jul 24 2010 - 11:12:27 CDT)
- MDFF Query: how to convert XPLOR style density maps to DX or SITUS format (Fri Jul 23 2010 - 16:28:59 CDT)
Harit Jani
- unit of force using Haptic during IMD (Fri May 14 2004 - 01:34:02 CDT)
- topology and parameter files ? (Thu Dec 11 2003 - 18:09:52 CST)
- .psf and .params files for IMD (Wed Dec 10 2003 - 19:08:02 CST)
- Molecular Simulation using PHANToM Haptic (Mon Nov 24 2003 - 16:36:01 CST)
Harold Hatch
- solvate nonstandard patch error (Wed Jun 16 2010 - 10:42:50 CDT)
Harry Bullen
- Re: Python Module (Fri Jun 08 2007 - 11:03:39 CDT)
- Re: Python Module (Fri Jun 08 2007 - 08:40:36 CDT)
- Python Module (Thu Jun 07 2007 - 13:00:41 CDT)
Hart, David Blaine
- Re: 64 bit windows VMD (Mon Jul 27 2015 - 11:16:11 CDT)
- Re: [EXTERNAL] Re: Building Plugins to work with Mac Builds (Tue Jul 14 2015 - 14:52:02 CDT)
- Re: Building Plugins to work with Mac Builds (Mon Jul 06 2015 - 17:26:13 CDT)
- Building Plugins to work with Mac Builds (Mon Jul 06 2015 - 11:56:30 CDT)
Hasan Mahmud
- Coarse grain modelling problem (Tue Nov 19 2019 - 14:26:30 CST)
Hasdemir, Hale Siir
- Re: Startup position of OpenGL Display window and VMD console window (Thu Nov 30 2023 - 10:15:14 CST)
- Re: Re: <<cionize on macOS error>> (Mon Sep 25 2023 - 17:20:19 CDT)
- VMD error - molefacture (Fri Jul 07 2023 - 10:00:29 CDT)
- Re: Converting namd trajectory to desmond trajectory (Wed Jun 14 2023 - 17:05:39 CDT)
- Re: Converting namd trajectory to desmond trajectory (Tue Jun 13 2023 - 17:00:25 CDT)
Hasnain Shabbir
- basal spacing (Wed Jun 19 2019 - 13:25:20 CDT)
- PSF File (Wed Mar 13 2019 - 02:12:13 CDT)
Hassan Shallal
- visualizing small molecule in a trajectory file .trr and .gro using VMD (Fri Jun 04 2010 - 22:49:33 CDT)
- generating PSF file for a small molecule (Sun May 23 2010 - 03:53:58 CDT)
Haw-Zan Goh
- How to change the python include and linkage path in configure script (Mon Feb 27 2012 - 12:15:06 CST)
Hay, Stuart
- Gaussian Log File problem (Thu Apr 03 2014 - 12:35:55 CDT)
hayagreevan R
- problem with viewing gromacs xtc files in vmd (Mon Mar 27 2006 - 05:30:22 CST)
Hazai Eszter
- Rotation matrix translatin vector vmd (Thu Jul 26 2007 - 05:37:23 CDT)
Hazel, Justin
- Re: "Prepare Parameterization from CGenFF Program Output" in ffTK (Mon Jul 09 2018 - 12:59:00 CDT)
- Re: "Prepare Parameterization from CGenFF Program Output" in ffTK (Mon Jul 09 2018 - 08:09:02 CDT)
- Re: Importing .str file generated by ParamChem to molefacture in VMD (Fri Jul 06 2018 - 09:55:10 CDT)
He, Xibing
- Re: unable to open VMD as normal (Fri Feb 09 2024 - 14:52:08 CST)
- Re: unable to open VMD as normal (Wed Feb 07 2024 - 11:17:51 CST)
- Re: unable to open VMD as normal (Tue Feb 06 2024 - 15:28:26 CST)
- Re: unable to open VMD as normal (Tue Feb 06 2024 - 14:42:07 CST)
- Re: unable to open VMD as normal (Tue Feb 06 2024 - 12:37:10 CST)
- Re: unable to open VMD as normal (Tue Feb 06 2024 - 09:36:19 CST)
- Re: unable to open VMD as normal (Mon Feb 05 2024 - 17:35:11 CST)
- unable to open VMD as normal (Mon Feb 05 2024 - 11:41:38 CST)
Heather Boltz
- Re: CatDCD refuses to work (mac) (Mon Jun 13 2016 - 20:13:32 CDT)
- Re: CatDCD refuses to work (mac) (Sun Jun 12 2016 - 07:42:29 CDT)
- CatDCD refuses to work (mac) (Fri Jun 10 2016 - 22:05:39 CDT)
Heather Carson
- Alignment issues (Wed Jan 24 2018 - 07:18:44 CST)
Heather Mayes
- Re: draw structure with xyz coordinates (Mon Feb 11 2013 - 16:40:22 CST)
- Re: Dynamic bond representations (Tue Jan 22 2013 - 19:27:14 CST)
- Re: Make "Load all at once" the default? Adding representations? (Wed May 02 2012 - 15:50:28 CDT)
- Re: Make "Load all at once" the default? Adding representations? (Tue May 01 2012 - 17:18:41 CDT)
- Make "Load all at once" the default? Adding representations? (Tue May 01 2012 - 15:45:39 CDT)
Hedlund, Erik
- trouble with multiseq (Tue Mar 02 2021 - 10:34:01 CST)
HeeSung Choi
- Re: question of iso-surface in VMD graphical representations (Thu Mar 12 2009 - 14:13:42 CDT)
- question of iso-surface in VMD graphical representations (Thu Mar 12 2009 - 13:04:01 CDT)
Heidenreich, Joseph David
- RE: Coloring atoms by a general scalar (Thu Jul 02 2009 - 14:17:25 CDT)
- Coloring atoms by a general scalar (Tue Jun 30 2009 - 12:19:29 CDT)
Heidi Perrett
- Web Portal NAMD Job Visualisation...possibilities? (Wed Nov 03 2010 - 22:15:38 CDT)
Heikki Kasnanen
- VS: Outline rendering style with Tachyon (Mon May 18 2009 - 14:50:52 CDT)
- Outline rendering style with Tachyon (Tue Mar 03 2009 - 02:20:08 CST)
- How to set the default properties of drawing methods? (Thu Nov 13 2008 - 08:39:43 CST)
Heiko Carstens
- VMD command line Windows98 (Thu Jun 15 2000 - 03:28:38 CDT)
Helena Slater
- Get your watch now (Wed Apr 23 2008 - 12:17:13 CDT)
Hemant Gangwar
- Topotools: Lammps data file for protein (Thu Dec 18 2014 - 11:35:03 CST)
Hemant Kumar
- Postdoc Position at Penn in Chromosome Modeling (Fri Apr 26 2019 - 13:41:25 CDT)
HEMANTH H
- Re: Writing DCD files using animate (Sat May 23 2020 - 10:28:54 CDT)
- Re: Writing DCD files using animate (Sat May 23 2020 - 07:27:08 CDT)
- Writing DCD files using animate (Thu May 21 2020 - 00:18:46 CDT)
HEMANTH H 18310019
- Calculation of gofr for non-orthorhombic boxes (Tue Jan 01 2019 - 02:55:14 CST)
Hemanth Vemuri
- pbc wrap + within VS pbwithin (Wed Jun 21 2017 - 14:08:08 CDT)
Hendrik SchrÃ¶der
- Peptides with Linkage between N-Terminus and Side Chain (Tue Apr 07 2020 - 13:17:07 CDT)
henri mone
- Sasa implentation/ algorithm VMD (Thu Jul 01 2010 - 17:19:06 CDT)
Henrik Hariman
- Pbc box on, default (Wed Feb 03 2021 - 12:42:28 CST)
- catdcd (Thu Oct 24 2019 - 22:34:12 CDT)
Henrique Fernandes
- Re: Use VMD to produce images and videos to sell (Wed Oct 19 2022 - 12:22:19 CDT)
- Use VMD to produce images and videos to sell (Sun Oct 16 2022 - 10:02:52 CDT)
Henry Yuen
- Tachyon doesn't take into account ColorID (Mon Jul 30 2007 - 12:54:13 CDT)
Herald Delis
- Flying metal ion in QWIKMD ( NAMD/ORCA) QM/MM (Sat Aug 07 2021 - 14:01:27 CDT)
Herbert Georg
- quality rendering (Wed Jul 13 2005 - 15:27:44 CDT)
- Re: multistructure XYZ (Thu Oct 28 2004 - 16:11:31 CDT)
- Re: multistructure XYZ (Thu Oct 28 2004 - 15:50:12 CDT)
- Re: multistructure XYZ (Thu Oct 28 2004 - 15:46:59 CDT)
- multistructure XYZ (Thu Oct 28 2004 - 14:52:58 CDT)
Hernán Alonso
- Volume coloring problems (Tue May 24 2005 - 03:44:48 CDT)
Heshe Peshkin
- (no subject) (Tue Jun 29 2004 - 14:58:01 CDT)
Hess, Bret
- Changing color of a given atom (Mon Oct 11 2004 - 18:31:03 CDT)
- Specifying distances for bond cutoffs? (Mon Oct 11 2004 - 18:24:06 CDT)
- Where can I read the specifications on molecular file formats? (Wed Feb 11 2004 - 22:46:17 CST)
hgkrug1_at_gmail.com
- QwikMD QM Tut - FATAL ERROR: Error running command for QM forces calculation (Mon Sep 12 2022 - 08:38:15 CDT)
- QwikMD QM Tut - FATAL ERROR: Error running command for QM forces calculation (Fri Sep 09 2022 - 03:46:55 CDT)
- QwikMD QM Tut - FATAL ERROR: Error running command for QM forces calculation (Fri Sep 09 2022 - 02:31:37 CDT)
- QwikMD QM Tut - FATAL ERROR: Error running command for QM forces calculation (Tue Sep 06 2022 - 10:30:58 CDT)
Hideki Hatanaka
- Re: Question: Cannot input hostname (LINUXAMD64.opengl) (Fri Jan 27 2006 - 10:42:52 CST)
Hideya Nakamura
- making .psf file based on .gro or .pdb (Tue Feb 17 2009 - 18:19:18 CST)
- How to install the inorganicbuilder on Windows vista (Thu Jan 29 2009 - 19:41:45 CST)
Hideya Nakamura via LinkedIn
- Invitation to connect on LinkedIn (Wed Aug 31 2011 - 19:22:00 CDT)
Hideyuki Miyatake
- Re: .str file generation of nitrile group containing ligands (Fri Sep 27 2024 - 06:59:30 CDT)
- Re: .str file generation of nitrile group containing ligands (Wed Sep 25 2024 - 21:14:12 CDT)
- .str file generation of nitrile group containing ligands (Tue Sep 24 2024 - 20:55:26 CDT)
- Angle parameters (Sat Dec 11 2021 - 22:59:50 CST)
- Re: L-DOPA and non-natural amino acids incorporation (Mon Dec 06 2021 - 04:30:50 CST)
- L-DOPA and non-natural amino acids incorporation (Sat Dec 04 2021 - 06:00:11 CST)
- L-DOPA incorporation (Sat Dec 04 2021 - 04:25:59 CST)
- Re: How can I incorporate non-natural amino acids into proteins? (Tue Nov 30 2021 - 21:59:13 CST)
- How can I incorporate non-natural amino acids into proteins? (Tue Nov 30 2021 - 20:15:05 CST)
hifiber7_at_compuserve.com
- AD:Family Reunion T Shirts & More (Sat Feb 19 2000 - 11:12:59 CST)
- AD:Family Reunion T Shirts & More (Sat Feb 12 2000 - 02:20:20 CST)
Him Bandhu Upadhyay
- RE: Editing in Molefacture plugin by importing pdb file (Thu Jan 17 2013 - 11:49:41 CST)
- Editing in Molefacture plugin by importing pdb file (Thu Jan 17 2013 - 10:36:52 CST)
- RE: Application Error message during dihedral optimization using FFTK (Fri Oct 19 2012 - 08:48:47 CDT)
- Application Error message during dihedral optimization using FFTK (Thu Oct 18 2012 - 21:53:45 CDT)
- RE: Error message -" cannot find NAMD binary files" during parameterization using FFTK plugin. (Thu Oct 11 2012 - 15:02:16 CDT)
- RE: Error message -" cannot find NAMD binary files" during parameterization using FFTK plugin. (Thu Oct 11 2012 - 14:43:10 CDT)
- Error message -" cannot find NAMD binary files" during parameterization using FFTK plugin. (Thu Oct 11 2012 - 12:41:59 CDT)
- RE: question about fftk (Tue Oct 02 2012 - 14:55:30 CDT)
- RE: question about fftk (Tue Oct 02 2012 - 14:16:53 CDT)
- writing Gaussian input files in FFTK ..... (Mon Oct 01 2012 - 12:40:44 CDT)
- Re: High Bound charge values missing during charge optimization in FFTK (Fri Sep 28 2012 - 09:42:57 CDT)
- High Bound charge values missing during charge optimization in FFTK (Wed Sep 26 2012 - 22:32:44 CDT)
- RE: Regarding the latest VMD 1.9.2.alpha builds from BioCoRE (Tue Sep 04 2012 - 15:59:30 CDT)
- RE: Regarding the latest VMD 1.9.2.alpha builds from BioCoRE (Fri Aug 24 2012 - 15:41:13 CDT)
- RE: Regarding the latest VMD 1.9.2.alpha builds from BioCoRE (Thu Aug 23 2012 - 22:47:39 CDT)
- RE: Regarding the latest VMD 1.9.2.alpha builds from BioCoRE (Thu Aug 23 2012 - 22:44:30 CDT)
- Regarding the latest VMD 1.9.2.alpha builds from BioCoRE (Thu Aug 23 2012 - 21:01:05 CDT)
- Charmm FF parameter file for 2-hydroxypyridine (Tue Jul 24 2012 - 13:10:30 CDT)
himanshu chandola
- multiple id's (Mon Jan 19 2004 - 15:44:29 CST)
- Re: Naming in XmGrace (Tue Nov 18 2003 - 20:09:09 CST)
- uninitialized coordinates (Tue Nov 11 2003 - 17:58:45 CST)
Himanshu Joshi
- Hydrogen Bond Calculation in VMD for DNA in VMD (Tue Oct 29 2013 - 02:16:11 CDT)
- Re: Volarea (Mon Oct 21 2013 - 07:17:05 CDT)
- Re: Volarea (Fri Oct 18 2013 - 12:09:06 CDT)
- Volarea (Fri Oct 18 2013 - 07:44:40 CDT)
Himanshu Khandelia
- Visualization in 3-D using NVIDIA quaddro (Wed Apr 09 2008 - 05:27:18 CDT)
- Re: Problem with bigdcd (Fri Oct 19 2007 - 12:25:56 CDT)
- Re: error while generating a tetramer using transformation matrix (Wed Jun 27 2007 - 04:00:50 CDT)
- Re: changing certain dihedral angles while keeping rest of molecule fixed (Wed Jun 06 2007 - 10:02:54 CDT)
- changing certain dihedral angles while keeping rest of molecule fixed (Wed Jun 06 2007 - 04:37:01 CDT)
- Re: Move labels (Thu May 24 2007 - 06:19:25 CDT)
- Re: problem using bigdcd.tcl script does not run beyond the first frame no error reported (Mon May 07 2007 - 10:25:56 CDT)
- problem using bigdcd.tcl script does not run beyond the first frame no error reported (Mon May 07 2007 - 04:42:10 CDT)
- Re: aligning one molecule (Wed Feb 14 2007 - 17:30:18 CST)
- too large an area/lipid in POPE bilayers using membrane plugin (Mon Feb 05 2007 - 11:50:04 CST)
- wildcards in atomselect command (Fri Jan 26 2007 - 05:47:02 CST)
- how to run membrane.tcl from user-defined location ? (Wed Jan 24 2007 - 05:54:51 CST)
- Re: H-bond energy (Fri Jan 19 2007 - 07:41:54 CST)
- rotation to align (Fri Jan 19 2007 - 05:41:31 CST)
- renumbering residues after deletion of atoms (Thu Jan 18 2007 - 09:55:07 CST)
- how to read in a multi-segment psf/pdb pair into vmd (Wed Jan 17 2007 - 05:49:13 CST)
- problem writing correct format psf file from vmd tk-console (Wed Jan 17 2007 - 05:43:06 CST)
hinsen_at_dsm-mail.saclay.cea.fr
- Re: handling electron density maps (.mrc and .map files) (Sun Dec 19 2004 - 03:04:09 CST)
hinsen_at_llb.saclay.cea.fr
- Re: python2.3 and vmd (Wed Oct 27 2004 - 11:43:43 CDT)
- Re: python2.3 and vmd (Wed Oct 27 2004 - 11:36:35 CDT)
- Re: python2.3 and vmd (Wed Oct 27 2004 - 11:17:40 CDT)
- Re: python2.3 and vmd (Tue Oct 26 2004 - 11:07:07 CDT)
- Re: python2.3 and vmd (Sun Oct 24 2004 - 03:47:15 CDT)
- Re: Defining graphics colors (Thu Sep 30 2004 - 03:34:26 CDT)
- Re: Defining graphics colors (Wed Sep 29 2004 - 16:02:31 CDT)
- Re: Defining graphics colors (Wed Sep 29 2004 - 11:57:34 CDT)
- Re: Defining graphics colors (Wed Sep 29 2004 - 03:45:18 CDT)
- Defining graphics colors (Tue Sep 28 2004 - 12:15:05 CDT)
HIRA BATOOL
- Unit of RMSF calculated by measure (Sat Dec 14 2013 - 05:30:17 CST)
hirak chatterjee
- Re: How to read Scattered Volume Data (Sat Jan 14 2017 - 00:05:10 CST)
- How to read Scattered Volume Data (Fri Jan 13 2017 - 23:52:28 CST)
hirdesh kumar
- Query regarding RMSD calculcation (Tue Oct 05 2010 - 00:50:32 CDT)
- Solvent accessible surface area change during MD run (Tue Sep 28 2010 - 04:54:14 CDT)
- Re: Hydrogen bond angle (Fri Aug 27 2010 - 23:25:21 CDT)
- Hydrogen bond angle (Fri Aug 27 2010 - 08:19:29 CDT)
- Re: Structure won't move after loading trajectory (Tue Aug 24 2010 - 23:38:00 CDT)
- Re: RMSF calculation: residue wise (Sat Aug 21 2010 - 06:03:46 CDT)
- Re: RMSF calculation: residue wise (Fri Aug 20 2010 - 13:30:42 CDT)
- RMSF calculation: residue wise (Fri Aug 20 2010 - 11:22:55 CDT)
- Loading Problem (Thu Jul 03 2008 - 06:27:44 CDT)
Hiroyuki Maeshima
- Drawing of bonds while trajectory animation. (Thu Sep 18 2003 - 07:53:17 CDT)
Hirsh Nanda
- Re: compiling VMD on mac (Tue Apr 26 2005 - 14:17:32 CDT)
Hitesh Patel
- Re: how to center protein? (Tue Apr 24 2012 - 11:34:00 CDT)
- Desmond Trajectory Files on the fly in VMD (Tue Mar 13 2012 - 05:13:34 CDT)
- Configure VMD while GROMACS Installation (Tue Feb 07 2012 - 03:39:30 CST)
- Re: RE : PCA of desmond trajectories (Wed Feb 01 2012 - 10:26:44 CST)
- PCA of desmond trajectories (Wed Feb 01 2012 - 09:29:15 CST)
- Re: pbc wrap (Mon Nov 14 2011 - 11:09:41 CST)
- Re: pbc wrap (Mon Nov 14 2011 - 10:17:12 CST)
- pbc wrap (Mon Nov 14 2011 - 08:48:42 CST)
- water bridged H-bond calculation (Thu Oct 06 2011 - 07:17:26 CDT)
- Re: define water cavity using atom selection in graphical representations window (Tue Sep 06 2011 - 04:20:35 CDT)
- Hbonds for a specific frame (Tue Aug 30 2011 - 11:47:23 CDT)
Hitoshi Nejo
- ftp failed (Fri Aug 23 2002 - 02:14:23 CDT)
hkhandel_at_memphys.sdu.dk
- problem with near clip (Fri Dec 01 2006 - 09:26:29 CST)
- problems with large structures (Fri Dec 01 2006 - 09:24:57 CST)
hl332_at_drexel.edu
- absolute C.O.M motion calculation script: help (Wed May 16 2007 - 11:06:45 CDT)
- help for modification into a small tcl script (Tue May 15 2007 - 10:32:17 CDT)
- Re: 'SURF' representation problem (Thu Mar 29 2007 - 18:09:43 CDT)
- 'SURF' representation problem (Thu Mar 29 2007 - 16:04:02 CDT)
- Re: unusual residue type problem.. (Tue Mar 06 2007 - 14:24:17 CST)
- unusual residue type problem.. (Tue Mar 06 2007 - 11:38:08 CST)
- small query... (Fri Aug 18 2006 - 11:17:25 CDT)
- third time..can someone help!! (Tue Jul 11 2006 - 22:09:41 CDT)
- autoionize plugin.. (Mon Jul 10 2006 - 11:38:16 CDT)
Hoang, Oanh Tu
- Constant pH MD with NAMD (Wed Jul 19 2023 - 08:15:22 CDT)
- Cartoon representation in VMD with amber netcd file (Fri May 05 2023 - 05:41:15 CDT)
Hoch,Jeffrey
- Stationary labels; delays ("wait") in scripts (Thu Feb 19 2004 - 06:40:59 CST)
HOCHEOL LIM
- Heme PSF file generation and hydrogen peroxide parameter files (Thu Dec 13 2018 - 01:13:53 CST)
- Free Energy Perturbation Analysis using VMD (Thu Dec 13 2018 - 01:24:02 CST)
Hocine el khaoudi enyoury
- PCA/NMA/Secondary structure analysis with bigdcd (Tue Jan 17 2023 - 03:53:21 CST)
- Vmd Hardware Requirements long MD visual/analysis (Mon Jan 16 2023 - 07:27:18 CST)
Hoda Shirzad
- visualising the bonds which indicated by "connect" order in pdb files (Sat Nov 02 2019 - 00:43:18 CDT)
hodak_at_chips.ncsu.edu
- printing timeline window with axes (Mon Aug 13 2007 - 22:07:27 CDT)
- RE: Uncharged terminal ends? (Tue Nov 29 2005 - 03:22:05 CST)
- RE: Uncharged terminal ends? (Tue Nov 22 2005 - 06:16:44 CST)
- RE: Uncharged terminal ends? (Tue Nov 22 2005 - 05:13:43 CST)
- RE: Uncharged terminal ends? (Tue Nov 22 2005 - 04:40:25 CST)
- RE: Uncharged terminal ends? (Tue Nov 22 2005 - 04:16:55 CST)
- RE: Uncharged terminal ends? (Tue Nov 22 2005 - 04:00:00 CST)
- Re: Uncharged terminal ends? (Tue Nov 22 2005 - 03:18:06 CST)
- Re: Uncharged terminal ends? (Mon Nov 21 2005 - 02:19:10 CST)
- Uncharged terminal ends? (Fri Nov 18 2005 - 17:41:13 CST)
Hojjat Behmadi
- Drawing a vector for each particle's velocity (Tue Apr 14 2015 - 13:04:42 CDT)
- velocity arrow and calculation (Tue Apr 14 2015 - 13:02:01 CDT)
Holden Ranz
- unable to load .xtc files on VMD 1.8.7 (Wed Aug 21 2013 - 16:18:50 CDT)
Holger Frauenrath
- Re: MacOS X VMD 1.8 alpha 16 "bundle" test version... (Thu Jul 04 2002 - 11:11:11 CDT)
Holger Scheib
- Quality of color scale bar when creating images for publication (Sat Aug 24 2013 - 02:44:47 CDT)
Holland J.O.
- No file upon rendering (Mon Aug 10 2020 - 06:22:06 CDT)
hongphuc nguyen
- unable to load Amber trajectories to visualize-Coordinate I/O rate 0 frames/sec, 0 MB/sec, 32.4 sec -Please help (Wed Oct 05 2011 - 03:30:58 CDT)
- I can't not see my post in Archive list (Sat Sep 17 2011 - 22:52:58 CDT)
- Re: can not compile VMD plugin (Wed Jun 22 2011 - 22:48:34 CDT)
- can not compile VMD plugin (Wed Jun 22 2011 - 22:15:55 CDT)
- can not import Hessian/charge from single point calculation (Tue Jun 21 2011 - 03:14:15 CDT)
HongTham
- measure Hbond and orient (with vec {0 0 1}) of a selected molecule (Thu Apr 24 2014 - 19:51:51 CDT)
hori koshii
- saltbr# vs. frames (Mon Jul 23 2007 - 06:50:10 CDT)
- RMSD of different molecules (Thu Jul 05 2007 - 20:50:56 CDT)
- command line dcd to trr? (Thu Jul 05 2007 - 20:46:14 CDT)
- Load last frame of dcd on TKconsole (how?) (Sat Dec 30 2006 - 19:20:00 CST)
- psf for already hydrogen-added structure (Thu Jul 20 2006 - 15:09:14 CDT)
horst_at_lillig.de
- Numerical data from electrostatic calculations (Fri Mar 17 2017 - 02:53:37 CDT)
hosein geraili
- measuring all the bonds and angles in /Tcl (Tue Sep 25 2018 - 14:48:52 CDT)
Hot or Not
- â˜… vmd-l@ks.uiuc.edu., Parth left a message for you (Mon Sep 16 2013 - 22:51:51 CDT)
HOUSTON Douglas
- Solvation in mixed solvent (Thu Apr 30 2020 - 06:17:23 CDT)
Hovakim Grabski
- VMD shows there's a H-BOND between Carbon and Hydrogen? (Sat Jun 29 2013 - 05:47:02 CDT)
Hu Zhonghan
- Re: the console window is automatically closed without any error messages (Thu Sep 06 2007 - 12:31:54 CDT)
- the console window is automatically closed without any error messages (Thu Sep 06 2007 - 10:05:15 CDT)
Hu Zhongqiao
- where is option "Image Smoothing"? (Wed Jul 26 2006 - 00:30:07 CDT)
Hu, Xiaohua
- about superimposing by VMD (Wed May 07 2003 - 13:36:47 CDT)
Hua Wong
- word too long (Wed Jun 16 2004 - 03:40:48 CDT)
- Help about Contact Map plugin. Still puzzled by atom selection. (Thu May 27 2004 - 04:05:56 CDT)
- Help about Contact Map plugin (Tue May 18 2004 - 07:23:24 CDT)
Huaer XC
- Solvate plugin (Wed Apr 27 2005 - 01:28:28 CDT)
- Re: only vmd console (Tue Apr 12 2005 - 21:37:29 CDT)
- Re: only vmd console (Mon Apr 11 2005 - 13:32:49 CDT)
- Re: only vmd console (Sun Apr 10 2005 - 16:40:31 CDT)
- How to remove "Lable" (Thu Apr 07 2005 - 14:46:38 CDT)
huaer_at_myway.com
- Re: Install VMD on Mandrake Linux (Wed Apr 06 2005 - 11:06:26 CDT)
- Install VMD on Mandrake Linux (Wed Apr 06 2005 - 10:37:34 CDT)
- Re: vmd movie maker (Wed Apr 06 2005 - 00:27:28 CDT)
- vmd movie maker (Sat Apr 02 2005 - 17:35:30 CST)
Huang, Caleb
- Generating single amino acid using PSFGEN (Fri Dec 02 2022 - 16:23:54 CST)
- Atomselect entire water molecule using pbwithin (Fri Nov 11 2022 - 14:51:53 CST)
- atomselect for interacting hydroxyl groups (Tue Aug 16 2022 - 11:36:40 CDT)
Huebert, David Nicolas
- Issue running vmd and tk commands on my computer through script (Wed Feb 02 2022 - 00:19:31 CST)
Huertas, Jan
- (no subject) (Wed Jul 06 2022 - 12:04:35 CDT)
Hugh Ferrel Bowen
- vmd problem: session ended (Thu Apr 26 2007 - 08:46:01 CDT)
Hugh Martin
- Re: Installation issue (Tue Apr 28 2009 - 09:39:29 CDT)
- Installation issue (Tue Apr 28 2009 - 08:09:04 CDT)
Hugo Gutierrez de Teran
- Re: monomer transposes boundary box (Tue May 25 2010 - 08:25:37 CDT)
- Re: monomer transposes boundary box (Tue May 25 2010 - 08:51:26 CDT)
Hugo Gutiérrez de Teran
- monomer transposes boundary box (Tue May 25 2010 - 06:48:04 CDT)
Hugo Santos Silva
- Re: topotools addbond and retypeimpropers commands (Sat Feb 21 2015 - 15:25:49 CST)
- topotools addbond and retypeimpropers commands (Thu Feb 19 2015 - 19:22:44 CST)
Hui WEI
- about docking with VMD (Tue Jul 19 2011 - 16:37:36 CDT)
Hui-Hsu Tsai
- printing real 3D model using z-printer (Thu Feb 24 2005 - 14:38:04 CST)
- Re: Solvent accessible area/Radii definition (Thu Dec 16 2004 - 15:44:26 CST)
Huinink, H.P.
- polyhedra / based on atom selection (Thu Jul 02 2015 - 04:31:52 CDT)
Huixi Violet Zhang
- vmd invalid connection error when launched (Tue Dec 04 2012 - 14:48:01 CST)
HuiZhe Li
- Re: install 1.8.3 on RHEL4 (Fri Mar 18 2005 - 10:38:30 CST)
- Re: install 1.8.3 on RHEL4 (Fri Mar 18 2005 - 03:00:00 CST)
- Re: install 1.8.3 on RHEL4 (Fri Mar 18 2005 - 02:51:05 CST)
- install 1.8.3 on RHEL4 (Thu Mar 17 2005 - 13:23:15 CST)
Hunter Brown
- Movies in VMD (Wed Jul 10 2013 - 13:22:41 CDT)
- Trouble with the mergepdbs.tcl script (Wed Jul 03 2013 - 09:56:51 CDT)
Huong Vu
- convert dcd file to xyz (Wed Oct 02 2013 - 12:21:04 CDT)
Hurt, Darrell (NIH/NIAID) [E]
- Re: 3-d printing of vmd scenes (Wed May 28 2014 - 15:04:24 CDT)
- Re: 3-d printing of vmd scenes (Wed May 28 2014 - 15:11:38 CDT)
- Re: 3-d printing of vmd scenes (Mon May 19 2014 - 09:49:56 CDT)
- Re: Clustering MD trajectories (Fri Sep 16 2011 - 10:17:54 CDT)
- Re: shades of licorice representation (Tue Jul 19 2011 - 15:24:26 CDT)
- Re: shades of licorice representation (Tue Jul 19 2011 - 14:24:42 CDT)
- Re: Helix motions (Mon Feb 07 2011 - 06:54:08 CST)
- Re: RMSD and PSF generation (Tue Dec 21 2010 - 11:18:00 CST)
- Re: Hydrogen bonds plugin obscures charged atoms -- help! (Thu Apr 08 2010 - 15:32:18 CDT)
- Hydrogen bonds plugin obscures charged atoms -- help! (Thu Apr 08 2010 - 11:48:39 CDT)
Hwankyu Lee
- Re: question about "measure dihed" with COM points (Wed Feb 25 2009 - 14:55:39 CST)
Hyonseok Hwang
- making a movie (Thu Oct 13 2005 - 00:13:21 CDT)
- Re: wrong bond and bond breaking (Fri Apr 15 2005 - 12:24:00 CDT)
- wrong bond and bond breaking (Fri Apr 15 2005 - 11:14:43 CDT)
- question on ion size (Mon Nov 01 2004 - 17:53:29 CST)
Hyun
- Re: color gradient based on the sequence (Thu Feb 12 2015 - 17:15:10 CST)
- color gradient based on the sequence (Thu Feb 12 2015 - 13:41:01 CST)
Hyun Tae Jung
- radial distribution function problem (Wed May 26 2010 - 08:42:48 CDT)
Hyundeok Song
- Re: VMD HOLE Result (Tue Jun 02 2009 - 14:05:59 CDT)
- VMD HOLE Result (Tue Jun 02 2009 - 08:49:20 CDT)
Hyunjin Kim
- I can not see "Edit Entry" window. (Tue May 05 2015 - 12:47:02 CDT)
- Re: Error on fftk while optimizing bonded parameters (Mon May 04 2015 - 13:49:06 CDT)
- Re: Error on fftk while optimizing bonded parameters (Mon May 04 2015 - 11:37:38 CDT)
- Error on fftk while optimizing bonded parameters (Sun May 03 2015 - 02:55:11 CDT)
hzf101_at_psu.edu
- Failure to open PDB files (Mon Aug 25 2008 - 13:12:52 CDT)
Hélder Bandarra Tavares
- Re: Fixed atoms (Wed Jun 10 2020 - 05:55:09 CDT)
- Fixed atoms (Tue Jun 09 2020 - 09:35:48 CDT)
- Fixed atoms question (Mon Jun 08 2020 - 12:51:07 CDT)
- Re: How to determine a molecule's conformation in solution (Tue Jun 02 2020 - 04:39:16 CDT)
- Re: How to determine a molecule's conformation in solution (Mon Jun 01 2020 - 11:24:27 CDT)
- How to determine a molecule's conformation in solution (Mon Jun 01 2020 - 11:00:09 CDT)
- Re: Extrabonds issue (Mon Jun 01 2020 - 08:31:51 CDT)
- Extrabonds issue (Wed May 27 2020 - 05:19:12 CDT)
- Re: Issues generating a .psf file (Tue May 26 2020 - 10:14:44 CDT)
- Issues generating a .psf file (Tue May 26 2020 - 08:47:56 CDT)
- Issues using AutoPSF (Tue May 26 2020 - 08:59:08 CDT)
- Create covalent bonds between 2 atoms via Tk console (Mon May 25 2020 - 09:29:15 CDT)
Höfling Martin
- External renderer not rendering colors from volumetric data (Wed Mar 25 2009 - 08:34:24 CDT)
I. Camps
- Re: << Using CPK/Rasmol color scheme >> (Wed Nov 13 2024 - 11:35:29 CST)
- << Using CPK/Rasmol color scheme >> (Mon Nov 11 2024 - 15:25:49 CST)
- << Hbonds distances >> (Fri Jan 05 2024 - 14:06:06 CST)
- Re: << Centering/aligning several molecules >> (Fri Dec 30 2022 - 14:43:28 CST)
- << Centering/aligning several molecules >> (Thu Dec 29 2022 - 13:26:04 CST)
- Re: << thresholds for drawing bonds >> (Tue Dec 27 2022 - 14:54:19 CST)
- << thresholds for drawing bonds >> (Wed Dec 21 2022 - 13:49:48 CST)
- Re: << multiple atom selection >> (Sat Jul 23 2022 - 16:48:32 CDT)
- << multiple atom selection >> (Sat Jul 23 2022 - 11:13:55 CDT)
- << memory issue? >> (Wed Mar 30 2022 - 20:04:47 CDT)
- Re: << Different values of RMSD >> (Sat Aug 31 2019 - 21:32:53 CDT)
- << Different values of RMSD >> (Thu Aug 29 2019 - 12:39:09 CDT)
- Re: << Loading trajectory file in Windows fails >> (Thu Aug 29 2019 - 12:40:22 CDT)
- << Loading trajectory file in Windows fails >> (Wed Aug 28 2019 - 07:39:34 CDT)
iamcool777able .
- VMD Segfault Fedora 27 (Tue Mar 06 2018 - 13:12:01 CST)
Ian
- Problem writing trajectory to "crd" (Amber) format? (Wed Jul 16 2008 - 04:43:24 CDT)
Ian Stokes-Rees
- Clarification on solvent box sizing (Wed Sep 22 2010 - 14:42:30 CDT)
- Re: where can I download Tachyon version 0.98.10 ? (Mon Aug 16 2010 - 12:03:30 CDT)
- Re: Interpreting a contact map (Fri Aug 13 2010 - 16:11:29 CDT)
- Re: VMD questions about animating residue distance lines and contact maps (Fri Aug 13 2010 - 10:30:15 CDT)
- Interpreting a contact map (Thu Aug 12 2010 - 16:17:12 CDT)
- VMD questions about animating residue distance lines and contact maps (Thu Aug 12 2010 - 15:56:18 CDT)
- Re: multiseq/stamp alignment of coiled coil bundle and homo-dimer (Fri Jul 30 2010 - 13:14:47 CDT)
- Re: multiseq/stamp alignment of coiled coil bundle and homo-dimer (Tue Jul 27 2010 - 16:54:53 CDT)
- multiseq/stamp alignment of coiled coil bundle and homo-dimer (Tue Jul 27 2010 - 14:37:02 CDT)
- Re: PC suitable for visualisation of large systems, maximum namuber of atoms in a .pdb file (Wed Jul 21 2010 - 12:20:56 CDT)
- Re: PC suitable for visualisation of large systems, maximum namuber of atoms in a .pdb file (Wed Jul 21 2010 - 07:07:51 CDT)
- Re: VMD failure of RMSD Traj Tool, time index on each rendered frame, and crash (Tue Jul 20 2010 - 11:00:11 CDT)
- Re: compilation of vmd 1.8.7 source (Tue Jul 20 2010 - 10:07:45 CDT)
- VMD failure of RMSD Traj Tool, time index on each rendered frame, and crash (Mon Jul 19 2010 - 12:10:16 CDT)
- Adding other online PDB data bases to VMD (Fri Jul 16 2010 - 18:46:31 CDT)
- Re: Building VMD on OS X 10.6 with Python and CUDA support (Fri Jul 16 2010 - 02:41:24 CDT)
- Re: Building VMD on OS X 10.6 with Python and CUDA support (Fri Jul 16 2010 - 02:24:38 CDT)
- Building VMD on OS X 10.6 with Python and CUDA support (Thu Jul 15 2010 - 22:44:34 CDT)
ianboru_at_email.arizona.edu
- Protein coordinate rotation (Fri Sep 05 2008 - 12:40:48 CDT)
IBC strbio
- ied.py : tk.h version (8.3) doesn't match libtk.a version (8.4) (Wed May 18 2005 - 05:38:02 CDT)
Ibrahim Dunga
- Confidential (Fri May 14 2004 - 07:37:05 CDT)
Ibrahim Moustafa
- Re: vmd-l digest V1 #1086 (Wed Jun 11 2008 - 11:27:48 CDT)
Ignacio FernÃ¡ndez GalvÃ¡n
- Re: Invalid repid? (Fri Dec 16 2016 - 08:53:42 CST)
- Invalid repid? (Tue Dec 06 2016 - 11:49:47 CST)
- Re: Locked files in Windows 7 (Thu Sep 22 2011 - 11:48:23 CDT)
Ignacio Fernández Galván
- Gromacs index file (Wed Dec 19 2012 - 03:01:58 CST)
- Locked files in Windows 7 (Thu Sep 22 2011 - 06:08:13 CDT)
- Re: Molden format plugin (Thu Mar 17 2011 - 13:33:50 CDT)
- Molden format plugin (Thu Mar 17 2011 - 11:12:33 CDT)
- Re: atom selection in vmd (Wed Nov 17 2010 - 12:30:59 CST)
- Re: 3D protein visualization (Tue Nov 09 2010 - 03:05:03 CST)
- Algorithm for RMSD and alignment (Tue Oct 26 2010 - 11:47:18 CDT)
- Re: H-bond life time (Wed Sep 15 2010 - 07:24:14 CDT)
- Re: Reading output of quantum packages and plotting orbitals (Fri Oct 23 2009 - 09:29:32 CDT)
- Re: Reading output of quantum packages and plotting orbitals (Fri Oct 23 2009 - 03:29:22 CDT)
- Re: Reading output of quantum packages and plotting orbitals (Fri Oct 02 2009 - 03:01:36 CDT)
- Reading output of quantum packages and plotting orbitals (Wed Sep 30 2009 - 11:57:35 CDT)
- Re: Selecting the sides of a benzene ring (Wed Jul 30 2008 - 02:24:58 CDT)
- Re: Selecting the sides of a benzene ring (Wed Jul 23 2008 - 02:39:23 CDT)
- Selecting the sides of a benzene ring (Tue Jul 22 2008 - 06:30:21 CDT)
- Re: Dipole moment? (Tue Jul 15 2008 - 09:52:07 CDT)
- Re: How to visualize iron and chlorine properly. (Tue Jun 24 2008 - 03:25:40 CDT)
- Volume slice color scale (Fri Jun 20 2008 - 04:15:39 CDT)
- Re: About occupancy volume maps (Thu Jun 19 2008 - 02:43:11 CDT)
- About occupancy volume maps (Fri Jun 13 2008 - 05:40:17 CDT)
- Re: GLSL lost (Tue Mar 18 2008 - 04:59:41 CDT)
- GLSL lost (Mon Mar 17 2008 - 12:17:21 CDT)
- Using RMSDTT in a script and aligning volume data (Fri Mar 07 2008 - 03:35:55 CST)
- Volume data formats (Thu Feb 14 2008 - 11:58:40 CST)
- Viewing molden grid files (Fri Dec 21 2007 - 03:14:46 CST)
- Re: CMYK (Wed Oct 31 2007 - 06:28:02 CDT)
- Video card query (Thu Jul 05 2007 - 02:34:12 CDT)
- Re: Text/Labels on ray tracing external renderer (Wed Jun 27 2007 - 02:07:23 CDT)
- Variable number of atoms in xyz file (Tue Apr 24 2007 - 02:58:20 CDT)
- Changing the display window size in a script (Fri Feb 09 2007 - 02:37:02 CST)
- Re: Units for Measure Dipole (Tue Feb 06 2007 - 03:50:06 CST)
- Adding bonds in a script (Thu Sep 28 2006 - 04:08:08 CDT)
- Re: Labels not appearing with "load state" (Mon Sep 11 2006 - 02:28:23 CDT)
- Labels not appearing with "load state" (Fri Sep 08 2006 - 07:59:07 CDT)
- Dynamic bond calculation (Tue Aug 29 2006 - 02:49:30 CDT)
- Selections in periodic boxes (Thu Feb 16 2006 - 05:24:07 CST)
Ignacio Irurzun
- (no subject) (Wed Sep 11 2013 - 13:50:22 CDT)
Ignacio Rodriguez Fernandez
- sball.h not found (Sat Jun 25 2005 - 08:47:16 CDT)
Igor Ariz
- writegmxtop error invalid command name "..." (Tue Jan 17 2017 - 03:30:36 CST)
Igor Gordiy
- Could not read file problem (Fri Jul 23 2021 - 04:33:46 CDT)
Igor Leontyev
- Unable to view protein as cartoon or trace or tube (Mon Jan 13 2020 - 03:18:45 CST)
Igor Schapiro
- Export VMD graphics to POV-Ray (Fri Jan 11 2008 - 08:22:13 CST)
- Re: POV-Ray 3.6; VMD Movie Maker; Continuous Render (UNCLASSIFIED) (Fri Jan 11 2008 - 07:23:57 CST)
Ijäs Mari
- Visualizing phonon displacement patterns from axsf format forces? (Sun Oct 21 2012 - 01:46:49 CDT)
ikek70
- How to show 3D images in the display window of VMD (Fri Jun 02 2006 - 11:15:20 CDT)
- simple plugin (Wed May 31 2006 - 15:35:53 CDT)
ILJA Khavrutskii
- Re: vmd 1.8.3 on OS X 10.2.8 (Jaguar) libmx.A.dylib (Mon Jun 20 2005 - 18:26:50 CDT)
- vmd 1.8.3 on OS X 10.2.8 (Jaguar) libmx.A.dylib (Mon Jun 20 2005 - 17:47:47 CDT)
- RE: How to read i8(64 bit) trajectory (.dcd) file with 32 bit VMD (Sun May 23 2004 - 18:51:25 CDT)
- How to read i8(64 bit) .crd file with 32 bit VMD (Sat May 22 2004 - 12:07:23 CDT)
Iman Jeddi
- Convert RNA to DNA (Sat Dec 14 2013 - 11:54:12 CST)
Iman Salehinia
- atoms selection (Sat Feb 19 2011 - 16:33:27 CST)
- Color bar (Thu Aug 20 2009 - 16:46:36 CDT)
- Re: accessing bonds angles dihedrals etc lists after PSF file is read into VMD (Mon Jan 26 2009 - 16:10:39 CST)
- Re: accessing bonds angles dihedrals etc lists after PSF file is read into VMD (Thu Jan 22 2009 - 18:21:59 CST)
- Getting data as vector or matrix (Tue Dec 02 2008 - 00:48:29 CST)
- Camera in VMD!!! (Fri Oct 24 2008 - 23:10:35 CDT)
- change the radius of atoms (Wed Oct 22 2008 - 21:35:36 CDT)
- Selecting some atoms and changing the color of them (Tue Oct 21 2008 - 01:55:03 CDT)
Iman Salehinia via LinkedIn
- Invitation to connect on LinkedIn (Tue Jun 14 2011 - 18:31:13 CDT)
Indrajit Deb
- Re: MDFF chirality restrain error - measure imprp: empty atom index (Wed Apr 01 2020 - 21:24:17 CDT)
- MDFF chirality restrain error - measure imprp: empty atom index (Wed Apr 01 2020 - 15:41:49 CDT)
indu purushothaman
- Problem while installing VMD (Tue Dec 24 2013 - 01:18:38 CST)
INPE (Ingrid Viveka Pettersson)
- Problems with analysis tools (Wed Jun 13 2012 - 07:05:30 CDT)
- Crystal water (Thu May 22 2008 - 04:32:59 CDT)
- output of distances between atoms or coordinates (Thu Sep 20 2007 - 08:27:39 CDT)
Insight II
- what's the unit for color scale data range? (Thu Jul 19 2007 - 15:09:17 CDT)
Inês Sousa
- Transform pdb files in psf files using VMD (Thu Mar 01 2007 - 04:35:44 CST)
Ioana Cozmuta
- extended xyz (Fri May 26 2006 - 10:57:03 CDT)
- Re: xyz files into dcd trajectory (Wed May 24 2006 - 16:11:22 CDT)
- Re: xyz files into dcd trajectory (Wed May 24 2006 - 15:38:54 CDT)
- xyz files into dcd trajectory (Tue May 23 2006 - 18:55:51 CDT)
- two references- I got them, thank you! (Wed Apr 26 2006 - 16:15:11 CDT)
- two references (Wed Apr 26 2006 - 15:18:28 CDT)
- reconstructing PMF (Tue Apr 11 2006 - 16:57:02 CDT)
- force over selection (Wed Mar 22 2006 - 23:51:46 CST)
- Re: large selection (Wed Mar 15 2006 - 23:33:46 CST)
- Re: large selection (Tue Mar 14 2006 - 18:17:46 CST)
- large selection (Tue Mar 14 2006 - 18:00:27 CST)
- Re: Adding Salt to a system (Wed Jun 22 2005 - 20:59:47 CDT)
- Re: VMD 1.8.4 test builds, 32-bit and 64-bit AIX5... (Thu Jun 23 2005 - 17:12:47 CDT)
- Re: VMD 1.8.4 test builds, 32-bit and 64-bit AIX5... (Tue Jun 21 2005 - 21:36:27 CDT)
- Re: VMD 1.8.4 test builds, 32-bit and 64-bit AIX5... (Tue Jun 21 2005 - 17:47:24 CDT)
- script problem (Thu Apr 29 2004 - 23:09:49 CDT)
- coloring selection (Mon Apr 26 2004 - 15:19:25 CDT)
- Re: making ps files (Fri Apr 09 2004 - 17:10:14 CDT)
- making ps files (Thu Apr 08 2004 - 14:55:34 CDT)
- residence time (Tue Mar 23 2004 - 21:51:10 CST)
- entropy calculations (Mon Feb 23 2004 - 17:41:54 CST)
- Rama plot (Fri Feb 20 2004 - 19:48:17 CST)
- (no subject) (Mon Dec 08 2003 - 18:10:49 CST)
- Re: running vmd in batch mode (Thu Nov 06 2003 - 19:19:30 CST)
- running vmd in batch mode (Thu Nov 06 2003 - 15:46:19 CST)
- Re: namd-l: Re: bigdcd (Wed Nov 05 2003 - 18:29:25 CST)
- bigdcd (Wed Nov 05 2003 - 17:00:40 CST)
- bigdcd (Tue Nov 04 2003 - 19:52:51 CST)
- SMD: constant velocity or force pulling? (Thu Oct 30 2003 - 21:02:54 CST)
- aminoacid mutation (Mon Oct 27 2003 - 18:23:58 CST)
- vmd 1.8.1 (Wed Oct 15 2003 - 18:54:58 CDT)
- Re: DCD unit cell data (Wed Oct 15 2003 - 16:40:18 CDT)
- Re: loading crd files into VMD (Wed Oct 15 2003 - 15:48:51 CDT)
- vmd information (Wed Oct 08 2003 - 20:12:20 CDT)
- Re: loading trj file (Fri Sep 12 2003 - 13:58:28 CDT)
- loading trj file (Thu Sep 11 2003 - 18:06:47 CDT)
- question about selection (Thu Sep 04 2003 - 17:10:41 CDT)
- simple question (Tue Sep 02 2003 - 19:05:41 CDT)
- Re: need urgent help (Fri Aug 29 2003 - 23:24:44 CDT)
- Re: reading/writing (Thu Aug 28 2003 - 20:10:53 CDT)
- need urgent help (Thu Aug 28 2003 - 13:04:30 CDT)
- Re: reading/writing (Mon Aug 25 2003 - 19:29:55 CDT)
- reading/writing (Mon Aug 25 2003 - 18:24:27 CDT)
- Re: rgb to mpg (Mon Aug 11 2003 - 13:31:44 CDT)
- Re: rgb to mpg (Fri Aug 08 2003 - 18:56:30 CDT)
- rgb to mpg (Fri Aug 08 2003 - 18:20:49 CDT)
- trajectory animation usign PBC (Wed Aug 06 2003 - 17:33:45 CDT)
- Re: error when making a movie (Wed Aug 06 2003 - 00:53:22 CDT)
- Re: error when making a movie (Tue Aug 05 2003 - 22:32:21 CDT)
- error when making a movie (Tue Aug 05 2003 - 18:04:15 CDT)
- movie making (Tue Aug 05 2003 - 14:09:54 CDT)
- Re: Re: CCL:NAMD failure on Berendsen pressure scheme (Thu Jul 31 2003 - 13:03:24 CDT)
- Re: CCL:NAMD failure on Berendsen pressure scheme (Wed Jul 30 2003 - 11:51:49 CDT)
- selection (Fri Jul 25 2003 - 17:38:46 CDT)
- Re: Re: question on resname (Tue Jul 22 2003 - 21:17:10 CDT)
- Re: question on resname (Tue Jul 22 2003 - 21:03:56 CDT)
- Re: question (Tue Jul 15 2003 - 16:58:45 CDT)
- question (Tue Jul 15 2003 - 16:22:42 CDT)
- question on resname (Mon Jun 23 2003 - 16:16:02 CDT)
- Re: problem in loading dcd file? (Fri May 30 2003 - 19:15:14 CDT)
- Re: problem in loading dcd file? (Fri May 30 2003 - 15:56:08 CDT)
- problem in loading dcd file? (Thu May 29 2003 - 19:53:40 CDT)
- center command (Fri May 23 2003 - 17:02:51 CDT)
- Re: solute + solvent temperature? (Thu May 15 2003 - 18:00:23 CDT)
- configuration file (Tue Apr 29 2003 - 19:41:47 CDT)
- Re: unit cell information (Fri Apr 25 2003 - 15:46:35 CDT)
- unit cell information (Fri Apr 25 2003 - 15:34:41 CDT)
- question about periodicity (Mon Apr 21 2003 - 13:38:49 CDT)
- Re: water box (Thu Apr 10 2003 - 20:05:39 CDT)
- Re: water box (Thu Apr 10 2003 - 19:52:25 CDT)
- water box (Thu Apr 10 2003 - 19:00:42 CDT)
- plotting wave functions (Thu Apr 10 2003 - 18:45:23 CDT)
- support for truncated octahedron (Tue Apr 01 2003 - 17:39:04 CST)
- Re: question on Force (Wed Mar 12 2003 - 14:36:26 CST)
- question on Force (Thu Mar 06 2003 - 21:59:48 CST)
- trajectory/movie (Mon Mar 03 2003 - 17:13:55 CST)
- trajectory movie (Mon Mar 03 2003 - 17:11:02 CST)
- multiple cells representation (Mon Feb 24 2003 - 19:19:32 CST)
- making movie SGI (Fri Feb 21 2003 - 15:28:16 CST)
- aligntool (Thu Feb 13 2003 - 17:43:44 CST)
- Re: rna pdb file (Wed Feb 12 2003 - 16:52:32 CST)
- rna pdb file (Wed Feb 12 2003 - 16:03:29 CST)
- bug? (Fri Jan 17 2003 - 22:08:41 CST)
- Cl ions (Thu Jan 16 2003 - 21:05:34 CST)
- SHAKE/namd (Thu Jan 16 2003 - 20:20:05 CST)
- pdb files in VMD/NAMD TUTORIAL (Wed Jan 15 2003 - 21:52:27 CST)
- solvate option in vmd (Tue Jan 14 2003 - 20:05:46 CST)
- water model (Wed Dec 18 2002 - 19:56:03 CST)
- vmd version 1.8 (Wed Dec 18 2002 - 14:42:20 CST)
- amber trajectory (Tue Dec 17 2002 - 23:15:55 CST)
- pdb format (Fri Dec 13 2002 - 20:23:17 CST)
- unix -vmd (Tue Nov 26 2002 - 17:29:25 CST)
ioana_at_pegasus.arc.nasa.gov
- CMYK images (Thu Jul 28 2005 - 21:13:08 CDT)
- residue numbering TCL versus PDB (Tue Jul 26 2005 - 20:32:08 CDT)
- VMD for ALTIX (Thu Dec 16 2004 - 19:25:51 CST)
- Re: trajectory loading (Tue Nov 02 2004 - 17:42:20 CST)
- trajectory loading (Mon Nov 01 2004 - 22:07:43 CST)
- only show some HBonds (Fri Oct 01 2004 - 20:59:35 CDT)
Irem Altan
- rendering with povray in mac (Thu Jul 21 2016 - 15:04:24 CDT)
- rendering with povray in mac (Thu Jul 21 2016 - 15:25:33 CDT)
- zooming into a chosen atom (Wed Jun 15 2016 - 15:56:29 CDT)
- hiding atoms outside the unit cell (Thu Jun 09 2016 - 10:16:29 CDT)
- Changing molecule number (Mon Feb 08 2016 - 09:02:03 CST)
- loading electron density maps with a script (Wed Feb 03 2016 - 16:02:48 CST)
Irena Tuszyska
- SASA (Mon Aug 08 2005 - 04:17:17 CDT)
Irene Newhouse
- RE: averaged structure (Tue Aug 12 2014 - 12:45:19 CDT)
- RE: vmd 1.9.1 Centos (Thu Jul 26 2012 - 01:24:29 CDT)
- RE: VMD and Centos 6 (Sun Jan 22 2012 - 16:17:15 CST)
- RE: VMD and Centos 6 (Sun Jan 22 2012 - 14:39:16 CST)
- VMD and Centos 6 (Sat Jan 21 2012 - 22:49:47 CST)
- RE: Displaying residues on chain A within X of chain B (Sat Sep 10 2011 - 00:49:34 CDT)
- RE: Displaying residues on chain A within X of chain B (Sat Sep 10 2011 - 00:33:25 CDT)
- RE: Displaying residues on chain A within X of chain B (Fri Sep 09 2011 - 19:54:51 CDT)
- Displaying residues on chain A within X of chain B (Fri Sep 09 2011 - 16:19:18 CDT)
- RE: Protein cavities (Fri May 27 2011 - 16:52:50 CDT)
- RE: pbctools plugin & protein-bound ligand (Wed May 25 2011 - 14:59:59 CDT)
- pbctools plugin & protein-bound ligand (Tue May 24 2011 - 14:36:12 CDT)
- how to mark regions in Multiseq (Mon Mar 28 2011 - 19:35:31 CDT)
- pbctools & Desmond trajectory with protein units 'jumping' into other cells (Mon Jan 10 2011 - 13:22:26 CST)
- RE: missing fragments in molefacture (Wed Dec 01 2010 - 00:16:32 CST)
- missing fragments in molefacture (Mon Nov 29 2010 - 16:08:46 CST)
- RE: catdcd usage with Desmond trajectory (Wed Aug 25 2010 - 15:33:25 CDT)
- RE: catdcd usage with Desmond trajectory (Thu Aug 19 2010 - 22:26:26 CDT)
- catdcd usage with Desmond trajectory (Thu Aug 19 2010 - 16:19:10 CDT)
- Has anyone done ILS successfully? (Wed Jun 02 2010 - 14:39:36 CDT)
- (no subject) (Mon Mar 29 2010 - 15:12:41 CDT)
- RE: wrapping dimer units in a Desmond traj (Thu Mar 18 2010 - 19:43:16 CDT)
- Aligning Desmond Trajectories again (Mon Mar 15 2010 - 15:05:46 CDT)
- RE: running ILS under Windows 7 (Sun Mar 14 2010 - 16:51:20 CDT)
- running ILS under Windows 7 (Sat Mar 13 2010 - 22:32:15 CST)
- RE: Isosurface wraps in PME Electrostatics calc'n (Tue Mar 09 2010 - 15:56:22 CST)
- Isosurface wraps in PME Electrostatics calc'n (Tue Mar 09 2010 - 14:06:02 CST)
- RE: Hbonds calc with residue not in CHARMm (Thu Mar 04 2010 - 12:52:08 CST)
- wrapping dimer units in a Desmond traj (Tue Mar 02 2010 - 13:51:25 CST)
- RE: Hbonds calc with residue not in CHARMm (Sat Feb 27 2010 - 12:17:07 CST)
- RE: Hbonds calc with residue not in CHARMm (Sat Feb 27 2010 - 11:33:43 CST)
- Hbonds calc with residue not in CHARMm (Fri Feb 26 2010 - 14:40:28 CST)
- Probe orientations in ILS (Mon Feb 22 2010 - 13:19:56 CST)
- RE: how to set PBC for ILS (Wed Feb 10 2010 - 16:53:43 CST)
- RE: how to set PBC for ILS (Wed Feb 10 2010 - 17:01:24 CST)
- how to set PBC for ILS (Wed Feb 10 2010 - 16:35:17 CST)
- RE: how long do ILS runs take? (Mon Feb 08 2010 - 16:51:23 CST)
- RE: how long do ILS runs take? (Mon Feb 08 2010 - 14:56:53 CST)
- how long do ILS runs take? (Mon Feb 08 2010 - 14:05:30 CST)
- RE: visualizing APBS output (Wed Jan 20 2010 - 12:26:48 CST)
- RE: visualizing APBS output (Tue Jan 19 2010 - 14:21:33 CST)
- visualizing APBS output (Tue Jan 19 2010 - 13:31:08 CST)
- APBS tutorial link broken (Thu Jan 14 2010 - 17:01:14 CST)
- RE: PME isosurface not superimposed on protein (Mon Jan 11 2010 - 17:17:50 CST)
- PME isosurface not superimposed on protein (Mon Jan 11 2010 - 16:20:50 CST)
- LES problem (Tue Jul 07 2009 - 00:25:20 CDT)
- re: LES problem (Tue Jul 07 2009 - 00:28:21 CDT)
- superimposing proteins based on a few residues (Wed Jul 01 2009 - 15:59:33 CDT)
- RE: Problem in finding the HBonds (Wed Apr 15 2009 - 03:56:52 CDT)
- RE: How to add heme to dowser plugin? (Tue Mar 31 2009 - 16:48:34 CDT)
- RE: How to add heme to dowser plugin? (Mon Mar 30 2009 - 20:39:59 CDT)
- How to add heme to dowser plugin? (Mon Mar 30 2009 - 19:27:01 CDT)
- RE: problem with Dowser (Wed Mar 11 2009 - 00:59:08 CDT)
- RE: problem with Dowser (Sun Mar 08 2009 - 00:55:03 CST)
- problem with Dowser (Sat Mar 07 2009 - 19:50:35 CST)
- RE: (Tue Mar 03 2009 - 15:37:48 CST)
- RE: (Tue Mar 03 2009 - 14:55:11 CST)
- (no subject) (Fri Feb 27 2009 - 14:08:30 CST)
- RE: odd render problems with Vista (Sun Jan 11 2009 - 19:49:29 CST)
- RE: odd render problems with Vista (Sun Jan 11 2009 - 18:20:08 CST)
- RE: odd render problems with Vista (Sun Jan 11 2009 - 18:25:25 CST)
- RE: odd render problems with Vista (Sun Jan 11 2009 - 18:21:59 CST)
- odd render problems with Vista (Sun Jan 11 2009 - 13:26:57 CST)
- RE: need tcl help, please (Fri Nov 21 2008 - 14:36:07 CST)
- need tcl help, please (Fri Nov 21 2008 - 12:57:03 CST)
- H-bond occupancy (Wed Nov 19 2008 - 12:23:58 CST)
- weird behavior with RMSD (Tue Sep 23 2008 - 16:21:02 CDT)
- problems with VMD under linux/64-bit machine (Fri Sep 12 2008 - 15:17:56 CDT)
- problems with autopsf & psfgen (Tue Sep 09 2008 - 13:50:10 CDT)
- RE: Using namdenergy in batch mode to compute dihedral energies (Sun Apr 13 2008 - 11:47:03 CDT)
- RE: Using namdenergy in batch mode to compute dihedral energies (Thu Apr 10 2008 - 21:17:08 CDT)
- Using namdenergy in batch mode to compute dihedral energies (Thu Apr 10 2008 - 15:15:36 CDT)
- RE: script to read dcd frame-at-a-time & write a selection (Tue Mar 25 2008 - 00:11:29 CDT)
- RE: script to read dcd frame-at-a-time & write a selection (Mon Mar 24 2008 - 20:07:20 CDT)
- RE: script to read dcd frame-at-a-time & write a selection (Mon Mar 24 2008 - 20:19:06 CDT)
- RE: script to read dcd frame-at-a-time & write a selection (Mon Mar 24 2008 - 19:26:00 CDT)
- script to read dcd frame-at-a-time & write a selection (Mon Mar 24 2008 - 17:16:39 CDT)
- RE: closewater.tcl (Mon Mar 17 2008 - 18:59:24 CDT)
- RE: closewater.tcl (Mon Mar 17 2008 - 15:50:03 CDT)
- closewater.tcl (Mon Mar 17 2008 - 14:48:37 CDT)
- RE: VMD, NAMDenergy & AMBER parameters (Tue Feb 05 2008 - 12:46:40 CST)
- RE: To create Tetramer (Mon Feb 04 2008 - 17:56:41 CST)
- VMD, NAMDenergy & AMBER parameters (Mon Feb 04 2008 - 17:23:37 CST)
- problems with MDenergy (Wed Jan 30 2008 - 15:06:49 CST)
- RE: re: script hangs when use full dcd file (Fri Jan 25 2008 - 14:56:47 CST)
- re: script hangs when use full dcd file (Fri Jan 25 2008 - 14:14:53 CST)
- problems with a script (Thu Jan 24 2008 - 16:39:40 CST)
- RE: solvate crashes (Thu Nov 22 2007 - 14:25:46 CST)
- solvate crashes (Thu Nov 22 2007 - 04:02:33 CST)
- RE: how to display dcd file written with catdcd using an index file (Tue Oct 30 2007 - 13:30:26 CDT)
- how to display dcd file written with catdcd using an index file (Fri Oct 26 2007 - 14:08:44 CDT)
- RE: problem with rmsd-fullthrottle (Sat Jul 28 2007 - 15:02:54 CDT)
- problem with rmsd-fullthrottle (Fri Jul 27 2007 - 15:16:54 CDT)
- RE: puzzling psfgen problem with deleted atoms coming back (Thu Jul 26 2007 - 17:40:01 CDT)
- RE: residue_rmsd.tcl (Thu Jul 26 2007 - 16:29:55 CDT)
- puzzling psfgen problem with deleted atoms coming back (Fri Jul 13 2007 - 16:47:05 CDT)
- RE: residue_rmsd.tcl (Thu Jul 26 2007 - 16:17:46 CDT)
- residue_rmsd.tcl (Thu Jul 26 2007 - 12:37:51 CDT)
- RE: atoms deleted in patch try to come back (Sun Jul 15 2007 - 18:42:26 CDT)
- RE: atoms deleted in patch try to come back (Sun Jul 15 2007 - 18:37:46 CDT)
- atoms deleted in patch try to come back (Sun Jul 15 2007 - 01:01:48 CDT)
- RE: some principles for building a topology file? (Mon Jul 09 2007 - 22:45:09 CDT)
- some principles for building a topology file? (Mon Jul 09 2007 - 15:27:01 CDT)
Irina Tuszynska
- python (Mon Nov 21 2005 - 11:37:17 CST)
ISHRAT JAHAN
- calculating number of water and osmolytes molecules at particular distance from protein surface. (Wed Jan 30 2019 - 23:09:41 CST)
Ishwar Hosamani
- Re: problems aligning two simillar structures (Tue Mar 26 2013 - 16:21:43 CDT)
Ismail, Mohd F.
- RE: How to disable CUDA in VMD-1.9? (Wed Nov 30 2011 - 22:31:31 CST)
- RE: viewing dcd files (Tue Aug 02 2011 - 23:49:04 CDT)
- RE: Non-cuda version of VMD on Linux? (Sun May 22 2011 - 02:22:23 CDT)
- Non-cuda version of VMD on Linux? (Sat May 21 2011 - 22:02:01 CDT)
Isralewitz, Barry
- Re: VMD 2.0 Segmentation Fault on Ubuntu 24.04 and Containers (Tue Feb 25 2025 - 13:14:06 CST)
- Re: DMARC settings (Tue Feb 04 2025 - 15:03:30 CST)
- Re: VMD always open from home folder in Mac (Wed Nov 20 2024 - 13:19:52 CST)
- Re: VMD always open from home folder in Mac (Wed Nov 20 2024 - 12:49:14 CST)
- Re: TkConsol (Wed Jul 17 2024 - 18:46:04 CDT)
- Re: bug when starting VMD on MACOS ARM (Thu Feb 22 2024 - 09:45:04 CST)
- Re: bug when starting VMD on MACOS ARM (Wed Feb 21 2024 - 12:06:57 CST)
- VMD Programmer position available at TCBG / University of Illinois (Thu Feb 15 2024 - 08:54:20 CST)
- Re: VMD for macOS -- easy install with new code-signed versions (Fri Dec 01 2023 - 20:54:59 CST)
- VMD for macOS -- easy install with new code-signed versions (Fri Dec 01 2023 - 19:29:06 CST)
Isuru Herath
- No residue of segment error (Sun Feb 07 2021 - 14:16:26 CST)
- Coarse-Graining Protein with Ion Ligands (Wed Jan 20 2021 - 21:12:31 CST)
- NAMD RBCG Tutorial dssp (Sun Jan 10 2021 - 12:58:16 CST)
- Tk Console dsspcmbi file (Sat Jan 02 2021 - 15:38:04 CST)
- Re: PSF Files Giving Long Bonds (Fri Dec 25 2020 - 21:21:28 CST)
- PSF Files Giving Long Bonds (Fri Dec 25 2020 - 08:23:49 CST)
- Re: Readpsf Error (Sun Nov 29 2020 - 10:15:42 CST)
- Re: Readpsf Error (Sun Nov 29 2020 - 10:22:56 CST)
- Re: Readpsf Error (Sun Nov 29 2020 - 09:38:20 CST)
- Re: Readpsf Error (Sun Nov 29 2020 - 09:03:17 CST)
- Re: Readpsf Error (Sun Nov 29 2020 - 08:58:31 CST)
- Re: Readpsf Error (Sun Nov 29 2020 - 08:56:47 CST)
- Readpsf Error (Sat Nov 28 2020 - 13:01:55 CST)
Itamar Kass
- What occupancy at the Hbond plugin mean? (Tue Feb 09 2010 - 05:15:27 CST)
Ivan Degtyarenko
- "get {x y z}" returns single value (Fri Feb 23 2007 - 10:18:16 CST)
- 3D grid data to 2D contour? (Thu Feb 15 2007 - 15:04:05 CST)
- Re: diffusion coefficient (Fri Dec 08 2006 - 05:44:58 CST)
- measure angle between three points in space (Sun Sep 24 2006 - 04:17:52 CDT)
- measure bond length? (Tue Sep 19 2006 - 11:32:05 CDT)
- radial pair distribution function: molecule/water? (Mon Sep 04 2006 - 11:31:35 CDT)
- md trajectory: centering/h-bonb residence/coordination number (Mon Aug 21 2006 - 08:26:44 CDT)
- Re: rendering transparent objects (Wed Aug 16 2006 - 16:50:44 CDT)
- Re: rendering transparent objects (Wed Aug 16 2006 - 16:32:57 CDT)
- rendering transparent objects (Wed Aug 16 2006 - 15:34:35 CDT)
- do not compute/draw bonds? (Thu Jun 23 2005 - 08:36:33 CDT)
Ivan Franzoni
- (no subject) (Tue Dec 20 2022 - 12:01:20 CST)
Ivan Gregoretti
- Re: Automatic PSF Builder on Windows (Sun Oct 13 2024 - 14:29:22 CDT)
- Re: qwrap installation (Tue Apr 28 2020 - 14:09:42 CDT)
- Re: Farewell VMD (Mon Jul 30 2018 - 11:33:01 CDT)
- Re: VMD Segfault Fedora 27 (Tue Mar 06 2018 - 14:11:41 CST)
- Re: How to create an aggregation of molecules with VMD? (Mon May 04 2015 - 22:55:05 CDT)
- Re: Etiquette, please. (Mon Sep 08 2014 - 10:17:21 CDT)
- Etiquette, please. (Mon Sep 08 2014 - 07:58:34 CDT)
- Re: VMD error (Thu Jul 31 2014 - 07:49:34 CDT)
- Re: VMD error (Thu Jul 31 2014 - 07:31:04 CDT)
- Re: Align specific residues of two structures (Fri Mar 28 2014 - 16:57:16 CDT)
- Re: AW: TCL scripting question: how to make a list of atomselections persistent? (Fri Mar 28 2014 - 09:06:56 CDT)
- Re: Writing DCD from modified coordinates (Fri Mar 21 2014 - 07:31:32 CDT)
- Re: namd-l: wrapping option in namd (Wed Mar 19 2014 - 21:58:30 CDT)
- Re: psfgen, adding residues with command "residue" (Wed Mar 19 2014 - 19:18:50 CDT)
- Re: psfgen, adding residues with command "residue" (Wed Mar 19 2014 - 17:58:24 CDT)
- psfgen, adding residues with command "residue" (Wed Mar 19 2014 - 13:07:42 CDT)
- Re: psfgen and Alternate location indicator (Wed Mar 19 2014 - 08:44:01 CDT)
- psfgen and Alternate location indicator (Tue Mar 18 2014 - 13:53:18 CDT)
- Re: Segmentation fault (Tue Mar 11 2014 - 12:42:31 CDT)
- Re: psfgen and unknown residue types (Tue Feb 25 2014 - 07:35:49 CST)
- Re: psfgen and unknown residue types (Mon Feb 24 2014 - 17:32:30 CST)
- Re: psfgen and unknown residue types (Mon Feb 24 2014 - 15:06:40 CST)
- Re: psfgen and unknown residue types (Mon Feb 24 2014 - 09:51:24 CST)
- Re: psfgen and unknown residue types (Sun Feb 23 2014 - 18:56:42 CST)
- Re: psfgen and unknown residue types (Sun Feb 23 2014 - 17:39:13 CST)
- psfgen and unknown residue types (Sat Feb 22 2014 - 17:29:35 CST)
- Re: VMD can't read 1OXY (Tue Feb 11 2014 - 12:01:59 CST)
Ivan Moncayo
- Re: Bondlist limit (Wed Jun 15 2016 - 12:05:16 CDT)
- Bondlist limit (Thu May 19 2016 - 11:44:24 CDT)
- Re: get the coordinate of the mouse arrow (Tue Dec 16 2014 - 17:50:27 CST)
- Unwrap visualization (Fri May 30 2014 - 16:17:32 CDT)
- Topo tools: can't use non-numeric string as operand of "+" (Fri Mar 22 2013 - 08:36:15 CDT)
- Color atoms (Thu Sep 27 2012 - 11:59:32 CDT)
- Re: Lammps simulation (Mon Sep 24 2012 - 13:02:51 CDT)
- Lammps simulation (Mon Sep 24 2012 - 11:39:06 CDT)
- Re: VMD compilation 64 bits (Wed Jul 25 2012 - 16:22:47 CDT)
- VMD compilation 64 bits (Wed Jul 25 2012 - 12:03:49 CDT)
Ivan Vyalov
- Re: gofr limit, Kirkwood-Buff integrals (Sat Apr 21 2012 - 14:13:37 CDT)
- Re: gofr limit, Kirkwood-Buff integrals (Fri Apr 20 2012 - 14:49:21 CDT)
- gofr limit, Kirkwood-Buff integrals (Fri Apr 20 2012 - 05:43:18 CDT)
Ivana
- Re: coloured surface (Sat May 23 2020 - 12:51:01 CDT)
- coloured surface (Sun May 03 2020 - 11:49:03 CDT)
ivana adamovic
- Re: about CHARMM electrostatic potential (Mon Feb 05 2007 - 14:54:15 CST)
- Re: about CHARMM electrostatic potential (Mon Feb 05 2007 - 14:44:51 CST)
- Re: about CHARMM electrostaic potential (Mon Feb 05 2007 - 11:56:35 CST)
- about CHARMM electrostaic potential (Mon Feb 05 2007 - 09:46:47 CST)
- Re: addition on CHARMM electrostatic pot. (Fri Feb 02 2007 - 09:11:44 CST)
- addition on CHARMM electrostatic pot. (Thu Feb 01 2007 - 13:42:08 CST)
- CHARMM electrostatic potential (Thu Feb 01 2007 - 13:17:21 CST)
- CHARMM electrostatic potential (Thu Feb 01 2007 - 08:28:20 CST)
- Re: About CHARMM electrostaic potential map (Wed Jan 31 2007 - 14:30:11 CST)
- About CHARMM electrostaic potential map (Wed Jan 31 2007 - 09:26:19 CST)
- electrostatic potential (Wed Dec 13 2006 - 14:15:09 CST)
- radius of the curvature (Tue Nov 28 2006 - 14:33:01 CST)
- movie making (Thu Nov 23 2006 - 14:22:10 CST)
- water box... (Sat Jun 24 2006 - 08:37:57 CDT)
- Re: Re: graphic representation (Wed Apr 05 2006 - 15:26:53 CDT)
- Re: Re: graphic representation (Wed Apr 05 2006 - 15:06:18 CDT)
- graphic representation (Wed Apr 05 2006 - 12:24:48 CDT)
- MacBookPro and VMD version (Tue Apr 04 2006 - 13:39:38 CDT)
- Re: question about electrostatic potential maps (Wed Mar 01 2006 - 09:43:15 CST)
- Re: question about electrostatic potential maps (Tue Feb 28 2006 - 09:48:47 CST)
- Re: question about electrostatic potential maps (Tue Feb 28 2006 - 09:47:44 CST)
- question about electrostatic potential maps (Mon Feb 27 2006 - 12:19:48 CST)
Ivo Hofacker
- Re: VMD and 3Dfx Glide (Mon Aug 30 1999 - 11:01:15 CDT)
- RE: VMD 1.2b2 Linux & MSMS ... (Wed May 20 1998 - 04:56:29 CDT)
- Re: VMD only read 58 frames from XYZ file (Wed Nov 05 1997 - 13:38:02 CST)
- Re: rock around the clock? (Mon Oct 06 1997 - 21:25:08 CDT)
Izrailev, Sergei
- RE: vmd information (Thu Oct 09 2003 - 09:03:14 CDT)
- RE: File format of DCD Trajectory file (Tue Sep 30 2003 - 11:21:35 CDT)
J T
- Re: question about "measure dihed" with COM points (Wed Feb 25 2009 - 14:43:01 CST)
- Re: question about "measure dihed" with COM points (Tue Feb 24 2009 - 21:37:21 CST)
- Re: Selecting the N-closest Waters (Tue Aug 21 2007 - 20:00:47 CDT)
- Re: Selecting the N-closest Waters (Tue Aug 21 2007 - 18:54:08 CDT)
- Re: Selecting the N-closest Waters (Tue Aug 21 2007 - 16:10:03 CDT)
- Selecting the N-closest Waters (Tue Aug 21 2007 - 12:40:19 CDT)
J. Juraszek
- how to plot waters h-bonded to a protein? (Thu Apr 06 2006 - 08:57:08 CDT)
J. Matthew Franklin
- using xtc file to generate pdb's (Tue Dec 27 2011 - 15:38:23 CST)
- Re: TK console problem (Wed Sep 14 2011 - 20:38:38 CDT)
- Re: TK console problem (Sat Sep 10 2011 - 17:46:38 CDT)
- TK console problem (Tue Sep 06 2011 - 22:40:26 CDT)
J. Nathan Scott
- Re: Viewing "other" data as a trajectory plays (Thu Jan 26 2012 - 13:07:28 CST)
- Viewing "other" data as a trajectory plays (Thu Jan 26 2012 - 11:40:08 CST)
- Adding a three letter residue name to VMD's protein recognition (Thu Oct 27 2011 - 13:13:09 CDT)
- Changing representations on a per-atom per-timestep basis (Tue Jun 28 2011 - 11:34:19 CDT)
- Re: Dynamically updating water colors for each frame of a trajectory (Wed Feb 23 2011 - 12:10:38 CST)
- Dynamically updating water colors for each frame of a trajectory (Wed Feb 16 2011 - 17:17:28 CST)
J. Rui Rodrigues
- Re: script for projection of c-alpha atom cordinates on xy plane (Mon Mar 21 2011 - 12:12:28 CDT)
- problem with IED: 'numpy.ndarray' object has no attribute 'typecode' (Wed Apr 07 2010 - 14:01:37 CDT)
- Re: RuntimeError: tk.h version (8.4) doesn't match libtk.a version (8.5) (Tue Apr 06 2010 - 08:11:00 CDT)
- RuntimeError: tk.h version (8.4) doesn't match libtk.a version (8.5) (Thu Apr 01 2010 - 11:51:06 CDT)
- Re: (Fri Nov 13 2009 - 06:13:52 CST)
- Re: Stop using directory from previous session (Wed Nov 11 2009 - 11:57:37 CST)
- Re: Stop using directory from previous session (Wed Nov 11 2009 - 11:51:38 CST)
- Stop using directory from previous session (Wed Nov 11 2009 - 10:54:01 CST)
- Re: double bonds (Thu Sep 24 2009 - 07:22:09 CDT)
- Re: Select atoms using coordinates (Wed Apr 22 2009 - 13:52:07 CDT)
- Re: VMD atomselect (Thu Apr 02 2009 - 07:19:40 CDT)
- Re: Script problem (Thu Mar 12 2009 - 07:01:30 CDT)
- Re: Script problem (Thu Mar 12 2009 - 06:16:17 CDT)
- Re: hbonds count (Wed Nov 30 2005 - 07:28:41 CST)
- Re: catdcd (Wed Jul 13 2005 - 10:14:57 CDT)
- Re: Can vmd select residues in radius of 3.5 to a specific residue? (Fri Mar 18 2005 - 06:21:08 CST)
- Re: Help using trajectory ca-distance script (Fri Jan 07 2005 - 10:49:57 CST)
- Re: problem (Fri Oct 08 2004 - 10:18:30 CDT)
- Re: no main window (Tue Aug 24 2004 - 06:21:44 CDT)
- Re: readable files (Mon Aug 02 2004 - 15:58:29 CDT)
- Re: Re: namd-l: dcd files generated with catdcd (Fri Apr 30 2004 - 14:02:49 CDT)
- Re: namd-l: dcd files generated with catdcd (Fri Apr 30 2004 - 10:51:27 CDT)
- (no subject) (Fri Oct 17 2003 - 11:46:41 CDT)
- HBonds (Wed Oct 01 2003 - 17:16:37 CDT)
- Periodic images (Tue Jul 29 2003 - 11:43:23 CDT)
- Problem with stride, surf and tachyon in Windows2000 (Wed Mar 26 2003 - 11:47:03 CST)
- mol volume (Wed Jan 29 2003 - 10:17:30 CST)
- Trouble with tcl script (puts command) (Thu Sep 05 2002 - 13:42:20 CDT)
- Couldn't open required GL library (Thu Aug 08 2002 - 18:48:37 CDT)
J. Zheng
- load multiple pdb files simultaneously (Wed May 28 2003 - 18:29:13 CDT)
Jaap Kroes
- Re: non-orthorhombic PBCs (Thu Sep 26 2013 - 04:10:58 CDT)
- non-orthorhombic PBCs (Wed Sep 25 2013 - 20:14:39 CDT)
Jacinto S.
- Re: vmdtext and .cshrc. (Sat Sep 03 2005 - 14:37:29 CDT)
- Re: Python, Numeric, and Mac OS X problem (Fri Aug 26 2005 - 13:32:50 CDT)
Jack Bulat
- Re: Slow display with nVidia GeForce 9400GT and 3xx drivers on Linux (Wed May 29 2013 - 13:29:58 CDT)
- Re: protein secondary structure (Thu Mar 21 2013 - 18:34:37 CDT)
- Re: python simple script (Mon Dec 24 2012 - 12:13:29 CST)
- Re: python simple script (Fri Dec 21 2012 - 09:12:22 CST)
Jack Gundrum
- Re: very large pdb file (Thu Feb 23 2006 - 12:13:24 CST)
- very large pdb file (Thu Feb 23 2006 - 11:09:39 CST)
Jack Howarth
- Re: [PyMOL] enable direct rendering DRI on fedora core 2 (Fri Jun 11 2004 - 07:22:35 CDT)
Jackson Cavett
- Re: Minimization--Number of Timesteps (Sat Aug 13 2016 - 16:36:27 CDT)
- Re: Minimization--Number of Timesteps (Sat Aug 13 2016 - 11:29:31 CDT)
- Re: Minimization--Number of Timesteps (Fri Aug 12 2016 - 22:15:32 CDT)
- Re: Minimization--Number of Timesteps (Fri Aug 12 2016 - 15:21:21 CDT)
- Minimization--Number of Timesteps (Fri Aug 12 2016 - 13:27:27 CDT)
- Re: Custom Water Box (Tue Jul 26 2016 - 19:13:32 CDT)
- Custom Water Box (Mon Jul 25 2016 - 20:34:31 CDT)
- Shortening a Simulation (Mon Jun 27 2016 - 19:11:05 CDT)
Jackson Gois
- vmdmovie (ppmtompeg) doesn't work (Tue Jan 24 2006 - 12:40:43 CST)
Jacob D Durrant
- Re: Reordering atomselection before saving trajectory (Wed Jun 21 2017 - 18:49:34 CDT)
- Reordering atomselection before saving trajectory (Sat May 13 2017 - 19:28:32 CDT)
Jacob Durrant
- Minimal VMD (Mon Apr 07 2014 - 14:42:47 CDT)
- Re: Atom selection to identify residues that clash (Tue Feb 25 2014 - 23:49:38 CST)
- Atom selection to identify residues that clash (Fri Feb 21 2014 - 21:56:32 CST)
- Re: Modulus atom selection (Mon Feb 17 2014 - 13:30:56 CST)
- Re: Modulus atom selection (Sat Feb 15 2014 - 02:19:12 CST)
- Modulus atom selection (Wed Feb 12 2014 - 14:37:09 CST)
Jacob F. Tande
- Re: VMD in OS X Yosemite version 10.1.1.5 (Sun May 06 2018 - 10:58:19 CDT)
Jacob Gissinger
- Re: Wrapping problem (Tue Sep 13 2016 - 14:07:02 CDT)
- Re: Wrapping problem (Thu Sep 08 2016 - 16:02:52 CDT)
- pbc join bondlist (Thu Jul 30 2015 - 16:01:23 CDT)
- pbc tools (Mon Jun 22 2015 - 11:20:28 CDT)
Jacob Graham
- Potential Bug Using NAMD Energy Plugin from the Command Line (Tue Jun 18 2024 - 14:59:45 CDT)
Jacob Kirkensgaard
- Re: get view direction (Tue Feb 16 2010 - 15:21:21 CST)
- get view direction (Tue Feb 16 2010 - 03:58:24 CST)
Jacob Layton
- How to define an atom selection for a dynamic space (Wed Mar 06 2024 - 13:43:16 CST)
Jacob Poehlsgaard
- Re: Maestro file export (Wed Jan 13 2010 - 09:15:03 CST)
- Maestro file export (Mon Jan 11 2010 - 03:21:22 CST)
- Re: Paratool Reference (was Re: Paratool Window) (Tue Aug 21 2007 - 06:18:40 CDT)
- VMD 1.8.6b binaries for win32? (Wed Mar 14 2007 - 10:14:45 CDT)
- Re: VMD 1.8.5 startup (Thu Nov 09 2006 - 02:04:51 CST)
- Re: how to select the problematic residues(atoms) (Thu Oct 26 2006 - 07:00:55 CDT)
Jacob Pøhlsgaard
- RE: polynucleotide builder (Mon Apr 24 2006 - 04:31:54 CDT)
- RE: PSF tools in windows and long paths (Wed Feb 15 2006 - 02:51:06 CST)
- PSF tools in windows and long paths (Tue Feb 14 2006 - 03:47:34 CST)
Jacob Story
- RE: Quadro FX1800 , Stereo and VMD (Fri Jul 08 2011 - 13:35:44 CDT)
- RE: Quadro FX1800 , Stereo and VMD (Fri Jul 08 2011 - 13:04:21 CDT)
- RE: Quadro FX1800 , Stereo and VMD (Fri Jul 08 2011 - 11:23:30 CDT)
- RE: 3D Stereo : Windows 7, nVIDIA GEFORCE (Wed Jan 20 2010 - 11:08:38 CST)
- Accelerating your VMD 1.8.7 calculations with an NVIDIA Tesla GPU (Mon Jun 01 2009 - 09:20:22 CDT)
Jacopo Sgrignani
- autoionize (Wed Sep 07 2011 - 09:00:02 CDT)
- Implicit Ligand Sampling (Thu Jul 14 2011 - 14:50:21 CDT)
- Implicit Ligand Sampling (Thu Jul 14 2011 - 11:05:37 CDT)
- writepdb append (Mon Sep 13 2010 - 05:49:20 CDT)
jacopo.sgrignani_at_unifi.it
- vmd ubuntu crash (Thu Nov 01 2007 - 11:45:04 CDT)
- hbond analysis (Sat Mar 24 2007 - 11:03:24 CDT)
- hbond (Fri Mar 23 2007 - 13:29:57 CDT)
Jacqueline Cawthray
- Re: Issues with Paratools and Gaussian (Tue Jan 11 2011 - 17:09:37 CST)
- Paratool Tutorial (Tue Dec 14 2010 - 14:01:59 CST)
- Using LES with solvated, ionized protein (Sun Dec 12 2010 - 18:38:18 CST)
Jadzia Dax
- Re: (Sat Jan 06 2018 - 06:52:54 CST)
- Re: Improper terms in topology files processed by psfgen (Wed Jan 03 2018 - 03:15:39 CST)
- Improper terms in topology files processed by psfgen (Tue Jan 02 2018 - 01:29:30 CST)
Jae Hyun Park
- Problem in loading data (Sun May 24 2009 - 10:38:24 CDT)
Jai Kumar
- regarding h-bod calculation in tk console (Sun Dec 02 2018 - 00:17:49 CST)
Jaime Guevara
- Re: Running VMD on Blue Waters (Thu Jul 06 2017 - 11:52:21 CDT)
- Running VMD on Blue Waters (Thu Jun 29 2017 - 11:09:46 CDT)
Jaime Sanchez
- setting different colors (Thu Aug 18 2005 - 23:33:32 CDT)
- creating movie files (Fri Aug 12 2005 - 08:34:15 CDT)
- using VMD with LAMMPS (Wed Aug 10 2005 - 13:59:40 CDT)
Jake .
- Drawing oriented cylinders (Wed Dec 29 2004 - 14:16:10 CST)
jake wernik
- opening gromacs .gro file gives warning messsage and does not display the molecule (Mon Jun 16 2008 - 20:19:52 CDT)
Jakob Petersen
- VTF file (Sun Jul 01 2007 - 13:56:58 CDT)
James C. Patterson
- Re: Problem with the move command to rotate a molecule (Wed Dec 08 2004 - 16:15:43 CST)
James Chen
- what is the center of rotation for the transformation matrix obtained by "measure fit" command? (Thu Jun 26 2014 - 16:27:43 CDT)
James Conway
- VMD-CUDA crash on Mac OSX 10.8.2 (Thu Dec 06 2012 - 12:35:11 CST)
James E. Magee
- Python callbacks in VMD (Wed Aug 20 2008 - 06:41:52 CDT)
james Fernandez
- VMD QUESTION( Movie making ) (Mon Apr 09 2012 - 16:49:21 CDT)
- Plotting of Co-ordinates on VMD (Fri Mar 30 2012 - 11:37:07 CDT)
James Haven
- apbs electrostatics (Wed Sep 17 2008 - 15:15:08 CDT)
James Irving
- Re: Mac OSX crash with bus error/segmentation fault upon loading pdb/dcd (Mon Jun 30 2008 - 18:10:13 CDT)
- Re: Mac OSX crash with bus error/segmentation fault upon loading pdb/dcd (Mon Jun 30 2008 - 20:03:44 CDT)
- Mac OSX crash with bus error/segmentation fault upon loading pdb/dcd (Sun Jun 29 2008 - 21:14:14 CDT)
James Keener
- Plugin Issue (Wed Mar 28 2007 - 09:45:18 CDT)
James Kress
- RE: radial atom distribution (Mon Jan 27 2020 - 10:36:52 CST)
- RE: query on how to allow the protein to interact with the water molecules (Mon Oct 07 2019 - 10:06:23 CDT)
- RE: rst7 as input file bug (Thu May 17 2018 - 21:24:15 CDT)
- rst7 as input file bug (Thu May 17 2018 - 18:36:27 CDT)
- RE: a question about force field toolkit (Tue Oct 03 2017 - 16:48:11 CDT)
- RE: Creating 3D PDF files (Wed Apr 19 2017 - 09:06:56 CDT)
- Crating 3D PDF files (Tue Apr 11 2017 - 13:36:56 CDT)
- RE: AMBER trajectory visualization (Sun Dec 04 2016 - 20:40:39 CST)
- AMBER trajectory visualization (Sat Dec 03 2016 - 20:33:16 CST)
- QwikMD and platform choice (Thu Sep 29 2016 - 10:30:53 CDT)
- RE: Custom Water Box (Mon Jul 25 2016 - 22:00:08 CDT)
- RE: VMD 1.9.3 beta 1 posted for download... (Thu Jul 21 2016 - 08:21:13 CDT)
- RE: Rendering high quality obj, x3d and other files for use in other 3D representation systems (Sat Apr 02 2016 - 23:11:04 CDT)
- RE: Rendering high quality obj, x3d and other files for use in other 3D representation systems (Sat Apr 02 2016 - 22:54:03 CDT)
- RE: Rendering high quality obj, x3d and other files for use in other 3D representation systems (Sat Apr 02 2016 - 22:14:08 CDT)
- Rendering high quality obj, x3d and other files for use in other 3D representation systems (Sat Apr 02 2016 - 16:09:00 CDT)
- RE: SSD vs SSHD vs mechanical (Thu Sep 24 2015 - 10:09:31 CDT)
- RE: APPCRASH when loading a big trajectory file (.dcd) into VMD (Tue Sep 01 2015 - 21:35:54 CDT)
- RE: nvidia cuda mismatch (Sat Aug 15 2015 - 15:31:11 CDT)
- RE: VMD - cannot download (Sun Jul 26 2015 - 20:31:16 CDT)
- VMD - cannot download (Sun Jul 26 2015 - 17:40:50 CDT)
- RE: VMD 1.9.3 alpha (Fri Mar 27 2015 - 09:23:23 CDT)
- RE: script for displaying multiple frames (Thu Feb 19 2015 - 12:23:51 CST)
- RE: making self-adjustable high resolution images (Wed Jan 28 2015 - 10:46:09 CST)
James Lord
- new structure file (Mon Nov 30 2015 - 05:27:35 CST)
- periodic boundry in movie (Fri Nov 20 2015 - 02:45:52 CST)
- Re: selected atoms (Mon Mar 16 2015 - 16:03:50 CDT)
- selected atoms (Mon Mar 16 2015 - 15:56:28 CDT)
- Residue label moves upon rendering (Wed Mar 04 2015 - 19:55:05 CST)
- how to have residues list and properties in vmd (Wed Nov 05 2014 - 03:20:58 CST)
- Fwd: Displaying residue name in simulation movie (Sun Oct 12 2014 - 22:11:16 CDT)
- Displaying residue name in simulation movie (Sun Oct 12 2014 - 22:04:36 CDT)
James MacDonald
- Re: Re: vmd not starting up on Fedora core 3 linux , InsightII to blame (Fri Mar 04 2005 - 06:33:28 CST)
- Re: Re: vmd not starting up on Fedora core 3 linux , InsightII to blame (Tue Mar 01 2005 - 17:46:09 CST)
- Re: Re: vmd not starting up on Fedora core 3 linux , InsightII to blame (Tue Mar 01 2005 - 17:17:15 CST)
James Marsh
- Dowser installation trouble (Tue Dec 03 2013 - 03:09:29 CST)
James Melville
- atom fitting in non-PDB order (Mon Feb 07 2005 - 21:27:47 CST)
James Rustad
- transparent background (Fri Feb 20 2009 - 13:55:55 CST)
- Re: xyz animation (Thu Jul 06 2006 - 13:19:21 CDT)
- ppmtompeg (Tue May 02 2006 - 10:39:45 CDT)
- saving coordinates of expanded cell (Tue May 02 2006 - 10:36:26 CDT)
- Re: [vmd] max number of molecules on mac (Tue Jan 17 2006 - 09:55:22 CST)
- [vmd] max number of molecules on mac (Mon Jan 16 2006 - 22:27:30 CST)
- maximum number of molecules (Fri Jan 13 2006 - 13:27:06 CST)
- movies on mac os x (panther) (Mon May 24 2004 - 15:30:19 CDT)
James Ryley
- RE: SpaceNavigator on Win7 64 bit (Tue Jul 31 2012 - 12:25:12 CDT)
- SpaceNavigator on Win7 64 bit (Mon Jul 30 2012 - 20:53:14 CDT)
James Starlight
- Saving of pdb-trajectory in NMR-like format (Tue Apr 17 2012 - 09:21:40 CDT)
- Structure preparation via VMD (Sat Oct 29 2011 - 07:29:33 CDT)
- Installing VMD on Debian Linux (Fri Oct 14 2011 - 01:51:01 CDT)
James Stevens
- (no subject) (Fri Feb 18 2005 - 14:24:19 CST)
james tomomi macdonald
- Re: problem with MSMS and VMD (Mon Jul 05 2004 - 16:02:12 CDT)
- problem with MSMS and VMD (Mon Jul 05 2004 - 11:29:29 CDT)
- Re: secondary structure update (Fri Oct 31 2003 - 09:44:09 CST)
- Re: vmd 1.8 Linux mesa on RedHat (Tue Oct 14 2003 - 13:53:53 CDT)
- Re: installation problems with Redhat 9 (Wed Apr 23 2003 - 13:53:11 CDT)
- installation problems with Redhat 9 (Wed Apr 23 2003 - 13:15:22 CDT)
James.Beavis_at_csiro.au
- re: installed vmd_LINUXIA64 but recieve error : /usr/local/vmd/vmd_LINUX: command not found (Wed Nov 14 2007 - 19:28:02 CST)
- installed vmd_LINUXIA64 but recieve error : /usr/local/vmd/vmd_LINUX: command not found (Tue Nov 13 2007 - 21:47:43 CST)
jamesgiacmo_at_aol.com
- Re: Tachyon Rendering with a Surf Representation (Wed Jun 30 2010 - 08:29:39 CDT)
- Tachyon Rendering with a Surf Representation (Tue Jun 29 2010 - 10:12:11 CDT)
jampani srinivas
- water mean residence time (Fri Apr 27 2012 - 17:23:53 CDT)
Jan Brezovsky
- Ph.D. candidate position in biomolecular modeling or bioinformatics (Wed Jul 04 2018 - 05:33:36 CDT)
- Ph.D. and Post-doc positions in molecular simulations and structural bioinformatics (Mon Mar 05 2018 - 11:10:28 CST)
- Ph.D. and Post-doc positions in molecular simulations and structural bioinformatics (Sun Feb 11 2018 - 15:58:39 CST)
- Re: Hole program for vmd hole tcl script (Wed Nov 21 2012 - 13:39:17 CST)
- Re: Hole program for vmd hole tcl script (Wed Nov 21 2012 - 08:54:18 CST)
- Re: Hole program for vmd hole tcl script (Wed Nov 21 2012 - 05:52:37 CST)
Jan F. Totz
- VMD and NetCDF under Windows Vista 32bit (Sun Sep 13 2009 - 01:57:02 CDT)
Jan Janssen
- Re: Limits of the VMD Visualisation (Thu Nov 10 2016 - 07:30:38 CST)
- Re: Limits of the VMD Visualisation (Thu Nov 10 2016 - 02:51:03 CST)
- Re: Limits of the VMD Visualisation (Thu Nov 10 2016 - 01:29:50 CST)
- Limits of the VMD Visualisation (Wed Nov 09 2016 - 10:59:56 CST)
- Compile / Configure VMD with the Oculus Rift DK2 (Thu Nov 03 2016 - 02:42:43 CDT)
Jan Rychter
- Re: vmd 1.8.6 on MacOS X, with python support, anyone? (Tue May 01 2007 - 14:29:46 CDT)
- vmd 1.8.6 on MacOS X, with python support, anyone? (Mon Apr 30 2007 - 05:39:33 CDT)
Jan Saam
- Re: [vmd_chcwaaa@yahoo.com.cn: about measure dihedral angle] (Fri May 16 2008 - 18:15:51 CDT)
- Re: Paratools problem with Gaussian Output (Tue Mar 11 2008 - 05:40:06 CDT)
- Re: vmd QMtool (Thu Dec 20 2007 - 17:18:10 CST)
- Re: parameter tool tutorial (Thu Dec 20 2007 - 17:50:00 CST)
- Re: Rotate a box with pcb (Thu Oct 18 2007 - 01:14:31 CDT)
- Re: Paratool Reference (was Re: Paratool Window) (Mon Aug 27 2007 - 03:56:34 CDT)
- Re: measure imprp - input order of atoms (Mon Aug 27 2007 - 03:30:41 CDT)
- Re: Problems to load Gaussian .log file in Paratool (Tue Jul 31 2007 - 11:05:34 CDT)
- Paratool Reference (was Re: Paratool Window) (Fri Jun 15 2007 - 11:11:10 CDT)
- Re: paratool/gaff (Fri Jun 15 2007 - 10:04:37 CDT)
- Re: Help with Tcl script (Wed Jun 13 2007 - 04:00:03 CDT)
- Re: paratool/gaff -- Forgotten attachment (Tue Jun 12 2007 - 11:36:46 CDT)
- Re: paratool/gaff (Tue Jun 12 2007 - 11:35:09 CDT)
- Re: Paratool Window (Mon Jun 11 2007 - 14:22:00 CDT)
- Re: ligand parametrization (Mon May 28 2007 - 18:51:57 CDT)
- Re: paratool/gaff (Thu May 24 2007 - 02:26:44 CDT)
- Re: IC from paratool (Fri Mar 02 2007 - 12:41:59 CST)
- Re: a question about paratool (Thu Feb 22 2007 - 18:43:57 CST)
- Re: Regarding com file error (Mon Feb 05 2007 - 12:57:27 CST)
- Re: RE: Regarding paratool, assign atom types (Wed Jan 31 2007 - 14:30:55 CST)
- Re: Regarding paratool (Wed Jan 31 2007 - 14:14:01 CST)
- Re: Regarding paratool (Mon Jan 29 2007 - 11:00:14 CST)
- Re: Regarding paratool, assign atom types (Mon Jan 29 2007 - 10:56:30 CST)
- Re: Paratool problem (Mon Nov 20 2006 - 19:31:45 CST)
- Re: Paratool Problem (Thu Sep 21 2006 - 17:21:29 CDT)
- Re: Paratool Problem (Thu Sep 21 2006 - 14:24:58 CDT)
- Re: problem in visualizing gaussian log file (Thu Sep 14 2006 - 08:09:09 CDT)
- Re: dipole moment (Fri Sep 08 2006 - 12:17:26 CDT)
- Re: dipole moment - corrigendum! (Fri Sep 08 2006 - 12:18:15 CDT)
- TCL wrapper for linear algebra package in VMD (Tue Sep 05 2006 - 19:12:07 CDT)
- Re: Matrix inverse (Tue Sep 05 2006 - 18:13:58 CDT)
- Re: looking for VMD draw scripts. (Mon Sep 04 2006 - 13:20:08 CDT)
- Re: looking for VMD draw scripts. (Fri Sep 01 2006 - 17:11:55 CDT)
- Re: looking for VMD draw scripts. (Fri Sep 01 2006 - 16:43:06 CDT)
- Re: looking for VMD draw scripts. (Fri Sep 01 2006 - 15:59:13 CDT)
- Re: Paratool problem (Thu Aug 31 2006 - 04:02:13 CDT)
- VMD as background job on multiprocessor machine doesn't work? (Wed Jul 05 2006 - 19:46:13 CDT)
- Re: Possible error in aligning/computing RMSD of 2 molecules with three or two atoms (Thu Mar 23 2006 - 18:36:28 CST)
- Re: Possible error in aligning/computing RMSD of 2 molecules with three or two atoms (Thu Mar 23 2006 - 16:17:29 CST)
- Re: Possible error in aligning/computing RMSD of 2 molecules with three or two atoms (Thu Mar 23 2006 - 16:11:55 CST)
- Re: Possible error in aligning/computing RMSD of 2 molecules with three or two atoms (Thu Mar 23 2006 - 15:30:53 CST)
- Re: VMD 1.8.4 beta 11 test version available (Fri Feb 10 2006 - 18:29:34 CST)
- Re: using paratool (Fri Feb 10 2006 - 18:06:31 CST)
- Re: how to start vmd with "menu tkcon on"? (Tue Sep 06 2005 - 03:05:36 CDT)
- Re: determining vdw, elec, and others (Thu Feb 17 2005 - 16:00:00 CST)
- Re: smoothed trajectory (Thu Feb 17 2005 - 11:52:30 CST)
- Re: Outputing Dihedral Indexes for key structures (backbone, alpha-helix, etc...) (Tue Feb 01 2005 - 00:01:29 CST)
- Re: about average structure (Sun Mar 21 2004 - 05:16:00 CST)
- Parameter-Topology-Repository (Wed Nov 19 2003 - 11:56:41 CST)
- send data on demand using IMD? (Thu Nov 13 2003 - 11:59:10 CST)
- Parameter/topology repository (Fri Nov 07 2003 - 06:05:15 CST)
- Re: periodic woes (Fri Sep 12 2003 - 04:42:09 CDT)
- Re: segid and geometry script (Wed Jun 25 2003 - 18:42:52 CDT)
- Re: segid and geometry script (Wed Jun 25 2003 - 18:33:35 CDT)
- Re: Simple potential energy calculations in VMD (Mon Jun 23 2003 - 19:19:47 CDT)
- coloring method: user (Fri Jun 20 2003 - 06:56:26 CDT)
- Re: Dihedral angle calculation! (Wed Jun 04 2003 - 16:54:02 CDT)
- Re: Dihedral angle calculation! (Wed Jun 04 2003 - 11:37:41 CDT)
Jan-Philip Gehrcke
- Re: Scripting API: are arguments to representation types documented somewhere? (Mon Aug 20 2012 - 06:24:17 CDT)
- Re: Search options within mailing list (Tue Jul 24 2012 - 14:19:11 CDT)
- Scripting API: are arguments to representation types documented somewhere? (Tue Jul 24 2012 - 07:58:04 CDT)
Jana Black
- parallel capabilities (Tue Jun 26 2007 - 14:27:38 CDT)
- Installation Error Involving TLC (Fri May 25 2007 - 13:44:00 CDT)
Jana, Suvamay
- Re: bond updating in VMD (Sat Aug 19 2017 - 04:00:40 CDT)
- namdenergy pugin for interaction energy (Mon Oct 28 2013 - 13:02:40 CDT)
Janakiraman Balachandran
- Re: VMD Error in Mac OSX (Fri Jul 21 2017 - 14:17:35 CDT)
- Re: VMD Error in Mac OSX (Fri Jul 21 2017 - 14:32:10 CDT)
- Re: VMD Error in Mac OSX (Fri Jul 21 2017 - 14:06:02 CDT)
- VMD Error in Mac OSX (Fri Jul 21 2017 - 13:14:22 CDT)
- VMD 1.9.2 crashing at startup in Mac OS X El Capitan (Wed Mar 29 2017 - 08:57:41 CDT)
Janani.S
- (no subject) (Fri Aug 20 2010 - 22:39:10 CDT)
Jancsó István
- Re: Getting (or changing) molinfo matrices (Thu Jan 25 2007 - 02:29:55 CST)
- Getting (or changing) molinfo matrices (Wed Jan 24 2007 - 03:49:28 CST)
Jane Bailey
- Re: problem of installing vmd 1.8.7 on Mac osx 10.4.11 (Wed Feb 17 2010 - 11:14:55 CST)
- problem of installing vmd 1.8.7 on Mac osx 10.4.11 (Wed Feb 17 2010 - 09:35:53 CST)
Jane Mayberry
- One of a kind replicas (Mon Apr 21 2008 - 07:16:11 CDT)
Janet Jacobsen
- Re: Extensions menu is blank (Tue Sep 09 2008 - 12:07:24 CDT)
- Extensions menu is blank (Mon Sep 08 2008 - 18:46:07 CDT)
jani sahil
- Re: (Tue Jan 05 2010 - 00:49:00 CST)
- Re: vmd installation in linux (Sun Jan 03 2010 - 05:15:26 CST)
- Re: regarding generating movie (Fri Dec 04 2009 - 23:56:42 CST)
- regarding generating movie (Fri Dec 04 2009 - 02:49:19 CST)
- regarding writemol2 (Sat Dec 06 2008 - 00:34:19 CST)
- reagsrding writemol2 (Fri Dec 05 2008 - 00:11:42 CST)
- Re: use configure.options (Mon Nov 17 2008 - 21:27:58 CST)
- regarding rotating dihedral (Tue Sep 16 2008 - 22:26:17 CDT)
jani vinod
- Symposium on Accelerating Biology (Fri Sep 03 2010 - 00:11:03 CDT)
- Re: regarding fit_angle.tcl (Wed May 19 2010 - 01:41:34 CDT)
- Re: regarding fit_angle.tcl (Tue May 18 2010 - 23:14:46 CDT)
- regarding fit_angle.tcl (Tue May 11 2010 - 07:04:20 CDT)
Janni Christensen
- VMD BFEE namdbin error (Tue May 09 2023 - 02:03:44 CDT)
Jason Gans
- DCD architecture dependence (Mon Dec 08 1997 - 08:58:10 CST)
Jason Hlozek
- Re: Tachyon not rendering large scenes (Mon Sep 20 2021 - 06:19:57 CDT)
- Re: Tachyon not rendering large scenes (Thu Sep 02 2021 - 16:41:14 CDT)
- Re: Tachyon not rendering large scenes (Thu Sep 02 2021 - 10:33:43 CDT)
- Tachyon not rendering large scenes (Thu Sep 02 2021 - 07:29:11 CDT)
Jason Hogrefe
- RE: Recommended Hardware (Mon Mar 16 2020 - 11:52:08 CDT)
Jason Lee
- RE: namd-l: Nanotube Simulations (Tue Aug 02 2005 - 14:23:32 CDT)
Jason Quenneville
- minimizing text console on startup (Windows) (Thu Dec 03 2015 - 10:02:30 CST)
Jason Smith
- Re: VMD 1.9.4a53 on Windows 11 crashing frequently (Tue Apr 16 2024 - 21:21:57 CDT)
- Re: Smoothing PBC jumps across PBC (Thu Nov 16 2023 - 15:28:49 CST)
- Re: Question about code (Sun Dec 04 2022 - 15:25:23 CST)
- Re: VMD disables audio? (Wed Oct 05 2022 - 15:20:09 CDT)
- Re: Error with CaFE VMD Plugin (Thu Jun 16 2022 - 10:50:03 CDT)
- Non-functional RMSD Visualizer in 1.9.4a53, windows (Fri May 06 2022 - 14:37:56 CDT)
- Re: PDBx/CIF Problem on New PDBs (Sat Jan 22 2022 - 14:55:29 CST)
- Re: Tachyon not rendering large scenes (Thu Sep 02 2021 - 12:18:42 CDT)
- Re: Asymmetric concentration gradient (Tue Aug 24 2021 - 12:11:09 CDT)
- Re: VMD Tachyon Render fails with new material (Mon Aug 23 2021 - 12:44:15 CDT)
- Re: Add specific h-bonds (Thu Aug 12 2021 - 10:47:28 CDT)
- Re: MolID error using fftk with VMD 1.94a49 on windows 10 (Tue Jul 13 2021 - 10:56:36 CDT)
- Re: showing bonds in .xyz files (Wed Jul 07 2021 - 11:29:00 CDT)
- Re: Randomly select molecules and delete them (Tue Jul 06 2021 - 10:28:03 CDT)
- Re: Rendering using GPU (Fri Apr 16 2021 - 13:18:02 CDT)
- Re: Rendering using GPU (Thu Apr 15 2021 - 12:51:55 CDT)
- Re: Rendering using GPU (Thu Apr 15 2021 - 11:26:05 CDT)
- Re: Rendering using GPU (Thu Apr 15 2021 - 11:08:29 CDT)
- Re: Visual Help (Mon Apr 12 2021 - 00:47:52 CDT)
- Re: Ultra-violet environment simulation in NAMD (Mon Apr 05 2021 - 13:31:05 CDT)
- Re: Switching from MP2 in FFTK? (Fri Mar 26 2021 - 13:25:14 CDT)
- Re: fftk wat. opt. when charges overlap (Mon Mar 08 2021 - 11:04:23 CST)
- Re: How to keep particular water molecules within the cut off during the simulations (Thu Jan 21 2021 - 10:54:12 CST)
- Re: Question about NAMD configuration files (Fri Jan 15 2021 - 22:17:41 CST)
- Re: Problem with running NAMD configuration file (Mon Jan 11 2021 - 12:50:38 CST)
- Re: Problem with following NAMD tutorial (Fri Jan 08 2021 - 11:39:55 CST)
- Re: Problem with following NAMD tutorial (Thu Jan 07 2021 - 20:19:01 CST)
- Re: Molecule is shown with too many bonds (Fri Dec 18 2020 - 12:37:51 CST)
- Re: 1.9.4a50 - unable to open DCDs win64 (Fri Dec 18 2020 - 12:01:59 CST)
- Re: 1.9.4a50 - unable to open DCDs win64 (Thu Dec 17 2020 - 21:11:57 CST)
- 1.9.4a50 - unable to open DCDs win64 (Wed Dec 16 2020 - 19:35:18 CST)
- Gaussian aborting during ffTK - Calc.Bonded (Wed Nov 25 2020 - 23:18:10 CST)
Jason Winget
- Rendering electrostatic surface potentials using Tachyon (Thu May 01 2008 - 15:39:31 CDT)
javacfish
- How do I make sure the normals value of trinorms? (Wed Nov 28 2012 - 14:21:16 CST)
- Re: The err happens when movie maker Renderer POV-Ray (Thu Aug 23 2012 - 04:04:15 CDT)
- The err happens when movie maker Renderer POV-Ray (Wed Aug 22 2012 - 04:01:23 CDT)
- Re: The "gopython" is wrong on the Lunux VMD1.9.1 (Thu Jun 14 2012 - 07:27:59 CDT)
- The "gopython" is wrong on the Lunux VMD1.9.1 (Wed Jun 13 2012 - 01:21:59 CDT)
Javad Azadi
- Trajectory Analysis (Tue Jul 04 2006 - 11:14:36 CDT)
JAVAD NOROOZI
- Unit Cell PDB of Copper (Mon Feb 02 2015 - 17:04:35 CST)
- Problem with Kinetic Energy of Atomselection (Wed Jan 07 2015 - 00:48:34 CST)
Javaria Ahmad
- a question about paratool (Tue Feb 20 2007 - 06:35:52 CST)
- syntax error in com file (Tue Feb 20 2007 - 06:15:49 CST)
- Re: Re: Regarding com file error (Wed Feb 07 2007 - 16:10:15 CST)
Javaria Ahmed
- Regarding com file error (Sun Feb 04 2007 - 23:23:40 CST)
- RE: Regarding paratool, assign atom types (Mon Jan 29 2007 - 16:22:17 CST)
- Molefacture error (Wed Jan 24 2007 - 17:01:09 CST)
- Regarding paratool (Wed Jan 24 2007 - 16:18:01 CST)
- Is there a way to validate a structure (Thu Nov 09 2006 - 07:41:10 CST)
- How to delete selected atoms from a molecule (Mon Nov 06 2006 - 07:22:54 CST)
Javier Badilla
- Unable to use plots with QwikMD (Fri Aug 11 2023 - 08:09:42 CDT)
Javier Goicochea
- Re: ANGLES and DIHEDRALS ... location in VMD code? (Mon Feb 02 2009 - 08:33:15 CST)
- VMD & NAMD atoms naming convention? (Tue Jan 27 2009 - 03:05:09 CST)
- ANGLES and DIHEDRALS ... location in VMD code? (Fri Jan 16 2009 - 02:17:00 CST)
- Re: Understanding topology files? (Fri Jan 16 2009 - 02:10:19 CST)
- Re: Understanding topology files? (Thu Jan 15 2009 - 10:32:55 CST)
- Re: Understanding topology files? (Thu Jan 15 2009 - 10:11:05 CST)
- Understanding topology files? (Thu Jan 15 2009 - 08:03:50 CST)
Javier Ivan Wong Romero
- Generating silanol group on silica (Tue Oct 12 2021 - 18:40:44 CDT)
- Problem running CAFE for MMPBSA using CHARMM PB Radius (Thu Oct 07 2021 - 20:38:11 CDT)
Javier Sacristan
- test versions of VMD 1.8.5 -DLPOLY (Thu Aug 10 2006 - 11:44:43 CDT)
- reading DLPoly VMD 1.8.4 (Wed May 17 2006 - 17:55:26 CDT)
- manipulate DLPOLY HISTORY files (Fri Mar 03 2006 - 15:43:37 CST)
javier.vallejos_at_correo.usach.cl
- .psf for porphyrin (Sat Oct 21 2006 - 18:11:19 CDT)
- protein embedding membrane (Fri Sep 08 2006 - 18:06:50 CDT)
- protein in membrane (Fri Sep 08 2006 - 17:35:27 CDT)
Jawahar Neelankatan
- Re: Atomselection in NAMDENERGY (Fri Mar 02 2007 - 08:09:27 CST)
- Updating atomselection from frame to frame (Fri Mar 02 2007 - 06:19:38 CST)
- Re: CPK Graphical Representation (Fri Oct 20 2006 - 19:05:49 CDT)
- CPK Graphical Representation (Fri Oct 20 2006 - 05:57:20 CDT)
Jay Lee
- Tcl script and plugin (Sat Jun 25 2005 - 15:00:13 CDT)
- Adding color scale bar on the screen (Thu Apr 14 2005 - 18:50:22 CDT)
- making animations (Sat Jan 29 2005 - 17:57:05 CST)
- dynamic coloring (Fri Jan 21 2005 - 12:36:39 CST)
Jay McAliley
- crash on ubuntu linux (Sat Sep 03 2005 - 11:41:59 CDT)
Jay Shore
- Re: Small molecules (Sun Oct 14 2007 - 22:42:42 CDT)
- Re: Cube Files - proportion of the electron density (Tue Oct 09 2007 - 14:10:35 CDT)
- Cube Files - proportion of the electron density (Sun Oct 07 2007 - 15:50:40 CDT)
- Re: Text/Labels on ray tracing external renderer (Sat Jun 23 2007 - 09:31:40 CDT)
- Color by volume (Fri Sep 29 2006 - 11:54:42 CDT)
jayant james
- VMD closes upon loading a gromacs xtc file (Wed Nov 13 2013 - 20:55:46 CST)
jayant_jacques
- resolving side chain clashes (Thu Dec 13 2007 - 14:05:10 CST)
Jayendra Balasubramanian
- RE: Best fit plane axis (Fri Dec 08 2006 - 14:52:31 CST)
- xyz animation (Thu Jul 06 2006 - 11:00:52 CDT)
- File size limits (Thu Aug 11 2005 - 09:53:44 CDT)
- Re: Viewing MD trajectories (Tue Apr 13 2004 - 16:21:16 CDT)
- Re: Viewing MD trajectories (Tue Apr 13 2004 - 15:02:27 CDT)
- Viewing MD trajectories (Fri Apr 09 2004 - 16:46:48 CDT)
Jayne Wallace
- Cannot read MSMS data files (Mon Jun 21 2010 - 09:12:07 CDT)
jbaucom_at_unity.ncsu.edu
- capturing box dimensions from amber coordinate files (Wed Apr 06 2005 - 12:39:08 CDT)
JC Gumbart
- Re: error in reading Gaussian log file (Wed Oct 21 2020 - 17:41:23 CDT)
- Re: charge optimization (Sun Oct 18 2020 - 18:37:03 CDT)
- Re: error in reading Gaussian log file (Tue Oct 13 2020 - 18:03:50 CDT)
- Re: Glu-Lys Isopeptide Bond Parameters? (Wed Oct 07 2020 - 19:31:08 CDT)
- Re: Converting electron density data from .map to .dx in vmd (Wed Sep 30 2020 - 13:35:30 CDT)
- Re: Re: FFTK Opt Torsions: can not find channel named "" (Tue Sep 29 2020 - 11:41:11 CDT)
- Re: FFTK Gaussian Input Generator - Bug? (Fri Sep 25 2020 - 17:37:45 CDT)
- Re: FFTK Gaussian Input Generator - Bug? (Fri Sep 25 2020 - 16:30:18 CDT)
- Re: FFTK Gaussian Input Generator - Bug? (Fri Sep 25 2020 - 06:39:47 CDT)
- Re: FFTK Gaussian Input Generator - Bug? (Thu Sep 24 2020 - 23:08:50 CDT)
- Re: Fwd: N-glycosylation in AutoPSF (Sun Aug 30 2020 - 06:39:36 CDT)
- Re: MDFF tutorial is not working (Mon Aug 24 2020 - 17:51:31 CDT)
- Re: Any tutorial/manual for Dowser for membrane protein modeling (Wed Aug 19 2020 - 10:04:21 CDT)
- Re: Any tutorial/manual for Dowser for membrane protein modeling (Wed Aug 19 2020 - 06:37:40 CDT)
- Re: Error in fftk during bond opt using VMD 1.9.3 (Mon Aug 17 2020 - 12:17:12 CDT)
- Re: FFTK Dihedrals Opt - Multiplicity modification (Wed Aug 12 2020 - 14:25:50 CDT)
- Re: FFTK - issue after hessian loading during bonds/angles optimization (Mon Aug 10 2020 - 16:19:18 CDT)
- Re: VMD: error in ffTK torsion angle optimization (Tue Aug 04 2020 - 20:26:58 CDT)
- Re: FFTK Angle optimization error (Mon Aug 03 2020 - 09:28:00 CDT)
- Re: VMD: error in ffTK torsion angle optimization (Sat Jul 11 2020 - 18:18:47 CDT)
- Re: FF parameters for EtSNO (Mon Jul 06 2020 - 19:21:36 CDT)
- Re: FF parameters for EtSNO (Mon Jul 06 2020 - 18:57:17 CDT)
- Re: VMD: error in ffTK torsion angle optimization (Mon Jul 06 2020 - 18:51:42 CDT)
- Re: FFTK sulfur ChargeOpt (Mon Jun 22 2020 - 19:13:54 CDT)
- Re: FFTK sulfur ChargeOpt (Fri Jun 19 2020 - 19:42:54 CDT)
- Re: FFTK sulfur ChargeOpt (Fri Jun 19 2020 - 18:01:44 CDT)
- Re: FFTK sulfur ChargeOpt (Fri Jun 19 2020 - 15:08:14 CDT)
- Re: FFTK: Charge Optimisation partial charges (Wed Jun 10 2020 - 06:44:05 CDT)
- Re: FFTK: Charge Optimisation partial charges (Wed Jun 10 2020 - 06:19:28 CDT)
- Re: Action halted on error in ffTK: The following output QM was not recognized (Tue Jun 09 2020 - 20:12:50 CDT)
- Re: Action halted on error in ffTK: The following output QM was not recognized (Tue Jun 09 2020 - 18:03:55 CDT)
- Re: FFTK: Charge Optimisation partial charges (Tue Jun 09 2020 - 12:33:39 CDT)
- Re: Action halted on error in ffTK: The following output QM was not recognized (Tue Jun 09 2020 - 12:27:22 CDT)
- Re: FFTK Characterising Distortions (Thu Apr 23 2020 - 19:48:37 CDT)
- Re: fftk dihedrals error (Fri Apr 17 2020 - 18:03:45 CDT)
- Re: fftk dihedrals error (Sun Apr 12 2020 - 16:03:29 CDT)
- Re: Problem compiling VMD 1.9.3 on macOS Catalina 10.15.3 (Wed Apr 01 2020 - 19:23:31 CDT)
- Re: Lipids generated by VMD could not use "coordpdb" to read (Mon Mar 30 2020 - 12:48:52 CDT)
- Re: Lipids generated by VMD could not use "coordpdb" to read (Fri Mar 27 2020 - 17:17:58 CDT)
- Re: FFTK: What is the correct charge calculation setup for carbonyl compounds (Thu Feb 20 2020 - 08:10:32 CST)
- Re: Gaussian16 support issue of ffTK (Thu Feb 06 2020 - 19:58:52 CST)
- Re: Re: Error at Dihedral Optimization using fftk (Sun Sep 09 2018 - 13:22:22 CDT)
- Re: Re: Error at Dihedral Optimization using fftk (Sun Sep 09 2018 - 10:52:30 CDT)
- Re: RE: truncated atom types with fftk v.1.93 - Resolved (Mon Aug 27 2018 - 15:59:23 CDT)
- Re: truncated atom types with fftk v.1.93 (Mon Aug 27 2018 - 15:55:20 CDT)
- Re: [VMD] Cannot find "cionize" plugin (Sun Aug 12 2018 - 10:44:49 CDT)
- Re: Derivation of parameters for a ligand with a Cl atom with fftk (Mon Aug 06 2018 - 11:34:48 CDT)
- Re: Force Field Toolkit (ffTK) (Mon Jul 30 2018 - 06:57:51 CDT)
- Re: Fwd: problemas con la opt de los enlaces (Wed Jul 18 2018 - 09:02:33 CDT)
- Re: Fwd: problemas con la opt de los enlaces (Tue Jul 17 2018 - 16:46:10 CDT)
- Re: Flipping a molecule around its geometrical center (Mon Jun 04 2018 - 23:39:24 CDT)
- Re: NAMD and FFTK on a Mac (Sun Jun 03 2018 - 22:26:04 CDT)
- Re: NAMD and FFTK on a Mac (Sat Jun 02 2018 - 20:07:26 CDT)
- Re: Error: vecscale: parameters must have data (Fri May 18 2018 - 09:51:53 CDT)
- Re: Error: vecscale: parameters must have data (Fri May 11 2018 - 17:56:00 CDT)
- Re: Resp on VMD (Fri Apr 27 2018 - 11:30:06 CDT)
- Re: Resp on VMD (Mon Apr 23 2018 - 17:36:36 CDT)
- Re: FFTK, recognize wildcard atom types in forcefields (Sat Mar 24 2018 - 08:56:35 CDT)
- Re: non-heme iron coordination with His in NAMD2 (Thu Mar 15 2018 - 13:48:51 CDT)
- Re: MDFF multiple PDB and PSF (Tue Mar 13 2018 - 17:04:54 CDT)
- Re: FFTK Bond/Angle Optimization issue with namd2 (Tue Feb 20 2018 - 10:27:53 CST)
- Re: FFTK Bond/Angle Optimization issue with namd2 (Tue Feb 20 2018 - 09:43:21 CST)
- Re: FFTK Bond/Angle Optimization issue with namd2 (Tue Feb 20 2018 - 01:20:50 CST)
- Re: FFTK plugin: domain error: argument not in valid range (Sat Dec 09 2017 - 07:33:39 CST)
- Re: Water molar mass in autoionize.tcl (Sat Dec 09 2017 - 07:52:15 CST)
- Re: Fwd: Problem with Loading Bond Angle Optimization Gaussian .log file into the fftk (Fri Nov 03 2017 - 10:39:20 CDT)
- Re: FFTK Dihedral Optimization Error (Tue Oct 24 2017 - 17:21:14 CDT)
- Re: Fwd: Problem with Loading Bond Angle Optimization Gaussian .log file into the fftk (Fri Oct 20 2017 - 17:15:01 CDT)
- Re: FFTK Dihedral Optimization Error (Fri Oct 20 2017 - 16:54:15 CDT)
- Re: Question about fftk (Sun Oct 15 2017 - 07:24:45 CDT)
- Re: Question about fftk (Tue Oct 10 2017 - 18:12:32 CDT)
- Re: Improper angle-ffTK, regarding (Wed Oct 04 2017 - 15:01:47 CDT)
- Re: a question about force field toolkit (Tue Oct 03 2017 - 17:25:20 CDT)
- Re: Improper angle-ffTK, regarding (Tue Oct 03 2017 - 17:21:52 CDT)
- Re: ffTK, regarding (Sun Oct 01 2017 - 07:15:49 CDT)
- Re: Error while using Alanine Scanning Plugin (Tue Aug 29 2017 - 19:40:47 CDT)
- Re: ffTK (Sat Aug 12 2017 - 08:37:56 CDT)
- Re: FFTK gaussian log (Mon Aug 07 2017 - 12:23:17 CDT)
- Re: ffTK Hessian calculation error outputting to Gaussian input (Fri Jan 20 2017 - 10:48:13 CST)
- Re: FFTK for diazonium-modified tyrosine (Sun Jan 08 2017 - 23:08:15 CST)
- Re: FFTK for diazonium-modified tyrosine (Sat Jan 07 2017 - 16:36:01 CST)
- Re: FFTK for diazonium-modified tyrosine (Fri Jan 06 2017 - 14:52:50 CST)
- Re: ffTK has halted on error. The optimizer has returned an empty result, indicating an abnormal termination. (Sat Dec 31 2016 - 22:12:49 CST)
- Re: ffTK has halted on error. The optimizer has returned an empty result, indicating an abnormal termination. (Wed Dec 28 2016 - 16:52:28 CST)
- Re: VMD HBonds plugin (Thu Dec 08 2016 - 17:01:17 CST)
- Re: VMD HBonds plugin (Tue Dec 06 2016 - 23:54:08 CST)
- Re: ffTK: How to determine the optimized bond and angle parameters (Thu Nov 17 2016 - 11:56:18 CST)
- Re: ffTK: How to determine the optimized bond and angle parameters (Mon Nov 14 2016 - 23:20:09 CST)
- Re: FFTK measure bond error (Sat Nov 05 2016 - 18:30:33 CDT)
- Re: FFTK measure bond error (Tue Nov 01 2016 - 14:39:40 CDT)
- Re: Zinc ion visualization from Amber trajectory (Tue Nov 01 2016 - 14:42:04 CDT)
- Re: FFTK measure bond error (Mon Oct 31 2016 - 21:38:12 CDT)
- Re: FFTK dihedrals and problematic intermolecular H-bonds (Sat May 21 2016 - 18:57:07 CDT)
- Re: namd-l: Re: CHARMM36 alleged missing CC CT1 NH2 angle params (Tue May 17 2016 - 09:29:52 CDT)
- Re: mdff: tutorial (Mon Jan 04 2016 - 13:28:29 CST)
- Re: velocity array accessible for any loaded molecule? (Fri Nov 06 2015 - 08:13:56 CST)
- Re: velocity array accessible for any loaded molecule? (Thu Nov 05 2015 - 23:43:12 CST)
- velocity array accessible for any loaded molecule? (Thu Nov 05 2015 - 19:56:46 CST)
- Re: ffTK & transition metals (Sun Oct 04 2015 - 08:23:55 CDT)
- Re: ffTK & transition metals (Sat Oct 03 2015 - 15:55:02 CDT)
- Re: ffTK & transition metals (Thu Oct 01 2015 - 16:38:01 CDT)
- Fwd: Inviting applications for a new PhD program in Quantitative Biosciences at Georgia Tech (Wed Sep 09 2015 - 18:15:34 CDT)
- Re: Re: Problem with assignation of secondary structure in VMD (Wed Sep 09 2015 - 10:42:18 CDT)
- Re: quick tcl question with vmd/psfgen (Thu Jan 29 2015 - 13:06:04 CST)
- Re: Re: H-bond occupancy (Wed May 28 2014 - 06:36:31 CDT)
- Re: measure Hbond and orient (with vec {0 0 1}) of a selected molecule (Fri Apr 25 2014 - 15:27:30 CDT)
- Re: code precision problem (Thu Apr 17 2014 - 12:48:05 CDT)
- Re: ffTK generated Gaussian file puts "atoms too close" and Gaussian fails to run (Tue Apr 08 2014 - 15:05:23 CDT)
- Re: Broken link to MacKerell parameterization tutorial (Thu Mar 20 2014 - 20:12:22 CDT)
- Re: charges optimisation of a cationic molecule with ffTK (Mon Mar 03 2014 - 00:06:04 CST)
- Re: FFTK, pyrrolidine parametrization bonded parameters- issue with Hessian (Tue Oct 22 2013 - 10:23:45 CDT)
- Re: FFTK, pyrrolidine parametrization bonded parameters- issue with Hessian (Fri Oct 18 2013 - 13:28:42 CDT)
- RE: FFTK, pyrrolidine parametrization bonded parameters- issue with Hessian (Thu Oct 17 2013 - 06:32:24 CDT)
- Re: HBonds from Desmond Trajectory (Tue Sep 24 2013 - 10:35:31 CDT)
- Re: charmm36 and charmm27 together with namd? (Thu Jul 18 2013 - 09:00:37 CDT)
- Re: ureybradley and impropers in ffTK (Sat Jun 29 2013 - 07:55:40 CDT)
- RE: charge exceed the range between Low bound and High bound in ffTK charge optimization (Fri Jun 07 2013 - 07:40:49 CDT)
- Re: molfracture force field (Tue Jun 04 2013 - 11:25:10 CDT)
- Re: regarding FFTK (Thu May 30 2013 - 13:30:07 CDT)
- RE: ABF tutorial: Methane-Hydration water going -> Water in gas phase? (Sat May 04 2013 - 08:36:41 CDT)
- RE: ABF tutorial: Methane-Hydration water going -> Water in gas phase? (Sat May 04 2013 - 00:29:25 CDT)
- RE: VMD, Paratool (Sat Apr 13 2013 - 08:08:17 CDT)
- RE: Issue in Cal. Bonded and Scan Torsion in fftk (Tue Apr 02 2013 - 07:39:32 CDT)
- Re: Issue in Cal. Bonded and Scan Torsion in fftk (Mon Apr 01 2013 - 22:51:27 CDT)
- RE: FFTK bond optimization +idlepoll request (Mon Apr 01 2013 - 00:45:20 CDT)
- Re: FFTK bond optimization +idlepoll request (Sun Mar 31 2013 - 14:13:41 CDT)
- Re: Error with NAMD Energy (Thu Mar 28 2013 - 18:27:44 CDT)
- RE: FFTK Atom types (Wed Mar 27 2013 - 08:00:01 CDT)
- Re: namd-l: Assigning Partial Charges to FE in Active Site Superoxide Dismutase. (Wed Jan 23 2013 - 14:26:59 CST)
- Re: fftk charge optimization option (Sun Jan 20 2013 - 13:16:33 CST)
- Re: tcl script for vmd troubleshooting. . (Fri Jan 04 2013 - 16:48:37 CST)
- Re: VMD : Force Field Toolkit : Help (Mon Dec 10 2012 - 17:50:06 CST)
- Re: VMD QMTool (Tue Nov 20 2012 - 00:09:17 CST)
- Re: psfgen generating incorrect dihedrals (Fri Nov 09 2012 - 04:12:47 CST)
- postdoc position available (Tue Oct 16 2012 - 00:47:41 CDT)
- Re: CHARMM36 topology files, AutoPSF and DNA (Fri Aug 17 2012 - 13:57:45 CDT)
- Re: B-factor plugin (Fri Aug 10 2012 - 12:48:17 CDT)
- RE: Joining DCD files with overlapping frames. (Fri Jul 20 2012 - 01:40:50 CDT)
- Re: Joining DCD files with overlapping frames. (Fri Jul 20 2012 - 00:05:33 CDT)
- Re: patch SAM in psfgen (Fri Jun 22 2012 - 23:35:14 CDT)
- Re: generating psf files for bicarbonate (Fri Jun 22 2012 - 23:32:42 CDT)
- Re: Getting the internal coordinates table (Mon Jun 18 2012 - 17:05:56 CDT)
- Re: FFTK VMD plugin issue (arising from VECSCALE TCL issues of either NAMD or VMD ?) (Tue Jun 05 2012 - 09:22:10 CDT)
- Re: VMD membrane builder (Thu May 31 2012 - 16:20:22 CDT)
- Re: hbonds vs time (Thu May 31 2012 - 15:09:06 CDT)
- RE: hbonds vs time (Thu May 31 2012 - 11:04:48 CDT)
- RE: FFTK for adjusting partial charge only (Tue May 29 2012 - 11:08:02 CDT)
- Re: Force Field ToolKit - Angles (Mon Apr 30 2012 - 15:26:07 CDT)
- RE: Force Field ToolKit - Angles (Sun Apr 29 2012 - 14:57:33 CDT)
- Re: Re: About FFTP with transition metal complexes (Wed Feb 29 2012 - 20:36:18 CST)
- RE: Re: About FFTP with transition metal complexes (Sat Feb 18 2012 - 16:39:55 CST)
- RE: problem with catdcd (Sun Feb 12 2012 - 08:34:56 CST)
- RE: problem with catdcd (Sun Feb 12 2012 - 08:21:18 CST)
- ffTK in the just released VMD 1.9.1 (Sat Feb 04 2012 - 15:04:05 CST)
- Re: calculation hydrogen bond. (Fri Oct 21 2011 - 06:55:18 CDT)
- Re: superimposing groups of three atoms (Fri Oct 21 2011 - 06:53:28 CDT)
- Re: Problem building POPE membrane with plugin using CHARMM36 (Fri Oct 14 2011 - 15:09:44 CDT)
- Re: H Bond Plug-in Questions (Thu Sep 29 2011 - 12:46:25 CDT)
- Re: Does Paratool support CgenFF? (Wed Sep 28 2011 - 09:39:23 CDT)
- RE: Problem building POPE membrane with plugin using CHARMM36 (Wed Sep 21 2011 - 11:44:00 CDT)
- Re: Creating a fragment of the given protein (Mon Sep 19 2011 - 01:56:14 CDT)
- Re: Does Paratool support CgenFF? (Thu Sep 15 2011 - 01:31:32 CDT)
- Re: namd-l: .COOR TO PDB FILE (Sat Aug 13 2011 - 01:29:04 CDT)
- RE: Long atom types from CGenFF causing charge problems (Tue Aug 09 2011 - 23:52:22 CDT)
- Re: Long atom types from CGenFF causing charge problems (Tue Aug 09 2011 - 17:42:32 CDT)
- RE: autoionize adds too many ions (Wed Jul 20 2011 - 10:20:35 CDT)
- RE: question regarding H-bond calculation (Sun May 01 2011 - 11:29:18 CDT)
- Re: count CLA number from different frames (Fri Mar 11 2011 - 20:47:02 CST)
- Re: tcl script (Wed Mar 09 2011 - 11:55:58 CST)
- Re: Mutator Plugin Patching (Wed Mar 02 2011 - 23:48:24 CST)
- RE: PBC & Solvate Tool in VMD (Wed Feb 16 2011 - 07:49:41 CST)
- Re: DOPC membrane (Tue Feb 15 2011 - 19:52:11 CST)
- Re: namd-l: question from a tutorial (Thu Jan 20 2011 - 14:29:23 CST)
- Re: Issues with Paratools and Gaussian (Sun Jan 16 2011 - 17:12:10 CST)
- Re: rmsd with 2 different structures using serial numbers (Wed Dec 22 2010 - 18:07:46 CST)
- Re: rmsd with 2 different structures using serial numbers (Tue Dec 21 2010 - 21:40:43 CST)
- Re: patch CT3 and ACE problems in PSFGEN (Fri Oct 08 2010 - 19:25:12 CDT)
- RE: Ubiquitin - patch? (Thu Oct 07 2010 - 23:14:10 CDT)
- RE: (Thu Oct 07 2010 - 23:19:28 CDT)
- Re: patch CT3 and ACE problems in PSFGEN (Thu Oct 07 2010 - 19:01:15 CDT)
- Re: properly applying patches to create DPPC (Thu Mar 11 2010 - 17:48:11 CST)
- RE: (Wed Mar 10 2010 - 23:26:30 CST)
- RE: (Wed Mar 10 2010 - 23:00:43 CST)
- RE: properly applying patches to create DPPC (Wed Mar 10 2010 - 22:56:48 CST)
- RE: Hbonds calc with residue not in CHARMm (Sat Feb 27 2010 - 12:05:18 CST)
- RE: Hbonds calc with residue not in CHARMm (Sat Feb 27 2010 - 12:19:17 CST)
- RE: Hbonds calc with residue not in CHARMm (Fri Feb 26 2010 - 22:34:42 CST)
- Re: namd-l: Can't find C-PDB bond parameters (Mon Feb 15 2010 - 12:06:41 CST)
- RE: namd-l: Can't find C-PDB bond parameters (Mon Feb 15 2010 - 08:15:53 CST)
- RE: psfgen generates 0 atom .psf file (Fri Feb 12 2010 - 22:58:35 CST)
- Re: paratool: unable to load optimized geometry (Mon Oct 19 2009 - 12:15:56 CDT)
- RE: Disulfude bonds (Tue Oct 13 2009 - 01:20:11 CDT)
- RE: Disulfude bonds (Tue Oct 13 2009 - 01:08:13 CDT)
- Re: transformation matrix (Thu Jun 18 2009 - 15:15:34 CDT)
- Re: known issues with measure hbonds (Mon Dec 29 2008 - 09:31:59 CST)
- Re: namd-l: Changing the Secondary Structure of a Protein (Sun Dec 28 2008 - 08:55:03 CST)
- RE: Autoionize plugin (Wed Nov 19 2008 - 00:23:56 CST)
- Re: running simulation on dual core processor (Fri Sep 19 2008 - 13:50:27 CDT)
- Re: problems with autopsf & psfgen (Fri Sep 12 2008 - 02:51:03 CDT)
- RE: membrane plugin | lipid structures (Sun Jul 27 2008 - 23:36:37 CDT)
- Re: how to create dityrosine links (Sat Jul 26 2008 - 20:21:14 CDT)
- Re: building an uncoming sulfide bridge (Thu Jul 10 2008 - 11:17:46 CDT)
- Re: psf file (Tue Jun 03 2008 - 15:24:36 CDT)
- Re: namd-l: question related to rmsd (Mon May 05 2008 - 16:19:47 CDT)
- RE: about writepdb (Mon May 05 2008 - 00:18:00 CDT)
- RE: rmsd different from rmsd implemented in VMD (Wed Feb 13 2008 - 10:58:13 CST)
- RE: problem with rmsd-fullthrottle (Sat Jul 28 2007 - 15:36:02 CDT)
- RE: atoms deleted in patch try to come back (Sun Jul 15 2007 - 02:02:18 CDT)
- RE: RENDER ISSUES (Thu Jun 07 2007 - 09:07:34 CDT)
- Re: list in TCL (Mon Jun 04 2007 - 19:41:42 CDT)
- Re: Atom names, RES-IDS...!!! (Mon Jun 04 2007 - 18:18:45 CDT)
- Re: show atom number in xyz file (Tue May 22 2007 - 11:59:35 CDT)
- Re: hbonds problem (Sat Feb 17 2007 - 19:57:17 CST)
- Re: aligning molecules with different number of atoms (Mon Feb 12 2007 - 11:58:12 CST)
- RE: atomselection: number of residues (Sun Feb 11 2007 - 12:16:11 CST)
- Re: Re: Re: Regarding com file error (Wed Feb 07 2007 - 16:32:46 CST)
- RE: hingefind (Tue Jan 23 2007 - 10:53:39 CST)
- Re: hingefind (Mon Jan 22 2007 - 19:20:59 CST)
- RE: changing frame (Tue Jan 09 2007 - 23:55:16 CST)
- Re: Removing water in tcl (Fri Jan 05 2007 - 00:13:53 CST)
- Re: differentiating solvent molecules...... (Tue Oct 17 2006 - 12:59:21 CDT)
- Re: Using namdplot from the command line (Thu Sep 28 2006 - 14:05:03 CDT)
- Re: psf for protein (Thu Sep 21 2006 - 18:13:02 CDT)
- Re: psf for protein (Thu Sep 21 2006 - 17:42:35 CDT)
- Re: psf for protein (Wed Sep 20 2006 - 14:43:38 CDT)
- Re: psf for protein (Tue Sep 19 2006 - 10:43:53 CDT)
- Re: DPPC Bilayer Size (Fri Sep 15 2006 - 19:46:30 CDT)
- Re: how to build an atomistic protein from a low resolution data. (Fri Sep 15 2006 - 19:41:23 CDT)
- RE: removing structures from a psf&pdb (Mon Aug 28 2006 - 00:56:18 CDT)
- Re: NAMD minimization error (Sat Aug 12 2006 - 17:29:49 CDT)
- RE: NAMD minimization error (Sat Aug 12 2006 - 12:02:28 CDT)
- Re: residue no. greater than 9999 in pdb files created with VMD (Wed Jul 12 2006 - 11:24:34 CDT)
- Re: bug in membrane plugin (Wed May 17 2006 - 14:21:55 CDT)
- Re: s-s bond in vmd not visualized (Wed Nov 23 2005 - 13:43:35 CST)
- Re: making bonds myself (Tue Oct 25 2005 - 22:34:13 CDT)
- Re: making bonds myself (Tue Oct 25 2005 - 19:32:08 CDT)
- Re: problem with writepdb (Mon Oct 17 2005 - 19:25:49 CDT)
- Re: poorly get coordinates (Thu Oct 13 2005 - 13:43:01 CDT)
- Re: RMSF calculation (Thu Oct 06 2005 - 14:51:53 CDT)
- Re: changing cpk shere scale in TCL (Wed Oct 05 2005 - 13:38:59 CDT)
- Re: VMD removing slightly misplaced atoms (Tue Oct 04 2005 - 18:47:45 CDT)
- RE: dcd tools (Mon Sep 12 2005 - 21:11:58 CDT)
- Re: Reading arrays in VMD (Thu Sep 08 2005 - 11:37:27 CDT)
- RE: Re: vmdtext & Window (Sun Sep 04 2005 - 02:08:01 CDT)
- RE: Replacing DPPC with DPPS (Mon Aug 22 2005 - 00:32:39 CDT)
- Re: small figures (Fri Aug 19 2005 - 12:01:43 CDT)
jcorradi_at_criba.edu.ar
- Re: APBS for small molecules (Tue May 15 2012 - 13:31:15 CDT)
- Re: APBS for small molecules (Tue May 15 2012 - 08:28:28 CDT)
- APBS for small molecules (Sun May 13 2012 - 22:00:08 CDT)
Jeams Anderson
- Diffusion Coefficient calculation (Wed Apr 11 2018 - 08:14:59 CDT)
- Regarding RDF and Cordination number calculatin (Wed Apr 04 2018 - 02:40:42 CDT)
- How to identify the index number of some particular atoms (Tue Feb 20 2018 - 01:31:18 CST)
- RDF and RMSD calculation (Tue Apr 11 2017 - 04:06:48 CDT)
Jean Richelle
- Re: X3D render NewRibbons only in blue (Fri Nov 25 2016 - 08:59:19 CST)
- Re: X3D render NewRibbons only in blue (Thu Nov 24 2016 - 10:04:44 CST)
- X3D render NewRibbons only in blue (Wed Nov 23 2016 - 00:19:29 CST)
- polynucleotide builder (Sun Apr 23 2006 - 17:05:17 CDT)
- Apologizes for "How to select some sugar atoms" (Fri Apr 21 2006 - 00:23:40 CDT)
- How to select some sugar atoms (Thu Apr 20 2006 - 11:37:28 CDT)
- STL rendering (Thu Apr 06 2006 - 09:39:53 CDT)
- alternative display mode of HBonds (Tue Apr 04 2006 - 09:51:18 CDT)
Jean-Patrick Francoia
- Move center of volmap.dx (Sun Jun 26 2016 - 15:00:34 CDT)
- APBS: ELEC values (Thu Aug 28 2014 - 16:35:56 CDT)
- Re: APBS: uncharged molecule (Thu Aug 28 2014 - 16:13:29 CDT)
- Re: APBS: uncharged molecule (Thu Aug 28 2014 - 15:32:57 CDT)
- APBS: uncharged molecule (Thu Aug 28 2014 - 15:00:58 CDT)
- Re: Visualize a SMILES string (Wed Apr 30 2014 - 13:18:42 CDT)
- Re: Visualize a SMILES string (Wed Apr 30 2014 - 01:37:00 CDT)
- Re: Visualize a SMILES string (Tue Apr 29 2014 - 15:51:45 CDT)
- Re: Visualize a SMILES string (Tue Apr 29 2014 - 15:47:08 CDT)
- Re: Visualize a SMILES string (Tue Apr 29 2014 - 09:01:39 CDT)
- Visualize a SMILES string (Tue Apr 29 2014 - 07:49:11 CDT)
jeela keel
- Re: Re: unit cell volume is zero (Wed Jan 25 2012 - 16:59:19 CST)
- unit cell volume is zero (Wed Jan 25 2012 - 15:56:40 CST)
- Re: Re: atomselect counting (Wed Jan 25 2012 - 13:48:18 CST)
- atomselect counting (Wed Jan 25 2012 - 08:39:47 CST)
- Re: ERROR) measure gofr: bad frame range given. max (Mon Jan 23 2012 - 15:06:10 CST)
- Re: ERROR) measure gofr: bad frame range given. max (Mon Jan 23 2012 - 12:55:54 CST)
- Re: ERROR) measure gofr: bad frame range given. max (Mon Jan 23 2012 - 12:45:22 CST)
- Re: ERROR) measure gofr: bad frame range given. max (Mon Jan 23 2012 - 11:35:59 CST)
- Re: ERROR) measure gofr: bad frame range given. max (Mon Jan 23 2012 - 11:18:04 CST)
- Re: ERROR) measure gofr: bad frame range given. max (Mon Jan 23 2012 - 09:56:43 CST)
- Re: ERROR) measure gofr: bad frame range given. max (Mon Jan 23 2012 - 08:09:54 CST)
- ERROR) measure gofr: bad frame range given. max (Fri Jan 20 2012 - 14:43:13 CST)
Jeeno Jose
- Re: setting the view in VMD (Sat Aug 01 2015 - 14:39:07 CDT)
- setting the view in VMD (Sat Aug 01 2015 - 13:23:35 CDT)
- Re: Limit to total number of atoms in PSF? (Wed May 13 2015 - 12:18:50 CDT)
- Re: Limit to total number of atoms in PSF? (Wed May 13 2015 - 09:04:07 CDT)
- Re: Limit to total number of atoms in PSF? (Wed May 13 2015 - 03:12:52 CDT)
- Limit to total number of atoms in PSF? (Wed May 13 2015 - 01:38:25 CDT)
- Installation of VMD topotools (Tue Feb 11 2014 - 11:22:07 CST)
jeevan gc
- (no subject) (Mon Dec 16 2013 - 17:00:04 CST)
Jeevan Patra
- Pulling and Anchoring residues (Wed Aug 16 2023 - 06:33:45 CDT)
- Re: QwikMD - Steered Molecular Dynamics Query (Mon Jul 31 2023 - 12:49:20 CDT)
- QwikMD - Steered Molecular Dynamics Query (Sun Jul 30 2023 - 09:18:11 CDT)
Jeff Ames
- problem reading AMBER7 parm file (Wed Jul 17 2002 - 01:51:49 CDT)
Jeff Hoch
- passive stereo projection using a Mac (Tue Sep 18 2007 - 12:18:15 CDT)
- stereo on LCD display = pipe dream? (Wed Aug 16 2006 - 13:46:04 CDT)
- New stage? (Tue Feb 10 2004 - 08:30:02 CST)
- stereo projection, Mac (Mon Nov 03 2003 - 15:19:56 CST)
Jeff Saxon
- Re: VMD clustering of conformations (Sat Nov 07 2020 - 07:18:23 CST)
- VMD clustering of conformations (Sat Nov 07 2020 - 04:57:59 CST)
- Re: Analysis of DLG filles (Sat Nov 07 2020 - 03:55:58 CST)
- Re: Analysis of DLG filles (Fri Nov 06 2020 - 10:53:32 CST)
- Re: Analysis of DLG filles (Fri Nov 06 2020 - 09:52:57 CST)
- Re: Analysis of DLG filles (Fri Nov 06 2020 - 07:40:58 CST)
- Re: Analysis of DLG filles (Fri Nov 06 2020 - 06:27:51 CST)
- Re: Analysis of DLG filles (Thu Nov 05 2020 - 16:44:03 CST)
- Analysis of DLG filles (Thu Nov 05 2020 - 10:45:19 CST)
Jeff Taylor
- Re: fixing a molecule (Tue Jul 31 2001 - 10:19:39 CDT)
- follow up (Mon Jun 04 2001 - 15:30:35 CDT)
- Can a script change the projection? (Mon Jun 04 2001 - 15:04:53 CDT)
- How can I change the wireframe look (Thu Mar 01 2001 - 14:12:50 CST)
Jeff Ulrich
- [VMD TECH] Tracing VMD Variables (Part II) (Wed Apr 30 1997 - 17:42:04 CDT)
- Updated VMD Script Library (Wed Mar 05 1997 - 10:57:03 CST)
Jeffery
- Re: Matrix in VMD (Mon Jan 31 2005 - 14:59:52 CST)
- Matrix in VMD (Mon Jan 31 2005 - 14:18:02 CST)
Jeffrey A Tibbitt
- Re: Is there a way to create atom selection for a list of atom indices? (Thu Mar 29 2018 - 03:29:19 CDT)
- Is there a way to create atom selection for a list of atom indices? (Thu Mar 29 2018 - 01:43:43 CDT)
- Re: Problem drawing cylinders with a foreach loop - TCL syntax issue. (Wed Jan 03 2018 - 03:40:39 CST)
- Problem drawing cylinders with a foreach loop - TCL syntax issue. (Mon Jan 01 2018 - 20:16:26 CST)
- TCL equivalent for ---> Mouse Pick Mode Center (Mon Jan 01 2018 - 18:55:49 CST)
- Re: movie for Openoffice (Fri Nov 17 2006 - 18:36:30 CST)
- Starting VMD at Command Line in OSX (Sat Oct 21 2006 - 13:07:20 CDT)
- Selecting Atomnumber (Tue Oct 03 2006 - 21:15:19 CDT)
- VMD Prompt (Wed Sep 27 2006 - 12:23:40 CDT)
- Which VMD executible to use? (Tue Aug 08 2006 - 10:06:44 CDT)
- color by charge (can colors be changed?) (Thu May 25 2006 - 01:14:37 CDT)
- tcl logging and plugins (Mon Apr 24 2006 - 13:58:01 CDT)
- Re: question about electrostatic potential maps (Thu Mar 02 2006 - 12:02:01 CST)
Jeffrey D. Hartgerink
- Problem with VMD 1.8a21 under MacOS X 10.2 (Tue Aug 27 2002 - 12:32:44 CDT)
Jeffrey Gardner
- vmd-1.8.6 fails with python-2.5 (Fri Aug 24 2007 - 17:20:51 CDT)
Jeffrey Potoff
- Re: Area per lipid for tubular micellae (Thu Aug 01 2013 - 11:26:58 CDT)
- Re: (Sun Apr 21 2013 - 13:24:20 CDT)
- Re: FATAL ERROR: UNKNOWN PARAMETER IN CHARMM PARAMETER FILE toppar_water_ions.str LINE=*set nat ?NATC* (Wed Apr 17 2013 - 15:16:06 CDT)
- Re: problem with g(r) (Sat Feb 09 2013 - 19:10:54 CST)
- Re: differing particle numbers in each frame (Fri Feb 08 2013 - 09:56:22 CST)
- Re: Problem with moving protein for all frames (Tue May 01 2012 - 19:53:12 CDT)
- Re: Plotting of Co-ordinates on VMD (Fri Mar 30 2012 - 14:04:27 CDT)
- Re: how to configure Tachyon image render size? (Mon Jan 30 2012 - 14:14:09 CST)
- Re: paratool CHARMM style charges (Tue Dec 27 2011 - 13:55:04 CST)
- Re: Can Catdcd Write Out Periodic Cell Size Information? (Mon Nov 28 2011 - 16:30:08 CST)
- Re: Can Catdcd Write Out Periodic Cell Size Information? (Mon Nov 28 2011 - 15:00:35 CST)
Jeffrey Sanders
- locating or creating a .vmdsensors file for windows VMD (Wed Jul 14 2010 - 12:42:02 CDT)
- Question about vrpn server build for using Phantom with VMD (Tue Jul 13 2010 - 15:05:58 CDT)
Jeffrey Tseng
- Re: changing the color of subset of representation (Wed Mar 15 2006 - 14:54:58 CST)
- Re: changing the color of subset of representation (Wed Mar 15 2006 - 00:03:03 CST)
- Re: changing the color of subset of representation (Tue Mar 14 2006 - 03:18:32 CST)
- Re: changing the color of subset of representation (Mon Mar 13 2006 - 14:12:09 CST)
- changing the color of subset of representation (Sun Mar 12 2006 - 14:52:15 CST)
- VMD display size and position (Sun Oct 23 2005 - 11:55:57 CDT)
- centering the molecule (Sun Oct 02 2005 - 17:53:00 CDT)
- screen size (Sat Sep 17 2005 - 10:12:41 CDT)
- Re: screen size (Sat Sep 17 2005 - 09:47:31 CDT)
- screen size (Fri Sep 16 2005 - 18:09:39 CDT)
Jeffry D Madura
- RE: Color by Volume on an Intel 945GM (Sat Oct 20 2007 - 16:22:42 CDT)
- Color by Volume on an Intel 945GM (Sat Oct 20 2007 - 14:42:07 CDT)
- VMD on Playstation 3 (Fri Sep 14 2007 - 06:30:58 CDT)
- Generating water transparency around a protein (Fri Sep 14 2007 - 06:31:14 CDT)
Jehanzeb Hameed
- Stripping out H20 (Sun Jul 26 2009 - 18:24:33 CDT)
JeJoon Yeon
- Selective coloring question (Thu Jul 30 2015 - 19:36:27 CDT)
- Question regarding selection of atoms (Wed Jul 29 2015 - 09:21:41 CDT)
- Re: Question about visualization of multiple frame xyz file (Mon Jul 27 2015 - 12:16:13 CDT)
- Question about visualization of multiple frame xyz file (Sun Jul 26 2015 - 22:17:10 CDT)
- Re: How can I swap specific atoms for all frames of xyz file? (Wed May 13 2015 - 21:30:47 CDT)
- Re: How can I swap specific atoms for all frames of xyz file? (Wed May 13 2015 - 20:35:42 CDT)
- Re: How can I swap specific atoms for all frames of xyz file? (Wed May 13 2015 - 18:48:21 CDT)
- Re: How can I swap specific atoms for all frames of xyz file? (Wed May 13 2015 - 16:22:06 CDT)
- Re: How can I swap specific atoms for all frames of xyz file? (Wed May 13 2015 - 16:17:24 CDT)
- Re: How can I swap specific atoms for all frames of xyz file? (Wed May 13 2015 - 16:11:48 CDT)
- Re: How can I swap specific atoms for all frames of xyz file? (Wed May 13 2015 - 13:11:06 CDT)
- How can I swap specific atoms for all frames of xyz file? (Wed May 13 2015 - 12:53:27 CDT)
Jelle van Sijl
- molecular dipole moment (Wed Feb 03 2010 - 11:21:33 CST)
jen hsin
- Re: positioning of a compound (Wed Aug 12 2009 - 15:02:15 CDT)
- Re: Average strcuture (Tue May 19 2009 - 09:08:41 CDT)
jen ramus
- vmd runs slowly on vmware (Mon Nov 04 2002 - 17:05:14 CST)
- vmd checking socket in tcl (Mon Oct 28 2002 - 19:30:04 CST)
- vmd python availability on other platforms (Tue Jul 16 2002 - 22:31:07 CDT)
- Regular Expression problem with $ (Tue Apr 30 2002 - 20:24:52 CDT)
- Access to Python libraries from Mandrake8.1 (Wed Feb 27 2002 - 19:08:08 CST)
- Loading new molecules into VMD from an application (Wed Feb 20 2002 - 17:25:44 CST)
Jen-Chang Chen
- Re: Ployhedra in VMD (Mon Sep 26 2005 - 07:56:53 CDT)
- Ployhedra in VMD (Wed Sep 14 2005 - 03:58:30 CDT)
Jennie Thomas
- Re: Box dimensions (Tue Jun 19 2007 - 18:28:12 CDT)
- Box dimensions (Tue Jun 19 2007 - 17:59:53 CDT)
- Re: Writing a trajectory - with box information (Tue Nov 21 2006 - 14:46:10 CST)
- Re: Writing a trajectory - with box information (Tue Nov 21 2006 - 13:13:46 CST)
- Writing a trajectory - with box information (Mon Nov 20 2006 - 22:09:12 CST)
- Re: Question about measure gofr (Fri Oct 06 2006 - 15:36:16 CDT)
- Question about measure gofr (Fri Oct 06 2006 - 12:02:43 CDT)
Jennifer A Carvajal
- Elastic Properties (Tue Nov 14 2006 - 14:51:13 CST)
Jennifer Brookes
- combine.tcl error (Thu Nov 13 2008 - 04:23:03 CST)
Jennifer Lardge
- VASP plugins (Thu Aug 03 2006 - 07:21:42 CDT)
Jennifer Williams
- command for volume slice? (Wed May 11 2011 - 08:16:25 CDT)
- Slice through molecule (Wed May 11 2011 - 06:32:13 CDT)
- Modelling program that does hydrogen adjust (Thu May 27 2010 - 10:21:49 CDT)
- High quality movies, bmp frames and videomach=poor quality (Wed Apr 21 2010 - 05:57:11 CDT)
- Fwd: High quality movies, bmp frames and videomach=poor quality (Wed Apr 21 2010 - 05:56:33 CDT)
- Re: Colouring atoms named with the same first letter (Tue Apr 20 2010 - 10:13:04 CDT)
- Colouring atoms named with the same first letter (Fri Apr 16 2010 - 08:15:07 CDT)
- Re: Broken bonds in trajectory due to pbc (Wed Dec 09 2009 - 06:39:48 CST)
- Broken bonds in trajectory due to pbc (Tue Dec 08 2009 - 05:41:07 CST)
- visualisation problem with bonds and PBC (Fri Sep 26 2008 - 09:32:42 CDT)
- Radial Density (Wed Mar 19 2008 - 11:12:56 CDT)
- periodic images for trajectory (Wed Feb 27 2008 - 04:18:56 CST)
Jennifer Young
- animation from files with different numbers of atoms (Sat Jun 22 2002 - 16:21:01 CDT)
Jeremiah Babcock
- Re: Running CUDA on a laptop (Thu Jan 15 2015 - 22:59:18 CST)
- Re: sscache with bigdcd (Wed Jun 25 2014 - 19:07:37 CDT)
- Re: Re: Hydrogen bond occupancy (Fri May 30 2014 - 14:40:15 CDT)
- Re: Re: Hydrogen bond occupancy (Fri May 30 2014 - 03:25:40 CDT)
- Re: choosing an optimal workstation video card for VMD (Tue May 06 2014 - 21:58:36 CDT)
- Re: code precision problem (Mon Apr 21 2014 - 12:32:30 CDT)
- code precision problem (Wed Apr 16 2014 - 15:06:15 CDT)
- Re: measuring angles between principal axes through multiple frames (Tue Nov 05 2013 - 10:24:27 CST)
- measuring angles between principal axes through multiple frames (Mon Nov 04 2013 - 21:55:13 CST)
Jeremias Corradi
- Re: Installing Multiseq updates (Tue Sep 22 2009 - 14:24:43 CDT)
- Re: Installing Multiseq updates (Sat Sep 19 2009 - 11:10:11 CDT)
- Installing Multiseq updates (Thu Sep 17 2009 - 08:42:51 CDT)
Jeremy Lucid
- Re: Gromacs index file (Wed Dec 19 2012 - 06:59:37 CST)
- SASA Algorithm?? (Fri Aug 10 2012 - 04:46:27 CDT)
JeremÃas Corradi
- Re: ligand-protein bonds representation (Tue Apr 22 2014 - 10:08:58 CDT)
Jeremías Corradi
- ligand-protein bonds representation (Tue Apr 22 2014 - 08:36:14 CDT)
jermy23_at_hushmail.com
- Fake Guru Hamid Arabnia and bogus WORLDCOMP and CSCI (Sat Jun 14 2014 - 08:29:47 CDT)
Jernej Zidar
- VMD 1.9.1 for 64-bit Windows (Tue Mar 19 2013 - 21:18:11 CDT)
- Re: missing terminal residues while generating side chain atoms by psfgen (Thu Aug 02 2012 - 04:31:10 CDT)
- Re: namd-l: Re: vmd installation problem (Thu Jul 12 2012 - 01:23:25 CDT)
- Re: hbond analysis (Fri Oct 14 2011 - 08:19:22 CDT)
- Re: Associating .crd file extension with COR Plugin (Tue Sep 27 2011 - 22:34:53 CDT)
- Re: Problem with measuring dihedrals (Tue Sep 20 2011 - 05:28:57 CDT)
- Problem with measuring dihedrals (Tue Sep 20 2011 - 03:47:24 CDT)
- Re: DNA hairpin (Sat Aug 20 2011 - 02:39:31 CDT)
- Re: Molefacture - VMD agreement (Thu Aug 11 2011 - 01:41:08 CDT)
- Re: trajectory of water within 5 A of protein (Tue May 10 2011 - 03:09:38 CDT)
- Re: measure dipole (Tue Mar 29 2011 - 02:16:54 CDT)
- Re: CHARMM parameters for Mn 2+ ion (Fri Mar 25 2011 - 12:57:00 CDT)
- Re: Bad performance of VMD (Wed Nov 30 2005 - 04:41:24 CST)
- Bad performance of VMD (Wed Nov 23 2005 - 09:40:53 CST)
- VMD causing xorg crash (Fri Apr 01 2005 - 16:04:12 CST)
Jeroen Akershoek
- Black & white VMD in CAVE? (Thu Mar 18 2004 - 00:28:34 CST)
- NAMD, IMD, VMD and interaction (Mon Sep 29 2003 - 09:32:29 CDT)
- Re: AtomLexer/lex.yy.c error (Wed Sep 17 2003 - 01:44:46 CDT)
- Re: AtomLexer/lex.yy.c error (Tue Sep 16 2003 - 10:28:20 CDT)
- AtomLexer/lex.yy.c error (Tue Sep 16 2003 - 05:38:11 CDT)
- Menu is missing? (Tue Sep 24 2002 - 03:31:16 CDT)
- SURF_BIN and psfgen missing? (Mon Aug 19 2002 - 03:33:41 CDT)
Jerome Henin
- Re: release memory in TCL (Wed Jun 06 2007 - 17:47:26 CDT)
- Re: bug report in VMD 1.8.5 (Mon Feb 26 2007 - 19:32:29 CST)
- Re: VMD using CygWin? (Tue Dec 19 2006 - 12:05:02 CST)
- Re: problem/bug? calling hbonds within a loop over the residues (tcl) (Fri Dec 08 2006 - 10:08:32 CST)
- Re: xterm problem?? (Fri Oct 27 2006 - 13:56:32 CDT)
- Re: cutting short a DMPC bilayer in VMD (Sat Oct 07 2006 - 11:33:03 CDT)
- Re: STRIDE for a trajectory in text mode (Sun Oct 01 2006 - 23:53:13 CDT)
- Re: problem with tcl script in text mode (Wed Sep 20 2006 - 14:43:29 CDT)
- Re: puts format (Wed Sep 13 2006 - 18:01:21 CDT)
- Re: namd-l: Recentering the box on target molecule and wraping (Mon Sep 11 2006 - 12:05:04 CDT)
- Re: namd-l: CoordinateTransformation (Sun Sep 03 2006 - 17:54:17 CDT)
- Re: Video Card (Tue Nov 29 2005 - 14:00:55 CST)
Jerry Ebalunode
- RE: web script (Fri Jan 27 2006 - 12:50:20 CST)
- Re: VMD & FC 4.0 (Wed Jul 13 2005 - 15:02:05 CDT)
- Re: vmd mpg movies not working in office 2000 (Tue Jul 12 2005 - 18:33:49 CDT)
- Re: vmd mpg movies not working in office 2000 (Tue Jul 12 2005 - 18:33:19 CDT)
- GLSL or Clip plane (Sat Apr 02 2005 - 17:44:02 CST)
- Re: VMD 1.8.3 beta 1 available for testing/feedback (Mon Dec 06 2004 - 11:56:12 CST)
- Re: distribution analysis (Wed Dec 01 2004 - 10:00:26 CST)
- Re: problems with vecdist in accepting variables (Tue Sep 21 2004 - 11:27:15 CDT)
- problems with vecdist in accepting variables (Tue Sep 21 2004 - 04:38:01 CDT)
- Re: New Athlon64/Opteron AMD64/EMT64 test version... (Tue Sep 14 2004 - 13:48:44 CDT)
- multiple entry mol2 file (Tue Aug 17 2004 - 07:15:05 CDT)
- Re: CVS access is back online... (Fri Aug 06 2004 - 06:53:15 CDT)
- CVS root directory not found (Mon Aug 02 2004 - 10:57:47 CDT)
- nvidia 6106 kernel drivers and opengl (Tue Jul 13 2004 - 20:00:21 CDT)
- Re: Need a few testers for Linux version of VMD 1.8.3... (Fri Jun 11 2004 - 09:56:51 CDT)
- measuring distances in vmd tkon (Thu May 06 2004 - 15:18:00 CDT)
- Re: making ps files (Fri Apr 09 2004 - 11:19:08 CDT)
- msms and vmd on amd athlon64. (Mon Mar 15 2004 - 12:49:18 CST)
- Re: msms and socketPort (Fri Mar 12 2004 - 15:49:28 CST)
- msms and socketPort (Fri Mar 12 2004 - 07:11:43 CST)
- Re: your mail athlon 64/opteron VMD (Mon Mar 08 2004 - 17:34:48 CST)
- (no subject) (Fri Mar 05 2004 - 23:09:07 CST)
- athlon64 version of vmd (Fri Mar 05 2004 - 13:08:52 CST)
- Hybond calulator and display (Fri Jan 16 2004 - 12:24:30 CST)
- vmd and msms for mac (Mon Dec 22 2003 - 09:15:05 CST)
Jerry Kiser
- Get one of these awesome replicas (Thu Apr 24 2008 - 18:45:18 CDT)
Jerry Parks
- Interpolation in internal space (Thu Oct 13 2005 - 10:21:32 CDT)
- RMSD question (Tue Aug 16 2005 - 17:08:59 CDT)
jerry xu
- ATI radeon x300 (Fri Apr 01 2005 - 12:42:59 CST)
- Re: psfgen and xplor topology (Tue Oct 26 2004 - 15:16:26 CDT)
- Re: vmd psfgen problem with CHARMM (Thu Jul 15 2004 - 17:00:27 CDT)
- Re: vmd psfgen problem with CHARMM (Thu Jul 15 2004 - 14:50:51 CDT)
- Re: vmd psfgen problem with CHARMM (Thu Jul 15 2004 - 13:03:30 CDT)
- vmd psfgen problem with CHARMM (Thu Jul 15 2004 - 10:28:15 CDT)
Jervis Chu
- Re2: ERROR: graphics: color index value '1057' out of range (Sun Feb 27 2011 - 20:43:03 CST)
- ERROR: graphics: color index value '1057' out of range (Sun Feb 27 2011 - 08:41:00 CST)
- Re: Re: How to show dynamic bonds? (Thu Jan 06 2011 - 01:06:18 CST)
- How to show dynamic bonds? (Tue Jan 04 2011 - 01:58:39 CST)
- [Help] cross-sections (Sat Apr 03 2010 - 23:18:54 CDT)
Jesper Lykkegaard Karlsen
- Sv: VMD on HPC (Wed Jul 01 2020 - 05:37:23 CDT)
- VDM and two SpaceNavigators (Thu Mar 31 2016 - 04:33:46 CDT)
Jesper Soerensen
- Re: AMBER prmtop and traj to pqr - radii error (Mon Oct 17 2011 - 18:58:53 CDT)
- Re: Re: amber traj to pqr - radii error (Mon Oct 10 2011 - 15:41:54 CDT)
- amber traj to pqr - radii error (Mon Oct 10 2011 - 12:42:30 CDT)
- Re: 3D Graphics (Tue Nov 25 2008 - 09:41:12 CST)
- 3D Graphics (Thu Nov 20 2008 - 05:50:51 CST)
Jesper SÃ¸rensen
- RE: SASA calculation using periodic images? (Tue May 03 2011 - 06:50:35 CDT)
- SASA calculation using periodic images? (Tue May 03 2011 - 06:14:31 CDT)
Jesper Sørensen
- RE: contacts and pbc (Wed Jul 06 2011 - 03:30:37 CDT)
- RE: contacts and pbc (Sun Jul 03 2011 - 11:30:43 CDT)
- contacts and pbc (Sun Jul 03 2011 - 08:39:02 CDT)
- showperiodic - not self? (Mon Jun 13 2011 - 12:14:44 CDT)
- RE: size for render (Tue May 24 2011 - 07:24:03 CDT)
- RE: SASA calculation using periodic images? (Thu May 05 2011 - 07:27:34 CDT)
- RE: SASA calculation using periodic images? (Tue May 03 2011 - 08:38:29 CDT)
Jessica Padden
- (no subject) (Thu Mar 07 2013 - 13:05:49 CST)
Jessica Sarver
- Tilting helix in VMD (Wed Aug 05 2015 - 14:11:16 CDT)
Jester Itliong
- Re: Please help me understand the .dx file generated when using PME Electrostatics Analysis (Sat Dec 09 2023 - 20:02:02 CST)
- Please help me understand the .dx file generated when using PME Electrostatics Analysis (Sat Dec 09 2023 - 11:46:29 CST)
jestin mandumpal
- Setting number of water molecules for the given box dimension (Thu Oct 18 2007 - 22:01:57 CDT)
- TIP5P (Sun Aug 26 2007 - 23:41:03 CDT)
Jevgenij Raskatov
- Re: Re: Alpha-RMSD (Thu May 28 2015 - 17:31:48 CDT)
- Re: Alpha-RMSD (Wed May 27 2015 - 20:25:27 CDT)
- (no subject) (Fri Mar 27 2015 - 11:43:31 CDT)
- (no subject) (Fri Mar 06 2015 - 14:26:49 CST)
- (no subject) (Fri Mar 06 2015 - 14:01:48 CST)
- (no subject) (Wed Feb 25 2015 - 21:07:32 CST)
- (no subject) (Mon Feb 23 2015 - 10:27:01 CST)
- (no subject) (Thu Feb 19 2015 - 16:31:31 CST)
- (no subject) (Wed Feb 18 2015 - 16:11:18 CST)
- (no subject) (Sat Feb 07 2015 - 19:45:14 CST)
- (no subject) (Mon Feb 02 2015 - 20:15:45 CST)
jfgaff_at_ncsu.edu
- changing bond color (Tue Jan 06 2009 - 11:39:20 CST)
jgrime_at_uchicago.edu
- Re: VMD with LAMMPS trjaectory - help? (Thu Sep 29 2011 - 09:49:32 CDT)
- VMD with LAMMPS trjaectory - help? (Wed Sep 28 2011 - 18:20:36 CDT)
jhamre
- Setting up remote GPU (Wed Mar 13 2019 - 06:23:53 CDT)
Jhonatam Cordeiro Rodrigues
- Assigning different temperatures in the same simulaiton (Mon Mar 31 2014 - 08:25:06 CDT)
JhonY. I.
- volmap parameters (Sat Nov 21 2015 - 20:52:10 CST)
- catdcd in VMD (Sat Oct 24 2015 - 10:26:53 CDT)
- ion visualization in VMD (Wed Jan 21 2015 - 21:47:30 CST)
- method for user-defined coloring (Fri Jan 06 2012 - 11:53:37 CST)
- question on "Recompile VMD with larger index types" (Wed Sep 28 2011 - 00:50:33 CDT)
- problem of exceeding max atom number (Tue Sep 27 2011 - 12:51:43 CDT)
- a file for commands of console (Sat Jul 30 2011 - 08:55:14 CDT)
- load of information on B factor as independent file (Tue Dec 14 2010 - 00:55:12 CST)
- color change on atoms selected using mouse (Thu Dec 09 2010 - 10:11:35 CST)
- reading of one frame from DCD file (Tue Nov 30 2010 - 18:13:14 CST)
- reading of one frame from DCD file (Tue Nov 30 2010 - 18:12:03 CST)
- question on color assignment on trajectories (Mon Nov 15 2010 - 20:29:49 CST)
Jia-Yang Lim
- Generate Trajectory using Gaussian Cube Files (Tue Sep 19 2023 - 23:51:39 CDT)
Jiabin You
- VMD warning: ignoring out of range atom #*** with id *** (Wed Dec 15 2021 - 08:37:17 CST)
Jiabo Li
- display Gaussian cube file (Tue Jul 12 2005 - 11:24:56 CDT)
Jiajian Li
- Use "Metal complexes/FeS-clusters" in VMD paratool (Wed Jan 18 2012 - 16:01:10 CST)
jiali wang
- Re: Lipids generated by VMD could not use "coordpdb" to read (Mon Mar 30 2020 - 14:40:04 CDT)
- Lipids generated by VMD could not use "coordpdb" to read (Thu Mar 26 2020 - 23:42:27 CDT)
- Re: Unable to view protein as cartoon or trace or tube (Mon Jan 13 2020 - 17:31:33 CST)
- Is there someway to render protein picture without background color? (Sat Sep 14 2019 - 20:25:54 CDT)
Jian Dai
- The charge of glycine mutations in Mutator is not equal to zero (Sun Mar 29 2015 - 07:28:47 CDT)
- Build a customized alpha helix using Molefacture by command (Tue Jan 13 2015 - 08:23:01 CST)
- volmap question (Fri May 08 2009 - 01:22:22 CDT)
Jian Zou
- Re: Slow tcl/tk script for trajectory analysis (Fri May 16 2008 - 15:23:46 CDT)
- Re: measure distance (Wed Apr 23 2008 - 09:45:58 CDT)
- Re: atomselect (Thu Apr 17 2008 - 09:06:48 CDT)
- Re: How to produce a graph as the one attached, using VMD? (Mon Sep 11 2006 - 00:15:55 CDT)
- Re: How to produce a graph as the one attached, using VMD? (Sun Sep 10 2006 - 22:55:52 CDT)
- Re: change default drawing and coloring method (Wed May 24 2006 - 20:44:06 CDT)
- Re: change default drawing and coloring method (Tue May 23 2006 - 22:16:49 CDT)
- several cmds to read structure and trajectory files (Wed Sep 14 2005 - 08:19:33 CDT)
- Re: how to start vmd with "menu tkcon on"? (Tue Sep 06 2005 - 09:55:50 CDT)
- how to start vmd with "menu tkcon on"? (Tue Sep 06 2005 - 02:37:37 CDT)
- Re: problem about hotkey for vmd-1.8.3 windows version (Mon Jul 25 2005 - 20:47:00 CDT)
- problem about hotkey for vmd-1.8.3 windows version (Mon Jul 25 2005 - 09:44:12 CDT)
Jiancong Xu
- mol clipplane (Fri Jul 02 2004 - 14:48:26 CDT)
Jianhui Tian
- residue index problem (Wed Jun 24 2009 - 15:51:54 CDT)
- Re: Warning: no convergence in alignment (Wed Oct 29 2008 - 15:16:08 CDT)
- Re: Warning: no convergence in alignment (Mon Oct 27 2008 - 14:01:21 CDT)
- Warning: no convergence in alignment (Fri Oct 24 2008 - 17:02:08 CDT)
- Re: problem using pbc wrap: broken molecule (Fri Aug 01 2008 - 10:52:45 CDT)
- problem using pbc wrap: broken molecule (Thu Jul 31 2008 - 20:32:47 CDT)
- Calculate density (Mon Nov 19 2007 - 15:21:20 CST)
- Re: Problem with periodic condition (Mon Apr 30 2007 - 15:57:30 CDT)
- Problem with periodic condition (Fri Apr 27 2007 - 13:33:26 CDT)
- Re: tcl code atomselect problem in analysis (Mon Apr 23 2007 - 10:32:12 CDT)
- tcl code atomselect problem in analysis (Mon Apr 23 2007 - 09:24:48 CDT)
- Re: Can anyone help me out with this script (Sat Mar 31 2007 - 19:50:43 CDT)
- Can anyone help me out with this script (Fri Mar 30 2007 - 14:49:45 CDT)
- mol load and mol addfile (Mon Mar 26 2007 - 15:43:20 CDT)
- Re: export Ramachandran datas (Thu Mar 15 2007 - 17:11:27 CDT)
- export Ramachandran datas (Thu Mar 15 2007 - 16:16:21 CDT)
- Calculate End-End distance for DCD (Tue Mar 13 2007 - 15:17:00 CDT)
- Question about RDF of VMD (Sat Feb 24 2007 - 20:33:13 CST)
Jianping Lin
- pops/popc lipid bilayer (Wed Mar 11 2009 - 19:32:42 CDT)
- Charm force field for POPS lipid (Fri Mar 06 2009 - 15:56:34 CST)
- Script for calculating hydrogen-bonding energy (Thu Mar 05 2009 - 19:19:28 CST)
- Re: How to convert DCD file into Amber trajectory file in vmd (Wed Mar 04 2009 - 11:41:14 CST)
- How to convert DCD file into Amber trajectory file in vmd (Tue Mar 03 2009 - 17:30:33 CST)
- MM/PBSA in VMD (Thu Feb 26 2009 - 12:12:46 CST)
- How to get rid of default patch for NTER and CTER (Sun Jan 18 2009 - 15:45:34 CST)
Jiao, Dian NMN (-EXP)
- Re: how to load Orient package in VMD (Wed Aug 24 2011 - 16:55:23 CDT)
- how to load Orient package in VMD (Wed Aug 24 2011 - 15:24:42 CDT)
Jiapu.Zhang_at_csiro.au
- RE: How to produce a graph as the one attached, using VMD? (Sun Sep 10 2006 - 23:49:37 CDT)
- How to produce a graph as the one attached, using VMD? (Sun Sep 10 2006 - 21:32:20 CDT)
Jiawei Xu
- Re: autopsf (Tue May 28 2013 - 15:45:46 CDT)
- Re: Suggestions on parameterizing a ligand to simulate in NAMD (Mon May 20 2013 - 14:11:50 CDT)
- Re: Autoionize error in VMD (Fri Jan 11 2013 - 14:50:26 CST)
- Re: Autoionize error in VMD (Fri Jan 11 2013 - 14:22:13 CST)
- Re: Autoionize error in VMD (Fri Jan 11 2013 - 11:28:46 CST)
- Re: Error in loading large trajectories (Thu Jan 10 2013 - 17:26:53 CST)
- VMD read wrong charges if the atom type is longer than 5 characters in PSF file (Thu Jan 10 2013 - 11:30:40 CST)
- Re: How to read every second frame with bigdcd (Fri Jan 04 2013 - 08:00:40 CST)
- How to read every second frame with bigdcd (Thu Jan 03 2013 - 11:33:31 CST)
Jill Vickery
- Left Right eye stereo flip in Crystal Eyes (Wed Sep 14 2005 - 14:04:52 CDT)
- Stereo on an SGI Octane2 using Crystal Eyes (Mon Dec 27 2004 - 12:50:09 CST)
- Stereo on Mac OX 10.3.3 (Thu May 06 2004 - 16:50:27 CDT)
- Save_state and Load_state (Thu May 01 2003 - 12:05:00 CDT)
- PNY Quadro4 980XGL Card (Wed Feb 05 2003 - 11:47:55 CST)
- Stereo quality and Save State Problems (Fri Nov 08 2002 - 14:07:46 CST)
- High-Res and Eye 3D glasses and SynthaGram Monitors (Wed Sep 11 2002 - 13:53:44 CDT)
- SPACEBALLS (Wed Aug 21 2002 - 17:19:08 CDT)
- Charge coloring and Stereo hot keys (Fri Aug 16 2002 - 17:48:55 CDT)
- Windows XP and Eye3D glasses (Tue Aug 13 2002 - 11:53:48 CDT)
- Joysticks for VMD on Windows XP (Mon Aug 12 2002 - 17:46:29 CDT)
Jim
- Cannot start VMD in background from a script (Sat Jun 21 2014 - 11:08:51 CDT)
- Display CCP4 density map around selection only (Sun Aug 04 2013 - 18:51:08 CDT)
Jim Caldwell
- residue labels in vmd (Wed Mar 05 2003 - 18:59:03 CST)
Jim Fonseca
- video memory and volumetric data (Fri Sep 28 2007 - 15:15:02 CDT)
- Re: surface max_density error (Tue Apr 03 2007 - 15:38:41 CDT)
- surface max_density error (Tue Apr 03 2007 - 11:25:49 CDT)
- multiple dx frames (Wed Feb 28 2007 - 13:49:12 CST)
- volume slices (Sun Feb 04 2007 - 14:32:11 CST)
Jim Kress
- RE: unique residue names (Thu Aug 09 2012 - 13:26:28 CDT)
- unique residue names (Thu Aug 09 2012 - 10:47:33 CDT)
- unique residue names (Thu Aug 09 2012 - 09:55:42 CDT)
- RE: Problem with Reading GROMACS file in VMD (Tue Jul 24 2012 - 09:09:37 CDT)
- RE: questions for trajectory analysis (Wed May 30 2012 - 20:01:18 CDT)
- VMD 1.9.1 becomes unresponsive (Sat May 26 2012 - 15:47:08 CDT)
- RE: Movie making with smoothed trajectories (Thu May 24 2012 - 13:38:23 CDT)
- Movie making with smoothed trajectories (Thu May 24 2012 - 11:02:18 CDT)
Jim Nettles
- Re: Problem using ied.py (Fri Mar 18 2005 - 12:17:25 CST)
- Re: Problem using ied.py (Thu Mar 03 2005 - 16:45:44 CST)
- Re: handling electron density maps (.mrc and .map files) (Sat Dec 18 2004 - 18:20:39 CST)
- Re: Difficulties using Crystal Eyes 3 (Thu Dec 02 2004 - 14:09:58 CST)
- Re: python2.3 and vmd (Sun Oct 24 2004 - 08:21:11 CDT)
- Re: Apple VMD not showing gro file properly (Thu Feb 12 2004 - 23:25:20 CST)
- Densities for protein and ligand (Wed Feb 04 2004 - 11:52:31 CST)
Jim Parker
- Uncertainty estimate of g(r) using measure gofr function (Mon Jan 21 2019 - 21:48:42 CST)
- Re: invalid command name "La::mevsvd_br" (Fri May 18 2018 - 16:34:59 CDT)
- Re: Hydration Shell RDF -- VMD Nomenclature Needed (Mon Mar 02 2015 - 21:20:19 CST)
- Re: Density of water box in solvate 1.5 plugin ~ 0.9 g/cc (Sat Dec 13 2014 - 15:02:17 CST)
- Re: Density of water box in solvate 1.5 plugin ~ 0.9 g/cc (Fri Dec 05 2014 - 15:33:06 CST)
- Density of water box in solvate 1.5 plugin ~ 0.9 g/cc (Fri Dec 05 2014 - 07:29:22 CST)
- Re: Re: Need compile options for text-only version of VMD (Thu Aug 21 2014 - 16:26:37 CDT)
- Re: Re: Need compile options for text-only version of VMD (Thu Aug 21 2014 - 15:22:06 CDT)
- Re: Need compile options for text-only version of VMD (Wed Aug 20 2014 - 16:17:16 CDT)
- Need compile options for text-only version of VMD (Wed Aug 20 2014 - 16:09:15 CDT)
- Re: ffTK generated Gaussian file puts "atoms too close" and Gaussian fails to run (Wed Apr 23 2014 - 07:13:37 CDT)
- Re: ffTK generated Gaussian file puts "atoms too close" and Gaussian fails to run (Fri Apr 04 2014 - 14:32:24 CDT)
- ffTK generated Gaussian file puts "atoms too close" and Gaussian fails to run (Fri Apr 04 2014 - 05:42:33 CDT)
- ffTk user feature request (Fri Apr 04 2014 - 05:58:57 CDT)
- Re: Broken link to MacKerell parameterization tutorial (Fri Mar 21 2014 - 06:28:03 CDT)
- Broken link to MacKerell parameterization tutorial (Thu Mar 20 2014 - 14:26:40 CDT)
- Re: writepsf method of atomselect objects generates bad atom types (Wed Oct 16 2013 - 18:25:32 CDT)
- writepsf method of atomselect objects generates bad atom types (Wed Oct 16 2013 - 13:20:30 CDT)
- Re: Formatting labels in script (Fri Aug 23 2013 - 06:02:26 CDT)
- Re: Formatting labels in script (Fri Aug 23 2013 - 06:30:11 CDT)
- [Solved] Re: Nucleic acid topology file for PSF generation (Fri Dec 04 2009 - 22:13:50 CST)
- Nucleic acid topology file for PSF generation (Thu Dec 03 2009 - 21:56:00 CST)
- Re: Install VMD binary with CUDA, CUDA card detected but then error "no CUDA-capable device is available"--Solved (Sun Oct 11 2009 - 21:31:05 CDT)
- Install VMD binary with CUDA, CUDA card detected but then error "no CUDA-capable device is available" (Thu Sep 17 2009 - 19:33:51 CDT)
- Re: Install VMD with plugins to NAMD--solved (Thu Sep 17 2009 - 19:10:07 CDT)
- Re: Install VMD with plugins to NAMD (Wed Sep 16 2009 - 23:29:11 CDT)
- Re: Install VMD with plugins to NAMD (Wed Sep 16 2009 - 22:53:24 CDT)
- Install VMD with plugins to NAMD (Wed Sep 16 2009 - 21:44:31 CDT)
Jim Pfaendtner
- Re: VMD on Cray/CNL (Fri May 01 2009 - 07:56:02 CDT)
- VMD on Cray/CNL (Fri May 01 2009 - 01:03:07 CDT)
- saving trajectories from the command line (Thu Oct 16 2008 - 07:28:00 CDT)
- building an uncoming sulfide bridge (Thu Jul 10 2008 - 08:56:32 CDT)
- Re: animate read command (Tue Feb 05 2008 - 13:55:29 CST)
- help with animate read command (Tue Feb 05 2008 - 11:26:47 CST)
- Re: changing the order of atom selections / alignment issue (Mon Aug 27 2007 - 10:58:31 CDT)
- changing the order of atom selections / alignment issue (Fri Aug 24 2007 - 17:58:51 CDT)
- Re: automating graphic representations (Fri Aug 24 2007 - 13:55:00 CDT)
- automating graphic representations (Wed Aug 22 2007 - 13:37:41 CDT)
- Re: Re: help with badwater script (Tue Aug 14 2007 - 15:29:12 CDT)
- Re: help with badwater script (Mon Aug 13 2007 - 18:38:12 CDT)
- What does Stride need to draw SS? (Thu Aug 09 2007 - 16:49:58 CDT)
- badwater script - help (Thu Jul 26 2007 - 15:18:48 CDT)
Jim Phillips
- Re: autoionize plugin parsing error (vmd 1.9.3 ) (Fri Jan 06 2017 - 10:53:40 CST)
- Re: Re: namd-l: VMD-NAMD and PDB element column (Mon Dec 14 2015 - 09:04:21 CST)
- Re: Re: namd-l: VMD-NAMD and PDB element column (Sun Dec 13 2015 - 14:32:38 CST)
- Re: namd-l: VMD-NAMD and PDB element column (Sun Dec 13 2015 - 12:17:57 CST)
- Re: namd-l: Fwd: TIP4P and CHARMM27 (Mon Nov 30 2015 - 16:21:44 CST)
- RE: Problems in running AutoIMD (Tue May 19 2015 - 15:18:08 CDT)
- RE: Problems in running AutoIMD (Mon May 18 2015 - 10:32:20 CDT)
- Re: Fwd: Re: namd-l: problems with in text mode towards pdf and pdb files (Fri Nov 21 2014 - 12:50:22 CST)
- Re: Fwd: Re: namd-l: problems with in text mode towards pdf and pdb files (Fri Nov 21 2014 - 10:54:20 CST)
- Re: namd-l: problems with in text mode towards pdf and pdb files (Fri Nov 21 2014 - 09:56:11 CST)
- Re: namd-l: problems with in text mode towards pdf and pdb files (Fri Nov 21 2014 - 09:29:35 CST)
- Re: posting from Yahoo addresses disabled (Wed Apr 09 2014 - 17:10:06 CDT)
- posting from Yahoo addresses disabled (Tue Apr 08 2014 - 17:45:46 CDT)
- Re: [philippebopp@yahoo.com: PME calculations] (Fri Nov 08 2013 - 12:47:05 CST)
- Re: VMD 1.9.1 namdenergy plugin problem with GPU acceleration (Tue Jul 09 2013 - 13:57:02 CDT)
- Re: Performance of psfgen... (Thu Sep 20 2012 - 18:39:27 CDT)
- Re: [Stefan_Franzen@ncsu.edu: Patch for deoxy and dideoxy nucleotides] (Wed Feb 15 2012 - 10:24:11 CST)
- Re: psfgen: error processing bonds (Fri Apr 29 2011 - 08:12:56 CDT)
- Re: generating .xsc files using periodic information (Tue Apr 26 2011 - 23:16:46 CDT)
- Re: psfgen: error processing bonds (Tue Apr 26 2011 - 14:21:01 CDT)
- Re: generating .xsc files using periodic information (Tue Apr 26 2011 - 11:35:43 CDT)
- Re: psfgen: error processing bonds (Tue Apr 26 2011 - 11:43:56 CDT)
- Re: Fwd: [multiple topology files and resetpsf] (Tue Feb 08 2011 - 14:49:48 CST)
- Re: a detail about PSFGENv1.4 (Wed Feb 02 2011 - 22:45:23 CST)
- Re: Fwd: autopsf error: failed on end of segment (Tue Dec 28 2010 - 17:03:41 CST)
- Re: Using LES with solvated, ionized protein (Tue Dec 28 2010 - 16:52:12 CST)
- Re: why atom positions are reset after readpsf, coordpdb commands? (Fri Dec 17 2010 - 10:58:39 CST)
- Re: delatom usage - no such segment? (Mon Dec 17 2007 - 11:50:12 CST)
- Re: Rebuilding lipid from headgroup coordinates only using psfgen, some atoms put on origin (Sat Sep 08 2007 - 21:56:51 CDT)
- Re: python and C++ extensions (Fri Jul 27 2007 - 16:56:00 CDT)
- Re: Wrap only whole molecules (Fri Jul 27 2007 - 16:48:26 CDT)
- Re: PME units (Tue Oct 03 2006 - 14:47:35 CDT)
- Re: namd-l: Re: Angles and dihedral generation (Mon Sep 04 2006 - 16:44:44 CDT)
- Re: CoordinateTransformation (Sun Sep 03 2006 - 21:59:46 CDT)
- Re: Angles and dihedral generation (Sat Sep 02 2006 - 15:25:12 CDT)
- NAMD 2.6 released (Thu Aug 31 2006 - 17:13:40 CDT)
- NAMD 2.6b2 released (Sun Aug 20 2006 - 15:43:38 CDT)
- RE: Uncharged terminal ends? (Mon Nov 28 2005 - 19:14:35 CST)
- Re: problem with writepdb (Mon Oct 24 2005 - 17:33:23 CDT)
- Mac Stereo 3D Displays & Equipment (Wed Oct 19 2005 - 18:29:39 CDT)
- Re: Warining when generating psf file (Wed Oct 19 2005 - 18:15:26 CDT)
- Re: PME values (Wed Aug 24 2005 - 15:27:43 CDT)
- Re: namd-l: volume from VMD and NAMD different? (Fri Aug 05 2005 - 17:46:25 CDT)
- Re: namd-l: volume from VMD and NAMD different? (Fri Aug 05 2005 - 17:34:45 CDT)
- NAMD 2.6b1 Released (Tue Aug 02 2005 - 12:31:02 CDT)
- Re: auto none /psfgen (Thu Jun 30 2005 - 10:40:34 CDT)
- Re: psfgen deleting water molecules (Fri Jun 24 2005 - 15:51:37 CDT)
- RE: Problems with Psf using Charmm format, solvate and autoionize (Thu Jun 09 2005 - 14:02:18 CDT)
- Re: Solvate with LES (Locally Enhanced Sampling) pdb does not work (Thu Jun 09 2005 - 13:41:38 CDT)
- Re: lipid definition (Thu May 26 2005 - 13:11:08 CDT)
- Re: bonding across periodic boundary (Tue Apr 12 2005 - 13:02:10 CDT)
- Re: (Thu Apr 07 2005 - 11:10:45 CDT)
- Re: psfgen and xplor topology (Tue Oct 26 2004 - 13:31:45 CDT)
- Re: psfgen and xplor topology (Tue Oct 26 2004 - 10:32:26 CDT)
- Re: Flexible Water molecules (Fri Sep 24 2004 - 19:02:37 CDT)
- Re: your mail (Thu Jul 29 2004 - 10:45:14 CDT)
- Re: changing the representation of all loaded molecules (Thu May 20 2004 - 15:38:37 CDT)
- Re: a question in using PSFGEN (Tue Apr 27 2004 - 11:04:31 CDT)
- Re: Re: how to make unique chain pdb identifier of virus capsid 60 mer? (Mon Apr 19 2004 - 11:24:14 CDT)
- Re: repitition of residue numbers in LIPIDS (Tue Feb 17 2004 - 17:14:42 CST)
- Re: repitition of residue numbers in LIPIDS (Mon Feb 16 2004 - 17:55:50 CST)
- Re: patch in psfgen - ionic interaction and hydrogen bond (Mon Jan 26 2004 - 17:41:55 CST)
- Re: multiple id's (Mon Jan 19 2004 - 06:50:12 CST)
- Re: Molecular Simulation using PHANToM Haptic (Mon Nov 24 2003 - 18:24:47 CST)
- Re: uninitialized coordinates (Tue Nov 11 2003 - 17:26:02 CST)
- Re: aminoacid mutation (Tue Oct 28 2003 - 11:08:05 CST)
- NAMD-L mailing list (Tue Oct 07 2003 - 15:15:41 CDT)
- Re: convert pdb to psf (Tue Sep 30 2003 - 12:48:26 CDT)
- NAMD 2.5 Released (Mon Sep 29 2003 - 14:02:48 CDT)
- NAMD 2.5b3 Released (Fri Sep 19 2003 - 18:02:58 CDT)
- NAMD 2.5b2 Released (Mon Sep 15 2003 - 19:53:01 CDT)
- Re: Pressure and Gpressure output in NAMD (Wed Aug 06 2003 - 15:23:41 CDT)
- Re: NAMD IMD large protein model (Thu Jun 12 2003 - 11:32:45 CDT)
- Re: psfgen error with alias residue (Mon Jun 09 2003 - 09:33:06 CDT)
- Re: [OT] pdb files with lots of residues (Thu Jan 30 2003 - 09:21:37 CST)
- NAMD 2.4 Released (Mon Mar 11 2002 - 14:24:39 CST)
- Upcoming NAMD Workshop (Tue Feb 26 2002 - 15:24:32 CST)
- NAMD 2.4b2 Release Announcement (Fri Feb 22 2002 - 12:56:35 CST)
- NAMD 2.4b1 released (Mon Jan 28 2002 - 16:44:30 CST)
- Re: display panel only showed 1/4 of its area on the screen. (Sun Jan 20 2002 - 13:59:26 CST)
- Re: 'wrap' any kind of solvent (Mon Dec 03 2001 - 11:14:50 CST)
- NAMD 2.3 Release Announcement (Thu Aug 02 2001 - 14:36:22 CDT)
- Re: switching off the location axes (Fri Mar 09 2001 - 09:39:39 CST)
- NAMD 2.3b1 Release (Fri Feb 23 2001 - 11:01:55 CST)
- Announcing MDSalon! (Tue Nov 21 2000 - 15:15:21 CST)
- NAMD 2.2 Release Announcement (Fri Sep 29 2000 - 18:32:22 CDT)
- NAMD 2.2b1 Release Announcement (Tue Sep 05 2000 - 17:39:24 CDT)
Jim Shepherd
- Re: LAMMPS visualization (Thu Nov 11 2004 - 17:30:26 CST)
- Re: Amber periodic images (Thu Apr 29 2004 - 13:41:23 CDT)
- Bond display and Periodic Boxes (Mon Apr 26 2004 - 14:19:02 CDT)
jim_at_wellyes.com
- Sybyl trajectory (Thu Sep 15 2005 - 14:10:23 CDT)
jimkress_58_at_kressworks.org
- RE: number of line in the VMD TkConsole (Sun Mar 23 2025 - 14:40:56 CDT)
- number of line in the VMD TkConsole (Sat Mar 22 2025 - 21:48:00 CDT)
- RE: Display both-signed portions of isosurface (Sun Jun 02 2024 - 23:19:29 CDT)
- Display both-signed portions of isosurface (Sun Jun 02 2024 - 01:02:52 CDT)
- Deleting portions of isosurfaces (Thu May 23 2024 - 18:30:11 CDT)
- Deleting portions of isosurfaces (Sat May 18 2024 - 00:12:45 CDT)
- Display point charges (Wed Aug 24 2022 - 13:55:01 CDT)
Jimmie Corona
- Rolex replica is a ultimate gift (Tue Apr 29 2008 - 08:25:38 CDT)
jin
- Question about using psfgen on protein 4HVP (Tue Oct 26 2004 - 11:39:16 CDT)
Jin Wen
- Re: installation problem (Wed Dec 23 2009 - 14:13:05 CST)
- installation problem (Tue Dec 22 2009 - 17:46:43 CST)
Jinasena Hewage
- Re: Primary structure, (Fri Jul 10 2015 - 12:53:45 CDT)
- Primary structure, (Fri Jul 10 2015 - 10:45:06 CDT)
- Re: HIS Residue (Fri Jul 03 2015 - 15:03:41 CDT)
- HIS Residue (Fri Jul 03 2015 - 14:08:04 CDT)
- Error- Periodic cell (Thu Jul 02 2015 - 10:48:18 CDT)
- Re: Water molecules (Sat Jun 13 2015 - 16:11:14 CDT)
- Water molecules (Fri Jun 12 2015 - 15:51:20 CDT)
Jindal Shah
- Re: error loading dcd file on Windows XP (Fri Mar 17 2006 - 16:36:58 CST)
- Re: error loading dcd file on Windows XP (Thu Mar 16 2006 - 18:44:30 CST)
- error loading dcd file on Windows XP (Thu Mar 16 2006 - 15:18:24 CST)
- contact map definition (Mon Mar 13 2006 - 11:21:20 CST)
- Generating more than 100,000 water molecules (Tue Jan 24 2006 - 15:06:15 CST)
- PSF file (Tue Jan 17 2006 - 13:21:49 CST)
- Video Card (Tue Nov 29 2005 - 10:24:35 CST)
- Loading files all at once time to create movie (Mon Nov 21 2005 - 12:43:48 CST)
- Re: Analyzing pdb files remotely with VMD installed locally (Wed Sep 07 2005 - 20:09:32 CDT)
- Re: Analyzing pdb files remotely with VMD installed locally (Wed Sep 07 2005 - 11:54:00 CDT)
- Analyzing pdb files remotely with VMD installed locally (Wed Sep 07 2005 - 11:25:50 CDT)
- Dihedral angle calculations for alanine dipeptide (Tue Sep 06 2005 - 12:36:42 CDT)
- Re: No bonds (Wed Aug 24 2005 - 11:35:11 CDT)
- No bonds (Wed Aug 24 2005 - 10:06:09 CDT)
- Re: Script for calculating energy of a water molecule (Wed Aug 17 2005 - 17:07:12 CDT)
- Script for calculating energy of a water molecule (Wed Aug 17 2005 - 11:41:23 CDT)
- Re: VMD running slow (Mon Jul 25 2005 - 14:02:11 CDT)
- Re: VMD running slow (Mon Jul 25 2005 - 12:58:51 CDT)
- VMD running slow (Mon Jul 25 2005 - 12:20:58 CDT)
Jing
- Re: vmd installation with Mesa installed in a non-standard location (Thu Jun 02 2005 - 23:00:34 CDT)
- vmd installation with Mesa installed in a non-standard location (Wed Jun 01 2005 - 23:53:37 CDT)
jing liang
- Re: working out the output files from Timeline (Wed Jan 24 2024 - 23:58:11 CST)
- working out the output files from Timeline (Mon Jan 22 2024 - 11:44:48 CST)
- network analysis for gromacs (Sat Jun 24 2023 - 02:44:51 CDT)
- network analysis on Windows 11 (Thu Jun 22 2023 - 04:51:45 CDT)
- visualisation of molecular orbitals in VMD (Fri Nov 04 2022 - 06:37:41 CDT)
- Qwikmd for QMMM simulations (Mon Mar 09 2020 - 10:37:34 CDT)
- moving atoms and updating distances (Sat Feb 13 2016 - 11:15:34 CST)
- OpenGL Display transparent (Thu Feb 19 2015 - 18:11:46 CST)
- script for displaying multiple frames (Thu Feb 19 2015 - 07:26:17 CST)
jing xia
- Re: Rotate exchanges y and z axes? (Wed Nov 05 2014 - 19:53:16 CST)
Jinhua Zhang
- VMD crashed due to: vmd_LINUXAMD64: indirect_vertex_array.c:659: emit_DrawArrays_old: Assertion `elements_per_request >= count' failed (Mon Jun 19 2006 - 13:28:18 CDT)
jirasak wong-ekkabut
- PMEpot units (Thu Oct 30 2008 - 15:10:05 CDT)
Jiri Polach
- Re: Certain combinations of X-server and X-client do not allow VMD to start (Tue Sep 17 2013 - 08:02:23 CDT)
Jirui Yang
- Re: Molefacture 2 does not generate angles & dihedrals (Mon Oct 30 2023 - 12:20:33 CDT)
jiwu liu
- Re: vmd command delay (Tue Nov 06 2007 - 20:02:27 CST)
- vmd command delay (Mon Nov 05 2007 - 16:55:50 CST)
- sequential multiple structures (Thu Sep 28 2006 - 17:50:15 CDT)
- can VMD show artificial bond info? (Wed Oct 19 2005 - 18:04:31 CDT)
jj mm
- Rv: Re: Phonon spectrum and VACF (Tue Dec 14 2010 - 12:09:38 CST)
- Phonon spectrum and VACF (Thu Dec 09 2010 - 03:11:03 CST)
jmp17_at_duke.edu
- quick help (Wed Oct 02 2002 - 00:48:31 CDT)
jnsong
- Re: how to get pqr format file with catdcd (Wed Jun 22 2011 - 02:22:59 CDT)
- Re: how to get pqr format file with catdcd (Mon Jun 20 2011 - 22:00:33 CDT)
- how to get pqr format file with catdcd (Sat Jun 18 2011 - 01:25:15 CDT)
- Re: Do psf generated by psfgen and psf produced by "$sel writepsf" function in VMD have different impact on MD simulation using NAMD? (Tue May 17 2011 - 21:42:42 CDT)
- Re: Do psf generated by psfgen and psf produced by "$sel writepsf" function in VMD have different impact on MD simulation using NAMD? (Tue May 17 2011 - 21:32:52 CDT)
- Do psf generated by psfgen and psf produced by "$sel writepsf" function in VMD have different impact on MD simulation using NAMD? (Tue May 17 2011 - 08:54:54 CDT)
- Re: Problem with using bigdcd.tcl (Wed Mar 23 2011 - 00:06:00 CDT)
- Problem with using bigdcd.tcl (Sun Mar 20 2011 - 22:38:01 CDT)
- Problem with using bigdcd.tcl (Tue Mar 15 2011 - 21:42:10 CDT)
jo hanna
- Further angle question (Sat Sep 08 2007 - 09:16:15 CDT)
- Computing angles (Fri Sep 07 2007 - 17:18:33 CDT)
jo333_4_at_lawrence-lca.co.uk
- Inspired Internet Business Opportunity! (Wed Sep 06 2000 - 13:38:24 CDT)
Joaim Swedberg
- How to disable CUDA in VMD-1.9? (Wed Nov 30 2011 - 20:29:48 CST)
- Patching Glu/N-terminus peptide bond type bond (Wed Nov 16 2011 - 17:41:38 CST)
Joakim Swedberg
- How to disable CUDA in VMD 1.9.1? (Sun Sep 16 2012 - 21:48:38 CDT)
- N-methylated amino acid topologies (Wed May 02 2012 - 19:20:41 CDT)
- Selecting CUDA devices in VMD 1.8.7 (Tue May 11 2010 - 17:49:54 CDT)
Joan Winslow
- Get your w4tch now Villa (Thu Jul 24 2008 - 04:40:10 CDT)
Joanne Hanna
- Making a Movie (Tue Jun 20 2006 - 09:38:06 CDT)
Joao Ribeiro
- Re: Qwikmd for QMMM simulations (Thu Mar 12 2020 - 15:33:17 CDT)
- Re: Increasing cores in QwiKMD (Thu Mar 12 2020 - 15:28:23 CDT)
- Re: reseting namd library and uploading new topology file (Fri Mar 06 2020 - 11:00:48 CST)
- Re: question about an error in QuickMD (Wed Jan 29 2020 - 15:54:30 CST)
- Re: question about an error in QuickMD (Wed Jan 29 2020 - 16:11:01 CST)
- Re: question about an error in QuickMD (Wed Jan 29 2020 - 15:38:58 CST)
- Re: Fwd: RMSD pluging error (Mon Jan 06 2020 - 09:20:56 CST)
- Re: Charm++ fatal error: FATAL ERROR: UNABLE TO FIND BOND PARAMETERS FOR CG321 NG301 (ATOMS 6407 6408) .. ERROR) Error connecting to localhost on port 3000 (Mon Dec 16 2019 - 09:26:08 CST)
- Re: Running RMSF script on compute canada (Thu Dec 12 2019 - 16:18:58 CST)
- Re: query on how to allow the protein to interact with the water molecules (Tue Oct 08 2019 - 09:01:51 CDT)
- Re: For calculating the number of osmolytes molecules (Mon Sep 16 2019 - 09:35:59 CDT)
- Re: Extract Most Frequently found structure (Fri Aug 16 2019 - 08:11:56 CDT)
- Re: Generate QM Region Topology in QwikMD for metal ions to perform QM/MM (Tue Jul 16 2019 - 09:29:31 CDT)
- Re: vmd moveby command inside loop (Thu Jul 11 2019 - 09:23:32 CDT)
- New version of Molefacture -small molecule modeling tool- posted (Wed Jul 10 2019 - 16:59:50 CDT)
- Re: FATAL ERROR: DIDN'T FIND vdW PARAMETER FOR ATOM TYPE OT (Wed Jul 10 2019 - 09:49:09 CDT)
- Re: How to incorporate new probe molecules in DruGui? (Tue Jul 09 2019 - 09:07:48 CDT)
- Re: Error during minimizazion - Number of atoms in fixed atoms PDB... (Tue Jun 18 2019 - 09:38:50 CDT)
- Re: namd-l: vecsub:two vectors don't have the same size (Thu Jun 06 2019 - 09:21:58 CDT)
- Re: Re: psfgen problems of many segment complex (Tue May 28 2019 - 08:45:26 CDT)
- MD Simulations with GROMACS/NAMD/AMBER/VMD: Seasonal School in Stockholm 10-13 June (Tue Apr 30 2019 - 09:43:46 CDT)
- Re: QwikMD Glycoside Hydrolase Tutorial step 2 (Fri Apr 26 2019 - 08:57:56 CDT)
- Re: Bugs and Questions (Thu Apr 25 2019 - 14:14:17 CDT)
- Re: Bugs and Questions (Thu Apr 25 2019 - 14:22:44 CDT)
- Re: QwikMD Glycoside Hydrolase Tutorial step 2 (Thu Apr 25 2019 - 13:31:40 CDT)
- Re: Bugs and Questions (Thu Apr 25 2019 - 13:39:32 CDT)
- Re: Problem with QwikMD automatic NTER patch (Wed Apr 17 2019 - 16:59:41 CDT)
- Re: Creating and using a tk button (Mon Apr 08 2019 - 07:25:50 CDT)
- Re: VMD psfgen lonepair handling (Tue Mar 26 2019 - 08:33:21 CDT)
- Re: Visualization Question (Tue Mar 26 2019 - 08:16:02 CDT)
- Re: Idle script error (Mon Mar 25 2019 - 09:11:52 CDT)
Joao Vieira-Ribeiro
- Molecular Design Interface Software Development Position (Tue Jul 06 2021 - 15:00:34 CDT)
Joaquim Rui de Castro Rodrigues
- RE: Atom selection based on center of sphere (Wed Mar 27 2024 - 06:23:54 CDT)
- RE: Discrepancy in value of dihedral angles of a sugar molecule by VMD tools (Thu Jul 22 2021 - 09:56:53 CDT)
- RE: Measure helicity at each frame (Sat Jun 19 2021 - 07:24:19 CDT)
- RE: Selecting first three characters of a variable with tcl in VMD (Thu Jun 04 2020 - 03:24:22 CDT)
- RE: atomselect moveby: non-numeric in vector (Tue Feb 18 2020 - 10:46:13 CST)
- Re: maiil about installation of vmd1.9.3 from source code (Fri Jul 13 2018 - 10:39:54 CDT)
- RE: Defining space coordinates for multiple structures (Tue Dec 08 2015 - 14:17:13 CST)
- RE: Shifting the Geometric Center of entire set of molecules to origin (Wed Nov 04 2015 - 06:14:13 CST)
- RE: Problem on merging multi-psf files into one (Tue Oct 20 2015 - 07:24:14 CDT)
- RE: minimum value of index numbers (Tue Jun 16 2015 - 12:56:15 CDT)
- RE: measure sasa of a complex (CNT and protein) (Thu Apr 16 2015 - 12:23:09 CDT)
- RE: Running TCL scripts (textmode) on a Server (Wed Mar 25 2015 - 07:12:38 CDT)
- RE: How to write coordinates to a pdb without replacing existing entries (Sun Mar 08 2015 - 13:50:57 CDT)
- RE: How to write coordinates to a pdb without replacing existing entries (Sun Mar 08 2015 - 11:41:18 CDT)
- RE: can't use arrow key in vmd -disp text mode (Sat Nov 08 2014 - 18:24:19 CST)
- RE: Viewing SASA points through draw command-problem (Thu Jun 12 2014 - 12:36:46 CDT)
- RE: cant find output file from tachyon render. (Thu Mar 27 2014 - 14:52:23 CDT)
- RE: Adding a keyword to mol addfile (Thu Jan 30 2014 - 08:23:09 CST)
- RE: measuring angles between principal axes through multiple frames (Tue Nov 05 2013 - 03:46:17 CST)
- RE: Creating custom molecule in VMD scripting (Tue Oct 29 2013 - 06:45:08 CDT)
- RE: Problem in buried surface area calculation (Tue Aug 27 2013 - 10:39:46 CDT)
- RE: not very helpful documentation (Wed Nov 28 2012 - 10:50:30 CST)
- RE: secondary structure calculations (Sat Oct 13 2012 - 14:38:36 CDT)
- RE: secondary structure calculations (Fri Oct 12 2012 - 07:30:52 CDT)
- RE: changing name of N and C term residues (Fri Sep 21 2012 - 13:04:59 CDT)
- writing a psf with bonds (Mon Aug 20 2012 - 14:13:34 CDT)
- RE: Problem with hydration script (Thu Apr 19 2012 - 14:23:33 CDT)
Joaquim Rui Rodrigues
- Re: select atoms (Mon Mar 02 2009 - 04:57:41 CST)
- Re: Problem with Install (Fri Jan 16 2009 - 06:59:15 CST)
- Re: atom selection (Wed Dec 03 2008 - 11:44:55 CST)
- Re: change the radius of atoms (Thu Oct 23 2008 - 05:40:59 CDT)
- suggested graphic card for Mac Pro (Thu Oct 02 2008 - 12:09:32 CDT)
- Re: Create atom selection from list of integers (Mon Jun 02 2008 - 12:10:28 CDT)
Jocelyn Rodgers
- outputing secondary structure from timeline (Mon Jan 23 2006 - 10:29:30 CST)
Jodi Ann Hadden
- Hands-On Workshop on Integrative Modeling and Simulations (Wed Nov 16 2016 - 11:28:03 CST)
- Hands-On Workshop on Computational Biophysics: November 14-18 in Atlanta, GA (Thu Sep 29 2016 - 00:27:46 CDT)
- Hands-On Workshop on Computational Biophysics: October 17-21 in Urbana, IL (Fri Sep 16 2016 - 15:35:45 CDT)
Joe Huang
- Re: Molecular dynamics order parameters (Tue May 20 2003 - 17:41:59 CDT)
- Re: Memory problems using the "move" command inside a loop! (Fri May 02 2003 - 16:23:54 CDT)
- Memory problems with TCL scripts in VMD. (Thu Mar 20 2003 - 13:02:48 CST)
- Question about dihedral angles in VMD. (Wed Aug 07 2002 - 15:01:06 CDT)
- Re: GnuPlot works! (Mon Apr 22 2002 - 18:10:45 CDT)
- How to plot the data created by VMD analysis script - difference_matrix? (Thu Apr 18 2002 - 14:22:40 CDT)
Joe Janicki
- VolMap Tool Question (Mon Jun 13 2011 - 13:36:18 CDT)
Joe Konecny
- Re: vmd on raspberry pi (Thu Feb 20 2020 - 13:32:45 CST)
- Re: vmd on raspberry pi (Thu Feb 20 2020 - 13:13:47 CST)
- Re: vmd on raspberry pi (Wed Feb 19 2020 - 14:06:27 CST)
- vmd on raspberry pi (Wed Feb 19 2020 - 09:39:31 CST)
Joe Zhou
- Re: passive stereo setup on linux (Thu Mar 04 2004 - 12:55:31 CST)
- Re: passive stereo setup on linux (Wed Mar 03 2004 - 14:47:53 CST)
- Re: passive stereo setup on linux (Tue Mar 02 2004 - 12:28:17 CST)
- passive stereo setup on linux (Mon Mar 01 2004 - 16:18:06 CST)
Joel Subach
- Re: Hessian Error (Tue Jan 28 2025 - 14:19:52 CST)
- Re: ffTK Opt Charges Tab QM Target Data Section OUTPUT FILES Inquiry (Sat Dec 14 2024 - 11:45:39 CST)
- ffTK Opt Charges Tab QM Target Data Section OUTPUT FILES Inquiry (Sat Dec 14 2024 - 11:40:53 CST)
- Re: ffTK Opt Charges Tab QM Target Data Section OUTPUT FILES Inquiry (Sat Dec 14 2024 - 11:43:52 CST)
- Re: Anyone Completed ffTK Calc Bonded Tab using ORCA gbw instead of Gaussian chk? (Mon Nov 25 2024 - 03:57:21 CST)
- Re: Re: flipping a .inp file for a water interaction INQUIRY (Sat Nov 09 2024 - 23:39:54 CST)
- Re: ffTK Water Int Tab .inp File dropping the Charge Value from -2 to 0 Inquiry? (Sat Nov 09 2024 - 23:35:46 CST)
- Re: ffTK Water Int Tab .inp File dropping the Charge Value from -2 to 0 Inquiry? (Fri Nov 08 2024 - 03:52:27 CST)
- Re: ffTK Water Int Tab .inp File dropping the Charge Value from -2 to 0 Inquiry? (Tue Nov 05 2024 - 03:28:07 CST)
- ffTK Water Int Tab .inp File dropping the Charge Value from -2 to 0 Inquiry? (Mon Nov 04 2024 - 09:16:41 CST)
- ffTK Water Int tab generated .inp Charge 0 Mult 1 INQUIRY? (Mon Oct 21 2024 - 06:24:11 CDT)
- Re: Re: ffTK Opt Charge APPLICATION HALTING ON ERROR Inquiry (Fri Aug 30 2024 - 03:35:02 CDT)
- Re: Re: ffTK Opt Charge APPLICATION HALTING ON ERROR Inquiry (Thu Aug 29 2024 - 09:55:15 CDT)
- Re: Re: ffTK Opt Charge APPLICATION HALTING ON ERROR Inquiry (Thu Aug 29 2024 - 03:14:59 CDT)
- Re: Re: ffTK Opt Charge APPLICATION HALTING ON ERROR Inquiry (Mon Aug 26 2024 - 10:03:14 CDT)
- Re: ffTK Opt Charge APPLICATION HALTING ON ERROR Inquiry (Sat Aug 24 2024 - 10:53:04 CDT)
- Re: Re: flipping a .inp file for a water interaction INQUIRY (Sun Aug 18 2024 - 04:47:22 CDT)
- Re: Re: flipping a .inp file for a water interaction INQUIRY (Sat Aug 17 2024 - 05:03:19 CDT)
- Re: Re: flipping a .inp file for a water interaction INQUIRY (Sun Aug 04 2024 - 06:10:59 CDT)
- Re: Re: flipping a .inp file for a water interaction INQUIRY (Sun Aug 04 2024 - 05:04:33 CDT)
- Re: fftk, ORCA, Bond and Angle Optimization, error As a subsequent Frequencies calculation has been requested (Thu Jul 25 2024 - 13:05:15 CDT)
- Re: FFTK water molecules overlapped and charge optimisation error (Tue Jul 23 2024 - 02:18:55 CDT)
- Re: ffTK Water Int Tab .inp File Flipping a Waters Coordinates Inquiry (Mon Jul 15 2024 - 09:09:18 CDT)
- Re: ffTK Water Int Tab .inp File Flipping a Waters Coordinates Inquiry (Sun Jul 14 2024 - 12:19:46 CDT)
- Re: ffTK Water Int Tab Optimization INTERACTION DISTANCE INQUIRY (Mon Jul 08 2024 - 12:04:35 CDT)
- Re: ffTK Water Int Tab Optimization INTERACTION DISTANCE INQUIRY (Mon Jul 08 2024 - 03:47:52 CDT)
- ffTK Water Int Tab Optimization INTERACTION DISTANCE INQUIRY (Sun Jul 07 2024 - 05:35:12 CDT)
- Re: Re: ffTK HF/6-31G Base Set QM or a Different QM Base Set? (Sat May 11 2024 - 11:09:14 CDT)
- Re: is ! RI-MP2 6-31G* TightSCF opt autoaux rijcosx compatibile with ffTK CHARMM INQUIRY (Sat May 11 2024 - 10:55:20 CDT)
- Re: Adding an Implicit Solvation Compatible with below ffTK suggested Methods INQUIRY (Sat May 11 2024 - 10:49:03 CDT)
- Re: Adding an Implicit Solvation Compatible with below ffTK suggested Methods INQUIRY (Wed May 08 2024 - 14:06:02 CDT)
- Adding an Implicit Solvation Compatible with below ffTK suggested Methods INQUIRY (Tue May 07 2024 - 13:26:58 CDT)
- is ! RI-MP2 6-31G* TightSCF opt autoaux rijcosx compatibile with ffTK CHARMM INQUIRY (Sat Apr 27 2024 - 02:03:24 CDT)
- Re: Re: ffTK HF/6-31G Base Set QM or a Different QM Base Set? (Thu Apr 25 2024 - 10:17:20 CDT)
- Re: Re: ffTK HF/6-31G Base Set QM or a Different QM Base Set? (Thu Apr 25 2024 - 09:39:46 CDT)
- Re: Re: ffTK HF/6-31G Base Set QM or a Different QM Base Set? (Thu Apr 25 2024 - 05:42:29 CDT)
- Re: Re: ffTK HF/6-31G Base Set QM or a Different QM Base Set? (Wed Apr 24 2024 - 09:00:23 CDT)
- Re: ffTK HF/6-31G Base Set QM or a Different QM Base Set? (Wed Apr 24 2024 - 06:37:51 CDT)
- ffTK HF/6-31G Base Set QM or a Different QM Base Set? (Wed Apr 24 2024 - 05:07:16 CDT)
- Re: Anyone Completed ffTK Calc Bonded Tab using ORCA gbw instead of Gaussian chk? (Thu Feb 22 2024 - 03:08:29 CST)
- Re: Re: ffTK Parameter Selection i.e. just Scan and Opt Torsion Selection Viable? (Tue Feb 20 2024 - 07:33:37 CST)
- Re: Re: ffTK Opt Torsions .log file input Inquiry (Tue Feb 20 2024 - 06:15:00 CST)
- Re: ffTK Opt Torsions Tab Hysteresis Problem in the QM Calculation Inquiry or Phase Periodicity error? (Tue Feb 20 2024 - 06:06:29 CST)
- Re: ffTK Parameter Selection i.e. just Scan and Opt Torsion Selection Viable? (Tue Feb 20 2024 - 06:09:32 CST)
- Re: ffTK Tabs for Just Dihedral Optimization Can I Just Use Scan and Opt Tabs Inquiry? (Tue Feb 20 2024 - 06:04:23 CST)
- Re: ffTK Calc Bonded Tab gbw file not recognized INQUIRY (Tue Feb 20 2024 - 05:55:28 CST)
- Re: Anyone Completed ffTK Calc Bonded Tab using ORCA gbw instead of Gaussian chk? (Tue Feb 20 2024 - 05:43:11 CST)
- Re: Anyone Completed ffTK Calc Bonded Tab using ORCA gbw instead of Gaussian chk? (Tue Feb 20 2024 - 02:01:03 CST)
- Anyone Completed ffTK Calc Bonded Tab using ORCA gbw instead of Gaussian chk? (Mon Feb 19 2024 - 14:08:30 CST)
- Re: ffTK Calc Bonded Tab gbw file not recognized INQUIRY (Fri Feb 16 2024 - 07:50:37 CST)
- Re: ffTK Calc Bonded Tab gbw file not recognized INQUIRY (Wed Feb 14 2024 - 05:40:24 CST)
- Re: ffTK Opt. Charge Run QM Target Data WATER INTERACTION ENERGY DATA INQUIRY (Fri Feb 09 2024 - 11:47:09 CST)
- ffTK Opt. Charge Run QM Target Data WATER INTERACTION ENERGY DATA INQUIRY (Tue Feb 06 2024 - 09:43:16 CST)
- Re: ffTK Opt. Charge Run Optimization Error PSF File Problem INQUIRY (Mon Feb 05 2024 - 11:32:15 CST)
- Re: ffTK Opt. Charge Run Optimization Error PSF File Problem INQUIRY (Mon Feb 05 2024 - 11:39:02 CST)
- ffTK Opt. Charge Run Optimization Error PSF File Problem INQUIRY (Sat Feb 03 2024 - 08:36:02 CST)
- Re: ffTK Water Interactions Ligand Atom Hydrogen Bond Acceptors Acting as Donors Inquiry (Thu Dec 14 2023 - 06:19:45 CST)
- Re: ffTK vmd Index Atom Numbering via ORCA .inp and .out Files Inquiry (Wed Dec 13 2023 - 04:30:37 CST)
- Re: ffTK vmd Index Atom Numbering via ORCA .inp and .out Files Inquiry (Wed Dec 13 2023 - 03:46:25 CST)
- ffTK Tabs for Just Dihedral Optimization Can I Just Use Scan and Opt Tabs Inquiry? (Fri Oct 27 2023 - 11:18:02 CDT)
- ffTK Scan Torsions Scan +/-and Step Size Inquiry which are Best Values? (Fri Oct 27 2023 - 11:12:38 CDT)
- Re: ffTK Opt Torsions Tab Hysteresis Problem in the QM Calculation Inquiry or Phase Periodicity error? (Thu Oct 26 2023 - 11:09:03 CDT)
- Re: ffTK Opt Torsions Refine Section i.e. PERIODICITY, PHASE SHIFT Values? (Tue Oct 24 2023 - 10:40:24 CDT)
- ffTK Opt Torsions Refine Section i.e. PERIODICITY, PHASE SHIFT Values? (Sun Oct 22 2023 - 07:21:10 CDT)
- Re: ffTK FATAL ERROR: UNABLE TO FIND IMPROPER PARAMETERS Inquiry (Sat Oct 21 2023 - 07:09:38 CDT)
- Re: ffTK FATAL ERROR: UNABLE TO FIND IMPROPER PARAMETERS Inquiry (Fri Oct 20 2023 - 09:39:13 CDT)
- Re: ffTK FATAL ERROR: UNABLE TO FIND IMPROPER PARAMETERS Inquiry (Fri Oct 20 2023 - 09:19:14 CDT)
- ffTK Parameter Selection i.e. just Scan and Opt Torsion Selection Viable? (Wed Oct 18 2023 - 06:13:50 CDT)
- Re: ffTK FATAL ERROR: UNABLE TO FIND IMPROPER PARAMETERS Inquiry (Sat Oct 14 2023 - 08:47:54 CDT)
- ffTK FATAL ERROR: UNABLE TO FIND IMPROPER PARAMETERS Inquiry (Fri Oct 13 2023 - 06:52:49 CDT)
- Re: ERROR: UNABLE TO FIND IMPROPER PARAMETERS Inquiry (Fri Oct 13 2023 - 06:46:37 CDT)
- ERROR: UNABLE TO FIND IMPROPER PARAMETERS Inquiry (Wed Oct 11 2023 - 09:05:22 CDT)
- Re: Viewing Van der Waals bonds of a protein ligand in complex inquiry (Mon Sep 11 2023 - 10:06:31 CDT)
- Viewing Van der Waals bonds of a protein ligand in complex inquiry (Sun Sep 10 2023 - 07:38:30 CDT)
- ffTK Load Dihedral Scan Output for Visualization Inquiry (Sun Jul 30 2023 - 07:05:50 CDT)
- Re: Re: ffTK Opt Torsions .log file input Inquiry (Sun Jun 25 2023 - 06:20:01 CDT)
- Has anyone successfully executed ORCA instead of Gaussian for ffTK? (Sun Jun 25 2023 - 06:28:49 CDT)
- Re: ffTK Opt Torsions .log file input Inquiry (Thu Jun 22 2023 - 07:43:40 CDT)
- ffTK Scan Torsions Generate Dihedral Scan Input OUTPUT Inquiry (Mon Jun 19 2023 - 09:50:49 CDT)
- Re: ORCA within ffTK Dihedral Angle Optimization Inquiry (Mon Jun 19 2023 - 08:42:54 CDT)
- ORCA within ffTK Dihedral Angle Optimization Inquiry (Sat Jun 10 2023 - 05:11:26 CDT)
- Re: Convert trajectory (Thu May 25 2023 - 02:26:17 CDT)
- Re: Convert trajectory (Thu May 25 2023 - 01:38:07 CDT)
- Re: Re: Executing ORCA within ffTK Opt Geometry Tab Inquiry (Tue Apr 18 2023 - 11:41:35 CDT)
- Re: Executing ORCA within ffTK Opt Geometry Tab Inquiry (Tue Apr 18 2023 - 07:53:13 CDT)
- Re: Gaussian09 install on macOS Inquiry (Fri Apr 14 2023 - 02:49:28 CDT)
- Re: Gaussian09 install on macOS Inquiry (Thu Apr 13 2023 - 11:06:06 CDT)
- Re: Gaussian09 install on macOS Inquiry (Wed Apr 12 2023 - 01:28:05 CDT)
- Re: Gaussian09 install on macOS Inquiry (Tue Apr 11 2023 - 23:19:34 CDT)
- Re: Gaussian09 install on macOS Inquiry (Tue Apr 11 2023 - 10:37:57 CDT)
- Re: Gaussian09 install on macOS Inquiry (Tue Apr 11 2023 - 10:10:13 CDT)
- Re: Gaussian09 install on macOS Inquiry (Tue Apr 11 2023 - 08:35:27 CDT)
- Gaussian09 install on macOS Inquiry (Tue Apr 11 2023 - 07:47:02 CDT)
- Re: fftk-Tutorial Writing psf and pdb files from a CGenFF .str File Inquiry (Fri Apr 07 2023 - 11:35:41 CDT)
- Re: fftk-Tutorial Writing psf and pdb files from a CGenFF .str File Inquiry (Fri Apr 07 2023 - 07:24:56 CDT)
- Re: Re: ffTK Opt Torsions Refine Section EDIT ENTRY SECTION PROBLEM (Tue Mar 28 2023 - 19:33:46 CDT)
- Re: Re: ffTK Opt Torsions Refine Section EDIT ENTRY SECTION PROBLEM (Tue Mar 28 2023 - 19:30:06 CDT)
- Re: Re: ffTK Opt Torsions Refine Section EDIT ENTRY SECTION PROBLEM (Tue Mar 28 2023 - 18:28:01 CDT)
- Re: ffTK Opt Torsions Refine Section EDIT ENTRY SECTION PROBLEM (Mon Mar 27 2023 - 07:25:41 CDT)
- Re: Re: No ffTK .gau Extension in Determine File Type in VMD for Visualization Problem? (Thu Mar 23 2023 - 13:45:28 CDT)
- Re: No ffTK .gau Extension in Determine File Type in VMD for Visualization Problem? (Fri Mar 17 2023 - 16:04:23 CDT)
- Re: ffTK Inquiry (Tue Mar 14 2023 - 06:32:30 CDT)
- ffTK Inquiry (Mon Mar 13 2023 - 20:28:51 CDT)
Joel Subach (via Dropbox)
- Joel Subach shared "Charge Value from -2 to 0 I" with you (Wed Nov 06 2024 - 08:50:43 CST)
- Joel Subach shared "Charge Value from -2 to 0 I" with you (Wed Nov 06 2024 - 08:51:11 CST)
- Joel Subach shared "Charge Value from -2 to 0 I" with you (Wed Nov 06 2024 - 04:19:58 CST)
- Joel Subach shared "Charge Value from -2 to 0 I" with you (Wed Nov 06 2024 - 04:19:32 CST)
Joey Gehring
- compilation of vmd from source on armv8 RK3399 processor (Fri Jan 31 2020 - 22:54:40 CST)
- Re: NAMD and VMD Armv8-A (Wed Jan 29 2020 - 23:38:48 CST)
- Re: NAMD and VMD Armv8-A (Thu Jan 23 2020 - 10:41:21 CST)
- Re: NAMD and VMD Armv8-A (Wed Jan 22 2020 - 23:20:58 CST)
- Re: NAMD and VMD Armv8-A (Wed Jan 22 2020 - 15:11:10 CST)
- Re: NAMD and VMD Armv8-A (Wed Jan 22 2020 - 13:45:43 CST)
- NAMD and VMD Armv8-A (Tue Jan 21 2020 - 20:24:12 CST)
- ARM (Thu Dec 13 2018 - 10:29:58 CST)
Joey Vella
- Viewing System of Molecules where coordinates are in text file. (Thu Dec 01 2011 - 20:43:45 CST)
Johannes Haataja
- Drawing ellipsoids (Tue Jul 25 2023 - 14:10:29 CDT)
- Re: Custom particle shapes (Sun Mar 07 2021 - 08:31:07 CST)
- Re: Custom particle shapes (Sat Mar 06 2021 - 13:58:14 CST)
- Custom particle shapes (Sat Mar 06 2021 - 06:27:04 CST)
Johannes Müllegger
- Re: how to export into postscript with MultiPlot in tcl mode? (Mon Jun 23 2008 - 11:23:24 CDT)
- Re: tcl script memory problem - NOT in atomselect (Tue Feb 19 2008 - 11:19:04 CST)
- tcl script memory problem - NOT in atomselect (Mon Feb 18 2008 - 21:45:42 CST)
- measure imprp - input order of atoms (Fri Aug 24 2007 - 14:51:00 CDT)
- Re: sidechain atomselection (Mon Sep 25 2006 - 13:10:48 CDT)
- how to run a plugin from the command line? (Mon Sep 11 2006 - 18:25:03 CDT)
- Re: spikes in trajectory, problem with the alignment of frames (Thu Aug 24 2006 - 13:50:20 CDT)
- spikes in trajectory, problem with the alignment of frames (Wed Aug 23 2006 - 19:25:58 CDT)
Johannes Schauer
- Re: vmd in Debian (Mon Oct 07 2013 - 02:11:37 CDT)
- vmd in Debian (Thu Sep 12 2013 - 07:18:32 CDT)
Johannes von Langen
- Re: stereo on linux: DTI monitors? (Mon Aug 26 2002 - 02:57:32 CDT)
- Re: Linux/Intel configuration for processing large trajectory file (Mon Jul 22 2002 - 05:26:19 CDT)
- vmd1.8a16 - no stereo on linux any more (Mon Jun 24 2002 - 06:47:02 CDT)
- Re: problem with amber 6 restart files (parm and rst) (Tue Jun 11 2002 - 03:57:29 CDT)
- vmd-1.8a10; psfgen; AMBER-trajectories; strange bondlengths (Tue Jun 11 2002 - 03:17:31 CDT)
John
- exclude residues (Thu Jun 30 2005 - 11:42:09 CDT)
John Brown
- Trajectory from multiple .gro files (Sat May 10 2014 - 06:49:42 CDT)
John C. H. Chao
- RE: Manunlly Assign Secondary Structure (May Not Be Realistic) (Fri Jul 03 2009 - 04:42:10 CDT)
- Manunlly Assign Secondary Structure (May Not Be Realistic) (Thu Jul 02 2009 - 06:00:07 CDT)
John Duff
- Re: problem compiling on redhat 7.0 (Sun Oct 08 2000 - 14:52:46 CDT)
- problem compiling on redhat 7.0 (Sat Oct 07 2000 - 00:57:48 CDT)
- parallel rendering across clusters? (Fri Sep 15 2000 - 16:16:16 CDT)
- Re: problem with vmd/namd connection on linux (Wed Apr 19 2000 - 10:25:46 CDT)
- problem with vmd/namd connection on linux (Tue Apr 18 2000 - 17:35:03 CDT)
John E. Kerrigan
- Re: can I combine several dcd files into one dcd file? (Wed Jan 05 2005 - 12:52:38 CST)
John Eargle
- Re: custom db in Multiseq (Fri May 18 2007 - 14:02:09 CDT)
- Re: custom db in Multiseq (Fri May 18 2007 - 11:32:51 CDT)
JOHN FLANAGAN
- (no subject) (Tue Apr 10 2018 - 16:36:48 CDT)
John Grime
- The dreaded VMD / Mac OS 10.9 problems (Wed Aug 27 2014 - 12:39:50 CDT)
- The dreaded VMD / Mac OS 10.9 problems (Wed Aug 27 2014 - 10:57:24 CDT)
- Problems with large solvation boxes (Mon Nov 11 2013 - 09:04:24 CST)
- Compiling VMD from source (Thu Oct 10 2013 - 16:29:04 CDT)
- RE: Creating very large solvation boxes (Thu Oct 03 2013 - 07:36:44 CDT)
- Creating very large solvation boxes (Wed Oct 02 2013 - 16:45:14 CDT)
- Creating very large solvation boxes (Fri Sep 20 2013 - 12:12:45 CDT)
John H
- Re: Merging two proteins (Mon Jun 17 2019 - 16:38:06 CDT)
- Merging two proteins (Mon Jun 17 2019 - 10:56:24 CDT)
John Hodrien
- Re: Which Linux distribution works best with Quadro cards? (Tue Jun 04 2013 - 08:40:47 CDT)
- Tiled display setup (Tue Apr 30 2013 - 03:08:06 CDT)
John Hondroulis
- Mailing List (Wed Jan 08 1997 - 14:30:26 CST)
John Jumper
- Potential memory consumption bug in VMD 1.9.1 (Thu Jan 10 2013 - 21:08:22 CST)
John Keller
- Re: QwikMD premature exit (Wed Oct 07 2020 - 18:49:51 CDT)
- QwikMD premature exit (Wed Oct 07 2020 - 16:30:11 CDT)
- FW: RE: Re: CIF file reader (Sun Mar 29 2020 - 02:55:42 CDT)
- Tethering, or restraining, part of a molecule during MD playback (Mon Mar 25 2013 - 00:14:44 CDT)
- Re: Script for reading Gaussian 09 MD file? (Wed Oct 10 2012 - 14:50:00 CDT)
- Script for reading Gaussian 09 MD file? (Fri Oct 05 2012 - 17:06:49 CDT)
- Q-chem MD output with VMD? (Wed Sep 19 2012 - 01:53:38 CDT)
John Kerrigan
- Re: Crosseye stereo image rendering (Tue Feb 01 2005 - 18:20:27 CST)
John M. Kolinski
- XYZ file to video (Wed Jul 28 2004 - 08:26:10 CDT)
John M. Robinson
- pytjhon (Mon Jan 23 2006 - 14:06:12 CST)
John Michael Alex Grime
- Disable autobonds for LAMMPS trajectory file (Mon Apr 08 2013 - 17:26:12 CDT)
John R. Kitchin
- python support and pipes in vmd (Tue Sep 30 2003 - 13:52:00 CDT)
John Robert Kitchin
- RE: accessing VMD help (Fri Oct 31 2003 - 09:22:10 CST)
John Robinson
- peptide builder (Fri Apr 21 2006 - 15:19:01 CDT)
John Stone
- Announce: VMD 1.4 beta 4 (Wed Dec 22 1999 - 16:40:53 CST)
- Re: Pegasus Technologies FreeD drivers? (Wed Dec 08 1999 - 10:08:33 CST)
- Announce: VMD 1.4 beta 3 (Thu Nov 18 1999 - 16:08:16 CST)
- Re: output (Mon Nov 15 1999 - 10:40:20 CST)
- Re: question (Mon Nov 15 1999 - 09:16:50 CST)
- Re: rmsd crashes vmd 1.3 (Tue Nov 09 1999 - 21:59:58 CST)
- Announce: VMD 1.4 beta 2 (Tue Nov 09 1999 - 15:19:35 CST)
- Re: rmsd crashes vmd (Sat Nov 06 1999 - 00:17:28 CST)
- Re: Problems with Charmm dcd (Wed Oct 27 1999 - 09:23:35 CDT)
- Re: windows 98/ vmd14a2.exe & vmd14b1.exe (Tue Oct 26 1999 - 15:35:34 CDT)
- Re: windows 98/ vmd14a2.exe & vmd14b1.exe (Fri Oct 22 1999 - 13:12:52 CDT)
- Re: SEGMENT ID (Fri Oct 22 1999 - 09:21:01 CDT)
- Announce: VMD 1.4 beta 1 (Mon Oct 04 1999 - 17:07:49 CDT)
- New VMD development pages (Mon Sep 27 1999 - 10:42:25 CDT)
- Re: VMD and 3Dfx Glide (Tue Aug 31 1999 - 09:16:59 CDT)
- Re: VMD and 3Dfx Glide (Mon Aug 30 1999 - 09:36:38 CDT)
- VMD 1.4 Alpha 5 (Windows+Unix) is available. (Tue Aug 17 1999 - 00:55:58 CDT)
- VMD 1.4 Alpha 4 (Windows) is available. (Mon Aug 09 1999 - 17:00:50 CDT)
- VMD 1.4 Alpha 3 (Windows+Unix) is available. (Tue Jul 27 1999 - 15:37:46 CDT)
- VMD 1.4 Alpha 2 (Windows) is available. (Fri Jun 18 1999 - 16:24:12 CDT)
- Re: No Display when running vmd 1.3 (Thu May 27 1999 - 16:00:02 CDT)
- 1999 VMD User Survey Report (Mon May 24 1999 - 15:21:56 CDT)
- VMD 1.4 Alpha 1 (Windows) is available. (Wed May 19 1999 - 17:21:47 CDT)
- VMD 1.3 Release (Mon Apr 05 1999 - 16:46:35 CDT)
- Re: 1.3b2 (Wed Mar 03 1999 - 12:23:29 CST)
- VMD 1.3 Beta 2 release ... ¶¬ (Wed Feb 24 1999 - 13:38:37 CST)
- VMD 1.3 Beta 1 release ... (Wed Feb 17 1999 - 02:08:02 CST)
- Re: Stereo on SGI Octane 250HMz R10000, IRIX 6.5 (Wed Feb 17 1999 - 00:43:56 CST)
- Re: Stereo on SGI Octane 250HMz R10000, IRIX 6.5 (Fri Feb 12 1999 - 09:30:37 CST)
- VMD 1.3 Alpha 2 release... (Mon Jan 25 1999 - 20:57:45 CST)
- Re: convex hull and VMD (Mon Sep 28 1998 - 17:05:51 CDT)
- Re: Transparent graphics (Fri Sep 18 1998 - 11:17:16 CDT)
- Re: problems with MSMS (Sat Aug 15 1998 - 22:00:51 CDT)
- VMD 1.2b3 is available! (Fri Jun 26 1998 - 12:57:17 CDT)
- Re: Tachyon download is offline (Mon Nov 18 2024 - 10:39:40 CST)
- Re: Interactive MD - 3DSystems Touch (Fri Dec 01 2023 - 13:33:52 CST)
- Re: Cartoon representation in VMD with amber netcd file (Mon May 08 2023 - 00:12:26 CDT)
- Re: CUDA error: an illegal memory access was encountered, CUDAQuickSurf.cu (Mon Apr 17 2023 - 11:13:20 CDT)
- Re: Python crash VMD1.9.4 (Mon Apr 17 2023 - 11:04:54 CDT)
- Re: CUDA error: an illegal memory access was encountered, CUDAQuickSurf.cu (Mon Apr 10 2023 - 00:58:11 CDT)
- Re: vmd mpi parallel rendering with SLURM (Wed Apr 05 2023 - 23:38:27 CDT)
- Re: Render straight to ffmpeg/NVENC ? (Wed Apr 05 2023 - 23:05:51 CDT)
- Re: can't build VMD on MacOs Ventura: use of undeclared identifier 'msms' (Tue Mar 07 2023 - 12:55:57 CST)
- Re: Re: Re: Fwd: Problem building vmd with ospray - OSPRayRenderer.h error: ???OSPModel??? does not name a typ (Fri Feb 24 2023 - 20:03:54 CST)
- Re: Viewing post script images (Mon Feb 13 2023 - 09:15:20 CST)
- ChatGPT knows basic VMD scripting... (Sun Feb 12 2023 - 22:45:01 CST)
- Re: Running VMD 1.9.4alpha on newer GPUs that require CUDA 11+ and OptiX 7+ (Tue Jan 31 2023 - 22:30:35 CST)
- Re: << Centering/aligning several molecules >> (Thu Dec 29 2022 - 13:54:56 CST)
- Re: 3d visualization VMD / NVIDIA / Linux (Thu Dec 29 2022 - 11:51:40 CST)
- Re: Unknown variable modifier. while running vmd (Thu Dec 29 2022 - 11:20:31 CST)
- Re: NewCartoon or NewRibbons Secondary Structure methods don't work with latest updated Mesa 22.2.3 (Thu Dec 29 2022 - 11:17:52 CST)
- Re: << thresholds for drawing bonds >> (Tue Dec 27 2022 - 10:10:24 CST)
- Re: MacOS VMD1.9.4.a55 crashes- malloc: can't allocate region (Wed Nov 09 2022 - 19:36:57 CST)
- Re: VMD 1.9.4.a53 crashes on windows 11 (Fri Nov 04 2022 - 14:21:40 CDT)
- Re: VMD 1.9.4.a53 crashes on windows 11 (Fri Nov 04 2022 - 14:19:07 CDT)
- Re: VMD 1.9.4.a53 crashes on windows 11 (Thu Nov 03 2022 - 13:44:56 CDT)
- Re: Use VMD to produce images and videos to sell (Tue Oct 18 2022 - 15:12:00 CDT)
- Re: VMD disables audio? (Wed Oct 05 2022 - 12:58:43 CDT)
- Re: Most relevant VMD install (Thu Sep 08 2022 - 21:23:42 CDT)
- Re: How to choose solid color in clipping plane render with POV-Ray (Tue Aug 30 2022 - 14:45:43 CDT)
- Re: How to choose solid color in clipping plane render with POV-Ray (Tue Aug 30 2022 - 11:42:31 CDT)
- Re: Multi-core CPU does not work with VMD. (Mon Aug 08 2022 - 22:14:56 CDT)
- Re: Multi-core CPU does not work with VMD. (Sat Aug 06 2022 - 01:34:08 CDT)
- Re: Cafe 1.0 plugin does not recognize commands (Tue Jul 12 2022 - 17:19:33 CDT)
- Re: PROBLEM INSTALLING VMD (Tue Jul 12 2022 - 17:16:21 CDT)
- Re: Error with CaFE VMD Plugin (Tue Jul 05 2022 - 23:29:15 CDT)
- Re: Non-functional RMSD Visualizer in 1.9.4a53, windows (Tue Jul 05 2022 - 23:02:21 CDT)
- Re: Error with CaFE VMD Plugin (Thu Jun 16 2022 - 09:39:35 CDT)
- Re: Movie Maker plugin parallel MPI rendering (Wed Jun 15 2022 - 00:19:43 CDT)
- Re: Unable to useTachyon-Optix renderer when VMD is installed in Windows Subsystem for Linux (WSL) (Wed Jun 15 2022 - 00:01:03 CDT)
- Re: Tcl Scripts Fails Unless Run in Tkconsole (Thu May 26 2022 - 19:46:00 CDT)
- Re: ?Filesize limit exceeded (core dumped)? with VMD on Linux (Thu May 26 2022 - 11:47:37 CDT)
- Re: Why the restype color of Gly residue in protein is green (polar)? (Tue May 24 2022 - 08:40:01 CDT)
- Re: Launching VMD Gui from WSL Centos compiled from source (Mon May 23 2022 - 09:51:05 CDT)
- Re: Using VMD from a Chrome Web Browser (Fri May 06 2022 - 11:53:09 CDT)
- Re: Timeline/H-Bond broken OS X (Fri May 06 2022 - 11:28:08 CDT)
- Re: Using VMD from a Chrome Web Browser (Fri May 06 2022 - 09:06:39 CDT)
- Re: VMD Visualizers and AutoPSF unusable on Mac BigSur and VMD1.9.4a55 (Fri May 06 2022 - 01:23:03 CDT)
- Re: Changing color scale bar location in VMD (Fri May 06 2022 - 01:06:40 CDT)
- Re: Timeline/H-Bond broken OS X (Fri May 06 2022 - 00:41:10 CDT)
- Re: Parallel rendering example from tutorial, "VMD parallel commands" (Fri May 06 2022 - 00:36:13 CDT)
- Re: Errors using 'replicateCrystal.tcl' tutorial script (Fri May 06 2022 - 00:11:44 CDT)
- Re: Unable to reload a saved state in VMD 1.9.3 (Thu May 05 2022 - 23:21:28 CDT)
- Re: Parallel rendering example from tutorial, "VMD parallel commands" (Wed May 04 2022 - 23:16:21 CDT)
- Re: Parallel rendering example from tutorial, "VMD parallel commands" (Wed May 04 2022 - 15:11:39 CDT)
- Re: Unable to reload a saved state in VMD 1.9.3 (Mon May 02 2022 - 12:51:30 CDT)
- Re: how to analyse a trajectory without loading it (Wed Apr 27 2022 - 13:49:18 CDT)
- Re: how to analyse a trajectory without loading it (Tue Apr 26 2022 - 15:41:32 CDT)
- Re: how to analyse a trajectory without loading it (Tue Apr 26 2022 - 14:17:02 CDT)
- Re: VMD dumps core after OSPRay render completes (Sun Apr 10 2022 - 20:04:38 CDT)
- Re: VMD 1.9.4 crashes after running the "Merge Structures" plugin (with psfgen 2.0) (Wed Apr 06 2022 - 09:48:56 CDT)
- Re: error 1114 when loading plugins (Tue Apr 05 2022 - 12:16:34 CDT)
- Re: VMD MPI error (Mon Apr 04 2022 - 11:37:34 CDT)
- Re: VMD 1.9.4 crashes after running the "Merge Structures" plugin (with psfgen 2.0) (Mon Apr 04 2022 - 11:30:35 CDT)
- Re: VMD 1.9.4 crashes after running the "Merge Structures" plugin (with psfgen 2.0) (Mon Apr 04 2022 - 10:20:26 CDT)
- Re: VMD 1.9.4 crashes after running the "Merge Structures" plugin (with psfgen 2.0) (Mon Apr 04 2022 - 10:11:51 CDT)
- Re: VMD MPI error (Mon Apr 04 2022 - 10:04:05 CDT)
- Re: Problem w/ DCD Title Block When Saving - Using 'Animate Write' vs Saving Via GUI (Tue Mar 08 2022 - 12:16:36 CST)
- Re: hmassrepart (Thu Feb 10 2022 - 22:03:18 CST)
- Re: tkcon behavior in OS X / selection Q (Tue Feb 08 2022 - 14:17:35 CST)
- Re: tkcon behavior in OS X / selection Q (Tue Feb 08 2022 - 14:09:13 CST)
- Re: Needing to visualize lots of spheres during solution steps (Thu Feb 03 2022 - 23:32:45 CST)
- Re: Issue running vmd and tk commands on my computer through script (Thu Feb 03 2022 - 23:17:21 CST)
- Re: Regarding Periodic MSM calculation (Thu Feb 03 2022 - 23:14:43 CST)
- Re: Vmd on Monterey (Sun Dec 26 2021 - 23:36:21 CST)
- Re: How to write a netcdf file in vmd from already loaded netcdf/dcd trajectory (Sat Dec 25 2021 - 00:27:21 CST)
- Re: Vmd on Monterey (Sat Dec 25 2021 - 00:18:50 CST)
- Re: Too many nested evaluations (Mon Dec 20 2021 - 17:07:26 CST)
- Re: Issue with STAMP Alignment (Mon Dec 20 2021 - 00:51:18 CST)
- Re: Open VMD in current terminal directory (Thu Dec 16 2021 - 22:52:35 CST)
- Re: VMD license (Thu Dec 16 2021 - 12:34:12 CST)
- Re: VMD license (Thu Dec 16 2021 - 12:15:08 CST)
- Re: AWS for VMD and NAMD no longer working? (Thu Dec 09 2021 - 23:40:31 CST)
- Re: Issue with STAMP Alignment (Thu Dec 02 2021 - 14:32:51 CST)
- Re: Multiseq / stamp alignment on Windows 1.9.4alpha (Thu Dec 02 2021 - 14:39:05 CST)
- Re: Multiseq / stamp alignment on Windows 1.9.4alpha (Thu Dec 02 2021 - 13:50:06 CST)
- Re: Multiseq / stamp alignment on Windows 1.9.4alpha (Thu Dec 02 2021 - 11:13:07 CST)
- Re: Multiseq / stamp alignment on Windows 1.9.4alpha (Thu Dec 02 2021 - 11:19:23 CST)
- Re: Multiseq / stamp alignment on Windows 1.9.4alpha (Wed Dec 01 2021 - 23:35:30 CST)
- Re: CIF file reader (Wed Dec 01 2021 - 23:38:29 CST)
- Re: molfile plugin compilation for webassembly (Wed Dec 01 2021 - 23:16:17 CST)
- NYT article on SARS-CoV-2 aerosol+virion simulations w/ NAMD+VMD (Wed Dec 01 2021 - 13:11:51 CST)
- Re: Multiseq / stamp alignment on Windows 1.9.4alpha (Wed Dec 01 2021 - 00:49:28 CST)
- Re: Absolute ruler or position limits of the current view (Wed Dec 01 2021 - 00:55:03 CST)
- Re: Issue with STAMP Alignment (Wed Dec 01 2021 - 00:42:12 CST)
- Re: VMD GUI (Wed Dec 01 2021 - 00:38:32 CST)
- Re: Error 1327.Invalid Drive: F (Tue Nov 30 2021 - 11:31:47 CST)
- Re: (Semi-)transparent windows on installation on a virtual server (Thu Nov 18 2021 - 14:30:25 CST)
- Re: Where found QwikMD 2.0? (Tue Nov 09 2021 - 16:17:55 CST)
- Re: Angle between molecular dipole and nanotube axis. (Tue Nov 09 2021 - 16:14:49 CST)
- Re: Install of VMD on amazon linux2 NICE DCV server (Tue Nov 09 2021 - 16:05:16 CST)
- Re: Cluster analysis (Tue Nov 09 2021 - 16:11:52 CST)
- Re: How to create a color ramp in VMD? (Tue Nov 09 2021 - 15:57:32 CST)
- Re: Color Transition in VMD (Tue Nov 09 2021 - 15:59:52 CST)
- Re: (Semi-)transparent windows on installation on a virtual server (Tue Nov 09 2021 - 15:36:18 CST)
- Re: Error reading fep.tcl file in namd (Fri Oct 29 2021 - 10:25:00 CDT)
- Re: How to create a color ramp in VMD? (Thu Oct 28 2021 - 09:22:04 CDT)
- Re: energy partitioning (Wed Oct 27 2021 - 21:32:37 CDT)
- Re: Early access to VMD builds with full-time interactive ray tracing display mode (Tachyon RTX RTRT) (Tue Oct 19 2021 - 20:51:07 CDT)
- Re: Quikmd hangs on new install of vmd 1.9.4 on BigSur (Tue Oct 19 2021 - 16:55:04 CDT)
- Re: Quikmd hangs on new install of vmd 1.9.4 on BigSur (Tue Oct 19 2021 - 15:08:54 CDT)
- Early access to VMD builds with full-time interactive ray tracing display mode (Tachyon RTX RTRT) (Tue Oct 19 2021 - 13:27:56 CDT)
- Re: Coloring rings with paperchain (Mon Oct 18 2021 - 17:05:36 CDT)
- Re: Quikmd hangs on new install of vmd 1.9.4 on BigSur (Mon Oct 18 2021 - 12:20:17 CDT)
- Re: save the secondary structure and rmsd (Mon Oct 18 2021 - 12:17:09 CDT)
- Re: partially loading all dcd files using animatedcds X_ChangeProperty: BadValue (Mon Oct 18 2021 - 12:13:47 CDT)
- Re: Change Tkconsole brackground (Mon Oct 18 2021 - 12:02:21 CDT)
- Re: Merge frames of PDB asymmetric unit to biological assembly (Mon Oct 18 2021 - 11:55:03 CDT)
- Re: VMD Movie Plugin for MacOS (Mon Oct 18 2021 - 11:41:56 CDT)
- Re: How can I make VMD use the correct graphics card in a Remote Desktop session? (Mon Oct 18 2021 - 11:46:18 CDT)
- Re: Multiseq unusable on M1 Mac (Fri Oct 01 2021 - 13:04:50 CDT)
- Re: VMD installation on Mac OSx 11 Bug Sur (Sat Sep 18 2021 - 10:29:30 CDT)
- Re: VMD high DPI (Sat Sep 18 2021 - 10:10:19 CDT)
- Re: VMD high DPI (Fri Sep 17 2021 - 23:58:30 CDT)
- Re: Tachyon not rendering large scenes (Fri Sep 17 2021 - 23:54:40 CDT)
- Re: Question about secondary structure analysis (Fri Sep 17 2021 - 22:43:04 CDT)
- Re: Tachyon not rendering large scenes (Thu Sep 02 2021 - 11:33:56 CDT)
- Re: Visualizing segmentation/labeling without python dependency (Thu Sep 02 2021 - 09:27:42 CDT)
- Re: Tachyon not rendering large scenes (Thu Sep 02 2021 - 08:43:49 CDT)
- Re: VR movie (Wed Aug 25 2021 - 21:45:51 CDT)
- Re: VMD Tachyon Render fails with new material (Mon Aug 23 2021 - 13:52:41 CDT)
- Re: RE:MolID error using fftk with VMD 1.94a49 on windows 10 (Mon Jul 19 2021 - 11:28:51 CDT)
- Re: VMD H-bond Plugin error (Fri Jul 02 2021 - 11:31:29 CDT)
- Re: Re: [topotools]writelammpsdata (Fri Jul 02 2021 - 11:33:19 CDT)
- Re: QwikMD error (Fri Jul 02 2021 - 11:34:11 CDT)
- Re: Status of VR in VMD (Thu Jun 10 2021 - 16:10:23 CDT)
- Re: loading multiple different topologies into the same "molecule" (Thu Jun 10 2021 - 15:47:29 CDT)
- Re: VMD 1.9.4a50 64-bit Windows test build posted (Wed May 19 2021 - 09:13:43 CDT)
- VMD and NAMD survey invitations coming to your inbox... (Tue May 18 2021 - 14:21:55 CDT)
- Re: Quicksurf crashes VMD on newest Mac version (Mon May 10 2021 - 15:39:22 CDT)
- Re: Tcl Scripting Question (Mon May 10 2021 - 12:13:13 CDT)
- Re: Question about error while using QwikMD files (Mon May 10 2021 - 11:25:30 CDT)
- Re: Quicksurf crashes VMD on newest Mac version (Mon May 10 2021 - 11:27:26 CDT)
- Re: Auto PSF problem with VMD 1.9.4a48-Catalina-Rev7 (Mon May 10 2021 - 10:49:16 CDT)
- Re: Auto PSF problem with VMD 1.9.4a48-Catalina-Rev7 (Mon May 10 2021 - 01:01:05 CDT)
- Re: Tcl Scripting Question (Tue May 04 2021 - 15:44:24 CDT)
- Re: Re: rendering with a very large scene description file (Mon May 03 2021 - 16:10:00 CDT)
- Re: Rendering using GPU (Fri Apr 16 2021 - 13:01:03 CDT)
- Re: stride not showing all helix section after VMD crash (Thu Apr 15 2021 - 11:51:36 CDT)
- Re: Rendering using GPU (Thu Apr 15 2021 - 11:38:02 CDT)
- Re: Rendering using GPU (Thu Apr 15 2021 - 11:23:52 CDT)
- Re: Rendering using GPU (Thu Apr 15 2021 - 10:20:42 CDT)
- Re: Loading files (Wed Apr 07 2021 - 16:48:16 CDT)
- VMD web/email outage today Tuesday 4/6 (Tue Apr 06 2021 - 12:57:55 CDT)
- Re: VMD 1.9.4 won't open .crd files (Mon Apr 05 2021 - 15:33:19 CDT)
- Re: attachment file size limit for the mailing list (Fri Mar 26 2021 - 00:12:37 CDT)
- VMD web/email outage most of Tuesday March 23rd (Mon Mar 22 2021 - 22:45:54 CDT)
- Re: trouble with multiseq (Wed Mar 17 2021 - 00:54:12 CDT)
- Re: Trouble launching VMD in Apple M1 (Wed Mar 17 2021 - 00:35:42 CDT)
- Re: Problems MacOS Big Sur (Wed Mar 17 2021 - 00:30:40 CDT)
- Re: set non-zero box sizes for GAMESS output (Tue Mar 16 2021 - 11:55:50 CDT)
- Re: cannot visualize GROMACS trajectories in VMD 1.9.4 on MacOS Big Sur (Tue Mar 16 2021 - 11:48:14 CDT)
- Re: Surf drawing representation fails after negative circle radius (Mon Mar 08 2021 - 01:58:43 CST)
- Re: Custom particle shapes (Sun Mar 07 2021 - 14:55:31 CST)
- Re: VMD Compilation with LEPTON & C++11 to support COLVARS "customFunction" WORKS now --- FLTK issue now (Sat Mar 06 2021 - 16:30:09 CST)
- Re: VMD Compilation with LEPTON & C++11 to support COLVARS "customFunction" WORKS now --- FLTK issue now (Sat Mar 06 2021 - 15:26:51 CST)
- Re: Custom particle shapes (Sat Mar 06 2021 - 12:46:29 CST)
- Re: VMD Compilation with LEPTON & C++11 to support COLVARS "customFunction" WORKS now --- FLTK issue now (Sat Mar 06 2021 - 12:37:13 CST)
- Re: how to change working directory for viewmaster? (Sat Mar 06 2021 - 12:41:54 CST)
- Re: how to change working directory for viewmaster? (Fri Mar 05 2021 - 10:12:50 CST)
- Re: Redundant entries in force field parameters generated by paratool plugin in VMD (Thu Mar 04 2021 - 09:39:23 CST)
- Re: Redundant entries in force field parameters generated by paratool plugin in VMD (Wed Mar 03 2021 - 21:30:41 CST)
- Re: Using writelammpsdata in 1.9.4 (Tue Mar 02 2021 - 20:52:20 CST)
- Re: Render image background-free (Tue Mar 02 2021 - 15:40:11 CST)
- Re: Problem in DISPLAY of VMD from remote server in local Mac Machine (Tue Feb 23 2021 - 13:42:35 CST)
- Re: Plotting orbitals from Molden file (Fri Feb 19 2021 - 02:23:43 CST)
- Re: Native contacts tcl script crashed (Fri Feb 19 2021 - 02:02:56 CST)
- Re: Test email (Fri Feb 05 2021 - 13:37:11 CST)
- Re: Test email (Fri Feb 05 2021 - 12:30:37 CST)
- Re: Electrostatic potential values (Fri Jan 29 2021 - 14:37:42 CST)
- Re: launching fftk (Thu Jan 28 2021 - 15:28:35 CST)
- Re: Compiling VMD with the TNG plugin (Tue Jan 26 2021 - 08:51:45 CST)
- Re: Fixing Memory Overflow Issue with LJ Parameter Assignment (Tue Jan 26 2021 - 01:30:38 CST)
- Re: Packing periodic simulation using Pbc wrap error (Tue Jan 26 2021 - 00:37:41 CST)
- Re: Problem with visualizing trajectory produced in Amber (Tue Jan 26 2021 - 00:24:25 CST)
- Re: Netcdf files (Tue Jan 26 2021 - 00:26:00 CST)
- Re: Moving Graphics Primitives to Front/Back (Tue Jan 26 2021 - 00:14:25 CST)
- Re: vector flips (Tue Jan 26 2021 - 00:18:09 CST)
- Re: Tachyon sometimes suddenly freezes up when rendering epotential images (Mon Jan 25 2021 - 23:59:30 CST)
- Re: Clipping plane (Mon Jan 25 2021 - 23:55:19 CST)
- Re: Problem when rendering within a tcl loop (Mon Jan 25 2021 - 23:47:58 CST)
- Re: OpenGL window not rendering over ssh but works when connecting from other computers and works fine locally (Sat Jan 23 2021 - 14:07:28 CST)
- Re: Windows VMD 1.9.4a Version Failing (Fri Jan 15 2021 - 15:25:35 CST)
- Re: Molefacture 2.0 - missing functionality? (Tue Jan 12 2021 - 00:46:06 CST)
- Re: /usr/local/lib/vmd/vmd_LINUXAMD64: error while loading shared libraries: libOpenGL.so.0: (Mon Jan 11 2021 - 16:42:59 CST)
- Re: Change Font on VMD Main Window -- Linux (Mon Jan 11 2021 - 16:36:35 CST)
- Re: Problem when rendering within a tcl loop (Mon Jan 11 2021 - 16:29:09 CST)
- Re: Problem with running NAMD configuration file (Mon Jan 11 2021 - 16:22:09 CST)
- Re: Update on email sent last week (Mon Jan 11 2021 - 12:11:34 CST)
- Re: lammpstrj move out zoom (Thu Dec 31 2020 - 15:04:46 CST)
- Re: QwikMD premature exit (Thu Dec 31 2020 - 14:25:47 CST)
- Re: Ambient occlusion / Electrostatic surfaces (Thu Dec 31 2020 - 13:44:41 CST)
- Re: Problem with rendering modified bond label position with Tachyon (Thu Dec 31 2020 - 13:01:59 CST)
- Re: RMSF Trajectory extraction script (Thu Dec 31 2020 - 12:59:52 CST)
- Re: (Thu Dec 31 2020 - 12:58:56 CST)
- Re: VMD junt won't work on Windows (Thu Dec 31 2020 - 12:01:56 CST)
- Re: VMD 1.9.4a50 test versions for MacOS Big Sur -- both x86 and ARM64 (M1) (Thu Dec 31 2020 - 12:00:07 CST)
- Re: Qurry Regarding Vizualization of two data sets (Thu Dec 31 2020 - 11:53:09 CST)
- Re: VMD NetCDF plugin on POWER9 CPUs (like ORNL Summit) (Thu Dec 31 2020 - 11:12:14 CST)
- Re: Windows VMD 1.9.4a Version Failing (Thu Dec 31 2020 - 11:08:43 CST)
- Re: Random deletions of molecules (Thu Dec 31 2020 - 10:49:49 CST)
- Re: Identifying salt bridges between chains (Fri Dec 18 2020 - 11:12:19 CST)
- Re: Manipulating volumes in VMD (Fri Dec 18 2020 - 10:50:56 CST)
- Re: SBCG of molecules (Fri Dec 18 2020 - 10:43:13 CST)
- Re: VMD aborts when setting up MD simulation (Fri Dec 18 2020 - 10:40:07 CST)
- Re: 1.9.4a50 - unable to open DCDs win64 (Fri Dec 18 2020 - 10:22:58 CST)
- Re: 1.9.4a50 - unable to open DCDs win64 (Fri Dec 18 2020 - 10:10:27 CST)
- Re: Molecule is shown with too many bonds (Fri Dec 18 2020 - 10:15:13 CST)
- Re: Re: PDB Format (Thu Dec 17 2020 - 22:54:15 CST)
- Re: 1.9.4a50 - unable to open DCDs win64 (Thu Dec 17 2020 - 22:49:39 CST)
- Re: Qurry Regarding Vizualization of two data sets (Thu Dec 17 2020 - 09:51:04 CST)
- Re: 1.9.4a50 - unable to open DCDs win64 (Thu Dec 17 2020 - 09:43:05 CST)
- Re: Dipole Moment Measurement (Thu Dec 17 2020 - 09:37:00 CST)
- Re: Dipole Moment Measurement (Thu Dec 17 2020 - 00:44:32 CST)
- Re: VMD and BigSur (Thu Dec 17 2020 - 00:38:53 CST)
- Re: 1.9.4a50 - unable to open DCDs win64 (Wed Dec 16 2020 - 20:32:27 CST)
- Re: VMD 1.9.4a50 64-bit Windows test build posted (Wed Dec 16 2020 - 14:20:44 CST)
- Re: VMD 1.9.4a50 64-bit Windows test build posted (Wed Dec 16 2020 - 14:07:55 CST)
- Re: VMD 1.9.4a50 64-bit Windows test build posted (Wed Dec 16 2020 - 10:57:22 CST)
- Re: VMD 1.9.4a50 64-bit Windows test build posted (Wed Dec 16 2020 - 09:12:02 CST)
- Re: VMD 1.9.4a50 64-bit Windows test build posted (Wed Dec 16 2020 - 01:57:17 CST)
- Re: VMD 1.9.4a50 64-bit Windows test build posted (Tue Dec 15 2020 - 15:03:03 CST)
- Re: VMD 1.9.4a50 64-bit Windows test build posted (Tue Dec 15 2020 - 12:06:50 CST)
- Re: VMD 1.9.4a50 64-bit Windows test build posted (Tue Dec 15 2020 - 11:12:20 CST)
- Re: VMD 1.9.4a50 64-bit Windows test build posted (Tue Dec 15 2020 - 11:16:05 CST)
- Re: VMD 1.9.4a50 64-bit Windows test build posted (Tue Dec 15 2020 - 11:06:47 CST)
- Re: VMD 1.9.4a50 64-bit Windows test build posted (Tue Dec 15 2020 - 09:52:45 CST)
- Re: VMD 1.9.4a50 64-bit Windows test build posted (Tue Dec 15 2020 - 09:17:09 CST)
- Re: VMD junt won't work on Windows (Tue Dec 15 2020 - 00:46:32 CST)
- VMD 1.9.4a50 64-bit Windows test build posted (Mon Dec 14 2020 - 23:46:50 CST)
- Re: VMD 1.9.4a50 test versions for MacOS Big Sur -- both x86 and ARM64 (M1) (Mon Dec 14 2020 - 09:56:07 CST)
- VMD 1.9.4a50 test versions for MacOS Big Sur -- both x86 and ARM64 (M1) (Mon Dec 14 2020 - 01:55:40 CST)
- Re: ProDy issue with QMonly.psf/dcd from QMMM NAMD-ORCA simulations (Sat Dec 12 2020 - 11:52:57 CST)
- Re: FW: Seeking assistance (Sat Dec 12 2020 - 11:44:47 CST)
- Re: VMD for macOS Big Sur (Thu Dec 10 2020 - 14:40:29 CST)
- Re: Movie Making Troubles (Thu Dec 10 2020 - 11:47:29 CST)
- Re: Problem resolved (Wed Dec 09 2020 - 16:37:25 CST)
- Re: My Protein is a homology model (Wed Dec 09 2020 - 13:55:59 CST)
- Re: VMD version (Wed Dec 09 2020 - 13:13:58 CST)
- Re: Ongoing problem with QwickMD plugin (Wed Dec 09 2020 - 12:14:54 CST)
- Re: VMD for macOS Big Sur (Mon Dec 07 2020 - 12:01:06 CST)
- Re: [EXTERNAL]Re: h-bond plugin with QMMM (Thu Dec 03 2020 - 23:14:09 CST)
- Re: [EXTERNAL]Re: h-bond plugin with QMMM (Thu Dec 03 2020 - 16:10:47 CST)
- Re: Dipole Moment calculation (Thu Dec 03 2020 - 01:25:14 CST)
- Re: Error tachyon rendering Mac Catalina (Wed Dec 02 2020 - 01:03:32 CST)
- Re: Possible memory leak in vmd 1.9.4a38 or FFTK on Linux (Tue Nov 24 2020 - 08:40:22 CST)
- Re: Ambient occlusion / Electrostatic surfaces (Fri Nov 20 2020 - 14:19:24 CST)
- Re: Ambient occlusion / Electrostatic surfaces (Fri Nov 20 2020 - 12:58:14 CST)
- Re: AVX512 support on Linux. (Thu Nov 19 2020 - 11:04:31 CST)
- Re: Startup problem on Windows (Wed Nov 18 2020 - 00:35:12 CST)
- Re: VMD running on Mac OS Big Sur (Wed Nov 18 2020 - 00:27:17 CST)
- Re: Startup problem on Windows (Tue Nov 17 2020 - 11:00:06 CST)
- Re: Sorting as an increasing function of the integers in suffices (Mon Nov 16 2020 - 13:18:19 CST)
- Re: Windows Server 2019 support issue of VMD and NAMD (Sun Nov 08 2020 - 21:24:44 CST)
- Re: Potential bugs in ffTK dihedral optimization (Thu Nov 05 2020 - 15:02:19 CST)
- Re: Analysis of DLG filles (Thu Nov 05 2020 - 10:49:39 CST)
- Re: Difficulty downloading databases for MultiSeq (Mon Nov 02 2020 - 14:30:33 CST)
- Re: Molefacture 2.0 - missing functionality? (Sun Nov 01 2020 - 01:43:46 CST)
- Re: VMD doesn't handle AMBER Restart files correct (Sun Nov 01 2020 - 01:36:58 CDT)
- Re: Ospray vs Optix (Fri Oct 30 2020 - 18:49:32 CDT)
- Re: Set molecule ID by topo tools (Wed Oct 21 2020 - 13:44:04 CDT)
- Re: covalent atomic radii customization (Wed Oct 21 2020 - 13:42:10 CDT)
- Re: VMD doesn't handle AMBER Restart files correct (Tue Oct 20 2020 - 15:31:19 CDT)
- Re: VMD doesn't handle AMBER Restart files correct (Tue Oct 20 2020 - 14:28:12 CDT)
- Re: Colors in VMd graphics (Mon Oct 19 2020 - 14:38:45 CDT)
- Re: compile vmd for windows 10 (Wed Oct 14 2020 - 08:58:48 CDT)
- Re: Unable to open TkConsole, Possible bug! (Wed Oct 14 2020 - 08:56:53 CDT)
- Re: compile vmd for windows 10 (Tue Oct 13 2020 - 14:36:56 CDT)
- Re: error in reading Gaussian log file (Tue Oct 13 2020 - 14:25:04 CDT)
- Re: videostream command? (Sat Oct 10 2020 - 18:19:23 CDT)
- VMD images/movies of SARS-CoV-2 work in NYT... (Fri Oct 09 2020 - 11:07:32 CDT)
- Re: Converting electron density data from .map to .dx in vmd (Tue Oct 06 2020 - 23:52:59 CDT)
- Re: Converting electron density data from .map to .dx in vmd (Tue Oct 06 2020 - 20:57:44 CDT)
- Re: TCL script for creating multiple representations on the same molecule (Tue Oct 06 2020 - 11:12:27 CDT)
- Re: How select atoms from mol 0 within "x" of mol 1? (Tue Oct 06 2020 - 10:55:54 CDT)
- Re: Vmd uninstallation and reinstallation (Tue Oct 06 2020 - 10:39:57 CDT)
- Re: placing graphics objects at fixed locations on the display (Tue Oct 06 2020 - 10:46:04 CDT)
- Re: Errors at Charge Opt. (Charge-2 step from FFTK Screencast) (Tue Oct 06 2020 - 10:36:39 CDT)
- Re: 1.9.4_a43 parallel build issues with high -j (Wed Sep 16 2020 - 13:38:35 CDT)
- Re: 1.9.4_a43 parallel build issues with high -j (Wed Sep 16 2020 - 11:44:29 CDT)
- Re: VMD python3 version (Sat Sep 05 2020 - 08:26:20 CDT)
- Re: Error in NAMD plot (Mon Aug 31 2020 - 11:45:27 CDT)
- Re: No NetCDF file type for Mac Catalina (Sat Aug 22 2020 - 00:28:02 CDT)
- Re: How to get a transparent background with Tachyon (Thu Jul 30 2020 - 00:19:15 CDT)
- Re: unable to access vmd through ssh x11 forward using mobaxterm (Thu Jul 30 2020 - 00:18:24 CDT)
- Re: Configuring Tkcon in VMD for Catalina to access history with up arrow (Fri Jul 24 2020 - 14:40:45 CDT)
- Re: Configuring Tkcon in VMD for Catalina to access history with up arrow (Fri Jul 24 2020 - 13:36:24 CDT)
- Re: resizing display exits vmd (Fri Jul 24 2020 - 13:33:20 CDT)
- Re: Molefacture does not write bond angles and dihedral angles info in the psf file (Thu Jul 23 2020 - 16:47:56 CDT)
- Re: 1.9.4a43-Catalina-Rev6 TkConsole Up Arrow History (Mon Jul 13 2020 - 13:36:59 CDT)
- Re: Sv: VMD on HPC (Wed Jul 01 2020 - 09:30:41 CDT)
- Re: Child killed error: unknown signal (Tue Jun 16 2020 - 23:31:47 CDT)
- Re: VRAM memory piling up OPTIX 1.9.4a42 rendering consecutive frames (Tue Jun 16 2020 - 12:05:48 CDT)
- Re: Failed to create Optix rendering context ERROR: Invalid value (OptiXRenderer.C:1214 (Thu Jun 11 2020 - 21:56:17 CDT)
- Re: VRAM memory piling up OPTIX 1.9.4a42 rendering consecutive frames (Thu Jun 11 2020 - 15:59:34 CDT)
- VMD 1.9.4 alpha 43 test builds posted... (Thu Jun 11 2020 - 15:24:45 CDT)
- Re: VRAM memory piling up OPTIX 1.9.4a42 rendering consecutive frames (Wed Jun 10 2020 - 11:16:17 CDT)
- Re: VRAM memory piling up OPTIX 1.9.4a42 rendering consecutive frames (Wed Jun 10 2020 - 11:11:36 CDT)
- Re: Black screen OPTIX interactive rendering (Wed Jun 10 2020 - 09:57:06 CDT)
- Re: VRAM memory piling up OPTIX 1.9.4a42 rendering consecutive frames (Wed Jun 10 2020 - 10:05:54 CDT)
- Re: NAMD energy plugin reference (Sat Jun 06 2020 - 00:23:53 CDT)
- Re: VMD 1.9.4a42 test builds posted... (Sat May 30 2020 - 16:28:54 CDT)
- Re: VMD 1.9.4a42 test builds posted... (Sat May 30 2020 - 16:31:14 CDT)
- Re: Fwd: Fwd: Fwd: Electrostatic potential maps (Fri May 29 2020 - 21:50:01 CDT)
- VMD 1.9.4a42 test builds posted... (Fri May 29 2020 - 16:51:53 CDT)
- Re: Failed to create Optix rendering context ERROR: Invalid value (OptiXRenderer.C:1214 (Fri May 29 2020 - 16:46:33 CDT)
- Re: Failed to create Optix rendering context ERROR: Invalid value (OptiXRenderer.C:1214 (Wed May 27 2020 - 16:26:16 CDT)
- Re: Failed to create Optix rendering context ERROR: Invalid value (OptiXRenderer.C:1214 (Mon May 25 2020 - 23:16:04 CDT)
- Re: Writing DCD files using animate (Sat May 23 2020 - 09:49:22 CDT)
- Re: compiling VMD with cuda from source (Sat May 23 2020 - 02:30:44 CDT)
- Re: Drawing multiple frames (Sat May 23 2020 - 02:24:52 CDT)
- Re: coloured surface (Sat May 23 2020 - 02:09:17 CDT)
- Re: Writing DCD files using animate (Sat May 23 2020 - 02:17:05 CDT)
- Re: VMD Slices (Sat May 23 2020 - 02:21:15 CDT)
- Re: How to download high-quality images from MEMBPLUGIN -> "Membrane thickness map" (Sat May 23 2020 - 02:23:03 CDT)
- Re: VMD patch, console w/ built-in command editing (Fri May 22 2020 - 10:56:18 CDT)
- Re: Re: VMD patch, console w/ built-in command editing (Wed May 20 2020 - 11:45:03 CDT)
- Re: Re: VMD patch, console w/ built-in command editing (Wed May 20 2020 - 10:26:21 CDT)
- Re: Re: VMD patch, console w/ built-in command editing (Wed May 20 2020 - 10:33:45 CDT)
- Re: Windows version, system out of memory (Wed May 20 2020 - 02:36:33 CDT)
- Re: Windows version, system out of memory (Tue May 19 2020 - 21:53:15 CDT)
- Re: Windows version, system out of memory (Tue May 19 2020 - 21:50:14 CDT)
- Re: Windows version, system out of memory (Tue May 19 2020 - 15:18:13 CDT)
- Re: vmd console linux shell mode (Wed May 13 2020 - 21:46:33 CDT)
- Re: STRIDE issues on Windows (Wed Apr 29 2020 - 01:20:47 CDT)
- Re: STRIDE issues on Windows (Wed Apr 29 2020 - 01:16:19 CDT)
- Re: Early VMD 1.9.4 alpha builds for MacOS X Catalina (e.g., 10.15.4) (Tue Apr 28 2020 - 13:25:08 CDT)
- Re: Problem with Surf representation in the latest version macOS Catalina (Tue Apr 28 2020 - 11:42:13 CDT)
- Re: Early VMD 1.9.4 alpha builds for MacOS X Catalina (e.g., 10.15.4) (Tue Apr 28 2020 - 11:29:38 CDT)
- Re: Problem with Surf representation in the latest version macOS Catalina (Tue Apr 28 2020 - 11:18:49 CDT)
- Re: Problem with Surf representation in the latest version macOS Catalina (Mon Apr 27 2020 - 16:04:29 CDT)
- Re: Early VMD 1.9.4 alpha builds for MacOS X Catalina (e.g., 10.15.4) (Sun Apr 26 2020 - 14:33:34 CDT)
- Re: Early VMD 1.9.4 alpha builds for MacOS X Catalina (e.g., 10.15.4) (Sun Apr 26 2020 - 14:29:43 CDT)
- Re: Early VMD 1.9.4 alpha builds for MacOS X Catalina (e.g., 10.15.4) (Sat Apr 25 2020 - 21:55:20 CDT)
- Re: Early VMD 1.9.4 alpha builds for MacOS X Catalina (e.g., 10.15.4) (Sat Apr 25 2020 - 22:07:53 CDT)
- Re: Early VMD 1.9.4 alpha builds for MacOS X Catalina (e.g., 10.15.4) (Fri Apr 24 2020 - 00:46:13 CDT)
- Re: Trouble in installing VMD (Fri Apr 17 2020 - 23:06:51 CDT)
- Re: Early VMD 1.9.4 alpha builds for MacOS X Catalina (e.g., 10.15.4) (Fri Apr 17 2020 - 22:23:30 CDT)
- Re: Early VMD 1.9.4 alpha builds for MacOS X Catalina (e.g., 10.15.4) (Fri Apr 17 2020 - 16:04:27 CDT)
- Early VMD 1.9.4 alpha builds for MacOS X Catalina (e.g., 10.15.4) (Fri Apr 17 2020 - 14:30:59 CDT)
- Re: compiling VMD with cuda from source (Mon Apr 13 2020 - 09:55:28 CDT)
- Re: VMD Compatible with Windows with 64-bit OS? (Thu Apr 09 2020 - 16:21:37 CDT)
- Re: amber generated netcdf trajectories (Tue Apr 07 2020 - 13:23:14 CDT)
- Re: Segfault in VMD 1.9.4a38 in DrawMolItem::draw_volume_isosurface_points (Fri Apr 03 2020 - 11:11:56 CDT)
- Re: Dangling Bonds (Fri Apr 03 2020 - 10:58:36 CDT)
- Re: Segfault in VMD 1.9.4a38 in DrawMolItem::draw_volume_isosurface_points (Fri Apr 03 2020 - 09:24:28 CDT)
- Re: CIF file reader (Wed Apr 01 2020 - 00:53:17 CDT)
- Re: Loading Chemical Component Dictionary File Crashes VMD (Wed Apr 01 2020 - 00:42:28 CDT)
- Re: Memory Pool Size - can I optimize this? (Tue Mar 31 2020 - 14:46:29 CDT)
- Re: Memory Pool Size - can I optimize this? (Mon Mar 30 2020 - 14:01:52 CDT)
- Re: CIF file reader (Sat Mar 28 2020 - 22:10:43 CDT)
- Re: faced error in operating vmd (Fri Mar 27 2020 - 11:56:58 CDT)
- Re: Visualizing coarse grained particles in VMD (Fri Mar 27 2020 - 00:16:37 CDT)
- Re: CIF file reader (Tue Mar 24 2020 - 11:06:27 CDT)
- Re: Saving visualization state coordinates (Sun Mar 15 2020 - 13:30:45 CDT)
- Re: KS UIUC isn't accessible in new Firefox (Thu Mar 12 2020 - 13:22:27 CDT)
- Re: MSMS in VMD (Fri Feb 28 2020 - 09:58:08 CST)
- Re: vmd on raspberry pi (Thu Feb 20 2020 - 13:44:01 CST)
- Re: vmd on raspberry pi (Thu Feb 20 2020 - 13:24:56 CST)
- Re: vmd on raspberry pi (Wed Feb 19 2020 - 13:00:49 CST)
- Re: VMD rendering colors (Thu Feb 13 2020 - 12:13:49 CST)
- Re: Fwd: Visulizing subunits (Wed Feb 12 2020 - 09:52:36 CST)
- Re: Fwd: Visulizing subunits (Tue Feb 11 2020 - 10:41:58 CST)
- Re: Showing TkConsole on VMD Startup (Fri Feb 07 2020 - 12:55:12 CST)
- Re: Generating Images for Several Structures (Thu Feb 06 2020 - 20:20:54 CST)
- Re: atomselect: cannot parse selection text: (Thu Feb 06 2020 - 11:40:21 CST)
- Re: atomselect: cannot parse selection text: (Thu Feb 06 2020 - 11:21:21 CST)
- Re: Tk startup error in X forwarding (Thu Feb 06 2020 - 10:28:29 CST)
- Re: compilation of vmd from source on armv8 RK3399 processor (Wed Feb 05 2020 - 15:22:41 CST)
- Re: Tk startup error in X forwarding (Wed Feb 05 2020 - 15:04:07 CST)
- Re: VMD 1.9.3 compiled from source does not work (Fri Jan 24 2020 - 22:56:16 CST)
- Re: NAMD and VMD Armv8-A (Thu Jan 23 2020 - 10:35:25 CST)
- Re: NAMD and VMD Armv8-A (Thu Jan 23 2020 - 10:50:49 CST)
- Re: stuttering movies with snapshot (Thu Jan 23 2020 - 10:50:08 CST)
- Re: NAMD and VMD Armv8-A (Wed Jan 22 2020 - 14:53:10 CST)
- Re: Selection by Atom Number or Fragments (Wed Jan 22 2020 - 12:43:25 CST)
- Re: NAMD and VMD Armv8-A (Wed Jan 22 2020 - 12:38:31 CST)
- Re: stuttering movies with snapshot (Wed Jan 22 2020 - 12:35:50 CST)
- Re: ignore gpu on startup (Thu Jan 09 2020 - 08:43:29 CST)
- Re: VMD 1.9.3 Linux installation (Tue Jan 07 2020 - 15:21:49 CST)
- Re: Two questions regarding VMD 1.9.3 Windows NetCDF plugin (Tue Jan 07 2020 - 14:53:13 CST)
- Re: Files not written during OptiX ray tracing (Tue Jan 07 2020 - 14:54:46 CST)
- Re: VMD 1.9.3 Linux installation (Tue Jan 07 2020 - 14:50:52 CST)
- Re: RMSD per residue vs RMSF (Tue Jan 07 2020 - 14:34:51 CST)
- Re: PBC wrap deleting PBC boundaries during wrapping (Tue Jan 07 2020 - 14:27:38 CST)
- Re: Select Nucleic Acid sequence (Tue Jan 07 2020 - 14:15:51 CST)
- Re: SMD specifying atom selection (Tue Jan 07 2020 - 14:20:02 CST)
- Re: amber generated netcdf trajectories (Mon Jan 06 2020 - 14:20:06 CST)
- Re: amber generated netcdf trajectories (Thu Dec 19 2019 - 08:22:10 CST)
- Re: amber generated netcdf trajectories (Wed Dec 18 2019 - 10:19:26 CST)
- Re: Overlap of volume maps in VMD (Fri Dec 13 2019 - 13:15:20 CST)
- Re: Files not written during OptiX ray tracing (Fri Dec 13 2019 - 00:53:31 CST)
- Re: New VMD 1.9.4 test versions posted with many new updates/features... (Fri Dec 13 2019 - 00:09:20 CST)
- Re: Name / permissions of Optix Diskcache (Thu Dec 12 2019 - 09:04:06 CST)
- Re: Name / permissions of Optix Diskcache (Wed Dec 11 2019 - 08:22:01 CST)
- Re: problem with installing OPTIX ray tracing (Wed Dec 11 2019 - 08:28:34 CST)
- FLTK 1.4.0 and high-DPI screens for VMD Re: Re: VMD 1.9.4a38 build for macOS Catalina (Mon Dec 09 2019 - 08:52:07 CST)
- Re: Re: VMD 1.9.4a38 build for macOS Catalina (Mon Dec 09 2019 - 08:42:46 CST)
- Re: Re: VMD 1.9.4a38 build for macOS Catalina (Mon Dec 09 2019 - 08:37:49 CST)
- Re: Re: VMD 1.9.4a38 build for macOS Catalina (Sat Dec 07 2019 - 19:20:24 CST)
- Re: OPTIX ray tracing option not showing up (Sat Dec 07 2019 - 10:53:26 CST)
- Re: Re: VMD 1.9.4a38 build for macOS Catalina (Sat Dec 07 2019 - 10:34:04 CST)
- Re: Cross correlation (Thu Dec 05 2019 - 16:44:33 CST)
- Re: Loading large trajectories using multiple threads/direct calls? (Thu Dec 05 2019 - 12:41:06 CST)
- Re: Loading large trajectories using multiple threads/direct calls? (Thu Dec 05 2019 - 10:07:50 CST)
- Re: Getting list of arguments for TCL console (Wed Nov 27 2019 - 09:03:46 CST)
- Re: Getting list of arguments for TCL console (Tue Nov 26 2019 - 10:33:10 CST)
- Re: how to get VMD plugins for 1.9.3 (Sun Nov 24 2019 - 22:43:51 CST)
- Re: Overlap of volume maps in VMD (Thu Nov 21 2019 - 09:27:22 CST)
- Re: Reg: RMSF (Wed Nov 13 2019 - 00:33:24 CST)
- Re: volmap to find free volume (Wed Nov 13 2019 - 00:22:54 CST)
- Re: Molecule occupies the lower-bottom corner of the main window (Wed Nov 13 2019 - 00:37:10 CST)
- Re: visualising the bonds which indicated by "connect" order in pdb files (Wed Nov 13 2019 - 00:38:47 CST)
- Re: VMD download page down (Mon Nov 11 2019 - 09:27:19 CST)
- Re: [EXT] VMD for Mac stopped working after updating to Catalina (Wed Nov 06 2019 - 23:42:17 CST)
- Re: VMD 1.9.3 Only Loads 2 Plugins (Thu Oct 31 2019 - 20:48:13 CDT)
- Re: macOS Catalina (Mon Oct 14 2019 - 22:16:56 CDT)
- Re: vmd 1.9.3 won't open in mac after catalina update this morning (Mon Oct 14 2019 - 22:11:49 CDT)
- Re: (Wed Oct 02 2019 - 10:08:43 CDT)
- Re: GBIS parameters (Wed Oct 02 2019 - 09:30:35 CDT)
- Re: XenoView saved file (.car/.mdf file) (Thu Sep 26 2019 - 13:48:38 CDT)
- Re: Re: namd-l: Is there someway to render protein picture without background color? (Thu Sep 26 2019 - 13:33:30 CDT)
- Re: Calculate CC in MDFF (Wed Sep 25 2019 - 10:34:27 CDT)
- Re: VMD not reading plain mdcrd trajectories (Wed Sep 25 2019 - 10:14:31 CDT)
- Re: VMD not reading plain mdcrd trajectories (Wed Sep 25 2019 - 08:45:14 CDT)
- Re: VMD not reading plain mdcrd trajectories (Wed Sep 25 2019 - 01:32:23 CDT)
- Re: VMD not reading plain mdcrd trajectories (Fri Sep 20 2019 - 09:50:02 CDT)
- Re: colormaps available for color by volume (Fri Sep 20 2019 - 08:57:18 CDT)
- Re: exporting 3D model of a volume-based colored mesh (Thu Sep 19 2019 - 10:53:26 CDT)
- Re: exporting 3D model of a volume-based colored mesh (Thu Sep 19 2019 - 10:35:35 CDT)
- Re: exporting 3D model of a volume-based colored mesh (Thu Sep 19 2019 - 10:43:17 CDT)
- Re: Re: namd-l: Is there someway to render protein picture without background color? (Thu Sep 19 2019 - 10:13:52 CDT)
- Re: colormaps available for color by volume (Thu Sep 19 2019 - 09:37:44 CDT)
- Re: Re: namd-l: Is there someway to render protein picture without background color? (Tue Sep 17 2019 - 16:11:48 CDT)
- Re: VMD segmentation fault (core dumped) (Mon Sep 16 2019 - 21:49:31 CDT)
- Re: correct "origin" in VMD (Mon Sep 16 2019 - 20:11:43 CDT)
- Re: VMD segmentation fault (core dumped) (Mon Sep 16 2019 - 20:07:02 CDT)
- Re: planned support for Catalina? (Thu Aug 29 2019 - 22:10:32 CDT)
- Re: planned support for Catalina? (Thu Aug 29 2019 - 15:24:40 CDT)
- Re: Local isosurface (Mon Jul 29 2019 - 13:38:13 CDT)
- Re: Fwd: (Mon Jul 29 2019 - 12:55:54 CDT)
- Re: Fwd: (Wed Jul 24 2019 - 08:42:45 CDT)
- Re: New VMD 1.9.4 test versions posted with many new updates/features... (Tue Jul 23 2019 - 23:28:39 CDT)
- Re: Re: Tcl (Tue Jul 23 2019 - 23:31:12 CDT)
- Re: New VMD 1.9.4 test versions posted with many new updates/features... (Wed Jul 17 2019 - 15:43:42 CDT)
- Re: New VMD 1.9.4 test versions posted with many new updates/features... (Tue Jul 16 2019 - 17:28:15 CDT)
- Re: VMD 1.9.4a31 segmentation fault on OpenSUSE 15.1 (Tue Jul 16 2019 - 15:37:23 CDT)
- Re: Increasing the number of bonds per atom (Wed Jul 10 2019 - 15:54:03 CDT)
- New VMD 1.9.4 test versions posted with many new updates/features... (Wed Jul 10 2019 - 15:29:12 CDT)
- Re: Change Label Font (Mon Jul 08 2019 - 00:54:13 CDT)
- Re: Sub: making a trajectory with frames having different number of water molecules. (Mon Jul 08 2019 - 00:33:04 CDT)
- Re: Adaptive real time selection and coloring in default display (Fri Jun 28 2019 - 11:12:44 CDT)
- Re: Increasing the number of bonds per atom (Fri Jun 28 2019 - 11:20:52 CDT)
- Re: Increasing the number of bonds per atom (Thu Jun 27 2019 - 09:09:23 CDT)
- Re: Issues with Tcl script for MD Prep (Wed Jun 19 2019 - 16:42:06 CDT)
- Re: How to get box information from file.dcd. (Mon Jun 17 2019 - 16:36:15 CDT)
- Re: Merging two proteins (Mon Jun 17 2019 - 15:57:21 CDT)
- Re: Visualization State Issue With Secondary Structure (Thu Jun 06 2019 - 22:45:26 CDT)
- Re: VMD alpha builds (Mon Jun 03 2019 - 23:12:21 CDT)
- Re: RTX-accelerated VMD 1.9.4 test build for 64-bit Linux posted... (Mon Apr 29 2019 - 20:50:31 CDT)
- Re: VMD window doesn't show up (Mon Apr 29 2019 - 21:17:56 CDT)
- QuickSurf error Re: RTX-accelerated VMD 1.9.4 test build for 64-bit Linux posted... (Mon Apr 29 2019 - 21:09:42 CDT)
- Re: VMD window doesn't show up (Fri Apr 26 2019 - 12:01:25 CDT)
- Re: VMD window doesn't show up (Thu Apr 25 2019 - 07:46:04 CDT)
- Re: OBJ rendering with multiple colors and transparency (Fri Apr 19 2019 - 11:52:54 CDT)
- Re: OpenGL acceleration from eGPU? (Thu Apr 18 2019 - 22:11:31 CDT)
- Re: Rasterized default display rendering vs ray-tracing (interactive) (Wed Apr 17 2019 - 08:41:53 CDT)
- Re: Question (Tue Apr 16 2019 - 09:09:27 CDT)
- Re: File Format (Wed Apr 10 2019 - 17:30:55 CDT)
- Re: File Format (Wed Apr 10 2019 - 17:23:25 CDT)
- Re: File Format (Wed Apr 10 2019 - 15:54:50 CDT)
- Re: Tk-console (Sat Apr 06 2019 - 23:01:51 CDT)
- Re: calculate the percentage of beta-sheet and alpha helix with time evolution (Thu Apr 04 2019 - 23:55:04 CDT)
- Re: is VMD portable? (Thu Apr 04 2019 - 23:51:48 CDT)
- Re: Visualization Question (Thu Mar 28 2019 - 22:44:13 CDT)
- Re: 32bit memory problems on Mac OS (Thu Mar 28 2019 - 21:39:03 CDT)
- Re: Re: VMD OrcaPlugin Bug (Thu Mar 28 2019 - 09:51:27 CDT)
- Re: ORCA Orbital Bug (Tue Mar 19 2019 - 13:04:58 CDT)
- Re: ORCA Orbital Bug (Tue Mar 19 2019 - 12:39:43 CDT)
- Re: 32bit memory problems on Mac OS (Sun Mar 17 2019 - 19:14:31 CDT)
- Re: ORCA Orbital Bug (Sun Mar 17 2019 - 19:19:48 CDT)
- Re: RTX-accelerated VMD 1.9.4 test build for 64-bit Linux posted... (Sat Mar 16 2019 - 01:11:39 CDT)
- Re: ORCA Orbital Bug (Sat Mar 16 2019 - 01:13:06 CDT)
- Updated RTX-accelerated VMD 1.9.4 test build for 64-bit Linux posted... (Fri Mar 15 2019 - 16:31:14 CDT)
- Re: RTX-accelerated VMD 1.9.4 test build for 64-bit Linux posted... (Mon Mar 11 2019 - 15:35:39 CDT)
- Re: VMD Multiprocessing (Mon Mar 11 2019 - 15:39:34 CDT)
- Re: Nvidia 3D vision not working in Windows 10 (Wed Mar 06 2019 - 23:43:53 CST)
- Re: RTX-accelerated VMD 1.9.4 test build for 64-bit Linux posted... (Tue Mar 05 2019 - 22:00:23 CST)
- Re: RTX-accelerated VMD 1.9.4 test build for 64-bit Linux posted... (Tue Mar 05 2019 - 10:17:50 CST)
- RTX-accelerated VMD 1.9.4 test build for 64-bit Linux posted... (Mon Feb 25 2019 - 20:40:16 CST)
- Re: Possible Bug (Sun Feb 24 2019 - 19:22:55 CST)
- Re: Possible Bug (Sat Feb 23 2019 - 20:54:38 CST)
- Re: Re: [EXTERNAL] RE: pbctools installation error (Fri Feb 22 2019 - 17:30:33 CST)
- VMD RTX hardware accelerated ray tracing update! (Thu Feb 21 2019 - 23:24:40 CST)
- Re: Error: invalid command name "voltool" (Tue Feb 19 2019 - 13:33:12 CST)
- Re: QwikMD and CUDA10 (Thu Jan 31 2019 - 09:21:04 CST)
- Re: Pause script, make display interactive, then resume script after user input (Wed Jan 23 2019 - 23:45:27 CST)
- Re: Pause script, make display interactive, then resume script after user input (Fri Jan 18 2019 - 16:44:29 CST)
- Re: Problems with rendering with POV-Ray (Fri Jan 04 2019 - 13:10:53 CST)
- Re: Problem in loading netcdf file from LAMMPS output in VMD (Fri Jan 04 2019 - 12:47:28 CST)
- Re: Problem in loading netcdf file from LAMMPS output in VMD (Fri Jan 04 2019 - 12:10:52 CST)
- Re: Problem in loading netcdf file from LAMMPS output in VMD (Fri Jan 04 2019 - 11:34:55 CST)
- Re: fftk problem in opt. bonded step (Mon Dec 17 2018 - 09:42:20 CST)
- Re: ARM (Sat Dec 15 2018 - 14:46:08 CST)
- Re: Extensions not working (Mon Dec 03 2018 - 15:21:05 CST)
- Re: Re: Inverted measure fit of ring atoms (Tue Nov 27 2018 - 10:12:23 CST)
- Re: CUDA 10 (Thu Nov 22 2018 - 09:12:31 CST)
- Re: Save specific atoms from multiple frame pdb (Thu Nov 08 2018 - 21:47:29 CST)
- Re: Save specific atoms from multiple frame pdb (Wed Nov 07 2018 - 14:34:53 CST)
- Re: Create new atoms (Wed Nov 07 2018 - 14:30:01 CST)
- Re: Newby unable to see secondary structure in New Cartoon (Sun Nov 04 2018 - 20:59:58 CST)
- Re: Problem of saving .trj file in vmd (Tue Oct 30 2018 - 09:16:43 CDT)
- Re: Ambient/direct light missing after adding Glow lights to a tachyon scene with glow_lights.tcl (Fri Oct 19 2018 - 08:37:46 CDT)
- Re: Library to display molecule into Qt widget (Thu Oct 11 2018 - 21:08:19 CDT)
- Re: RTX for raytracing (Wed Oct 10 2018 - 10:29:37 CDT)
- Re: Advantages of new RTX/Turing NVidia cards? (Wed Oct 10 2018 - 10:21:13 CDT)
- Re: RTX for raytracing (Thu Sep 27 2018 - 10:02:42 CDT)
- Re: mail about renumbering of residues (Mon Sep 24 2018 - 10:02:58 CDT)
- Re: RMSD for specific residue (Fri Sep 07 2018 - 14:28:17 CDT)
- Re: Plugins show no text (Wed Aug 29 2018 - 12:04:46 CDT)
- Re: 1.9.4 beta version of VMD (Mon Aug 27 2018 - 11:35:47 CDT)
- Re: Solvate Plugin Error - Reg (Mon Aug 27 2018 - 11:04:24 CDT)
- Re: Nvidia 3D vision not working in Windows 10 (Mon Aug 27 2018 - 10:22:28 CDT)
- Re: Nvidia 3D vision not working in Windows 10 (Mon Aug 27 2018 - 10:10:00 CDT)
- QwikMD and GROMOS Re: (Mon Aug 27 2018 - 10:12:44 CDT)
- Re: Tachyon with DoF ignores FocalLength (Mon Aug 27 2018 - 09:58:44 CDT)
- Re: 1.9.4 beta version of VMD (Mon Aug 27 2018 - 09:55:17 CDT)
- Re: Molden orbitals: how to increase the bounding box size? (Sat Aug 04 2018 - 09:59:04 CDT)
- Re: Re: Tachyon with DoF ignores FocalLength (Fri Aug 03 2018 - 08:30:47 CDT)
- Re: Please remove me from mailing list (Thu Aug 02 2018 - 12:00:45 CDT)
- Re: Re: Tachyon with DoF ignores FocalLength (Thu Aug 02 2018 - 11:58:08 CDT)
- Re: VR (Tue Jul 31 2018 - 21:37:13 CDT)
- Re: Rendering incompletion during Tachyon rendering (Tue Jul 31 2018 - 21:41:59 CDT)
- Re: VR (Tue Jul 31 2018 - 16:39:23 CDT)
- Re: VR (Tue Jul 31 2018 - 14:24:17 CDT)
- Re: VR (Tue Jul 31 2018 - 14:03:29 CDT)
- Re: Solvate plugin Error - reg (Tue Jul 31 2018 - 13:17:36 CDT)
- Re: Solvate plugin Error - reg (Tue Jul 31 2018 - 11:57:52 CDT)
- Re: Solvate plugin Error - reg (Tue Jul 31 2018 - 11:53:39 CDT)
- Re: Porcupine plot with nmwiz (Tue Jul 31 2018 - 11:38:16 CDT)
- Re: Porcupine plot with nmwiz (Tue Jul 31 2018 - 10:03:14 CDT)
- Re: reg compilation of vmd 1.9.3 (Mon Jul 30 2018 - 14:37:17 CDT)
- Re: Farewell VMD (Mon Jul 30 2018 - 11:56:46 CDT)
- Re: Dowser Availability (Mon Jul 16 2018 - 17:50:50 CDT)
- Re: Fully Visual Docker Container for VMD (Mon Jul 16 2018 - 15:06:35 CDT)
- Re: Issue with NVIDIA GPU Cloud VMD Container (Fri Jul 06 2018 - 16:04:51 CDT)
- Re: Issue with NVIDIA GPU Cloud VMD Container (Fri Jul 06 2018 - 16:07:05 CDT)
- Re: Membrane Protein Tutorial Bug (Thu Jul 05 2018 - 15:12:20 CDT)
- Re: Possible to run VMD in parallel - Reg (Thu Jul 05 2018 - 15:09:01 CDT)
- Re: grid mode in vmd? (Thu Jul 05 2018 - 09:07:37 CDT)
- Re: Possible to run VMD in parallel - Reg (Thu Jul 05 2018 - 09:09:51 CDT)
- Re: Error in PCA analysis (Tue Jul 03 2018 - 11:46:14 CDT)
- Re: Inorganic builder in no display mode - Reg (Tue Jul 03 2018 - 11:41:10 CDT)
- Re: AW: Error: not possible to build nodeSelString: () and () (Tue Jul 03 2018 - 11:14:40 CDT)
- Re: Opt. Bonded: Angle in multiple rings (Fri Jun 22 2018 - 11:21:01 CDT)
- Re: (Fri Jun 22 2018 - 11:09:56 CDT)
- Re: vmd keeps crashing (Fri Jun 22 2018 - 04:45:37 CDT)
- Re: alter crosshair appearance (Fri Jun 22 2018 - 03:15:09 CDT)
- Re: ribbon on different thickness (Fri Jun 22 2018 - 03:25:25 CDT)
- Re: tcl script to pull pdb file from tgz (Thu Jun 21 2018 - 21:40:58 CDT)
- Re: (Thu Jun 21 2018 - 13:19:56 CDT)
- Re: mail about installation of vmd 1.9 in cluster (Wed Jun 20 2018 - 14:51:37 CDT)
- Re: Vmd tcl versions (Mon Jun 18 2018 - 14:57:10 CDT)
- Re: VMD Update Questions (Tue Jun 12 2018 - 15:54:48 CDT)
- Re: topotools/topogromacs (Mon Jun 11 2018 - 15:53:42 CDT)
- Re: VMD Update Questions (Mon Jun 11 2018 - 15:05:52 CDT)
- Re: VMD Update Questions (Mon Jun 11 2018 - 14:08:48 CDT)
- Re: Recompile VMD with larger index types (Mon Jun 11 2018 - 10:10:57 CDT)
- Re: VMD Update Questions (Mon Jun 11 2018 - 10:32:19 CDT)
- Re: Re: invalid command name "La::mevsvd_br" (Mon May 21 2018 - 10:05:54 CDT)
- Re: Error loading .phi file (Tue May 15 2018 - 14:53:22 CDT)
- Re: macosx 10.6 compilation issue (Tue May 08 2018 - 14:32:40 CDT)
- Re: A fill for "bodies" build out of surfacs (Mon May 07 2018 - 16:49:44 CDT)
- Re: labels with sub/superscripts or even symbols (Mon May 07 2018 - 16:24:28 CDT)
- Re: Diagnosing vmd startup problems (Mon May 07 2018 - 15:46:32 CDT)
- Re: A fill for "bodies" build out of surfacs (Mon May 07 2018 - 14:40:52 CDT)
- Re: Diagnosing vmd startup problems (Mon May 07 2018 - 14:47:22 CDT)
- Re: Coloring Scheme Spectrum (Sun May 06 2018 - 21:20:13 CDT)
- Re: Coloring Scheme Spectrum (Sun May 06 2018 - 21:13:55 CDT)
- Re: How to change the coordinates of the dummy atoms in readvarxyz (Fri May 04 2018 - 11:07:04 CDT)
- Re: CellPack (Fri May 04 2018 - 11:02:02 CDT)
- Re: CellPack (Thu May 03 2018 - 20:35:46 CDT)
- Re: CellPack (Thu May 03 2018 - 10:22:22 CDT)
- Re: Displaying gaussian cube file produced by Delphi (Mon Apr 30 2018 - 22:06:29 CDT)
- Re: coloring method User for graphics like tubes? (Mon Apr 30 2018 - 22:07:41 CDT)
- Re: Fixing VMD build with recent FLTK on macOS (Thu Apr 26 2018 - 17:30:17 CDT)
- Re: dynamic cross-correlation Map(DCCM)? (Tue Apr 24 2018 - 16:56:19 CDT)
- Re: Regarding Installation of DruGui (Sun Mar 25 2018 - 11:52:48 CDT)
- Re: Is occulus rift plug-and-play with VMD yet? If so, what are the capabilities? (Thu Mar 22 2018 - 11:31:04 CDT)
- Re: polyhedra representation + periodic images (Wed Mar 21 2018 - 10:32:18 CDT)
- Re: Changing isosurface wireframe thickness when rendering with TachyonL (Wed Mar 21 2018 - 10:36:54 CDT)
- Re: Command to save visualization state. (Wed Mar 21 2018 - 10:27:25 CDT)
- Re: Creating VR-movies with tachyon renderer (Thu Mar 15 2018 - 00:03:16 CDT)
- Re: Sv: TachyonL-optix rendering question (Wed Mar 14 2018 - 23:59:31 CDT)
- Re: Building plugins with _USE_ZLIB (how to activate preprocessor macro) (Tue Mar 13 2018 - 17:10:13 CDT)
- Re: Building plugins with _USE_ZLIB (how to activate preprocessor macro) (Tue Mar 13 2018 - 16:48:50 CDT)
- Re: Building plugins with _USE_ZLIB (how to activate preprocessor macro) (Tue Mar 13 2018 - 14:29:20 CDT)
- Re: Graphics card requirement for VMD (Tue Mar 13 2018 - 09:36:16 CDT)
- Re: VMD quit unexpectedly on Mac (Thu Mar 08 2018 - 13:15:44 CST)
- Re: TachyonL-optix rendering question (Wed Mar 07 2018 - 10:19:21 CST)
- Re: VMD Segfault Fedora 27 (Tue Mar 06 2018 - 13:49:16 CST)
- Re: VMD Segfault Fedora 27 (Tue Mar 06 2018 - 14:28:46 CST)
- Re: Error merging the pdbs and psfs (Mon Mar 05 2018 - 14:51:53 CST)
- Re: netcdf for plugins (Mon Mar 05 2018 - 09:50:33 CST)
- Re: Running vmd (Mon Mar 05 2018 - 09:59:51 CST)
- Re: vmd error related to tcl.h (Mon Mar 05 2018 - 00:28:08 CST)
- Re: video 360 vmd (Fri Feb 23 2018 - 14:50:35 CST)
- Re: Re: VMD crashes on Macbook with Intel Graphics (Fri Feb 23 2018 - 10:07:37 CST)
- Re: VMD crashes on Macbook with Intel Graphics (Thu Feb 22 2018 - 17:16:23 CST)
- Re: VMD TCL Script to save last frame of a trajectory using bash+tcl scripts (Tue Feb 20 2018 - 10:49:00 CST)
- Re: OS X Connection between VMD and AutoIMD (Thu Feb 08 2018 - 16:24:26 CST)
- Re: Color scale bar (Thu Feb 08 2018 - 14:08:04 CST)
- Re: Molecule limit (Wed Jan 31 2018 - 18:06:57 CST)
- Re: Affordable 3D stereo. (Wed Jan 31 2018 - 11:17:54 CST)
- Re: Molecule limit (Mon Jan 29 2018 - 23:23:33 CST)
- Re: Re: [phenixbb] secondary structure presentation in VMD (Tue Jan 23 2018 - 11:12:12 CST)
- Re: Re: [phenixbb] secondary structure presentation in VMD (Mon Jan 22 2018 - 16:03:48 CST)
- Re: Isosurface wireframe & solid surface representation (Wed Jan 17 2018 - 12:07:23 CST)
- Re: having problem with disulfide bond (Tue Jan 09 2018 - 11:25:28 CST)
- Re: tcl script not executed when submitted using a slurm script (Wed Dec 20 2017 - 09:08:23 CST)
- Re: tcl script not executed when submitted using a slurm script (Wed Dec 20 2017 - 08:58:09 CST)
- Re: Re: Using python interpreter with VMD (Tue Dec 19 2017 - 00:02:04 CST)
- Re: (Mon Dec 18 2017 - 10:02:05 CST)
- Re: Suspected bug in BaseMolecule::default_mass (Mon Dec 18 2017 - 09:49:23 CST)
- Re: Render in spherical equirectangular projection (Fri Nov 10 2017 - 22:16:35 CST)
- Re: Atoms in rings (Fri Oct 27 2017 - 14:30:14 CDT)
- Re: Atoms in rings (Fri Oct 27 2017 - 12:54:31 CDT)
- Re: vmd not working on remote server (Tue Oct 17 2017 - 14:10:00 CDT)
- Re: Is occulus rift plug-and-play with VMD yet? If so, what are the capabilities? (Fri Oct 13 2017 - 15:05:33 CDT)
- Re: PDB loading in old vmd versions (Wed Oct 11 2017 - 14:43:24 CDT)
- Re: Stuttering in video with TachyonL-Optix (Wed Oct 11 2017 - 10:00:13 CDT)
- Re: Bug report for NAMDgui plugin in VMD (1.9.4 alpha 8) (Wed Oct 11 2017 - 09:57:26 CDT)
- Re: PDB loading in old vmd versions (Wed Oct 11 2017 - 09:46:50 CDT)
- Re: Stuttering in video with TachyonL-Optix (Tue Oct 10 2017 - 16:09:24 CDT)
- Re: VMD from remote workstation (followup: crash with Intel drivers) (Tue Oct 10 2017 - 10:10:58 CDT)
- Re: Smoothening labels in vmd (Tue Oct 10 2017 - 10:15:31 CDT)
- Re: Stuttering in video with TachyonL-Optix (Mon Oct 09 2017 - 22:17:24 CDT)
- Re: Unable to load (Thu Oct 05 2017 - 13:49:28 CDT)
- Re: VMD with sensible phantom haptic device using VRPN (Tue Oct 03 2017 - 13:41:52 CDT)
- Re: Rendering 3D 360 Movies at higher resolution (Tue Oct 03 2017 - 13:58:52 CDT)
- Re: an continuous increased pattern for RMSD curve after long run (Tue Oct 03 2017 - 13:20:57 CDT)
- Re: a question about force field toolkit (Tue Oct 03 2017 - 13:20:16 CDT)
- Re: vmd not able to generate new cartoon representation (Tue Sep 19 2017 - 14:55:58 CDT)
- Re: VMD installation (Mon Sep 18 2017 - 10:14:00 CDT)
- Re: Error in merging two PDB files (Mon Sep 18 2017 - 10:18:06 CDT)
- Re: parallel processing in vmd (Thu Sep 14 2017 - 21:35:59 CDT)
- Re: libX11.so.6 error (Wed Sep 13 2017 - 15:51:42 CDT)
- Re: Electrostatic interaction calculations using the NAMD Energy Plugin and PME (Wed Sep 13 2017 - 11:51:55 CDT)
- Re: libX11.so.6 error (Wed Sep 13 2017 - 11:02:27 CDT)
- Re: intel_do_flush_locked failed: Cannot allocate memory (Sat Sep 09 2017 - 15:15:38 CDT)
- Re: VRML files from VMD are malformed (Wed Sep 06 2017 - 21:48:06 CDT)
- Re: tcl command "lremove" not working in VMD text mode (Wed Sep 06 2017 - 16:33:52 CDT)
- ACS COMP awards announcement (Wed Sep 06 2017 - 14:27:41 CDT)
- Re: Bad reply-to email field Re: rlwrap: Command not found. (Wed Sep 06 2017 - 14:37:21 CDT)
- Bad reply-to email field Re: rlwrap: Command not found. (Tue Sep 05 2017 - 13:30:52 CDT)
- Re: rlwrap: Command not found. (Tue Sep 05 2017 - 13:27:31 CDT)
- Re: VMD Seg fault on startup in Fedora 26 (Tue Sep 05 2017 - 09:54:32 CDT)
- Re: VMD Seg fault on startup in Fedora 26 (Sun Sep 03 2017 - 20:52:44 CDT)
- Re: install VMD IN parallel (Fri Sep 01 2017 - 14:34:31 CDT)
- Re: install VMD IN parallel (Fri Sep 01 2017 - 13:12:19 CDT)
- Re: Cannot show the simulation box (Thu Aug 31 2017 - 17:34:57 CDT)
- Re: How to get 3D figure of solvent accessible surface area from APBS output (Thu Aug 31 2017 - 17:18:19 CDT)
- Re: identifying the specific coordinates of a voxel (Wed Aug 30 2017 - 14:50:24 CDT)
- VMD 1.9.4 alpha 8 posted for download... (Wed Aug 30 2017 - 12:14:19 CDT)
- Re: Is occulus rift plug-and-play with VMD yet? If so, what are the capabilities? (Thu Aug 24 2017 - 15:37:18 CDT)
- Re: TachyonL-OptiX (Wed Aug 23 2017 - 13:20:05 CDT)
- Re: VMD not starting after nvidia update (Wed Aug 23 2017 - 10:37:03 CDT)
- Re: TachyonL-OptiX (Tue Aug 22 2017 - 12:09:56 CDT)
- Re: mol pdbload failing (Tue Aug 15 2017 - 11:51:53 CDT)
- Re: RDF analysis using GROMACS trajectory (Tue Aug 15 2017 - 12:18:20 CDT)
- Re: VMD text (Fri Jul 28 2017 - 11:38:57 CDT)
- Re: mol pdbload failing (Wed Jul 26 2017 - 09:53:12 CDT)
- Re: Re: Unequal atoms size (Wed Jul 26 2017 - 09:49:44 CDT)
- Re: VMD Error in Mac OSX (Fri Jul 21 2017 - 13:58:50 CDT)
- Re: VMD Error in Mac OSX (Fri Jul 21 2017 - 14:38:48 CDT)
- Re: VMD Error in Mac OSX (Fri Jul 21 2017 - 14:11:12 CDT)
- Re: VMD Error in Mac OSX (Fri Jul 21 2017 - 14:20:07 CDT)
- Re: Running VMD on Blue Waters (Thu Jun 29 2017 - 13:08:52 CDT)
- Re: pdb download bug (Tue Jun 27 2017 - 20:32:36 CDT)
- Re: Tachyon (Mon Jun 19 2017 - 13:24:57 CDT)
- Re: VMD display problems. (Fri Jun 16 2017 - 14:46:55 CDT)
- Re: Tachyon (Wed Jun 14 2017 - 11:22:06 CDT)
- Re: Playing trajectories using HMDs (Wed May 31 2017 - 16:48:16 CDT)
- Re: VMD 1.9.3 crashes during loading GROMACS trr trajectory in linux. (Wed May 31 2017 - 16:33:16 CDT)
- Re: Reordering atomselection before saving trajectory (Wed May 31 2017 - 16:37:47 CDT)
- Re: [VMD] Measure distance between two selections (Wed May 31 2017 - 16:34:50 CDT)
- Re: Drawing hollow circles (Wed May 24 2017 - 10:25:36 CDT)
- Re: Bug in VMD 1.9.3? (Wed Apr 26 2017 - 10:52:03 CDT)
- Re: Bug in VMD 1.9.3? (Wed Apr 26 2017 - 10:03:28 CDT)
- Re: Crating 3D PDF files (Mon Apr 17 2017 - 08:46:11 CDT)
- Re: Disable OSPRay for VMD on AMD CPU (Mon Apr 17 2017 - 07:59:29 CDT)
- Re: Re: Behavior of TachyonLOptiXInternal Renderer (Fri Apr 14 2017 - 05:03:15 CDT)
- Re: Re: Behavior of TachyonLOptiXInternal Renderer (Fri Apr 14 2017 - 02:29:36 CDT)
- Re: VMD and latest XQuartz update (Tue Apr 11 2017 - 03:00:45 CDT)
- Re: Regarding membrane thickness (Tue Apr 11 2017 - 03:13:10 CDT)
- Re: How to change the font size in VMD? (Tue Apr 11 2017 - 02:58:37 CDT)
- Re: Unable to Render modified positions of labels with Tachyon (Tue Apr 11 2017 - 02:57:14 CDT)
- Re: Regarding membrane thickness (Wed Apr 05 2017 - 14:27:11 CDT)
- Re: Accessing tachyon optix from commandline and dat file generation (Tue Apr 04 2017 - 15:30:20 CDT)
- Re: modify the plugin in MACOS X (Mon Apr 03 2017 - 10:16:14 CDT)
- Re: Accessing tachyon optix from commandline and dat file generation (Mon Apr 03 2017 - 09:45:35 CDT)
- Re: modify the plugin in MACOS X (Mon Apr 03 2017 - 09:47:12 CDT)
- Re: VMD 1.9.2 crashing at startup in Mac OS X El Capitan (Fri Mar 31 2017 - 13:29:29 CDT)
- Re: video streaming (Thu Mar 30 2017 - 15:11:41 CDT)
- Re: VMD and cuda 7.5 (Fri Mar 17 2017 - 15:38:08 CDT)
- Re: VMD and latest XQuartz update (Fri Mar 17 2017 - 14:25:31 CDT)
- Re: Numerical data from electrostatic calculations (Fri Mar 17 2017 - 11:10:03 CDT)
- Re: VMD and latest XQuartz update (Thu Mar 16 2017 - 14:56:10 CDT)
- Re: Timeline / Sequence View not functional (Mon Mar 13 2017 - 10:29:36 CDT)
- Re: Timeline / Sequence View not functional (Mon Mar 13 2017 - 09:56:09 CDT)
- Re: hbonds with noncommon atom names (Thu Mar 02 2017 - 14:37:04 CST)
- Re: VMD 1.9.3 crashes during loading GROMACS trr trajectory in linux. (Thu Mar 02 2017 - 14:25:30 CST)
- Re: hbonds with noncommon atom names (Thu Mar 02 2017 - 14:35:17 CST)
- Re: hbonds with noncommon atom names (Tue Feb 28 2017 - 17:02:52 CST)
- Re: placing text labels near atoms using draw text (Tue Feb 28 2017 - 16:55:41 CST)
- Re: QMtool gaussian 09 (Tue Feb 28 2017 - 17:05:43 CST)
- Re: Issue viewing GRO file in VMD (Tue Feb 28 2017 - 16:28:07 CST)
- Re: VMD 1.9.3 crashes during loading GROMACS trr trajectory in linux. (Tue Feb 28 2017 - 12:57:57 CST)
- Re: Fwd: Termination when using QuickSurf, libGL no version info, and CUDA Error in start up (Tue Feb 28 2017 - 12:53:46 CST)
- Re: Re: Re: vmd cannot display part of the protein in gromacs gro/trr file format (Mon Feb 13 2017 - 14:25:15 CST)
- Re: VolMap data format (Fri Feb 10 2017 - 16:06:32 CST)
- Re: VolMap data format (Fri Feb 10 2017 - 14:34:31 CST)
- Re: Re: vmd cannot display part of the protein in gromacs gro/trr file format (Wed Feb 08 2017 - 15:38:45 CST)
- Re: memory sharing in VMD (Tue Feb 07 2017 - 16:02:12 CST)
- Re: memory sharing in VMD (Tue Feb 07 2017 - 14:22:59 CST)
- Re: Topo file (Tue Feb 07 2017 - 10:57:52 CST)
- Re: Topo file (Tue Feb 07 2017 - 10:13:35 CST)
- Re: vmd cannot display part of the protein in gromacs gro/trr file format (Fri Feb 03 2017 - 10:31:45 CST)
- Re: reading rst7 files generated by cpptraj (Fri Feb 03 2017 - 00:18:05 CST)
- Re: Amber visualization problem (Thu Feb 02 2017 - 23:53:12 CST)
- Re: ffTK Hessian calculation error outputting to Gaussian input (Fri Jan 20 2017 - 10:55:24 CST)
- Re: Feature request: "Apply to all molecules" option in graphical representation window (Wed Jan 18 2017 - 17:17:50 CST)
- Re: veldcd file (Sun Jan 15 2017 - 02:47:25 CST)
- Re: Rendering images like those shown on VMD home page (Sun Jan 15 2017 - 02:49:30 CST)
- Re: orient - winVMD (Sun Jan 15 2017 - 02:44:45 CST)
- Re: Rendering images like those shown on VMD home page (Sat Jan 14 2017 - 00:49:55 CST)
- Re: How to read Scattered Volume Data (Sat Jan 14 2017 - 00:20:59 CST)
- Re: How to read Scattered Volume Data (Fri Jan 13 2017 - 23:58:12 CST)
- Re: Analyzing results of simulation done by gromacs (Fri Jan 13 2017 - 23:28:26 CST)
- Re: Rendering images like those shown on VMD home page (Fri Jan 13 2017 - 23:18:08 CST)
- Re: VMD very slow on DELL workstation with Quadro M4000 (Thu Jan 12 2017 - 12:32:42 CST)
- Re: Quad buffered stereo from Quadro M4000 to HDMI monitor (Thu Jan 12 2017 - 12:20:50 CST)
- Re: isosurface stays gray after using "surface_color" command and "rebuild" (Wed Jan 11 2017 - 08:07:56 CST)
- Re: compiling VMD 1.9.3 with OSPRay support (Tue Jan 10 2017 - 08:44:15 CST)
- Re: compiling VMD 1.9.3 with OSPRay support (Tue Jan 10 2017 - 07:59:38 CST)
- Re: why vmd cannot load the dcd trajectory? (Tue Jan 10 2017 - 07:23:29 CST)
- Re: Fwd: vmd1.9.23 rlwrap: No match (Fri Dec 16 2016 - 14:14:50 CST)
- Re: (Fri Dec 16 2016 - 13:56:24 CST)
- Re: VMD 1.9.3 on 64-bit macOS (Thu Dec 15 2016 - 11:37:46 CST)
- Re: (Thu Dec 15 2016 - 11:27:01 CST)
- Re: VMD crashing on OS X El Capitan 64 bit (Wed Dec 14 2016 - 16:44:00 CST)
- Re: Invalid repid? (Fri Dec 09 2016 - 14:32:31 CST)
- Re: rlwrap: Command not found. /usr/local/lib/vmd/vmd_LINUX: Command not found. (Fri Dec 09 2016 - 13:46:00 CST)
- Re: Re: rlwrap: Command not found. /usr/local/lib/vmd/vmd_LINUX: Command not found. (Fri Dec 09 2016 - 10:10:53 CST)
- Re: Superimpose (Thu Dec 08 2016 - 21:24:45 CST)
- Re: Use of CUDA with AMD GPU (Tue Dec 06 2016 - 23:24:23 CST)
- Re: OpenGL Display not working (Tue Dec 06 2016 - 22:49:00 CST)
- Re: Superimpose (Tue Dec 06 2016 - 22:37:04 CST)
- Re: OpenGL Display not working (Tue Dec 06 2016 - 22:11:30 CST)
- Re: VMD 1.9.3 on 64-bit macOS (Tue Dec 06 2016 - 17:49:43 CST)
- Re: Some macOS code simplification (Tue Dec 06 2016 - 17:55:01 CST)
- Re: AMBER trajectory visualization (Sun Dec 04 2016 - 21:25:34 CST)
- Re: Distribute evenly n-molecules at m-angstroem from protein surface (Sat Dec 03 2016 - 23:38:11 CST)
- Re: AMBER trajectory visualization (Sat Dec 03 2016 - 22:48:02 CST)
- Re: Setting user field for time varying parameters? (Thu Dec 01 2016 - 15:40:57 CST)
- Re: CUDA acceleration for Tachyon rendering? (Thu Dec 01 2016 - 15:06:03 CST)
- Re: Setting user field for time varying parameters? (Thu Dec 01 2016 - 15:09:27 CST)
- VMD 1.9.3 released! (Thu Dec 01 2016 - 01:30:55 CST)
- Re: OpenGL (Tue Nov 29 2016 - 17:07:16 CST)
- Re: VMD and Spacenavigator in OSX (Mon Nov 28 2016 - 01:42:14 CST)
- Re: GPU conf file (Mon Nov 28 2016 - 00:21:34 CST)
- Re: Change browsing directory in mac (Mon Nov 28 2016 - 00:24:53 CST)
- Re: 3D projection of vmd window (Mon Nov 28 2016 - 00:07:15 CST)
- Re: how to find vander waal interactions in vmd? (Mon Nov 28 2016 - 00:15:51 CST)
- Re: Rendering with Tachyon GPU enabled (TachyonLOptiXInternal) with options (Sun Nov 27 2016 - 23:58:33 CST)
- Re: VMD problems on Linux Cinnamon Mint (Sarah) (Sun Nov 27 2016 - 14:13:36 CST)
- Re: X3D render NewRibbons only in blue (Fri Nov 25 2016 - 01:02:21 CST)
- Re: Close contacts upon solvation of XYZ file. (Thu Nov 24 2016 - 12:18:43 CST)
- Re: Superimpose Models (Thu Nov 24 2016 - 12:16:21 CST)
- Re: VMD problems on Linux Cinnamon Mint (Sarah) (Thu Nov 24 2016 - 12:13:20 CST)
- Re: vmd installation (Thu Nov 24 2016 - 09:48:00 CST)
- Re: VMD problems on Linux Cinnamon Mint (Sarah) (Thu Nov 24 2016 - 09:37:40 CST)
- Re: vmd installation (Thu Nov 24 2016 - 01:32:23 CST)
- Re: VMD problems on Linux Cinnamon Mint (Sarah) (Wed Nov 23 2016 - 16:16:32 CST)
- Re: vmd installation (Wed Nov 23 2016 - 01:44:00 CST)
- Re: X3D render NewRibbons only in blue (Wed Nov 23 2016 - 01:08:01 CST)
- Re: error loading PDB (Tue Nov 22 2016 - 17:36:08 CST)
- Re: error loading PDB (Tue Nov 22 2016 - 17:33:14 CST)
- Re: GPU rendering of molecular orbitals (Tue Nov 22 2016 - 17:27:12 CST)
- Re: GPU rendering of molecular orbitals (Tue Nov 22 2016 - 16:01:27 CST)
- Re: Fwd: Compile / Configure VMD with the Oculus Rift DK2 (Fri Nov 11 2016 - 10:03:12 CST)
- Re: Limits of the VMD Visualisation (Thu Nov 10 2016 - 01:45:01 CST)
- Re: Problem of compiling VMD with options (Wed Nov 09 2016 - 14:10:23 CST)
- Re: Rotate molecular system without rotating objects added with the graphics command (Fri Nov 04 2016 - 09:53:00 CDT)
- VMD 1.9.3 beta 4 posted for download... (Sat Oct 29 2016 - 00:31:18 CDT)
- Re: The new molecule file browser (Fri Oct 28 2016 - 21:35:00 CDT)
- Re: problem with molfacture plugin 1.3 (Thu Oct 20 2016 - 12:42:15 CDT)
- Re: selection atoms depending on bonding, selection of 'new' molecules (Fri Oct 14 2016 - 10:05:05 CDT)
- Re: selection atoms depending on bonding, selection of 'new' molecules (Fri Oct 14 2016 - 09:41:12 CDT)
- Re: Alignment and RMSD calculation (Mon Oct 03 2016 - 16:02:47 CDT)
- Re: chain identifier change in the pdb files generated by the "solvate" and "Add Ions" plugin (Mon Oct 03 2016 - 16:10:19 CDT)
- Re: TNG Plugin (Mon Oct 03 2016 - 15:52:01 CDT)
- Re: Adding residues to dowser (Mon Oct 03 2016 - 15:42:23 CDT)
- Re: Colouring atoms individually (Mon Oct 03 2016 - 15:32:26 CDT)
- Re: Save work in the middle of chirality correction (Mon Oct 03 2016 - 15:46:18 CDT)
- Re: QUESTION about NMWizad (Mon Oct 03 2016 - 15:39:24 CDT)
- Apply for ACS Comp travel awards for Spring 2017 meeting in San Francisco (Wed Sep 28 2016 - 11:16:51 CDT)
- Re: compiling VMD from CVS 2016 09 21 (Thu Sep 22 2016 - 16:09:01 CDT)
- Re: pdb reader plugin error checking (Thu Sep 22 2016 - 15:14:12 CDT)
- Re: pdb reader plugin error checking (Thu Sep 22 2016 - 12:05:16 CDT)
- Re: compiling VMD from CVS 2016 09 21 (Wed Sep 21 2016 - 11:15:56 CDT)
- Re: compiling VMD from CVS 2016 09 21 (Wed Sep 21 2016 - 09:53:14 CDT)
- Re: compiling VMD from CVS 2016 09 21 (Wed Sep 21 2016 - 09:56:02 CDT)
- Re: pdb reader plugin error checking (Tue Sep 20 2016 - 16:17:47 CDT)
- Re: Wrapping problem (Thu Sep 08 2016 - 16:17:43 CDT)
- Re: Setting Default Colors in vmdrc (Thu Sep 08 2016 - 11:57:19 CDT)
- Re: generating images without shading (Wed Sep 07 2016 - 13:10:35 CDT)
- Re: generating images without shading (Wed Sep 07 2016 - 13:12:29 CDT)
- Re: generating images without shading (Wed Sep 07 2016 - 11:35:47 CDT)
- Re: Error when using orient command (Wed Sep 07 2016 - 11:32:32 CDT)
- Re: VMD 1.9.3 omnidirectional rendering (Mon Aug 15 2016 - 15:02:44 CDT)
- Re: VMD 1.9.3 omnidirectional rendering (Fri Aug 12 2016 - 14:23:17 CDT)
- Re: using vslab in vmd (Thu Aug 11 2016 - 15:45:31 CDT)
- Re: OptiXRenderer) ERROR: Launch failed (Thu Aug 11 2016 - 14:57:07 CDT)
- Re: VMD 1.9.3 beta 1 posted for download... (Fri Jul 22 2016 - 23:21:53 CDT)
- Re: VMD 1.9.3 beta 1 posted for download... (Fri Jul 22 2016 - 11:30:06 CDT)
- Re: VMD 1.9.3 beta 1 posted for download... (Fri Jul 22 2016 - 09:50:34 CDT)
- Re: Changing atom colouring by a non-standard property (Thu Jul 21 2016 - 16:54:54 CDT)
- Re: Inconsistent frame output with TMD simulations (Thu Jul 21 2016 - 17:05:49 CDT)
- Re: Problerm with STAMP (Thu Jul 21 2016 - 17:02:26 CDT)
- Re: VMD 1.9.3 beta 1 posted for download... (Thu Jul 21 2016 - 16:35:01 CDT)
- Re: rendering with povray in mac (Thu Jul 21 2016 - 15:31:05 CDT)
- Re: VMD 1.9.3 beta 1 posted for download... (Thu Jul 21 2016 - 14:11:16 CDT)
- Re: VMD 1.9.3 beta 1 posted for download... (Thu Jul 21 2016 - 14:08:06 CDT)
- VMD 1.9.3 beta 1 posted for download... (Wed Jul 20 2016 - 23:33:49 CDT)
- Re: VMD failed after FFTW installation (Thu Jul 14 2016 - 20:34:31 CDT)
- Re: How to compile for Python 3 (Thu Jul 14 2016 - 11:00:47 CDT)
- Re: VMD failed after FFTW installation (Thu Jul 14 2016 - 09:35:36 CDT)
- Re: VMD window turning black with Nvidia 3d vision on ASUS monitor (Thu Jul 14 2016 - 09:43:52 CDT)
- Re: VMD failed after FFTW installation (Wed Jul 13 2016 - 01:09:53 CDT)
- Re: VMD called from python hangs on Windows (Wed Jul 13 2016 - 01:35:55 CDT)
- Re: Re: About snapshot rendering in VMD-1.9.2 (Wed Jul 13 2016 - 01:19:05 CDT)
- Re: VMD failed after FFTW installation (Mon Jul 11 2016 - 12:00:33 CDT)
- Re: GPU acceleration on tachyon rendering (Tue Jul 05 2016 - 23:55:33 CDT)
- Re: Inconsistent atom count (Tue Jul 05 2016 - 12:54:26 CDT)
- Re: Energy between desired selected molecules (Tue Jul 05 2016 - 12:46:48 CDT)
- Re: GPU acceleration on tachyon rendering (Thu Jun 30 2016 - 14:57:24 CDT)
- Re: VMD 1.9.3 (Wed Jun 29 2016 - 09:45:22 CDT)
- Re: GPU acceleration on tachyon rendering (Wed Jun 29 2016 - 09:29:57 CDT)
- Re: Fwd: troubles with openGL (Tue Jun 28 2016 - 11:43:21 CDT)
- Re: GPU acceleration on tachyon rendering (Tue Jun 28 2016 - 11:34:40 CDT)
- Re: Shortening a Simulation (Tue Jun 28 2016 - 10:15:00 CDT)
- Re: TLS handshake failed (Tue Jun 28 2016 - 10:04:27 CDT)
- Re: QwikMD/IMD Error connecting to localhost on port 3000 (Tue Jun 28 2016 - 09:55:55 CDT)
- Re: Render VR scenes in VMD 1.9.2 (possible?) (Wed Jun 22 2016 - 22:38:36 CDT)
- Re: Can't read DCD files generated using NAMD. (Thu Jun 16 2016 - 19:39:05 CDT)
- Re: Can't read DCD files generated using NAMD. (Thu Jun 16 2016 - 15:02:42 CDT)
- Re: non-water solvent prepared by VMD (Thu May 26 2016 - 12:32:21 CDT)
- Re: some vmd mail list webpage cannot be accessed (Thu May 26 2016 - 11:31:29 CDT)
- Re: How to make the script that shows simulation time on a movie work (Thu May 26 2016 - 11:19:50 CDT)
- Re: defining/updating atom selection within loop (Wed May 25 2016 - 21:52:21 CDT)
- Re: vmd install on ubuntu 15.04 -- no display (Wed May 25 2016 - 00:57:24 CDT)
- Re: Random placement of molecules within a defined region (Wed May 11 2016 - 23:24:05 CDT)
- Re: intermolecular salt bridge (Wed May 11 2016 - 23:26:40 CDT)
- Re: Rendering usong Tachyon with Tcl scripting (Tue May 10 2016 - 10:11:05 CDT)
- Re: Clonerep GUI issue with VMD CVS (Mon May 02 2016 - 11:37:42 CDT)
- Re: Unable to view protein as cartoon or trace or tube (Mon May 02 2016 - 10:57:03 CDT)
- Re: Clonerep GUI issue with VMD CVS (Mon May 02 2016 - 10:47:18 CDT)
- Re: Unable to view protein as cartoon or trace or tube (Fri Apr 29 2016 - 21:53:46 CDT)
- Re: VMD Molden plugin crashes (Fri Apr 29 2016 - 09:43:29 CDT)
- Re: colvars problem - different values in VMD and NAMD (Fri Apr 15 2016 - 12:22:00 CDT)
- Re: Clonerep GUI issue with VMD CVS (Fri Apr 08 2016 - 09:14:42 CDT)
- Re: setting up a 4k HD TV for passive stereoscopic 3d (Fri Apr 08 2016 - 00:36:45 CDT)
- Re: setting up a 4k HD TV for passive stereoscopic 3d (Wed Apr 06 2016 - 19:19:16 CDT)
- Re: Volume slice rendering TachyonOptiX (Wed Apr 06 2016 - 19:14:37 CDT)
- Re: setting up a 4k HD TV for passive stereoscopic 3d (Wed Apr 06 2016 - 14:31:51 CDT)
- Re: Rendering high quality obj, x3d and other files for use in other 3D representation systems (Sat Apr 02 2016 - 23:04:09 CDT)
- Re: Rendering high quality obj, x3d and other files for use in other 3D representation systems (Sat Apr 02 2016 - 22:44:07 CDT)
- Re: Rendering high quality obj, x3d and other files for use in other 3D representation systems (Sat Apr 02 2016 - 21:20:57 CDT)
- Re: Residue numbers in outfiles PDB/GRO (Fri Apr 01 2016 - 13:42:27 CDT)
- Re: Trouble launching VMD 1.9.2 from the dock in Mac OS X el capitan (Fri Apr 01 2016 - 00:46:01 CDT)
- Re: Residue numbers in outfiles PDB/GRO (Thu Mar 31 2016 - 14:49:49 CDT)
- Re: Residue numbers in outfiles PDB/GRO (Thu Mar 31 2016 - 11:03:04 CDT)
- Re: Residence Time Script (v2.) (Thu Mar 31 2016 - 10:38:07 CDT)
- Re: VDM and two SpaceNavigators (Thu Mar 31 2016 - 10:27:56 CDT)
- Re: "Jump" in Energy and Volume graphs of my MD (Thu Mar 31 2016 - 10:32:34 CDT)
- Re: Depth of field with movie maker (Thu Mar 31 2016 - 10:19:22 CDT)
- Re: Unable to visualize my polymer chains generated using RIS theory using VMD properly (Wed Mar 16 2016 - 11:25:51 CDT)
- Re: tcl8.6 (Thu Mar 03 2016 - 12:59:50 CST)
- Re: WG: vmd and proxy settings (Wed Mar 02 2016 - 09:33:13 CST)
- Re: vmd and proxy settings (Tue Mar 01 2016 - 10:22:15 CST)
- Re: visualizing MDFF results with explicit solvent (Tue Mar 01 2016 - 09:50:56 CST)
- Re: Possible memory leak with adding and deleting molecules frequently (Tue Feb 23 2016 - 14:45:50 CST)
- Re: RE: Suitable VMD version for OS X EI Capitan, Version 10.11.3 (Tue Feb 23 2016 - 10:11:08 CST)
- Re: Define the percentage of zoom (Mon Feb 22 2016 - 09:51:52 CST)
- Re: can't read "viewplist": no such variable (Mon Feb 01 2016 - 10:31:41 CST)
- Re: Extracting velocity information from .gro or .trr files (Thu Jan 28 2016 - 21:57:04 CST)
- Re: Running atomselect made a seg fault (Thu Jan 28 2016 - 22:11:31 CST)
- Re: Feature request: Change printf( to fprintf(stderr, in molfile plugins (Thu Jan 28 2016 - 16:11:55 CST)
- Re: VMD 1.9.2 Crashes (CUDA,VRPN) (Thu Jan 28 2016 - 10:28:17 CST)
- Re: VMD stereo NVIDIA 3D vision with Composite (Thu Jan 21 2016 - 09:56:36 CST)
- Re: No error details for VMD compilation from Source. (Thu Jan 21 2016 - 10:12:42 CST)
- Re: Running atomselect made a seg fault (Thu Jan 21 2016 - 09:34:15 CST)
- Re: VMD stereo NVIDIA 3D vision with Composite (Wed Jan 20 2016 - 16:00:59 CST)
- Re: which version!? (Tue Jan 19 2016 - 10:16:49 CST)
- Re: No error details for VMD compilation from Source. (Thu Jan 14 2016 - 15:50:29 CST)
- Re: Show additional data (Thu Jan 14 2016 - 15:36:04 CST)
- Re: Re: -fpascal-strings flag when compiling with TDCONNEXION option (Wed Jan 13 2016 - 13:29:06 CST)
- Re: question about reading more volumes via atomselect or removing of them (Wed Jan 13 2016 - 13:38:27 CST)
- Re: error message MultiSeq - sequence alignement (Wed Jan 13 2016 - 13:31:48 CST)
- Re: Show additional data (Wed Jan 13 2016 - 12:05:37 CST)
- Re: mol add url (Tue Dec 22 2015 - 09:52:51 CST)
- Re: Ubuntu launcher and WM_CLASS (Mon Dec 14 2015 - 09:51:37 CST)
- Re: NetCDF plug-in for VMD (Fri Dec 11 2015 - 09:07:15 CST)
- Re: Ubuntu launcher and WM_CLASS (Fri Dec 11 2015 - 09:02:23 CST)
- Re: couldn't execute "psfgen": no such file or directory (Thu Dec 10 2015 - 11:34:05 CST)
- Re: Ubuntu launcher and WM_CLASS (Thu Dec 10 2015 - 08:54:22 CST)
- Re: residue-residue interaction energy (Tue Dec 08 2015 - 14:06:14 CST)
- Re: (Thu Dec 03 2015 - 12:43:51 CST)
- Re: Problem visualizing a pdbqt file generated by AutoDockTools (Wed Dec 02 2015 - 16:51:09 CST)
- Re: Possible memory leak with adding and deleting molecules frequently (Wed Dec 02 2015 - 15:52:53 CST)
- Re: Loading .vel files into vmd (Wed Dec 02 2015 - 15:22:07 CST)
- Re: Guessbonds and retype bonds (Wed Dec 02 2015 - 15:19:11 CST)
- Re: Stride for large structures (Wed Nov 25 2015 - 09:25:11 CST)
- Re: vmd 1.9.3 A (Tue Nov 24 2015 - 12:54:08 CST)
- Re: Re: namd-l: On-the-fly modification of tclforces script? (Sat Nov 14 2015 - 09:51:58 CST)
- Re: Re: namd-l: On-the-fly modification of tclforces script? (Fri Nov 13 2015 - 20:17:53 CST)
- Re: Re: namd-l: On-the-fly modification of tclforces script? (Fri Nov 13 2015 - 19:05:34 CST)
- Re: Best VMD install for El Capitan OS X? (Fri Nov 06 2015 - 09:53:56 CST)
- Re: velocity array accessible for any loaded molecule? (Fri Nov 06 2015 - 00:09:36 CST)
- Re: velocity array accessible for any loaded molecule? (Thu Nov 05 2015 - 20:13:06 CST)
- Re: Re: Problems with vmd plugin namdenergy output (Mon Nov 02 2015 - 10:32:27 CST)
- Re: Best VMD install for El Capitan OS X? (Mon Nov 02 2015 - 10:35:29 CST)
- Re: Making high quality pictures: How to increase the number of samples? (Sun Nov 01 2015 - 22:22:16 CST)
- www.tcl.tk DNS taken by cybersquatter... (Fri Oct 30 2015 - 16:47:17 CDT)
- Re: assign bond color based on bond type (Wed Oct 21 2015 - 14:58:10 CDT)
- Re: TachyonL-Optix render command (Wed Oct 21 2015 - 15:04:47 CDT)
- Re: assign bond color based on bond type (Wed Oct 21 2015 - 14:49:36 CDT)
- Re: problem of x3d in chrome and IE (Sun Oct 18 2015 - 16:43:36 CDT)
- Re: problem of x3d in chrome and IE (Sun Oct 18 2015 - 16:40:36 CDT)
- Re: can we export VMD scene as webGL file? (Fri Oct 16 2015 - 17:01:34 CDT)
- Re: can we export VMD scene as webGL file? (Fri Oct 16 2015 - 16:34:10 CDT)
- Re: VMD with XTC trajectory and stride (Tue Oct 13 2015 - 14:52:23 CDT)
- Re: Text size in the VMD at high-resolutions (Mon Oct 12 2015 - 11:34:07 CDT)
- Re: Change color of drawn object (Thu Oct 08 2015 - 14:11:16 CDT)
- Re: RE: Draw cylinder with two different diameters for the endpoints (cone) (Wed Oct 07 2015 - 16:38:27 CDT)
- Re: VMD 1.9.2 32 bit Linux (Fri Oct 02 2015 - 22:03:22 CDT)
- Re: script error (Fri Oct 02 2015 - 10:10:56 CDT)
- Re: sqlite and vmd (Fri Oct 02 2015 - 10:01:04 CDT)
- Re: Problems_calling_VMD_remotely_from_cluster (Tue Sep 29 2015 - 10:23:30 CDT)
- Re: Re: Why can VMD not be opened? (Mon Sep 28 2015 - 09:14:28 CDT)
- Re: REG: adding hydrogens using TCL (Fri Sep 25 2015 - 15:02:07 CDT)
- Re: Segmentation fault error only when executing command within script (Fri Sep 25 2015 - 15:04:34 CDT)
- Re: SSD vs SSHD vs mechanical (Wed Sep 23 2015 - 16:50:55 CDT)
- Re: SSD vs SSHD vs mechanical (Wed Sep 23 2015 - 15:50:18 CDT)
- Re: SSD vs SSHD vs mechanical (Wed Sep 23 2015 - 15:44:15 CDT)
- Re: Implicit Ligand Sampling: How to get energy along a reaction coordinate? (Wed Sep 23 2015 - 14:33:09 CDT)
- Re: SSD vs SSHD vs mechanical (Wed Sep 23 2015 - 14:11:51 CDT)
- Re: SSD vs SSHD vs mechanical (Wed Sep 23 2015 - 13:37:27 CDT)
- Re: Which VMD AND NAMD should install (Tue Sep 22 2015 - 14:07:17 CDT)
- Re: align molecules using "anchor" atoms (Tue Sep 15 2015 - 10:58:02 CDT)
- Re: Out of memory when loading 700 MB trajectory file (Fri Sep 11 2015 - 11:35:35 CDT)
- Re: ILS on GPU Cluster - Exceeded MAX_BINOFFSETS for CUDA kernel (Fri Sep 11 2015 - 11:19:34 CDT)
- Re: How to display frames title ? (Fri Sep 11 2015 - 01:17:55 CDT)
- Re: How to display frames title ? (Thu Sep 10 2015 - 15:26:33 CDT)
- Please vote for VMD in HPCWire Reader's Choice Awards.... (Wed Sep 09 2015 - 14:03:32 CDT)
- Re: unable to view .pdb file (Tue Sep 08 2015 - 09:51:27 CDT)
- Re: unable to view .pdb file (Tue Sep 08 2015 - 10:17:49 CDT)
- Re: salt bridge cutoff distance (Wed Sep 02 2015 - 13:55:30 CDT)
- Re: Rendering options (Wed Sep 02 2015 - 15:29:12 CDT)
- Re: How to close the box of situs electron density map? (Wed Sep 02 2015 - 11:01:39 CDT)
- Re: ILS on GPU Cluster - Exceeded MAX_BINOFFSETS for CUDA kernel (Wed Sep 02 2015 - 10:03:38 CDT)
- Re: How to set a common camera state (Sat Aug 29 2015 - 08:47:09 CDT)
- Re: embedding proteins in membrane: child killed: segmentation violation (Fri Aug 28 2015 - 01:33:32 CDT)
- Re: 1.9.3 Version (Fri Aug 28 2015 - 01:23:04 CDT)
- Re: Interactive Optix ray tracing on multiple GPUs? (Wed Aug 26 2015 - 11:10:29 CDT)
- Re: Interactive Optix ray tracing on multiple GPUs? (Wed Aug 26 2015 - 10:37:03 CDT)
- Re: nvidia cuda mismatch (Sun Aug 23 2015 - 19:59:56 CDT)
- Re: (Wed Aug 19 2015 - 14:39:00 CDT)
- Re: nvidia cuda mismatch (Tue Aug 18 2015 - 14:02:40 CDT)
- Re: (Tue Aug 18 2015 - 10:09:40 CDT)
- Re: paratool (Mon Aug 17 2015 - 23:09:35 CDT)
- Re: vmd freezes for certain files on MacOs 10.10.4 (Mon Aug 17 2015 - 09:48:46 CDT)
- Re: nvidia cuda mismatch (Thu Aug 13 2015 - 16:38:06 CDT)
- Re: Installing VMD on MACOSX 10.10.4 Yosemite (Fri Aug 07 2015 - 21:00:11 CDT)
- Re: VMD Composite Extension/swrast Error on Centos 6.6 (Fri Aug 07 2015 - 21:02:56 CDT)
- ACS COMP division travel awards (Fri Aug 07 2015 - 11:35:14 CDT)
- Re: About mdffi cc (Thu Aug 06 2015 - 16:29:32 CDT)
- Re: 3dconnexion spacemouse pro and vmd on fedora 21 (Thu Aug 06 2015 - 13:15:23 CDT)
- Re: 3dconnexion spacemouse pro and vmd on fedora 21 (Thu Aug 06 2015 - 11:44:00 CDT)
- Re: 3dconnexion spacemouse pro and vmd on fedora 21 (Thu Aug 06 2015 - 00:32:59 CDT)
- Re: measure contact between com (Tue Jul 28 2015 - 23:22:34 CDT)
- Re: VMD camera feature request: zoom and tilt (Tue Jul 28 2015 - 12:53:43 CDT)
- Re: 64 bit windows VMD (Tue Jul 28 2015 - 11:36:22 CDT)
- SC'15 Sci viz showcase deadline extension (Mon Jul 27 2015 - 10:59:14 CDT)
- [jfavre@cscs.ch: SC'15 Scientific Visualization Showcase] (Mon Jul 20 2015 - 15:35:53 CDT)
- Re: BUG REPORT: Malfunctioning of VMD with Yosemite/ Follow up (Thu Jul 16 2015 - 09:57:33 CDT)
- Re: [EXTERNAL] Re: Building Plugins to work with Mac Builds (Tue Jul 14 2015 - 15:03:05 CDT)
- Re: Building Plugins to work with Mac Builds (Tue Jul 14 2015 - 14:45:46 CDT)
- Re: creating psf file (Tue Jul 14 2015 - 10:57:08 CDT)
- Re: Volume accessed by a molecule during the MD simulation (Tue Jul 14 2015 - 10:56:12 CDT)
- Re: Using BigDCD to wrap, unwrap and animate a long MD trajectory (Tue Jul 14 2015 - 10:26:04 CDT)
- Re: a question regarding the signalproc package (Tue Jul 14 2015 - 10:20:04 CDT)
- Re: write psf is generating an error (Tue Jul 14 2015 - 10:23:36 CDT)
- Re: Choosing an appropriate isovalue for comparing different systems (Tue Jul 14 2015 - 10:14:12 CDT)
- Re: Text size in the VMD at high-resolutions (Tue Jul 14 2015 - 10:12:18 CDT)
- Re: cvs (Mon Jul 13 2015 - 09:43:24 CDT)
- Re: Text size in the VMD at high-resolutions (Thu Jul 09 2015 - 23:20:13 CDT)
- Re: Building Plugins to work with Mac Builds (Mon Jul 06 2015 - 16:42:34 CDT)
- Re: Energy based coloring of residues (Mon Jul 06 2015 - 16:46:03 CDT)
- Re: should commercial user pay for VMD (Mon Jul 06 2015 - 09:39:18 CDT)
- VMD users that have Oculus DK2 headsets? (Wed Jul 01 2015 - 11:06:44 CDT)
- Re: PME Electrostatics Error (Fri Jun 19 2015 - 09:28:51 CDT)
- Re: PME Electrostatics Error (Fri Jun 19 2015 - 09:21:27 CDT)
- Re: PME Electrostatics Error (Fri Jun 19 2015 - 08:42:11 CDT)
- Re: Getting VMD to talk to VRPN on Windows 7 (Fri Jun 19 2015 - 08:45:38 CDT)
- Re: vmd error xMDFF (Tue Jun 16 2015 - 15:11:49 CDT)
- Re: Load trajectory file in .sim format (Tue Jun 16 2015 - 10:03:41 CDT)
- Re: Questions about outputting an image with specified atom colors (Tue Jun 09 2015 - 16:19:29 CDT)
- Re: PSF file generation (Thu Jun 04 2015 - 19:18:46 CDT)
- Re: Failure to run tcl script at the mainframe (Sun May 31 2015 - 17:51:52 CDT)
- Re: Failure to run tcl script at the mainframe (Sat May 30 2015 - 10:41:21 CDT)
- Re: Resid and residue atomselect bug (Thu May 21 2015 - 10:14:44 CDT)
- Re: Running 64-bit Linux VMD in VMWare VM on Windows 8.1 64-bit Host Machine (Sat May 16 2015 - 13:51:48 CDT)
- Re: Error in NAMD energy plugin of VMD (Fri May 15 2015 - 11:24:28 CDT)
- Re: Problems in running AutoIMD (Wed May 13 2015 - 15:39:17 CDT)
- Re: Is there currently support for loading large PDBx or PDBML files (e.g. 4YBB)? (Wed May 13 2015 - 12:06:36 CDT)
- Re: Limit to total number of atoms in PSF? (Wed May 13 2015 - 09:26:46 CDT)
- Re: Limit to total number of atoms in PSF? (Wed May 13 2015 - 01:49:00 CDT)
- Re: Problem with assignation of secondary structure in VMD (Fri May 08 2015 - 00:09:44 CDT)
- Re: Problems in running AutoIMD (Thu May 07 2015 - 23:12:40 CDT)
- Re: Problem with assignation of secondary structure in VMD (Thu May 07 2015 - 22:37:56 CDT)
- Re: VMD for MacBook Pro -- NetCDF (Wed May 06 2015 - 17:46:11 CDT)
- Re: VMD for MacBook Pro -- NetCDF (Wed May 06 2015 - 15:37:06 CDT)
- Re: Drawing a vector for each particle's velocity (Tue Apr 21 2015 - 15:32:33 CDT)
- Re: molefacture doesn't recognize lower-case letters (Tue Apr 21 2015 - 04:06:30 CDT)
- Re: Error saying "too many open files" (Mon Apr 20 2015 - 01:45:18 CDT)
- Re: XTC to DCD conversion (Fri Apr 17 2015 - 16:37:51 CDT)
- Re: CentOS 6.4 crashed right after starting vmd (Thu Apr 16 2015 - 11:33:02 CDT)
- Updated VMD 1.9.2. Gromacs plugins posted for download (Mon Apr 13 2015 - 16:36:25 CDT)
- Re: VMD with 3D TV (Mon Apr 13 2015 - 16:14:14 CDT)
- Re: measure sasa not consistent (Sat Apr 11 2015 - 15:20:01 CDT)
- Re: using namdstats.tcl (Sat Apr 11 2015 - 13:13:26 CDT)
- Re: Read CHARMM VDW radii into VMD (Sat Apr 11 2015 - 12:47:02 CDT)
- Re: using namdstats.tcl (Fri Apr 10 2015 - 16:31:23 CDT)
- Re: VMD not working with Yosemite (Fri Apr 10 2015 - 16:07:30 CDT)
- Re: Mac issue (Fri Apr 10 2015 - 16:06:02 CDT)
- Re: vmd-I: Using the MergeMultiFramesPDB code (Fri Apr 10 2015 - 01:55:52 CDT)
- Re: Handful of rendering issues (Fri Apr 10 2015 - 01:51:22 CDT)
- Re: measure sasa not consistent (Thu Apr 09 2015 - 21:06:27 CDT)
- Re: measure energy (Thu Apr 09 2015 - 21:02:03 CDT)
- MacOS X Yosemite 10.2.2 workaround for people to try... (Thu Apr 09 2015 - 21:16:22 CDT)
- Re: measure sasa not consistent (Thu Apr 09 2015 - 17:17:24 CDT)
- Re: measure sasa not consistent (Thu Apr 09 2015 - 16:33:37 CDT)
- Re: new VMD plugin for H5MD file format (Thu Apr 09 2015 - 16:02:35 CDT)
- Re: XYZ to psf file (Thu Apr 09 2015 - 11:49:16 CDT)
- Re: VMD text mode on MAC OS (Thu Apr 09 2015 - 09:58:10 CDT)
- Re: crash with 1.9.2 and not with 1.9.1 (Thu Apr 09 2015 - 09:40:36 CDT)
- Re: new VMD plugin for H5MD file format (Wed Apr 08 2015 - 13:25:02 CDT)
- Re: Coloring of basins (Mon Apr 06 2015 - 11:36:37 CDT)
- Re: Residues within a specified distance across all trajectories time steps (Mon Apr 06 2015 - 10:59:53 CDT)
- Re: using namdstats.tcl (Mon Apr 06 2015 - 10:17:46 CDT)
- Re: periodic boundary conditions displaying (Mon Apr 06 2015 - 10:24:36 CDT)
- Re: How to populate lib/ directory when compiling (Fri Apr 03 2015 - 22:12:02 CDT)
- Re: Vmd Opengl display do not show anything (Thu Apr 02 2015 - 11:17:06 CDT)
- Re: Questions with Solvation with TIP4P Water Model (Thu Apr 02 2015 - 11:15:28 CDT)
- Re: segv in vmd upon opening a file (Wed Apr 01 2015 - 13:34:18 CDT)
- Re: segv in vmd upon opening a file (Wed Apr 01 2015 - 11:51:58 CDT)
- Re: segv in vmd upon opening a file (Wed Apr 01 2015 - 11:25:50 CDT)
- Re: segv in vmd upon opening a file (Wed Apr 01 2015 - 09:51:15 CDT)
- Re: segv in vmd upon opening a file (Tue Mar 31 2015 - 19:56:43 CDT)
- Re: save coordinates (Mon Mar 30 2015 - 17:32:16 CDT)
- Re: ??startup.command?? can??t be opened because CoreServicesUIAgent is not allowed to open documents in Terminal. (Mon Mar 30 2015 - 17:08:23 CDT)
- Re: VMD 1.9.3 alpha (Mon Mar 30 2015 - 17:11:36 CDT)
- Re: VMD 1.9.3 alpha (Mon Mar 30 2015 - 16:59:10 CDT)
- Re: Fwd: Segmentation fault (core dump) (Fri Mar 13 2015 - 16:14:13 CDT)
- Re: writing a new plugin (Mon Mar 09 2015 - 13:00:45 CDT)
- Re: Oculus Rift (Fri Mar 06 2015 - 08:35:53 CST)
- Re: Residue label moves upon rendering (Thu Mar 05 2015 - 15:25:54 CST)
- Re: OpenGL Display transparent (Tue Mar 03 2015 - 10:00:26 CST)
- Re: Render as Object or 3DS file (Mon Mar 02 2015 - 11:25:19 CST)
- Re: Moving making with short trajectories (Fri Feb 27 2015 - 14:31:28 CST)
- Re: Nvidia GPU driver not detected with VMD (Fri Feb 27 2015 - 08:58:44 CST)
- Re: Nvidia GPU driver not detected with VMD (Fri Feb 27 2015 - 08:16:00 CST)
- Re: Nvidia GPU driver not detected with VMD (Fri Feb 27 2015 - 07:29:56 CST)
- Re: OpenGL Display transparent (Thu Feb 26 2015 - 15:22:50 CST)
- Re: camera navigator question (Thu Feb 26 2015 - 14:13:24 CST)
- Re: Re: namd-l: velocity IO with psfgen? (Thu Feb 26 2015 - 12:47:52 CST)
- Re: Re: namd-l: velocity IO with psfgen? (Thu Feb 26 2015 - 11:03:15 CST)
- Re: velocity IO with psfgen? (Thu Feb 26 2015 - 10:24:36 CST)
- Re: MDFF plugin calculating ccc (Tue Feb 17 2015 - 11:08:40 CST)
- Re: Mac issue (Fri Feb 13 2015 - 11:26:50 CST)
- Re: Handful of rendering issues (Fri Feb 13 2015 - 09:42:02 CST)
- Re: Handful of rendering issues (Fri Feb 13 2015 - 08:54:37 CST)
- Re: Feature request: read environment to set FreeVR lib, include paths (Fri Feb 13 2015 - 08:58:05 CST)
- Re: color gradient based on the sequence (Thu Feb 12 2015 - 16:02:40 CST)
- Re: Change VDW scaling in CPK drawing method (Thu Feb 12 2015 - 11:38:18 CST)
- Re: Mac issue (Thu Feb 12 2015 - 10:04:25 CST)
- Re: Handful of rendering issues (Thu Feb 12 2015 - 09:15:59 CST)
- Re: Handful of rendering issues (Wed Feb 11 2015 - 10:21:09 CST)
- Re: Handful of rendering issues (Wed Feb 11 2015 - 10:12:44 CST)
- Re: GBIS in NAMD 2.10 CUDA with IMD (Wed Feb 11 2015 - 10:03:39 CST)
- Re: BUG: vmd-1.9.2 final Representations GUI (Tue Feb 10 2015 - 10:10:03 CST)
- Re: Fwd: To delete some atoms via VMD (Tue Feb 10 2015 - 09:59:49 CST)
- Re: rms alignment in VMD (Mon Feb 09 2015 - 15:44:04 CST)
- Re: Recognizing Chlorine atoms in VMD (Mon Feb 09 2015 - 15:28:59 CST)
- Re: BUG: vmd-1.9.2 final Representations GUI (Mon Feb 09 2015 - 15:37:55 CST)
- Re: Persistent troubles with tk fonts (Mon Feb 09 2015 - 15:32:56 CST)
- Re: VMD with 3D TV (Mon Feb 09 2015 - 11:26:12 CST)
- Re: NAMDEnergy fails to locate supporting files (Mon Feb 09 2015 - 11:12:35 CST)
- Re: remove vmd package in centos (Mon Feb 09 2015 - 11:15:59 CST)
- Re: Fwd: Reading chemical bonds by VMD from AMBER parm7 files (Mon Feb 02 2015 - 11:30:53 CST)
- Re: VMD Segmentation fault (core dumped) (Thu Jan 29 2015 - 10:06:01 CST)
- Re: making self-adjustable high resolution images (Wed Jan 28 2015 - 11:12:44 CST)
- Re: VMD Segmentation fault (core dumped) (Wed Jan 28 2015 - 10:04:03 CST)
- Re: making self-adjustable high resolution images (Wed Jan 28 2015 - 09:49:29 CST)
- Re: Problem with VMD 1.9.1 and OS X 10.10 (OpenGL display freezing on reading PDB coordinates) (Tue Jan 27 2015 - 12:36:31 CST)
- Re: optixRender error (Tue Jan 27 2015 - 09:55:26 CST)
- Re: VMD killed despite using $sel delete and unset sel (Fri Jan 23 2015 - 23:25:25 CST)
- Re: optixRender error (Fri Jan 23 2015 - 13:14:15 CST)
- Re: VMD killed despite using $sel delete and unset sel (Fri Jan 23 2015 - 11:39:51 CST)
- Re: VMD killed despite using $sel delete and unset sel (Fri Jan 23 2015 - 00:20:52 CST)
- Re: TachyonL-OptiX not shown in renderer list (Thu Jan 22 2015 - 08:58:05 CST)
- Re: Reading chemical bonds by VMD from AMBER parm7 files (Wed Jan 21 2015 - 12:28:06 CST)
- Re: The quality of movie made by VMD (Wed Jan 21 2015 - 09:28:34 CST)
- Re: The quality of movie made by VMD (Tue Jan 20 2015 - 13:33:28 CST)
- Re: Reading chemical bonds by VMD from AMBER parm7 files (Wed Jan 14 2015 - 10:44:32 CST)
- Re: VRPN support for the Windows VMD 1.9.1 (Tue Jan 13 2015 - 18:39:02 CST)
- Re: Re: FW: atomselection by wildcard and distance exclusion (Tue Jan 13 2015 - 10:18:15 CST)
- Re: Re: FW: atomselection by wildcard and distance exclusion (Mon Jan 12 2015 - 23:42:15 CST)
- Re: FW: atomselection by wildcard and distance exclusion (Mon Jan 12 2015 - 23:25:20 CST)
- Re: Fwd: VMD 1.9.2 released! (Mon Jan 12 2015 - 11:35:35 CST)
- Re: ribbon rendering errors (Mon Jan 12 2015 - 11:42:04 CST)
- Re: Problem with the display panel (Mon Jan 12 2015 - 10:25:56 CST)
- Re: Troubles with VMD 1.9.2 recognizing TclTk 8.6 (Mon Jan 12 2015 - 10:30:50 CST)
- Re: Fwd: VMD 1.9.2 released! (Mon Jan 12 2015 - 10:37:35 CST)
- Re: Change bond per atom limit of VMD (Mon Jan 12 2015 - 10:40:06 CST)
- Re: Troubles with VMD 1.9.2 recognizing TclTk 8.6 (Wed Jan 07 2015 - 16:46:53 CST)
- Re: add/remove bonds between different types of atoms (Tue Jan 06 2015 - 13:27:50 CST)
- Re: Change bond per atom limit of VMD (Tue Jan 06 2015 - 10:23:47 CST)
- VMD 1.9.2 released! (Tue Dec 30 2014 - 13:47:29 CST)
- VMD 1.9.2 beta 2 posted for download... (Mon Dec 22 2014 - 21:03:04 CST)
- Re: Graphic window does not refresh (Mon Dec 22 2014 - 20:04:22 CST)
- Re: Graphic window does not refresh (Mon Dec 22 2014 - 20:03:35 CST)
- Re: Graphic window does not refresh (Sun Dec 21 2014 - 13:29:21 CST)
- Re: AW: AW: namd-l: FATAL ERROR: seek failed while writing DCD file: No such file or directory (Fri Dec 19 2014 - 12:10:47 CST)
- Re: VMD with 3D TV (Thu Dec 18 2014 - 15:38:11 CST)
- Re: VMD with 3D TV (Thu Dec 18 2014 - 14:31:56 CST)
- Re: VMD with 3D TV (Wed Dec 17 2014 - 11:27:22 CST)
- Re: VMD with 3D TV (Wed Dec 17 2014 - 10:45:24 CST)
- Re: get the coordinate of the mouse arrow (Wed Dec 17 2014 - 10:21:36 CST)
- Re: VMD with 3D TV (Wed Dec 17 2014 - 10:12:18 CST)
- Re: VMD crashing when loading prmtop files (Wed Dec 17 2014 - 10:14:35 CST)
- Re: VMD crashing when loading prmtop files (Wed Dec 17 2014 - 08:49:19 CST)
- Re: get the coordinate of the mouse arrow (Tue Dec 16 2014 - 20:23:25 CST)
- Re: VMD with 3D TV (Mon Dec 15 2014 - 08:25:00 CST)
- Re: Using the chirality and cispeptide plugins with "vmd -dispdev text" (Fri Dec 12 2014 - 20:33:04 CST)
- Re: VMD/IMD problems on MacOS Yosemite (Fri Dec 12 2014 - 16:03:07 CST)
- Re: vmd and yosemite (Fri Dec 12 2014 - 15:48:57 CST)
- Re: Small bugfix for NAMD Plot (Fri Dec 12 2014 - 10:48:19 CST)
- Re: VMD/IMD problems on MacOS Yosemite (Fri Dec 12 2014 - 10:27:32 CST)
- Re: H-Bonds not shown when loading by topo readlammpsdata (Sun Dec 07 2014 - 22:08:43 CST)
- Re: program errors (Wed Dec 03 2014 - 15:30:09 CST)
- Re: program errors (Wed Dec 03 2014 - 15:11:44 CST)
- Re: XOpenIM failed (failed to find CUDA devices) (Wed Dec 03 2014 - 14:34:31 CST)
- Re: XOpenIM failed (failed to find CUDA devices) (Wed Dec 03 2014 - 14:31:21 CST)
- Re: XOpenIM failed (failed to find CUDA devices) (Wed Dec 03 2014 - 14:04:03 CST)
- Re: XOpenIM failed (failed to find CUDA devices) (Wed Dec 03 2014 - 13:21:49 CST)
- Re: XOpenIM failed (failed to find CUDA devices) (Wed Dec 03 2014 - 12:34:56 CST)
- Re: XOpenIM failed (failed to find CUDA devices) (Wed Dec 03 2014 - 10:38:11 CST)
- Re: XOpenIM failed (failed to find CUDA devices) (Wed Dec 03 2014 - 10:26:57 CST)
- Re: How to make solid surfaces work with non-orthorhombic cells (Fri Nov 28 2014 - 17:28:26 CST)
- Re: Any interest in VMD supporting mirror reflections w/ ray tracing? (Fri Nov 28 2014 - 17:30:44 CST)
- Re: "measure bond" vs veclength (Wed Nov 26 2014 - 23:58:13 CST)
- Re: "measure bond" vs veclength (Wed Nov 26 2014 - 23:45:10 CST)
- Re: velocity or force of water molecules (Wed Nov 26 2014 - 16:51:32 CST)
- Re: Re: Need testers: VMD 1.9.2 w/ interactive GPU ray tracing w/ AO, depth of field, etc. (Wed Nov 26 2014 - 13:42:21 CST)
- Any interest in VMD supporting mirror reflections w/ ray tracing? (Wed Nov 26 2014 - 13:49:51 CST)
- Re: Tachyon Optix BUG vmd-1.9.2beta1 (Mon Nov 24 2014 - 09:02:46 CST)
- Re: cartoon of alpha carbon trace (Thu Nov 13 2014 - 11:31:45 CST)
- Re: Problems with reading Amber NetCDF restart files (Thu Nov 13 2014 - 11:43:28 CST)
- Re: Need testers: VMD 1.9.2 w/ interactive GPU ray tracing w/ AO, depth of field, etc. (Thu Nov 13 2014 - 00:21:33 CST)
- Re: Problem in fink install netpbm for Movie Making (Wed Nov 12 2014 - 22:49:06 CST)
- Re: can we visualize sos file? (Wed Nov 12 2014 - 22:42:24 CST)
- Re: Displaying Colors (Wed Nov 12 2014 - 10:45:38 CST)
- Re: cartoon of alpha carbon trace (Wed Nov 12 2014 - 10:35:55 CST)
- Re: Displaying Colors (Mon Nov 10 2014 - 09:14:52 CST)
- Re: unable to create OpenGL window. (Mon Nov 10 2014 - 00:58:23 CST)
- Re: Tachyon-Optix failure when SSH X11 (Fri Nov 07 2014 - 17:42:40 CST)
- Re: Rotate exchanges y and z axes? (Wed Nov 05 2014 - 21:07:12 CST)
- Re: Interactive Display of Molecular Orbitals (Mon Nov 03 2014 - 12:35:40 CST)
- Re: Problem with VMD 1.9.1 and OS X 10.10 (OpenGL display freezing on reading PDB coordinates) (Fri Oct 31 2014 - 14:51:38 CDT)
- Re: can VMD render movies in stereo quad-buffered mode? (Fri Oct 31 2014 - 14:48:09 CDT)
- Re: Graphics card suitable for VMD (Fri Oct 31 2014 - 14:45:04 CDT)
- Re: Need testers: VMD 1.9.2 w/ interactive GPU ray tracing w/ AO, depth of field, etc. (Fri Oct 31 2014 - 11:31:36 CDT)
- Re: Problem with VMD 1.9.1 and OS X 10.10 (OpenGL display freezing on reading PDB coordinates) (Fri Oct 31 2014 - 11:22:29 CDT)
- Need testers: VMD 1.9.2 w/ interactive GPU ray tracing w/ AO, depth of field, etc. (Thu Oct 30 2014 - 11:33:12 CDT)
- Re: essential dynamics visualization in VMD (Thu Oct 30 2014 - 08:41:05 CDT)
- Re: BUG(s): vmd-1.9.2b (Thu Oct 30 2014 - 08:50:21 CDT)
- Re: Tachyon-Optix failure when SSH X11 (Tue Oct 28 2014 - 10:38:33 CDT)
- Re: Tachyon-Optix failure when SSH X11 (Tue Oct 28 2014 - 10:00:57 CDT)
- Re: VMD with Cuda 6.5, Mac OS X 10.10 (Mon Oct 27 2014 - 23:19:43 CDT)
- Re: Extensions menu empty (Thu Oct 23 2014 - 16:22:02 CDT)
- Re: Extensions menu empty (Thu Oct 23 2014 - 16:00:00 CDT)
- Re: Extensions menu empty (Thu Oct 23 2014 - 15:43:35 CDT)
- Re: Tachyon-Optix failure when SSH X11 (Thu Oct 23 2014 - 12:34:44 CDT)
- Re: Tachyon-Optix failure when SSH X11 (Thu Oct 23 2014 - 10:29:43 CDT)
- Re: compile VMD with cuda 6.5.14 (Wed Oct 22 2014 - 11:28:35 CDT)
- Re: VRPN support for the Windows VMD 1.9.1 (Mon Oct 20 2014 - 13:21:06 CDT)
- Re: Issue rendering cylinders in povray (Thu Oct 16 2014 - 15:57:32 CDT)
- Re: VRPN support for the Windows VMD 1.9.1 (Thu Oct 16 2014 - 15:40:32 CDT)
- Re: Applying forces in VMD (Thu Oct 16 2014 - 15:36:15 CDT)
- Re: "graphics top line" and "render POV3" (Thu Oct 16 2014 - 14:11:34 CDT)
- Re: "graphics top line" and "render POV3" (Thu Oct 16 2014 - 14:00:05 CDT)
- Re: "graphics top line" and "render POV3" (Thu Oct 16 2014 - 13:19:42 CDT)
- Re: "graphics top line" and "render POV3" (Wed Oct 15 2014 - 22:03:09 CDT)
- Re: VMD with Falcon (Wed Oct 15 2014 - 10:38:47 CDT)
- Re: VMD with Falcon (Wed Oct 15 2014 - 10:22:21 CDT)
- Re: Transparency rendering by Tachyon (Wed Oct 15 2014 - 09:17:07 CDT)
- Re: Transparency rendering by Tachyon (Mon Oct 13 2014 - 08:59:44 CDT)
- Re: Haptic interface options (Fri Oct 10 2014 - 09:59:21 CDT)
- Re: Visualizing two different data sets in the isosurface mode (Fri Oct 10 2014 - 10:07:02 CDT)
- Re: Haptic interface options (Tue Oct 07 2014 - 14:53:41 CDT)
- Re: Compiling VMD for Windows 64bit (Fri Oct 03 2014 - 15:47:50 CDT)
- Re: Problem with ViewChangeRender (Wed Oct 01 2014 - 13:27:59 CDT)
- Re: making psf files (Wed Oct 01 2014 - 08:02:49 CDT)
- Re: Creating multiple views from same trajectory file for movie generation (Wed Oct 01 2014 - 07:43:22 CDT)
- Re: "OpenGL Display" and "VMD Main" windows; size and location on launch (Sun Sep 28 2014 - 15:16:37 CDT)
- Re: Is there a way to view .Hin files in VMD (Sat Sep 27 2014 - 23:35:58 CDT)
- Re: VMD 1.9.2 b1 OptiX Tachyon Error (Fri Sep 26 2014 - 13:40:48 CDT)
- Re: VMD 1.9.2 b1 OptiX Tachyon Error (Fri Sep 26 2014 - 10:43:03 CDT)
- Re: VMD 1.9.2 b1 OptiX Tachyon Error (Fri Sep 26 2014 - 09:55:36 CDT)
- Re: draw geometrical objects on specific frames (Thu Sep 25 2014 - 09:34:30 CDT)
- Re: Atom Selection Rectangle (Wed Sep 24 2014 - 13:56:29 CDT)
- Re: Atom Selection Rectangle (Tue Sep 23 2014 - 22:02:31 CDT)
- Re: Atom Selection Rectangle (Tue Sep 23 2014 - 21:00:29 CDT)
- Re: Solvate Plugin: Why "Rotate to minimize volume" along 2 instead of 3 axes? (Mon Sep 22 2014 - 11:33:40 CDT)
- Re: Does VMD 1.8.6 support SMP under IRIX? (Fri Sep 19 2014 - 23:54:59 CDT)
- Re: Extension crashes (Fri Sep 19 2014 - 23:45:14 CDT)
- Re: Modify bond label. (Thu Sep 18 2014 - 16:46:07 CDT)
- Re: VMD and FreeVR (Thu Sep 18 2014 - 16:42:17 CDT)
- Re: VMD 1.9.2 beta 1 posted for download... (Wed Sep 17 2014 - 08:24:44 CDT)
- VMD 1.9.2 beta 1 posted for download... (Sat Sep 13 2014 - 00:03:12 CDT)
- Re: problems with tachyon (Fri Sep 12 2014 - 08:08:12 CDT)
- Re: velocities in trr (Wed Sep 10 2014 - 15:25:12 CDT)
- Re: velocities in trr (Wed Sep 10 2014 - 14:45:09 CDT)
- Re: Unable to read corrupted binary DCD trajectory file (Mon Sep 08 2014 - 16:13:11 CDT)
- Re: actual simulation time for a frame (Mon Sep 08 2014 - 10:08:18 CDT)
- Re: Unable to read corrupted binary DCD trajectory file (Mon Sep 08 2014 - 10:00:13 CDT)
- Re: Overlaying multiple files in VMD (Mon Sep 08 2014 - 10:03:10 CDT)
- Re: update selection used in "animate write" (Mon Sep 08 2014 - 09:55:55 CDT)
- Re: BUG REPORT: Malfunctioning of VMD with Yosemite? (Fri Sep 05 2014 - 10:05:28 CDT)
- Re: actual simulation time for a frame (Thu Sep 04 2014 - 11:10:30 CDT)
- Re: BUG REPORT: Malfunctioning of VMD with Yosemite? (Thu Sep 04 2014 - 09:53:43 CDT)
- Re: VMD and FreeVR (Fri Aug 29 2014 - 17:18:36 CDT)
- Re: Calling VMD from Linux Cluster (Fri Aug 29 2014 - 17:20:47 CDT)
- Re: APBS: ELEC values (Thu Aug 28 2014 - 16:42:54 CDT)
- Re: APBS: uncharged molecule (Thu Aug 28 2014 - 15:40:44 CDT)
- Re: APBS: uncharged molecule (Thu Aug 28 2014 - 15:31:34 CDT)
- Re: Save position of entire molecule and draw it later (Thu Aug 28 2014 - 14:14:45 CDT)
- Re: Different colouring of the same molecule. (Thu Aug 28 2014 - 14:16:13 CDT)
- Re: Save position of entire molecule and draw it later (Thu Aug 28 2014 - 13:25:19 CDT)
- Re: Accessible volume around an atom (Thu Aug 28 2014 - 13:22:56 CDT)
- Re: The dreaded VMD / Mac OS 10.9 problems (Thu Aug 28 2014 - 13:06:53 CDT)
- Re: strange behavior of render command (Thu Aug 28 2014 - 11:30:37 CDT)
- Re: Remote visualisation inconsistency (Wed Aug 27 2014 - 11:56:20 CDT)
- Re: The dreaded VMD / Mac OS 10.9 problems (Wed Aug 27 2014 - 11:37:50 CDT)
- Re: Minor bug report in VMD 1.9.1 (Tue Aug 26 2014 - 10:10:17 CDT)
- Re: Re: Need compile options for text-only version of VMD (Thu Aug 21 2014 - 16:33:47 CDT)
- Re: Re: Need compile options for text-only version of VMD (Thu Aug 21 2014 - 15:25:42 CDT)
- Re: AW: Tachyon transparency and depth cueing (Thu Aug 21 2014 - 08:34:40 CDT)
- Re: Re: Need compile options for text-only version of VMD (Wed Aug 20 2014 - 16:27:30 CDT)
- Re: can we delete in command line? (Wed Aug 20 2014 - 08:34:33 CDT)
- Re: Extension crashes (Wed Aug 20 2014 - 00:04:24 CDT)
- Re: vmd nearclip setting different from that used in povray render (Tue Aug 19 2014 - 15:38:51 CDT)
- Re: Extension crashes (Tue Aug 19 2014 - 15:26:22 CDT)
- Re: vmd hangs at creating CUDA pool (Tue Aug 19 2014 - 11:34:16 CDT)
- Re: python 2.7 probelms (Fri Aug 15 2014 - 16:21:12 CDT)
- Re: tachyon batch render in parallel (Wed Aug 13 2014 - 13:16:23 CDT)
- Re: Persistent troubles with tk fonts (Wed Aug 13 2014 - 12:28:32 CDT)
- Re: Reading PSF files with longer than 4-letter atom types (Wed Aug 13 2014 - 12:21:27 CDT)
- Re: Rendering snapshots (Wed Aug 13 2014 - 09:31:25 CDT)
- Re: averaged structure (Tue Aug 12 2014 - 12:05:15 CDT)
- Re: averaged structure (Tue Aug 12 2014 - 11:54:34 CDT)
- Re: Rendering snapshots (Tue Aug 12 2014 - 10:11:46 CDT)
- Re: MDFF simulations (Tue Aug 12 2014 - 10:01:41 CDT)
- Re: averaged structure (Tue Aug 12 2014 - 10:05:56 CDT)
- Re: To the developers: TCL implementation of autofit zoom (Fri Aug 08 2014 - 10:58:51 CDT)
- Re: Feature suggestion: "glow" representation (Wed Aug 06 2014 - 09:50:09 CDT)
- Re: Does the VMD Linux 64-bit version perform better than the Windows 32-bit when visualizing large molecules? (Tue Aug 05 2014 - 21:05:56 CDT)
- Re: color scale definitions with more than three colors? (Thu Jul 31 2014 - 12:58:37 CDT)
- Re: drop off in IO speed for bigdcd analysis (Thu Jul 31 2014 - 10:02:02 CDT)
- Re: Temporary Files for STRIDE Inaccessible on Windows 8 (Thu Jul 24 2014 - 12:47:57 CDT)
- Re: How to contribute to VMD? (Thu Jul 24 2014 - 10:51:34 CDT)
- Re: .obj Oddity (Thu Jul 24 2014 - 10:19:22 CDT)
- Re: .obj Oddity (Thu Jul 24 2014 - 09:37:08 CDT)
- Re: VMD Quantum Chemistry Visualization (Mon Jul 21 2014 - 10:46:14 CDT)
- Re: VMD 1.9.2a39_64 segmentation fault MacOS (Wed Jul 09 2014 - 15:50:21 CDT)
- Re: NAMD energy calculation (Mon Jun 30 2014 - 22:59:28 CDT)
- Re: any way to rotate and translate with mouse without changing modes? (Mon Jun 30 2014 - 22:31:31 CDT)
- Re: tcl script causes VMD crash... (Mon Jun 30 2014 - 22:35:40 CDT)
- Re: Visualizing Salt Bridges (Mon Jun 30 2014 - 22:42:45 CDT)
- Re: any way to rotate and translate with mouse without changing modes? (Wed Jun 25 2014 - 11:33:15 CDT)
- Re: Cannot start VMD in background from a script (Mon Jun 23 2014 - 09:51:14 CDT)
- Re: Re: Hydrogen bond occupancy (Thu May 29 2014 - 21:18:48 CDT)
- Re: CUDA errors for graphics card in Linux (Wed May 28 2014 - 16:09:48 CDT)
- Re: CUDA errors for graphics card in Linux (Wed May 28 2014 - 14:35:00 CDT)
- Re: CUDA errors for graphics card in Linux (Wed May 28 2014 - 14:33:45 CDT)
- Re: 3-d printing of vmd scenes (Wed May 28 2014 - 14:31:10 CDT)
- Re: APBS plugin - lib error (Thu May 22 2014 - 19:24:31 CDT)
- Re: RE??? RE??? proper enviroment for the VMD namdenergy plugin (Tue May 20 2014 - 10:12:50 CDT)
- Re: Feature request: capturing tool location and steering forces in IMD trajectory (Mon May 19 2014 - 14:54:39 CDT)
- Re: BUG? Hbond rep brakes RowInterleaved Stereo VMD 1.9.2a35 (Mon May 19 2014 - 11:28:07 CDT)
- Re: Trouble Recognizing Peptide Sequence (Fri May 16 2014 - 14:36:08 CDT)
- Re: BUG? Hbond rep brakes RowInterleaved Stereo VMD 1.9.2a35 (Fri May 16 2014 - 14:31:17 CDT)
- Re: Feature request: capturing tool location and steering forces in IMD trajectory (Fri May 16 2014 - 14:20:10 CDT)
- Re: 3-d printing of vmd scenes (Fri May 16 2014 - 14:11:06 CDT)
- Re: Unable to use VMD1.9.1 binary (no CUDA) on Mac OSX 10.9.3 (Fri May 16 2014 - 11:27:50 CDT)
- Re: Re: (Fri May 16 2014 - 11:33:40 CDT)
- Re: Unable to use VMD1.9.1 binary (no CUDA) on Mac OSX 10.9.3 (Fri May 16 2014 - 10:04:00 CDT)
- Re: file output issue (Fri May 16 2014 - 10:15:20 CDT)
- Re: choosing an optimal workstation video card for VMD (Tue May 06 2014 - 16:01:20 CDT)
- Re: Water visualization (Wed Apr 30 2014 - 22:07:48 CDT)
- Re: BUG? Hbond rep brakes RowInterleaved Stereo VMD 1.9.2a35 (Wed Apr 09 2014 - 14:15:43 CDT)
- Re: problem with movie generation (Wed Apr 09 2014 - 11:47:56 CDT)
- Re: problem with movie generation (Wed Apr 09 2014 - 11:39:55 CDT)
- Re: writing velocities from VMD (Wed Apr 09 2014 - 11:35:28 CDT)
- Re: GPU-accelerated ionization (Wed Apr 09 2014 - 11:31:41 CDT)
- Re: problem with movie generation (Wed Apr 09 2014 - 10:48:46 CDT)
- Re: Minimal VMD (Mon Apr 07 2014 - 15:23:42 CDT)
- Re: ffTk user feature request (Fri Apr 04 2014 - 09:26:32 CDT)
- Re: Visualizing volume slice from PME electrostatics (Thu Apr 03 2014 - 10:51:58 CDT)
- Re: secondary structure inconsistency (Thu Apr 03 2014 - 11:03:39 CDT)
- Re: Writing DCD from modified coordinates (Fri Mar 21 2014 - 13:14:55 CDT)
- Re: Broken link to MacKerell parameterization tutorial (Thu Mar 20 2014 - 15:22:11 CDT)
- Re: psfgen and Alternate location indicator (Tue Mar 18 2014 - 17:12:43 CDT)
- Re: Re: Mapping Gaussian electrostatic potential to electron density with cube files (Mon Mar 17 2014 - 19:37:54 CDT)
- Re: SURF error (Wed Mar 12 2014 - 12:16:09 CDT)
- Re: Segmentation fault (Tue Mar 11 2014 - 12:02:14 CDT)
- Re: Segmentation fault (Tue Mar 11 2014 - 10:41:00 CDT)
- Re: Segmentation fault (Tue Mar 11 2014 - 10:10:44 CDT)
- Re: Fedora 20 x86_64 + ibus + sazanami fonts + GNOME => VMD 1.9.1 crashes (Sun Mar 09 2014 - 09:25:50 CDT)
- Re: Failed to compile VMD 1.9.2 on OSX 10.9 (Thu Mar 06 2014 - 15:42:06 CST)
- Re: Failed to compile VMD 1.9.2 on OSX 10.9 (Wed Mar 05 2014 - 22:51:25 CST)
- Re: Issues using VMD 1.91. with CUDA on Mac OSX 10.9.1 (Wed Mar 05 2014 - 16:49:42 CST)
- Re: Issues using VMD 1.91. with CUDA on Mac OSX 10.9.1 (Wed Mar 05 2014 - 16:40:49 CST)
- Re: Issues using VMD 1.91. with CUDA on Mac OSX 10.9.1 (Wed Mar 05 2014 - 16:15:00 CST)
- Re: Compile VMD (Wed Mar 05 2014 - 10:33:35 CST)
- Re: Issues using VMD 1.91. with CUDA on Mac OSX 10.9.1 (Wed Mar 05 2014 - 09:43:44 CST)
- Re: Issues using VMD 1.91. with CUDA on Mac OSX 10.9.1 (Tue Mar 04 2014 - 15:39:26 CST)
- Re: Issues using VMD 1.91. with CUDA on Mac OSX 10.9.1 (Tue Mar 04 2014 - 11:26:01 CST)
- Re: Issues using VMD 1.91. with CUDA on Mac OSX 10.9.1 (Tue Mar 04 2014 - 10:55:15 CST)
- Re: Issues using VMD 1.91. with CUDA on Mac OSX 10.9.1 (Tue Mar 04 2014 - 09:51:08 CST)
- Re: Drawing circles and tooltips. (Mon Mar 03 2014 - 10:22:46 CST)
- Re: Issues using VMD 1.91. with CUDA on Mac OSX 10.9.1 (Mon Mar 03 2014 - 10:08:18 CST)
- Re: isosurfaces with non-orthorhombic unit cells using cube file (Thu Feb 27 2014 - 18:50:19 CST)
- Re: psfgen and unknown residue types (Mon Feb 24 2014 - 18:22:48 CST)
- Re: Webinar on VMD's use of GPUs to accelerate MD visualization and analysis (Mon Feb 24 2014 - 08:57:40 CST)
- Re: Oculus Rift support in VMD? (Sat Feb 22 2014 - 11:16:05 CST)
- Re: manually change secondary structure (Fri Feb 21 2014 - 10:08:16 CST)
- Re: Security problem? (Fri Feb 21 2014 - 10:01:15 CST)
- Re: Security problem? (Wed Feb 19 2014 - 09:16:06 CST)
- Re: help with stereo viz on new samsung "3D" LCD and quadro card (Tue Feb 18 2014 - 13:04:18 CST)
- Bounced VMD-L postings... (Tue Feb 18 2014 - 13:17:04 CST)
- Re: help with stereo viz on new samsung "3D" LCD and quadro card (Tue Feb 18 2014 - 10:34:55 CST)
- Webinar on VMD's use of GPUs to accelerate MD visualization and analysis (Mon Feb 17 2014 - 16:15:03 CST)
- Re: help with stereo viz on new samsung "3D" LCD and quadro card (Mon Feb 17 2014 - 11:53:45 CST)
- Re: Simplest file format that includes atom color? (Mon Feb 17 2014 - 09:47:17 CST)
- Re: Tachyon question (Mon Feb 17 2014 - 09:43:44 CST)
- Re: Modulus atom selection (Mon Feb 17 2014 - 10:33:02 CST)
- Pruning defunct users and bouncing email accounts from VMD-L... (Mon Feb 17 2014 - 10:24:16 CST)
- Re: VMD can't read 1OXY (Mon Feb 17 2014 - 10:40:21 CST)
- Re: Do I need a "professional" graphics card? (Sun Feb 09 2014 - 13:41:14 CST)
- Re: How do you construct a .cgc file that actually works? (Thu Feb 06 2014 - 09:59:23 CST)
- Re: SScache performance; fast secondary structure assignment (Tue Feb 04 2014 - 10:13:51 CST)
- Re: Re: VTF (Tue Feb 04 2014 - 11:01:47 CST)
- Re: Re: VTF (Tue Feb 04 2014 - 10:21:58 CST)
- Re: Re: VTF (Tue Feb 04 2014 - 10:33:04 CST)
- Re: SScache performance; fast secondary structure assignment (Tue Feb 04 2014 - 09:00:55 CST)
- Re: Re: VTF (Mon Feb 03 2014 - 16:36:47 CST)
- Re: Loading molfileplugins without modifying vmd install (Mon Feb 03 2014 - 16:52:16 CST)
- Re: wrapper for VMD to read compressed .xz files (Fri Jan 31 2014 - 16:43:14 CST)
- Re: VMD crash on large DCD files. (Thu Jan 30 2014 - 10:25:06 CST)
- Re: background color (Mon Jan 27 2014 - 11:33:17 CST)
- Re: Upgrade CUDA5.5 driver and vmd doesn't work anymore (Fri Jan 24 2014 - 13:55:35 CST)
- Re: Bond order cut-off value (Fri Jan 17 2014 - 11:06:26 CST)
- Re: Bond order cut-off value (Thu Jan 16 2014 - 17:01:41 CST)
- Re: Dowser installation trouble (Tue Jan 14 2014 - 17:10:22 CST)
- Re: 'percent' symbol syntax in .conf file? (Tue Jan 14 2014 - 11:08:13 CST)
- Re: setup path to write (Tue Jan 14 2014 - 11:00:25 CST)
- Re: Problem while installing VMD (Tue Jan 14 2014 - 11:05:04 CST)
- Re: centering problem in salvation box (Tue Jan 14 2014 - 09:45:43 CST)
- Re: why tutorial cannot be played? (Tue Jan 14 2014 - 09:58:53 CST)
- Re: Display APBS on Solvent Accessible Surface (Tue Jan 14 2014 - 09:43:03 CST)
- Re: measure command in vmd (Tue Jan 14 2014 - 09:47:50 CST)
- Re: Issues with tachyon internal renderer (Tue Jan 14 2014 - 09:50:05 CST)
- Re: citing SODIUM program (Tue Jan 14 2014 - 09:19:27 CST)
- Re: strange problems adding extra bonds to interactive simulations (Fri Jan 10 2014 - 09:33:58 CST)
- Re: Display APBS on Solvent Accessible Surface (Thu Jan 09 2014 - 16:01:14 CST)
- Re: Issues with tachyon internal renderer (Fri Jan 03 2014 - 21:04:28 CST)
- Re: vmd display problem (Fri Dec 20 2013 - 17:31:17 CST)
- Re: changing chain id and pdb generating (Fri Dec 20 2013 - 17:06:46 CST)
- Re: (Fri Dec 20 2013 - 16:01:20 CST)
- Re: Regarding calculating principal Axis Vectors using VMD (Fri Dec 20 2013 - 16:03:08 CST)
- Re: VMD on Blue Waters (Fri Dec 20 2013 - 12:47:52 CST)
- Re: VMD on Blue Waters (Fri Dec 20 2013 - 12:38:47 CST)
- Re: slice image (Fri Dec 20 2013 - 12:28:35 CST)
- Re: VMD on Blue Waters (Fri Dec 20 2013 - 12:11:35 CST)
- Re: Define bond length (Mon Dec 16 2013 - 15:17:17 CST)
- Re: AW: AW: vmd-1.9.1 broken after upgrade to Ubuntu 13.10 (Wed Dec 11 2013 - 01:10:51 CST)
- Re: Domain Error while using ParseFEP plugin (Tue Dec 10 2013 - 10:32:07 CST)
- Re: how can we improve it in VMD? (Tue Dec 10 2013 - 10:06:07 CST)
- Re: vmd-1.9.1 broken after upgrade to Ubuntu 13.10 (Mon Dec 09 2013 - 09:19:01 CST)
- Re: Domain Error while using ParseFEP plugin (Tue Dec 03 2013 - 10:46:15 CST)
- Re: Persistent troubles with tk fonts (Wed Nov 27 2013 - 13:09:04 CST)
- Re: vmd-1.9.1 broken after upgrade to Ubuntu 13.10 (Tue Nov 26 2013 - 19:08:09 CST)
- Re: Speeding up the VDW drawing method and Tachyon rendering process (Tue Nov 26 2013 - 19:02:31 CST)
- Re: Centering water molecules (Tue Nov 26 2013 - 19:04:21 CST)
- Re: vmd-1.9.1 broken after upgrade to Ubuntu 13.10 (Tue Nov 26 2013 - 17:03:22 CST)
- Re: RMSD for non-pdb file. (Tue Nov 26 2013 - 11:11:15 CST)
- Re: VolMap Occupancy (Sat Nov 23 2013 - 00:39:53 CST)
- Re: Rmsd (Sat Nov 23 2013 - 00:36:08 CST)
- Re: VMD closes upon loading a gromacs xtc file (Fri Nov 22 2013 - 23:54:10 CST)
- Re: problem with trr file (Fri Nov 22 2013 - 23:42:45 CST)
- Re: installing netpbm (Sat Nov 23 2013 - 00:05:51 CST)
- Re: Migrating a tcl plugin to C (Fri Nov 22 2013 - 23:33:07 CST)
- Re: segmentation fault error when trying to add bonds to Si3N4 crystal in vmd (Fri Nov 22 2013 - 23:26:12 CST)
- Re: Error when opening the VMD.exe (Window 8) (Fri Nov 22 2013 - 23:35:36 CST)
- Re: H-atoms placed at the end in PDB file (Fri Nov 22 2013 - 23:38:10 CST)
- Re: "measure symmetry" and SymmetryTools fail to find simple symmetry (Fri Nov 22 2013 - 14:43:21 CST)
- Re: Mapping Gaussian electrostatic potential to electron density with cube files (Fri Nov 22 2013 - 13:19:10 CST)
- Re: "measure symmetry" and SymmetryTools fail to find simple symmetry (Wed Nov 20 2013 - 19:27:21 CST)
- Re: issues rendering images (Mon Nov 18 2013 - 18:56:45 CST)
- Re: segmentation fault error when trying to add bonds to Si3N4 crystal in vmd (Mon Nov 18 2013 - 12:15:49 CST)
- Re: Ramachandran plot question (Mon Nov 18 2013 - 12:05:30 CST)
- Re: Error when opening the VMD.exe (Window 8) (Fri Nov 15 2013 - 17:24:43 CST)
- Re: Problems with large solvation boxes (Fri Nov 15 2013 - 16:17:25 CST)
- Re: Tachyon generation of dat files only (Thu Nov 14 2013 - 08:32:41 CST)
- Re: Tachyon generation of dat files only (Thu Nov 14 2013 - 08:49:04 CST)
- Re: Trace Frame in "Draw Multiple Frames"-Representations (Thu Nov 14 2013 - 08:40:26 CST)
- Re: periodic images with xyz coordinates (Mon Nov 11 2013 - 16:25:59 CST)
- Re: creating high quality movie in VMD (Sat Nov 09 2013 - 17:39:20 CST)
- Re: Structure summary in output file (Fri Nov 08 2013 - 17:51:02 CST)
- Re: BUG Report -> Draw multiple frames (Fri Nov 08 2013 - 16:58:23 CST)
- Re: APBS Output file missing or unreadable (Fri Nov 08 2013 - 14:47:25 CST)
- Re: problem with trr file (Fri Nov 08 2013 - 09:02:16 CST)
- Re: problem with trr file (Thu Nov 07 2013 - 14:50:18 CST)
- Re: APBS Output file missing or unreadable (Wed Nov 06 2013 - 10:31:14 CST)
- Re: ramachandran plot (Wed Nov 06 2013 - 10:37:51 CST)
- Re: namdenergy pugin for interaction energy (Thu Oct 31 2013 - 10:03:26 CDT)
- Re: volume analysis in vmd (Thu Oct 31 2013 - 10:05:24 CDT)
- Re: Re: NVIDIA GeForce GT 750M and CUDA (Sat Oct 26 2013 - 11:56:56 CDT)
- Re: How to address two different geometries for same atom in PDB? (Fri Oct 25 2013 - 20:52:32 CDT)
- Re: Cluster plug (Wed Oct 23 2013 - 10:15:57 CDT)
- Re: Problem with using FFKT to optimize bonded parameters (Wed Oct 23 2013 - 09:49:42 CDT)
- Re: Problem with using FFKT to optimize bonded parameters (Wed Oct 23 2013 - 10:09:02 CDT)
- Re: how shall we fill in clipped molecules? (Wed Oct 16 2013 - 09:49:30 CDT)
- Re: visualization of el. potential (Mon Oct 14 2013 - 10:13:28 CDT)
- Re: GLSL rendering problems on MAC OS 10.8.5 (Intel Graphics Card) (Fri Oct 11 2013 - 08:11:48 CDT)
- Re: BUG Report -> Draw multiple frames (Fri Oct 11 2013 - 08:34:49 CDT)
- Re: embed a protein that includes a ligand into the membrane (Thu Oct 10 2013 - 22:24:05 CDT)
- Re: Installing VMD with PYTHON support (Thu Oct 10 2013 - 08:59:07 CDT)
- Re: clipping plane (Wed Oct 09 2013 - 15:55:12 CDT)
- Re: How to diagnose SpaceNavigator not working with VMD? (Wed Oct 09 2013 - 09:55:47 CDT)
- Re: Finding particles that are close (Wed Oct 09 2013 - 09:50:22 CDT)
- Re: Finding particles that are close (Tue Oct 08 2013 - 16:43:34 CDT)
- Re: Finding particles that are close (Tue Oct 08 2013 - 08:51:36 CDT)
- Re: No timestep available for 'within' search! (Mon Oct 07 2013 - 16:46:15 CDT)
- Re: No timestep available for 'within' search! (Mon Oct 07 2013 - 15:38:17 CDT)
- Re: GLSL rendering problems on MAC OS 10.8.5 (Intel Graphics Card) (Mon Oct 07 2013 - 12:07:21 CDT)
- Re: viewing bond between two hydrogens on a water molecule (Mon Oct 07 2013 - 09:37:35 CDT)
- Re: vmd in Debian (Mon Oct 07 2013 - 09:08:35 CDT)
- Re: How to diagnose SpaceNavigator not working with VMD? (Thu Oct 03 2013 - 09:15:06 CDT)
- Re: How to diagnose SpaceNavigator not working with VMD? (Wed Oct 02 2013 - 14:12:01 CDT)
- Re: convert dcd file to xyz (Wed Oct 02 2013 - 12:48:06 CDT)
- Re: rendering (Fri Sep 27 2013 - 13:30:02 CDT)
- Re: VMD freezing up when left alone (Sun Sep 22 2013 - 20:34:01 CDT)
- Re: Open VMD from a remote host (Wed Sep 18 2013 - 13:53:55 CDT)
- Re: Problem with VMD's depth cueing and 3DConnexion SpaceNavigator (Tue Sep 17 2013 - 10:40:22 CDT)
- Re: vmd in Debian (Tue Sep 17 2013 - 11:05:14 CDT)
- Re: cannot find PSF and PDB (Mon Sep 16 2013 - 23:59:51 CDT)
- Re: Certain combinations of X-server and X-client do not allow VMD to start (Mon Sep 16 2013 - 23:56:11 CDT)
- Re: calculating total energy (Tue Sep 17 2013 - 00:08:49 CDT)
- Re: show_replicas.vmd can't find basesel (Tue Sep 17 2013 - 00:03:53 CDT)
- Re: Problems uploading new molecule (Wed Sep 11 2013 - 08:48:13 CDT)
- Re: Increasing number of digits (Fri Sep 06 2013 - 17:24:19 CDT)
- Re: AW: how to enable multiple core rendering? (Thu Sep 05 2013 - 09:43:18 CDT)
- Re: how to enable multiple core rendering? (Thu Sep 05 2013 - 09:39:50 CDT)
- Re: tachyon batch render in parallel (Wed Sep 04 2013 - 11:06:58 CDT)
- Re: Error with show_replicas.vmd (Tue Sep 03 2013 - 10:57:26 CDT)
- Re: compiling VMD -- confused failure (Tue Aug 27 2013 - 15:08:59 CDT)
- Re: Segmentation fault (core dumped) (Tue Aug 27 2013 - 11:31:32 CDT)
- Re: Quality of color scale bar when creating images for publication (Tue Aug 27 2013 - 11:36:54 CDT)
- Re: VMD script (Tue Aug 27 2013 - 11:29:58 CDT)
- Re: compiling VMD -- confused failure (Tue Aug 27 2013 - 10:29:49 CDT)
- Re: Problem in buried surface area calculation (Tue Aug 27 2013 - 10:33:21 CDT)
- Re: Re: VRPN driver for Novint Falcon haptic device available - Looking for Testers (Mon Aug 19 2013 - 11:52:52 CDT)
- Re: A question with dipwatch.tcl script in VMD (Mon Aug 19 2013 - 10:45:40 CDT)
- Re: Question related to circular membrane (Fri Aug 16 2013 - 10:58:56 CDT)
- Re: Vmd visualizing occupancy maps (Tue Aug 13 2013 - 11:17:29 CDT)
- Re: Urgent---documents uploaded for you (Tue Aug 13 2013 - 11:35:55 CDT)
- Re: Problem with autoionize plugin and long atomtypes (Wed Aug 07 2013 - 13:48:21 CDT)
- Re: extracting grid points from an isosurface (Tue Aug 06 2013 - 09:51:49 CDT)
- Re: Problems when using specden package in VMD (Thu Aug 01 2013 - 09:49:49 CDT)
- Re: How can I easily show ball and stick residues across all molecules and representations? (Thu Jul 18 2013 - 21:43:02 CDT)
- Re: WG: VMD mismatch between CUDA runtime and GPU driver (Thu Jul 18 2013 - 10:28:47 CDT)
- Re: Combine volmap occupancy maps (Wed Jul 17 2013 - 09:50:33 CDT)
- Re: Movies in VMD (Wed Jul 10 2013 - 15:30:32 CDT)
- Re: Use AMBER files in CG-builder (Tue Jul 09 2013 - 16:32:44 CDT)
- Re: VMD 1.9.1 namdenergy plugin problem with GPU acceleration (Tue Jul 09 2013 - 14:02:01 CDT)
- Re: 3d pdf (Tue Jul 09 2013 - 13:43:25 CDT)
- Re: VMD 1.9.1 namdenergy plugin problem with GPU acceleration (Tue Jul 09 2013 - 13:45:47 CDT)
- Re: auto ionise error (Tue Jul 09 2013 - 13:40:47 CDT)
- Re: center of mass (Tue Jul 09 2013 - 13:09:43 CDT)
- Re: Macromolecule? (Tue Jul 09 2013 - 13:03:46 CDT)
- Re: RE: secondary structure works on linux, it doesn't work on Mac in certain structures (Mon Jul 08 2013 - 15:16:20 CDT)
- Re: load speed of dcds (Wed Jun 26 2013 - 11:45:46 CDT)
- Re: load speed of dcds (Wed Jun 26 2013 - 09:26:04 CDT)
- Re: Problem with writepsf and CGenFF long atomtypes (Thu Jun 13 2013 - 13:28:15 CDT)
- Re: Problem with writepsf and CGenFF long atomtypes (Thu Jun 13 2013 - 13:12:44 CDT)
- Re: error in merging two structures (Wed Jun 12 2013 - 23:19:30 CDT)
- Re: error: too many open files (Wed Jun 12 2013 - 21:03:55 CDT)
- Re: Slow display with nVidia GeForce 9400GT and 3xx drivers on Linux (Wed May 29 2013 - 13:36:10 CDT)
- Re: file format of VMD (Wed May 29 2013 - 09:13:27 CDT)
- Re: VMD crashes on opening large cube files (Tue May 28 2013 - 09:36:26 CDT)
- Re: starting vmd in current working directory (Wed May 22 2013 - 12:06:50 CDT)
- Re: problem/NVIDIA 3D vision/VMD/Windows 7 Pro 64-bit/GeForce GTX680 (Wed May 22 2013 - 11:22:03 CDT)
- Re: SASA Algorithm? (Wed May 22 2013 - 11:08:40 CDT)
- Re: error in merging two structures (Wed May 22 2013 - 10:24:02 CDT)
- Re: problem/NVIDIA 3D vision/VMD/Windows 7 Pro 64-bit/GeForce GTX680 (Wed May 22 2013 - 10:47:15 CDT)
- Re: Obtain solvent-accessible surface vertices (Mon May 20 2013 - 13:26:25 CDT)
- Re: building VMD with opnempi support (Thu May 16 2013 - 15:52:41 CDT)
- Re: visualizing dynamic charge (Tue May 14 2013 - 13:11:16 CDT)
- Re: Error when compiling plugins: tcl.h not found (Tue May 14 2013 - 13:09:19 CDT)
- Re: molinfo top get filename, dialogue vs. "mol new" (Thu May 09 2013 - 10:48:49 CDT)
- Re: convert pdb file from angstorm to nm units (Thu May 09 2013 - 10:35:21 CDT)
- Re: convert pdb file from angstorm to nm units (Tue May 07 2013 - 14:38:47 CDT)
- Re: Fwd: VMD Crash with Ubuntu 12.04 LTS and NVidia 310.44 driver. (Tue May 07 2013 - 08:19:15 CDT)
- Re: OpenGL problem (Fri May 03 2013 - 17:24:53 CDT)
- Re: how do I show spheres that are rotating around their centre (Fri May 03 2013 - 16:10:31 CDT)
- Re: Tiled display setup (Fri May 03 2013 - 15:43:02 CDT)
- Re: cannot ionize coarse-grained system (Fri May 03 2013 - 15:45:09 CDT)
- Re: "transparent" material not working (Thu May 02 2013 - 00:49:01 CDT)
- Re: "transparent" material not working (Sun Apr 28 2013 - 15:28:16 CDT)
- Re: problem of pbc command (Mon Apr 22 2013 - 02:29:26 CDT)
- Re: VMD crashes KDE at startup (Fri Apr 19 2013 - 10:57:29 CDT)
- Re: Computing the transformation_matrix for best fit alignment of structures (Thu Apr 18 2013 - 01:22:21 CDT)
- Re: No bonds in the generated psf file (Wed Apr 17 2013 - 21:51:14 CDT)
- Re: No bonds in the generated psf file (Wed Apr 17 2013 - 21:07:42 CDT)
- Re: No bonds in the generated psf file (Wed Apr 17 2013 - 20:48:35 CDT)
- Re: Mouse-Add/Remove Bonds (Mon Apr 15 2013 - 10:11:28 CDT)
- Re: Slow display with nVidia GeForce 9400GT and 3xx drivers on Linux (Mon Apr 15 2013 - 09:51:45 CDT)
- Re: bug in xsfplugin [patch included] (Thu Apr 11 2013 - 12:08:32 CDT)
- Re: Writing povray files from a VMD trajectory (Tue Apr 09 2013 - 14:56:55 CDT)
- Re: Issue in Cal. Bonded and Scan Torsion in fftk (Tue Apr 09 2013 - 12:30:24 CDT)
- Re: Issue in Cal. Bonded and Scan Torsion in fftk (Tue Apr 09 2013 - 10:28:43 CDT)
- Re: bug in xsfplugin [patch included] (Wed Apr 03 2013 - 15:56:28 CDT)
- Re: Disable display resetview (Wed Apr 03 2013 - 15:52:20 CDT)
- Re: Quick wrapping (Wed Apr 03 2013 - 16:02:29 CDT)
- Re: transparent option (Fri Mar 29 2013 - 09:48:35 CDT)
- Re: making the Orient plugin available in VMD (Fri Mar 29 2013 - 10:41:07 CDT)
- Re: vmd-I: remove water, protein from a dcd (Thu Mar 28 2013 - 20:50:42 CDT)
- Re: vmd-I: remove water, protein from a dcd (Thu Mar 28 2013 - 18:07:01 CDT)
- Re: Displaying Flat Cross-Sections Using Surface Representation (Thu Mar 28 2013 - 14:16:49 CDT)
- Re: FFTK... and now gaussian version or QMtool problem (Thu Mar 28 2013 - 09:34:50 CDT)
- Re: protein secondary structure (Wed Mar 27 2013 - 14:54:02 CDT)
- Re: problems aligning two simillar structures (Tue Mar 26 2013 - 17:39:30 CDT)
- Re: problems aligning two simillar structures (Tue Mar 26 2013 - 14:59:27 CDT)
- Re: Theory of backmapping of CGTools (Tue Mar 26 2013 - 10:01:37 CDT)
- Re: hydrogen bonds (Mon Mar 25 2013 - 15:30:42 CDT)
- Re: VMD 1.9.1 for 64-bit Windows (Thu Mar 21 2013 - 11:12:02 CDT)
- Re: phantom omni linux install (Thu Mar 21 2013 - 10:57:58 CDT)
- Re: Slow display with nVidia GeForce 9400GT and 3xx drivers on Linux (Thu Mar 21 2013 - 10:43:25 CDT)
- Re: phantom omni linux install: Phantom OMNI HOWTO (Thu Mar 21 2013 - 11:00:46 CDT)
- Re: Slow display with nVidia GeForce 9400GT and 3xx drivers on Linux (Fri Mar 15 2013 - 09:25:32 CDT)
- Re: color problem with tachyon (Wed Mar 13 2013 - 11:53:23 CDT)
- Re: clear altloc field (Tue Mar 12 2013 - 14:50:37 CDT)
- Re: namdenergy: different results for single vs multiple frames (Tue Mar 12 2013 - 14:29:02 CDT)
- Re: color problem with tachyon (Tue Mar 12 2013 - 14:21:40 CDT)
- Re: Installation (Mon Mar 11 2013 - 13:06:50 CDT)
- Re: Slow display with nVidia GeForce 9400GT and 3xx drivers on Linux (Fri Mar 08 2013 - 13:09:14 CST)
- Re: Installation (Thu Mar 07 2013 - 10:34:17 CST)
- Re: Slow display with nVidia GeForce 9400GT and 3xx drivers on Linux (Tue Mar 05 2013 - 15:27:41 CST)
- Re: Radial pair distribution function (Fri Mar 01 2013 - 09:25:13 CST)
- Re: VMD-1.9.1 and TC/TK-8.6 break analysis g(r) and IR Spectral Density Calculator (Thu Feb 28 2013 - 15:13:10 CST)
- Re: VMD-1.9.1 and TC/TK-8.6 break analysis g(r) and IR Spectral Density Calculator (Wed Feb 27 2013 - 17:54:18 CST)
- Re: isosurface for non-orthorhombic cells (Wed Feb 27 2013 - 16:35:03 CST)
- Re: Load a molecule in a function without output and slow Tcl gui console (Wed Feb 27 2013 - 16:05:25 CST)
- Re: About PLUMED with NAMD VMD (Wed Feb 27 2013 - 10:10:48 CST)
- Re: Can I calculate B-factor using VMD (Wed Feb 27 2013 - 10:22:00 CST)
- Re: definition of single word "protein" selection (Wed Feb 27 2013 - 10:28:52 CST)
- Re: Problem related to the save trajectory] (Wed Feb 27 2013 - 10:07:46 CST)
- Re: Load a molecule in a function without output and slow Tcl gui console (Wed Feb 27 2013 - 10:34:02 CST)
- Re: definition of single word "protein" selection (Wed Feb 27 2013 - 10:18:49 CST)
- Re: delet a frame from dcd file (Tue Feb 26 2013 - 16:47:17 CST)
- Re: Colouring rings in paperchain (Tue Feb 26 2013 - 16:19:28 CST)
- Re: Load a molecule in a function without output and slow Tcl gui console (Tue Feb 26 2013 - 16:16:53 CST)
- Re: VMD-1.9.1 and TC/TK-8.6 break analysis g(r) and IR Spectral Density Calculator (Tue Feb 26 2013 - 16:04:09 CST)
- Re: Head Tracking for Desktop VR Displays using the WiiRemote and VMD (Tue Feb 26 2013 - 15:25:03 CST)
- Re: Displaying Flat Cross-Sections Using Surface Representation (Tue Feb 26 2013 - 13:06:47 CST)
- Re: ParseFEP plugin error (Tue Feb 26 2013 - 13:14:18 CST)
- Re: VMD crashes with malloc error (Tue Feb 26 2013 - 13:12:52 CST)
- Re: VMD Tutorial Help (Tue Feb 26 2013 - 09:51:56 CST)
- Re: trajectory conversion: dcd to trr to xtc (Tue Feb 26 2013 - 08:30:15 CST)
- Re: measure fit rotation matrix convention (Tue Feb 26 2013 - 08:26:17 CST)
- Re: FPR monitor+glasses (Mon Feb 25 2013 - 16:36:54 CST)
- Re: measure fit rotation matrix convention (Mon Feb 25 2013 - 15:11:51 CST)
- Re: vmd1.9.2 alpha on windows/Mac (Mon Feb 25 2013 - 15:15:13 CST)
- Re: setting up the grid for periodic coulomb volmap calc (Mon Feb 25 2013 - 15:03:27 CST)
- Re: Surface won't close (Mon Feb 18 2013 - 09:54:24 CST)
- Re: porcupine plot - dynatraj server missing (Mon Feb 18 2013 - 10:00:22 CST)
- Re: VMD for Windows with VRPN option (Fri Feb 15 2013 - 09:46:16 CST)
- Re: Command not found Error (Thu Feb 14 2013 - 11:05:31 CST)
- Re: vmd1.9.2 alpha on windows/Mac (Thu Feb 14 2013 - 10:32:58 CST)
- Re: isosurface for non-orthorhombic cells (Thu Feb 07 2013 - 09:05:29 CST)
- Re: Removing an installed Plug-in (Thu Jan 31 2013 - 09:19:19 CST)
- Re: PYTHONPATH Word too long (Tue Jan 29 2013 - 10:56:02 CST)
- Re: How to split large DCD file (Thu Jan 24 2013 - 10:56:39 CST)
- Re: Re: namd-l: Assigning Partial Charges to FE in Active Site Superoxide Dismutase. (Thu Jan 24 2013 - 10:54:14 CST)
- Re: compiling stopped without any obvious erros (Wed Jan 23 2013 - 14:13:57 CST)
- Re: another tachyon problem (Wed Jan 23 2013 - 12:10:08 CST)
- Re: another tachyon problem (Wed Jan 23 2013 - 11:40:49 CST)
- Re: tc.h problem (Wed Jan 23 2013 - 11:42:11 CST)
- Re: tc.h problem (Wed Jan 23 2013 - 11:35:05 CST)
- Re: Re: tachyon configuration failed (Wed Jan 23 2013 - 09:38:51 CST)
- Re: Re: tachyon configuration failed (Tue Jan 22 2013 - 11:11:39 CST)
- Re: Re: tachyon configuration failed (Tue Jan 22 2013 - 11:30:55 CST)
- Re: Error in loading large trajectories (Sat Jan 12 2013 - 06:23:55 CST)
- Re: Potential memory consumption bug in VMD 1.9.1 (Sat Jan 12 2013 - 06:18:10 CST)
- Re: VMD not displaying represenations by line (Thu Jan 03 2013 - 09:59:07 CST)
- Re: GPU acceleration (Thu Jan 03 2013 - 09:57:05 CST)
- Re: 'Abort file I/O' key not working (Wed Jan 02 2013 - 14:37:00 CST)
- Re: VMD not displaying represenations by line (Thu Dec 20 2012 - 15:33:36 CST)
- Re: Real-time Representation Changes During Interactive MD (Thu Dec 20 2012 - 09:56:01 CST)
- Re: VMD not displaying represenations by line (Thu Dec 20 2012 - 09:49:40 CST)
- Re: Tachyon does not capture the dark colors! (Wed Dec 19 2012 - 13:54:04 CST)
- Re: VMD 1.9.1 src // GCC 4.7.0 - Error compiling plugins directory (Tue Dec 18 2012 - 20:25:42 CST)
- Re: VMD 1.9.1 src // GCC 4.7.0 - Error compiling plugins directory (Tue Dec 18 2012 - 20:13:52 CST)
- Re: Re: VMD 1.9.1 core dumps (CentOS-5 x86_64) nvidia drivers: 304.64/4x GTX 680 (Tue Dec 11 2012 - 08:59:37 CST)
- Re: Re: VMD 1.9.1 core dumps (CentOS-5 x86_64) nvidia drivers: 304.64/4x GTX 680 (Mon Dec 10 2012 - 11:40:11 CST)
- Re: Use Movie Maker Plugin in Script (Mon Dec 10 2012 - 11:45:42 CST)
- Re: Use Movie Maker Plugin in Script (Thu Dec 06 2012 - 10:00:15 CST)
- Re: Installation error with rlwrap (Sun Dec 02 2012 - 00:21:25 CST)
- Re: 3D-Connexion Space Navigator for Macosx (Sat Dec 01 2012 - 23:50:34 CST)
- Re: Drawing Method: Lines does not display anything (Sat Dec 01 2012 - 23:44:11 CST)
- Re: cant open .car file (Sat Dec 01 2012 - 22:41:24 CST)
- Re: Setting up a Phantom Omni for use with VMD on CentOS 6 (Sat Dec 01 2012 - 23:20:06 CST)
- Re: unable to load cartoon represention of my peptide (Sat Dec 01 2012 - 22:32:47 CST)
- Re: use volmap tool for probability density map (Sat Dec 01 2012 - 22:36:22 CST)
- Re: update selection every frame not working (Mon Nov 26 2012 - 15:51:14 CST)
- Re: Drawing Method: Lines does not display anything (Tue Nov 20 2012 - 10:51:39 CST)
- Re: Hole program for vmd hole tcl script (Tue Nov 20 2012 - 10:54:38 CST)
- Re: VMD can't display new PDB secondary structure properly ( pyMol, jMol can). . (Mon Nov 19 2012 - 21:02:20 CST)
- Re: MD very slow on a 8400M GS laptop (but not on a GT230M one) after NVidia driver update to 304.64 or 310.14 (Mon Nov 19 2012 - 18:28:54 CST)
- Re: VMD can't display new PDB secondary structure properly (pyMol, jMol can) (Mon Nov 19 2012 - 18:18:10 CST)
- Re: vmd cause linux system freezes randomly (Mon Nov 19 2012 - 17:44:27 CST)
- Re: MD very slow on a 8400M GS laptop (but not on a GT230M one) after NVidia driver update to 304.64 or 310.14 (Mon Nov 19 2012 - 11:25:48 CST)
- Re: MD very slow on a 8400M GS laptop (but not on a GT230M one) after NVidia driver update to 304.64 or 310.14 (Sun Nov 18 2012 - 22:25:27 CST)
- Re: vmd cause linux system freezes randomly (Sun Nov 18 2012 - 22:21:22 CST)
- Re: vmd cause linux system freezes randomly (Wed Nov 14 2012 - 22:20:11 CST)
- Re: tc.h error while compiling vmd (Wed Nov 14 2012 - 21:59:01 CST)
- Re: vmd cause linux system freezes randomly (Fri Nov 09 2012 - 13:32:35 CST)
- Re: how to extract a frame in a binary coordinate restart file format for NAMD ? (Fri Oct 26 2012 - 10:34:23 CDT)
- Re: Error in reading data file (Tue Oct 23 2012 - 11:52:06 CDT)
- Re: calculate end-to-end distance with trajectory files (Mon Oct 22 2012 - 10:49:01 CDT)
- Re: IMD and AutoIMD bug when releasing forces on residues? (Thu Oct 18 2012 - 10:36:25 CDT)
- Re: Convergence of the Gram-Charlier expansion (Wed Oct 10 2012 - 15:05:48 CDT)
- Re: Script for reading Gaussian 09 MD file? (Wed Oct 10 2012 - 14:53:19 CDT)
- Re: Script for reading Gaussian 09 MD file? (Wed Oct 10 2012 - 14:40:45 CDT)
- Re: adding 3rdparty plugins in VMD-1.9.1 (Wed Oct 10 2012 - 11:14:27 CDT)
- Re: max mice for IMD (Tue Oct 09 2012 - 22:19:10 CDT)
- Re: Heat mapper (Mon Oct 08 2012 - 12:57:08 CDT)
- Re: Coloring bonds in VMD (Mon Oct 08 2012 - 12:42:49 CDT)
- Re: Problem in invoking VMD (Mon Oct 08 2012 - 10:41:08 CDT)
- Re: Persistent troubles with tk fonts (Fri Oct 05 2012 - 09:08:05 CDT)
- Re: Rendering "draw text" in Povray (Thu Oct 04 2012 - 23:26:00 CDT)
- Re: compiling VMD with gcc 4.7 (Wed Oct 03 2012 - 14:03:36 CDT)
- Re: question about fftk (Wed Oct 03 2012 - 13:57:11 CDT)
- Re: question about fftk (Wed Oct 03 2012 - 11:20:40 CDT)
- Re: VMD compile on windows (where is windows.h?) (Tue Oct 02 2012 - 16:59:47 CDT)
- Re: Using Tools (grab, tug, etc) (Tue Oct 02 2012 - 16:56:55 CDT)
- Re: VMD compile on windows (where is windows.h?) (Tue Oct 02 2012 - 15:33:52 CDT)
- Re: regarding representations, resolution and length of trajectory movies (Tue Oct 02 2012 - 14:55:31 CDT)
- Re: RE:psfgen and CG (Mon Oct 01 2012 - 12:33:19 CDT)
- Re: IMD and AutoIMD bug when releasing forces on residues? (Mon Oct 01 2012 - 10:23:45 CDT)
- Re: Color atoms (Sun Sep 30 2012 - 16:49:19 CDT)
- Re: IMD and AutoIMD bug when releasing forces on residues? (Sun Sep 30 2012 - 16:50:11 CDT)
- Re: Support for Retina displays? (Sun Sep 30 2012 - 11:11:54 CDT)
- Re: Get objects from precompiled VMD? (Thu Sep 27 2012 - 09:49:32 CDT)
- Re: IMD and AutoIMD bug when releasing forces on residues? (Thu Sep 27 2012 - 10:15:08 CDT)
- Re: Using Tools (grab, tug, etc) (Tue Sep 25 2012 - 16:40:49 CDT)
- Re: Linking Error on Mac OS X (Mon Sep 24 2012 - 15:03:56 CDT)
- Re: Regarding the latest VMD 1.9.2.alpha builds from BioCoRE (Fri Sep 21 2012 - 16:45:40 CDT)
- Re: Possible handle leak in 'measure gofr' VMD 1.9.1 Windows (no cuda) (Fri Sep 21 2012 - 16:53:06 CDT)
- Performance of psfgen... (Thu Sep 20 2012 - 17:37:50 CDT)
- Re: Question about generating a .js file (Thu Sep 20 2012 - 17:08:11 CDT)
- Re: Regarding the latest VMD 1.9.2.alpha builds from BioCoRE (Thu Sep 20 2012 - 16:57:27 CDT)
- Re: Using Tools (grab, tug, etc) (Thu Sep 20 2012 - 16:55:13 CDT)
- Re: Text-mode VMD (Thu Sep 20 2012 - 16:31:17 CDT)
- Re: APBS automation with VMD (Thu Sep 20 2012 - 15:57:24 CDT)
- Re: APBS location in vmdrc ? (Thu Sep 20 2012 - 14:35:24 CDT)
- Re: Reading trajectories from FMO-MD run (Thu Sep 20 2012 - 14:43:26 CDT)
- Re: compiling vmd with g++-4.6 on ubuntu (Wed Sep 19 2012 - 12:06:22 CDT)
- Re: Color code the structure by RMSF values (Wed Sep 19 2012 - 12:09:56 CDT)
- Re: compiling vmd with g++-4.6 on ubuntu (Wed Sep 19 2012 - 11:08:34 CDT)
- Re: Q-chem MD output with VMD? (Wed Sep 19 2012 - 10:50:54 CDT)
- Re: Using Tools (grab, tug, etc) (Tue Sep 18 2012 - 14:40:12 CDT)
- Re: How to disable CUDA in VMD 1.9.1? (Mon Sep 17 2012 - 10:21:06 CDT)
- Re: [EXTERNAL] Re: ERROR) Unable to change color name (Fri Sep 14 2012 - 17:44:44 CDT)
- Re: ERROR) Unable to change color name (Fri Sep 14 2012 - 16:46:10 CDT)
- Re: Regarding the latest VMD 1.9.2.alpha builds from BioCoRE (Fri Sep 07 2012 - 17:04:52 CDT)
- Re: Largest published IMD (interactive simulation) examples? (Tue Sep 04 2012 - 14:11:09 CDT)
- Re: Text-mode VMD (Wed Aug 29 2012 - 14:26:40 CDT)
- Re: obtaining the axis of a helix (Tue Aug 28 2012 - 16:13:09 CDT)
- Re: Possible handle leak in 'measure gofr' VMD 1.9.1 Windows (no cuda) (Sun Aug 26 2012 - 21:33:39 CDT)
- Re: Re: Error building VMD plugins from CVS 21.08.2012 (Fri Aug 24 2012 - 09:51:53 CDT)
- Re: Regarding the latest VMD 1.9.2.alpha builds from BioCoRE (Thu Aug 23 2012 - 22:42:19 CDT)
- Re: Re: Error building VMD plugins from CVS 21.08.2012 (Thu Aug 23 2012 - 09:41:42 CDT)
- Re: shift the molecules via VMD (Thu Aug 23 2012 - 09:43:37 CDT)
- Re: Re: Error building VMD plugins from CVS 21.08.2012 (Wed Aug 22 2012 - 10:12:30 CDT)
- Re: Re: Error building VMD plugins from CVS 21.08.2012 (Wed Aug 22 2012 - 09:34:30 CDT)
- Re: VolMap Tool coulombmsm - with periodic boundary conditions (Wed Aug 22 2012 - 09:31:49 CDT)
- Re: Error building VMD plugins from CVS 21.08.2012 (Tue Aug 21 2012 - 12:02:06 CDT)
- Re: main menu rests to top molecule after each double click in a list of molecules (Tue Aug 21 2012 - 10:22:05 CDT)
- Re: FLTK fonts (Mon Aug 20 2012 - 16:43:36 CDT)
- Re: FLTK fonts (Mon Aug 20 2012 - 10:57:24 CDT)
- Re: select grafted chains in nanoparticle (Mon Aug 20 2012 - 10:44:50 CDT)
- Re: select grafted chains in nanoparticle (Fri Aug 17 2012 - 10:24:19 CDT)
- Re: VMD 1.9.1 on Macosx Snow Leopard: items greyed out (Tue Aug 14 2012 - 09:30:05 CDT)
- Re: VMD 1.9.1 on Macosx Snow Leopard: items greyed out (Tue Aug 14 2012 - 09:10:05 CDT)
- Re: Convert CHARMM psf to X-PLOR (Fri Aug 10 2012 - 09:29:08 CDT)
- Re: Showing frame number on display? (Wed Aug 08 2012 - 16:57:18 CDT)
- Re: Showing frame number on display? (Wed Aug 08 2012 - 16:43:00 CDT)
- Re: Re: VMD 1.9.1 python interpreter (Wed Aug 08 2012 - 16:32:20 CDT)
- Re: 3D projectors compatible with VMD. (Wed Aug 08 2012 - 09:49:41 CDT)
- Re: problem with polygon file conversion to pdb (Fri Aug 03 2012 - 13:47:17 CDT)
- Re: Setting molecule ColorID to values greater than 32 (Thu Aug 02 2012 - 14:01:18 CDT)
- Re: Python plans (Wed Aug 01 2012 - 10:46:26 CDT)
- Re: Re: VMD 1.9.1 python interpreter (Tue Jul 31 2012 - 19:45:06 CDT)
- Re: Loop through atoms in a molecule (Tue Jul 31 2012 - 11:57:29 CDT)
- Re: SpaceNavigator on Win7 64 bit (Tue Jul 31 2012 - 11:44:32 CDT)
- Re: Problem with Reading GROMACS file in VMD (Tue Jul 31 2012 - 11:23:19 CDT)
- Re: Minor error in VMD PSF parser for atom charges (Mon Jul 30 2012 - 16:25:35 CDT)
- Re: Representation Selections (Mon Jul 30 2012 - 15:03:54 CDT)
- Re: possible problem with graphics rep gui under with large numbers of molecules (Fri Jul 27 2012 - 12:50:45 CDT)
- Re: Python plans (Fri Jul 27 2012 - 12:51:58 CDT)
- Re: Python plans (Fri Jul 27 2012 - 12:30:16 CDT)
- Re: Python plans (Fri Jul 27 2012 - 11:32:07 CDT)
- Re: Python plans (Fri Jul 27 2012 - 11:25:26 CDT)
- Re: Python plans (Fri Jul 27 2012 - 11:26:23 CDT)
- Re: APBS plugin requires molecule renaming after drag and drop loading of .pqr file (Fri Jul 27 2012 - 11:34:13 CDT)
- Re: vmd 1.9.1 Centos (Wed Jul 25 2012 - 16:15:48 CDT)
- Re: VMD compilation 64 bits (Wed Jul 25 2012 - 15:09:03 CDT)
- Re: Dowser files and manual (Tue Jul 24 2012 - 23:19:26 CDT)
- Re: FW: difficulty in viewing AMBER mdcrd files (Tue Jul 24 2012 - 15:36:01 CDT)
- Re: Search options within mailing list (Tue Jul 24 2012 - 13:36:38 CDT)
- Re: (Tue Jul 24 2012 - 11:56:10 CDT)
- Re: Question about Drude polarizable model (Tue Jul 24 2012 - 11:36:44 CDT)
- Re: Python plans (Tue Jul 24 2012 - 11:48:52 CDT)
- Re: Re: DX potential files (Tue Jul 24 2012 - 10:33:23 CDT)
- Re: VolMap. mass weighted densities (Tue Jul 24 2012 - 10:26:00 CDT)
- Re: molefacture selection (Tue Jul 24 2012 - 10:13:43 CDT)
- Re: iOS support? (Tue Jul 24 2012 - 10:08:14 CDT)
- Re: vmd 1.9.1 Centos (Tue Jul 24 2012 - 10:02:13 CDT)
- Re: (Mon Jul 23 2012 - 15:59:09 CDT)
- Re: Problem with Reading GROMACS file in VMD (Mon Jul 23 2012 - 14:12:02 CDT)
- Re: namdEnergy doesn't run on clusters (Wed Jul 18 2012 - 12:37:35 CDT)
- Re: problem generating psf file (Wed Jul 18 2012 - 10:56:45 CDT)
- Re: namdEnergy doesn't run on clusters (Wed Jul 18 2012 - 10:47:17 CDT)
- Re: namdEnergy doesn't run on clusters (Wed Jul 18 2012 - 10:36:23 CDT)
- Re: namdEnergy doesn't run on clusters (Wed Jul 18 2012 - 10:23:49 CDT)
- Re: namdEnergy doesn't run on clusters (Wed Jul 18 2012 - 10:04:01 CDT)
- Re: Secondary Structure Issue (Wed Jul 18 2012 - 09:57:28 CDT)
- Re: namdEnergy doesn't run on clusters (Wed Jul 18 2012 - 09:46:30 CDT)
- Re: IMD selections (Mon Jul 16 2012 - 11:44:02 CDT)
- Re: Secondary Structure Issue (Thu Jul 12 2012 - 10:24:08 CDT)
- Re: bug of VMD (Thu Jul 12 2012 - 10:37:18 CDT)
- Re: DX potential files (Thu Jul 12 2012 - 10:45:37 CDT)
- Re: Isosurfaces and volume slices (Thu Jul 12 2012 - 10:42:53 CDT)
- Re: about analysis plugin (Thu Jul 12 2012 - 10:29:05 CDT)
- Re: pore radius measurement (Thu Jul 12 2012 - 10:34:38 CDT)
- Re: vmd installation problem (Wed Jul 11 2012 - 09:59:27 CDT)
- Re: 3d space navigator and MacosX-vmd (Wed Jul 11 2012 - 09:22:59 CDT)
- Re: 3d space navigator and MacosX-vmd (Tue Jul 10 2012 - 10:04:52 CDT)
- Re: Distance constraints (Mon Jul 09 2012 - 11:31:39 CDT)
- Re: Distance constraints (Mon Jul 09 2012 - 10:08:34 CDT)
- Re: 3D visualization options on Linux boxes (Thu Jul 05 2012 - 11:39:49 CDT)
- Re: 3D visualization options on Linux boxes (Tue Jul 03 2012 - 12:01:10 CDT)
- Re: Problem with tachyon (Mon Jul 02 2012 - 16:38:30 CDT)
- Re: difficulty in viewing AMBER mdcrd files (Mon Jul 02 2012 - 15:22:10 CDT)
- Re: Running ProcupinePlot script (Fri Jun 22 2012 - 12:13:06 CDT)
- Re: Running ProcupinePlot script (Fri Jun 22 2012 - 11:59:59 CDT)
- Re: Running ProcupinePlot script (Fri Jun 22 2012 - 11:44:18 CDT)
- Re: changing font size (Thu Jun 21 2012 - 10:20:56 CDT)
- Re: changing font size (Thu Jun 21 2012 - 10:35:27 CDT)
- Re: changing font size (Thu Jun 21 2012 - 10:10:31 CDT)
- Re: Drawing an ellipsoid (Thu Jun 07 2012 - 15:11:19 CDT)
- Re: problem vmd python (Thu Jun 07 2012 - 15:13:07 CDT)
- Re: Changing alphanumeric atom naming scheme to numeric (Wed Jun 06 2012 - 12:07:11 CDT)
- Re: namd/vmd support to GTX-6## series (Wed Jun 06 2012 - 09:13:01 CDT)
- Re: Changing alphanumeric atom naming scheme to numeric (Tue Jun 05 2012 - 13:05:38 CDT)
- Re: Segmentation fault (core dumped) (Tue Jun 05 2012 - 09:38:28 CDT)
- Re: Quick Surf Representation Getting Cutoff when Rendering with Tachyon (Tue May 29 2012 - 16:08:16 CDT)
- Re: VMD 1.9.1 becomes unresponsive (Tue May 29 2012 - 11:16:40 CDT)
- Re: Flickering display when running remotely (Tue May 29 2012 - 11:01:26 CDT)
- Re: RMSF and bigdcd (Fri May 25 2012 - 14:34:03 CDT)
- Re: vmd ATI card (Fri May 25 2012 - 13:05:20 CDT)
- Re: vmd on Ubuntu: tcl howto (Thu May 24 2012 - 10:45:46 CDT)
- Re: Regarding the Use of STL Files as Boundary Features (Thu May 24 2012 - 10:32:08 CDT)
- Re: RMSF and bigdcd (Tue May 22 2012 - 18:02:31 CDT)
- Re: VMD1.9.1 is crashing my system (Thu May 10 2012 - 16:38:09 CDT)
- Re: flashing the VMD (Wed May 09 2012 - 13:17:42 CDT)
- Re: flashing the VMD (Wed May 09 2012 - 11:13:43 CDT)
- Re: flashing the VMD (Wed May 09 2012 - 10:30:23 CDT)
- Re: flashing the VMD (Wed May 09 2012 - 10:11:38 CDT)
- Re: strange coloring (Mon May 07 2012 - 16:19:34 CDT)
- Re: strange coloring (Mon May 07 2012 - 15:39:26 CDT)
- Re: .trr files slow to load (Mon May 07 2012 - 12:40:13 CDT)
- Re: Save/restore display parameters (Mon May 07 2012 - 10:40:59 CDT)
- Re: Fwd: VMD Stereo does not work Quadbufferd (Mon May 07 2012 - 03:03:38 CDT)
- Re: Movie Plugin (Mon Apr 23 2012 - 15:52:40 CDT)
- Re: Anaglyph stereo with other colors (Mon Apr 23 2012 - 15:49:37 CDT)
- Re: Anaglyph stereo with other colors (Mon Apr 23 2012 - 15:40:19 CDT)
- Re: openGL x,y position (Sun Apr 22 2012 - 22:56:02 CDT)
- Re: Anaglyph stereo with other colors (Fri Apr 20 2012 - 17:27:39 CDT)
- Re: HOOMD problems (Fri Apr 20 2012 - 15:51:16 CDT)
- Re: segmentation fault with NAMDenergy (Thu Apr 19 2012 - 20:59:32 CDT)
- Re: Units of Isovalue Slider in Isovalue Drawing Method (Wed Apr 18 2012 - 20:49:08 CDT)
- Re: align electron density map onto simulated structure (with different center) (Tue Apr 17 2012 - 00:13:31 CDT)
- Re: lipid order parameter (Tue Apr 17 2012 - 00:01:18 CDT)
- Re: Using Measure SASA in NAMD Simulation (Mon Apr 16 2012 - 23:39:24 CDT)
- Re: Drawing a high resolution transparent or translucent sphere (Wed Apr 11 2012 - 21:26:58 CDT)
- Re: Mac OS compilation? what could be going wrong? (Wed Apr 11 2012 - 14:33:34 CDT)
- Re: Average angle between the lipid dipole vector and the bilayer normal. (Wed Apr 11 2012 - 14:06:52 CDT)
- Re: Mac OS compilation? what could be going wrong? (Wed Apr 11 2012 - 14:15:59 CDT)
- Re: an old question (Wed Apr 11 2012 - 13:57:49 CDT)
- Re: Mac OS compilation? what could be going wrong? (Wed Apr 11 2012 - 10:51:01 CDT)
- Re: Problems with for loop (Tue Apr 10 2012 - 14:15:07 CDT)
- Re: an old question (Tue Apr 10 2012 - 14:11:51 CDT)
- Re: an old question (Mon Apr 09 2012 - 23:49:11 CDT)
- Re: VMD QUESTION( Movie making ) (Mon Apr 09 2012 - 19:22:11 CDT)
- Re: an old question (Mon Apr 09 2012 - 10:30:33 CDT)
- Re: Mac OS compilation? what could be going wrong? (Mon Apr 09 2012 - 10:11:17 CDT)
- Re: Regarding saving data (Wed Apr 04 2012 - 15:10:03 CDT)
- Re: FW: How to set VMD_Plugin_path? (Mon Apr 02 2012 - 10:58:28 CDT)
- Re: Is there any way to stop the display of bonds for bonded atoms on opposite sides of a periodic boundary without unwrapping? (Thu Mar 29 2012 - 14:44:28 CDT)
- Re: Possible MPI code problem (and fix) (Thu Mar 29 2012 - 09:58:15 CDT)
- Re: autopsf: can't read "logfilename" (Thu Mar 29 2012 - 10:44:28 CDT)
- Re: Can't set graphics window position to 0,0 (Thu Mar 29 2012 - 10:20:27 CDT)
- Re: COORDINATES extraction of molecule's centers of mass (Wed Mar 28 2012 - 11:40:54 CDT)
- Re: turns, using Stride (Wed Mar 21 2012 - 13:12:45 CDT)
- Re: Define "color Element" through rgb values (Wed Mar 21 2012 - 11:34:24 CDT)
- Re: bond cutoff (Wed Mar 21 2012 - 11:29:49 CDT)
- Re: lib/stride/README (Wed Mar 21 2012 - 11:13:32 CDT)
- Re: plugins/hesstrans/Makefile recurses on CXXFLAGS (Wed Mar 21 2012 - 11:15:38 CDT)
- Re: starting tkcon (Wed Mar 21 2012 - 11:09:16 CDT)
- Re: exporting marching cubes data from QuickSurf (Wed Mar 21 2012 - 10:39:17 CDT)
- Re: RMSD (Sun Mar 18 2012 - 12:26:39 CDT)
- Re: writepdb, wrong lines in output (Wed Mar 14 2012 - 12:31:18 CDT)
- Re: tutorial on inorganic builder (Tue Mar 13 2012 - 14:52:28 CDT)
- Re: load propka3.1 results error (Mon Mar 12 2012 - 16:43:21 CDT)
- Re: make movies with user-defined script (Mon Mar 12 2012 - 15:53:06 CDT)
- Re: load propka3.1 results error (Mon Mar 12 2012 - 15:44:58 CDT)
- Re: load propka3.1 results error (Mon Mar 12 2012 - 15:36:25 CDT)
- Re: make movies with user-defined script (Fri Mar 09 2012 - 20:45:15 CST)
- Re: make movies with user-defined script (Fri Mar 09 2012 - 16:27:43 CST)
- Re: VMD Display Error - Detected X11 'Composite' extension (Thu Mar 08 2012 - 22:29:26 CST)
- Re: make movies with user-defined script (Thu Mar 08 2012 - 12:12:06 CST)
- Re: Individual components of RMSD? (Thu Mar 08 2012 - 12:15:47 CST)
- Re: Bug in VMD main? (Sat Mar 03 2012 - 12:37:43 CST)
- Re: exporting marching cubes data from QuickSurf (Fri Mar 02 2012 - 15:47:41 CST)
- Re: exporting marching cubes data from QuickSurf (Thu Mar 01 2012 - 22:18:48 CST)
- Re: measure sasa (Thu Mar 01 2012 - 10:06:21 CST)
- Re: Adsorption VMD Tcl script error (Wed Feb 29 2012 - 14:05:21 CST)
- Re: possible memory leak with pbc wrap (Tue Feb 28 2012 - 14:20:14 CST)
- Re: Input selection as xyz co-ordinates (Wed Feb 22 2012 - 22:43:52 CST)
- Re: [request] Best practices for rendering frames and making movies (Wed Feb 22 2012 - 11:12:27 CST)
- Re: SASA -tcl script (Tue Feb 21 2012 - 14:31:09 CST)
- Re: how to add spring between two atoms (Mon Feb 20 2012 - 13:17:23 CST)
- Re: quicksurf and PBC (Sat Feb 18 2012 - 11:14:25 CST)
- Re: trajector@VMD (Fri Feb 17 2012 - 10:17:12 CST)
- Re: pdb reader/writer appears to corrupt pdb output (Thu Feb 16 2012 - 16:21:53 CST)
- Re: pdb reader/writer appears to corrupt pdb output (Thu Feb 16 2012 - 15:51:08 CST)
- Re: Create multiple tcl interpreter child instances within VMD to run several scripts at once (Thu Feb 16 2012 - 11:52:15 CST)
- Re: Create multiple tcl interpreter child instances within VMD to run several scripts at once (Thu Feb 16 2012 - 11:40:11 CST)
- Re: Do H-bonds cross periodic boundaries? Re: Hbonds Analysis. (Thu Feb 16 2012 - 10:34:58 CST)
- Re: quick-surf and throb (Thu Feb 16 2012 - 09:40:44 CST)
- Re: Spatial (angular) distribution function (Wed Feb 15 2012 - 10:17:06 CST)
- Re: Hbonds Analysis (Wed Feb 15 2012 - 10:13:18 CST)
- Re: ERROR) Tcl startup error: Can't find a usable init.tcl in the following directories: (Wed Feb 15 2012 - 10:08:38 CST)
- Re: Problem with VMD 1.9.1 (CUDA) on Snow Leopard (Tue Feb 14 2012 - 11:52:24 CST)
- Re: change of font (Fri Feb 10 2012 - 09:04:57 CST)
- Re: Tcl script error (Thu Feb 09 2012 - 14:23:21 CST)
- Re: Tcl script error (Wed Feb 08 2012 - 15:18:44 CST)
- Re: testing vmd1.9.1 (Wed Feb 08 2012 - 13:34:10 CST)
- Re: Re: Topotools - limit to size of system it can be used for? (Wed Feb 08 2012 - 10:06:45 CST)
- Re: Tcl script error (Mon Feb 06 2012 - 11:23:05 CST)
- Re: Tcl script error (Mon Feb 06 2012 - 10:58:26 CST)
- Re: The spheres become oval, getting close to the screen borders (Sun Feb 05 2012 - 10:44:57 CST)
- Announce: VMD 1.9.1 released (Sat Feb 04 2012 - 14:25:58 CST)
- Re: Error while running steered MD script (Thu Feb 02 2012 - 18:18:20 CST)
- Re: Error while running steered MD script (Thu Feb 02 2012 - 17:10:01 CST)
- Re: Coloring by RMSD during trajectory (Wed Feb 01 2012 - 23:14:38 CST)
- Re: Use "Metal complexes/FeS-clusters" in VMD paratool (Wed Feb 01 2012 - 23:21:49 CST)
- Re: Coloring by RMSD during trajectory (Thu Feb 02 2012 - 00:00:15 CST)
- Re: camera position and scale (Wed Feb 01 2012 - 23:18:23 CST)
- Re: how to merge two PDB trajectories? (Wed Feb 01 2012 - 23:40:45 CST)
- Re: Yet another python question: how to run a python script from the vmd console ? (Wed Feb 01 2012 - 23:33:46 CST)
- Re: Unusual visualisations (Wed Feb 01 2012 - 16:11:07 CST)
- Re: surface potential on an externally loaded msms surface (Wed Feb 01 2012 - 16:21:39 CST)
- Re: is it possible to enable GPU rendering? (Wed Feb 01 2012 - 14:12:47 CST)
- Re: Query Fields (Wed Feb 01 2012 - 13:58:00 CST)
- Re: Quantitative meaning of volmap isosurface (Wed Feb 01 2012 - 14:19:18 CST)
- Re: Save coor coordinates as pdb (Wed Feb 01 2012 - 13:53:58 CST)
- Re: Gromacs analysis tools for Namd output (Wed Feb 01 2012 - 11:47:43 CST)
- Re: Unusual visualisations (Wed Feb 01 2012 - 10:50:30 CST)
- Re: RE : PCA of desmond trajectories (Wed Feb 01 2012 - 10:41:58 CST)
- Re: NewRibbons/NewCartoon problem due to missing CUDA ? (Tue Jan 31 2012 - 15:47:00 CST)
- Re: problem with new plugin installation. (Sat Jan 28 2012 - 11:25:14 CST)
- Re: surface potential on an externally loaded msms surface (Sat Jan 28 2012 - 10:38:49 CST)
- Re: Cutting a sphere with a specified radius along a trajectory (Fri Jan 27 2012 - 17:17:43 CST)
- Re: Looking for nice example images for VMD 1.9.1 release page... (Fri Jan 27 2012 - 17:10:57 CST)
- Re: surface potential on an externally loaded msms surface (Fri Jan 27 2012 - 15:39:03 CST)
- Re: how to enlarge the menu font? (Fri Jan 27 2012 - 01:42:20 CST)
- Re: Viewing "other" data as a trajectory plays (Thu Jan 26 2012 - 12:19:32 CST)
- Re: VMD 1.9.1 beta 2 to be posted tonight... (Thu Jan 26 2012 - 09:34:20 CST)
- Re: VMD 1.9.1 beta 2 to be posted tonight... (Wed Jan 25 2012 - 19:35:42 CST)
- VMD 1.9.1 beta 2 to be posted tonight... (Wed Jan 25 2012 - 16:08:28 CST)
- Re: unit cell volume is zero (Wed Jan 25 2012 - 16:03:35 CST)
- Looking for nice example images for VMD 1.9.1 release page... (Wed Jan 25 2012 - 14:29:39 CST)
- Re: Re: CUDA driver for Mac OS X 10.7 on Late 2008 13 inch Macbook with NVIDA GeForce 9400M 256 MB ? (Wed Jan 25 2012 - 09:59:13 CST)
- Re: ionic radii of sodium and chloride (Tue Jan 24 2012 - 15:23:04 CST)
- Re: Topotools - limit to size of system it can be used for? (Tue Jan 24 2012 - 10:09:45 CST)
- Re: Topotools - limit to size of system it can be used for? (Tue Jan 24 2012 - 10:15:38 CST)
- Re: ImportError: cannot import name AtomSel (Mon Jan 23 2012 - 16:35:53 CST)
- Re: Calling all DCD files in a directory sequentially using CatDCD (Mon Jan 23 2012 - 15:24:51 CST)
- Re: Generating a psf file using VMD (Mon Jan 23 2012 - 10:58:38 CST)
- Re: ERROR) measure gofr: bad frame range given. max (Mon Jan 23 2012 - 10:01:36 CST)
- Re: ionic radii of sodium and chloride (Fri Jan 20 2012 - 14:05:58 CST)
- Re: Re: CUDA driver for Mac OS X 10.7 on Late 2008 13 inch Macbook with NVIDA GeForce 9400M 256 MB ? (Thu Jan 19 2012 - 13:07:25 CST)
- Re: rendering question (Thu Jan 19 2012 - 11:31:20 CST)
- Re: New "surf" calculations in VMD 1.9.1 beta (Wed Jan 18 2012 - 11:01:13 CST)
- Re: Haptic devices for IMD (Wed Jan 18 2012 - 10:57:05 CST)
- Re: out-of-core visualization of large trajectories (Tue Jan 17 2012 - 12:19:40 CST)
- Re: Re: CUDA driver for Mac OS X 10.7 on Late 2008 13 inch Macbook with NVIDA GeForce 9400M 256 MB ? (Fri Jan 13 2012 - 14:52:45 CST)
- Re: precompiled python libraries still work for vmd 1.9 (Fri Jan 13 2012 - 11:24:56 CST)
- Re: using vmd to apply symmetry transformations (Fri Jan 13 2012 - 10:58:08 CST)
- Re: Re: CUDA driver for Mac OS X 10.7 on Late 2008 13 inch Macbook with NVIDA GeForce 9400M 256 MB ? (Thu Jan 12 2012 - 10:48:06 CST)
- Re: Re: VMD and 3D visualization problems with Nvidia Quadro 4000 (Tue Jan 10 2012 - 14:43:54 CST)
- Re: Re: CUDA driver for Mac OS X 10.7 on Late 2008 13 inch Macbook with NVIDA GeForce 9400M 256 MB ? (Thu Jan 05 2012 - 15:14:17 CST)
- Re: Re: vmd 1.9.1 beta - quicksurf rendering artifacts (Thu Jan 05 2012 - 14:08:48 CST)
- Re: Re: vmd 1.9.1 beta - quicksurf rendering artifacts (Wed Jan 04 2012 - 09:28:23 CST)
- Re: R: I: vmd on windows (Tue Jan 03 2012 - 10:06:38 CST)
- Re: VMD 1.9.1 beta 1 (RMSDTT bug) (Tue Jan 03 2012 - 10:11:29 CST)
- VMD 1.9.1 beta 1 posted for download... (Fri Dec 30 2011 - 01:02:15 CST)
- Re: I: vmd on windows (Thu Dec 29 2011 - 22:21:19 CST)
- Re: Analyzing a 10ns simulation on Mac aborts (Thu Dec 29 2011 - 22:49:32 CST)
- Re: get Ramachadran plot using textmode (Fri Dec 23 2011 - 17:46:46 CST)
- Re: Povray renders labels always centered (Fri Dec 23 2011 - 17:39:06 CST)
- Re: Change Color Scale (Wed Dec 21 2011 - 15:09:09 CST)
- Re: VMD stereo for NVidia Quadro 5000? (Mon Dec 19 2011 - 17:23:53 CST)
- Re: vmd-l DynamicBond between two given type of atoms (Mon Dec 19 2011 - 17:21:29 CST)
- Re: About open file .pdbqt in VMD software (Mon Dec 19 2011 - 17:29:30 CST)
- Re: vmd on windows (Mon Dec 19 2011 - 17:26:39 CST)
- Re: VMD on Windows64 (Mon Dec 19 2011 - 16:57:52 CST)
- Re: Improve OFF plugin: handle colors (Wed Dec 07 2011 - 00:56:19 CST)
- Re: How to disable CUDA in VMD-1.9? (Wed Nov 30 2011 - 21:18:23 CST)
- Re: VMD STRIDE not functional after operating system upgrade (Wed Nov 30 2011 - 10:24:22 CST)
- Re: VMD never finishes reading vis. state file, stalls and hoggs CPU (Wed Nov 30 2011 - 09:50:16 CST)
- Re: VRPN-ICMS conflict with NVidia driver (Wed Nov 30 2011 - 09:22:56 CST)
- Re: Save pdb with original numbering (Tue Nov 29 2011 - 10:25:22 CST)
- Re: clip plane and cpk / VdW (Wed Nov 23 2011 - 09:22:43 CST)
- Re: Installation problems with VMD 1.9 (Fri Nov 18 2011 - 11:24:03 CST)
- Re: VMD slows down at multiple windows (Fri Nov 18 2011 - 11:18:44 CST)
- Re: VRPN-ICMS conflict with NVidia driver (Fri Nov 18 2011 - 01:49:18 CST)
- Re: VMD slows down at multiple windows (Thu Nov 17 2011 - 14:13:49 CST)
- Re: VMD slows down at multiple windows (Thu Nov 17 2011 - 13:30:06 CST)
- Re: VMD slows down at multiple windows (Wed Nov 16 2011 - 12:56:18 CST)
- Re: Feedback wanted from Linux VMD users with ATI/AMD graphics chipsets (Fri Nov 11 2011 - 16:13:14 CST)
- Re: Volume Slice + Coloring by volume problem in MacOsx (REPOST) (Fri Nov 11 2011 - 15:14:37 CST)
- Re: how to place polymers on carbon nanotube surface (Fri Nov 11 2011 - 12:51:11 CST)
- Re: Feedback wanted from Linux VMD users with ATI/AMD graphics chipsets (Fri Nov 11 2011 - 12:42:32 CST)
- Re: GPU choice for large systems (Fri Nov 11 2011 - 12:41:03 CST)
- Re: Adding a three letter residue name to VMD's protein recognition (Fri Nov 11 2011 - 12:24:10 CST)
- Re: Volume Slice + Coloring by volume problem in MacOsx (Fri Nov 11 2011 - 10:12:57 CST)
- Re: Feedback wanted from Linux VMD users with ATI/AMD graphics chipsets (Fri Nov 11 2011 - 10:19:21 CST)
- Re: installing and running VMD on Windows 64-bit (Fri Nov 11 2011 - 09:32:51 CST)
- Re: Adding an atom to existing trajectory (to enable RDF from centre of mass of a selection) (Fri Nov 11 2011 - 10:06:58 CST)
- Re: RMSD Tool failes with MOL ID > 999 (Fri Nov 11 2011 - 09:48:57 CST)
- Re: rlwrap problem on (Fri Nov 11 2011 - 09:26:24 CST)
- Re: Save "Visulaization State" from within Tk Console (Fri Nov 11 2011 - 09:20:43 CST)
- Re: UPDATE OCCUPANCY (Fri Nov 11 2011 - 09:22:49 CST)
- Re: installing and running VMD on Windows 64-bit (Thu Nov 10 2011 - 10:05:29 CST)
- Re: graphical representation (Mon Nov 07 2011 - 13:29:43 CST)
- Re: Suppress "Info)" messages (Mon Nov 07 2011 - 12:34:07 CST)
- Re: blank output (Mon Nov 07 2011 - 12:43:57 CST)
- Re: Re: tkinter load problem in VMD (Sun Nov 06 2011 - 00:24:39 CDT)
- Re: Dynamic lines (Wed Nov 02 2011 - 14:12:35 CDT)
- Re: Dynamic lines (Mon Oct 31 2011 - 16:18:33 CDT)
- Re: haptic devices VMD/NAMD/IMD (Mon Oct 31 2011 - 16:04:46 CDT)
- Re: selection (Mon Oct 31 2011 - 16:00:46 CDT)
- Re: Hi all, (Mon Oct 31 2011 - 16:10:14 CDT)
- Re: selection (Mon Oct 31 2011 - 14:39:13 CDT)
- Feedback wanted from Linux VMD users with ATI/AMD graphics chipsets (Mon Oct 31 2011 - 10:12:15 CDT)
- Re: Problem with Movie Maker (Mon Oct 31 2011 - 09:54:03 CDT)
- Re: Installing CATDCD on a Mac (Fri Oct 28 2011 - 16:21:43 CDT)
- Re: Thinkpad X120e with Linux and VMD (Fri Oct 28 2011 - 14:28:21 CDT)
- Re: VMD crashes. (Fri Oct 28 2011 - 10:44:02 CDT)
- Re: Is it possible to automatically label all bonds? (Thu Oct 27 2011 - 12:42:54 CDT)
- Re: Problem vmd 1.9 plus Cave (Thu Oct 27 2011 - 01:29:42 CDT)
- Re: Selecting Atoms within a Volume, Manipulating Volumetric Data (Wed Oct 26 2011 - 21:43:49 CDT)
- Re: Compiling vmd 1.9 plugins (Wed Oct 26 2011 - 17:03:49 CDT)
- Re: Problem building POPE membrane with plugin using CHARMM36 (Fri Oct 14 2011 - 11:37:57 CDT)
- Re: Using two color scales in one scene (Thu Oct 13 2011 - 14:33:52 CDT)
- Re: How to select whole residues when at least one atom is within a specific distance (Thu Oct 13 2011 - 14:32:26 CDT)
- Re: (Thu Oct 13 2011 - 10:33:26 CDT)
- Re: Re: amber traj to pqr - radii error (Thu Oct 13 2011 - 10:25:45 CDT)
- Re: GPU choice for large systems (Sun Oct 02 2011 - 23:02:20 CDT)
- Re: GPU choice for large systems (Sat Oct 01 2011 - 21:26:37 CDT)
- Re: GPU choice for large systems (Sat Oct 01 2011 - 21:20:18 CDT)
- Re: VMD meets Andy Warhol/Campbell's Soup on display wall (Fri Sep 30 2011 - 12:22:48 CDT)
- Re: VMD meets Andy Warhol/Campbell's Soup on display wall (Fri Sep 30 2011 - 12:19:23 CDT)
- Re: problem of exceeding max atom number (Tue Sep 27 2011 - 13:24:22 CDT)
- Re: fonts for paratool (Thu Sep 22 2011 - 01:31:07 CDT)
- Re: redirecting to output (Thu Sep 22 2011 - 01:42:26 CDT)
- Re: Problem building POPE membrane with plugin using CHARMM36 (Wed Sep 21 2011 - 11:32:57 CDT)
- Re: radial pair distribution problems (Wed Sep 21 2011 - 11:22:33 CDT)
- Re: A bug about "trans" command (Wed Sep 21 2011 - 11:06:17 CDT)
- Re: RMSD heatmapper -plugin (Mon Sep 19 2011 - 14:03:52 CDT)
- Re: I can't not see my post in Archive list (Sat Sep 17 2011 - 23:42:43 CDT)
- Re: Clustering MD trajectories (Fri Sep 16 2011 - 15:02:59 CDT)
- Re: Showing and Calculating the amount of water molecules inside carbon nanotube (Fri Sep 16 2011 - 13:59:40 CDT)
- Re: Cionize (Fri Sep 16 2011 - 13:48:43 CDT)
- Re: re: Bug in 'source' command or in for loop? (Fri Sep 16 2011 - 14:03:38 CDT)
- Re: color with name (Fri Sep 16 2011 - 13:32:39 CDT)
- Re: Does Paratool support CgenFF? (Wed Sep 14 2011 - 10:10:31 CDT)
- 2011 VMD User Survey results are posted... (Tue Sep 13 2011 - 15:26:21 CDT)
- Re: Bug in 'source' command or in for loop? (Tue Sep 13 2011 - 13:52:43 CDT)
- Re: linux issues (Mon Sep 12 2011 - 11:22:06 CDT)
- Re: TK console problem (Sun Sep 11 2011 - 12:06:56 CDT)
- Re: TK console problem (Wed Sep 07 2011 - 10:50:41 CDT)
- Re: pdb naming convention to get ribbon representation (Thu Sep 01 2011 - 07:59:26 CDT)
- Re: CUDA cores seen by VMD on GT540M (Wed Aug 31 2011 - 10:19:39 CDT)
- Re: VMD movie (Tue Aug 30 2011 - 11:25:30 CDT)
- Re: Re: vmd does not run on the VNC client (Thu Aug 25 2011 - 22:40:57 CDT)
- Re: vmd does not run on the VNC client (Thu Aug 25 2011 - 21:27:07 CDT)
- Re: Mailing list problems (Wed Aug 24 2011 - 15:08:03 CDT)
- Re: Initial configuration reorientation (Wed Aug 24 2011 - 12:43:52 CDT)
- Re: extrabonds (Wed Aug 24 2011 - 10:21:28 CDT)
- Re: extrabonds (Tue Aug 23 2011 - 17:05:37 CDT)
- Re: Fwd: Dowser plugin: Error message (Tue Aug 23 2011 - 12:39:44 CDT)
- Re: making movie (Tue Aug 23 2011 - 10:36:05 CDT)
- Re: visualizing unrealistic bonds (Tue Aug 23 2011 - 09:06:23 CDT)
- Re: making movie (Tue Aug 23 2011 - 08:59:36 CDT)
- Re: How can I draw secondary structures if I only have the carbon alpha coordinates (Thu Aug 18 2011 - 12:36:30 CDT)
- Re: How can I draw secondary structures if I only have the carbon alpha coordinates (Thu Aug 18 2011 - 11:48:01 CDT)
- Re: Intel HD3000 versus ATI Mobility Radeon 6310 (Wed Aug 17 2011 - 00:50:43 CDT)
- Re: Spaceball navigator - making movies (Tue Aug 16 2011 - 10:16:56 CDT)
- Re: visualizing unrealistic bonds (Mon Aug 15 2011 - 11:21:02 CDT)
- Re: Maria Tziastoudi (Fri Aug 12 2011 - 09:39:51 CDT)
- Re: Vmd Problem (Thu Aug 11 2011 - 16:51:38 CDT)
- Re: Vmd Problem (Thu Aug 11 2011 - 16:36:50 CDT)
- Re: Change Path to Povray (Thu Aug 11 2011 - 10:30:15 CDT)
- Re: Long atom types from CGenFF causing charge problems (Tue Aug 09 2011 - 22:19:02 CDT)
- Re: TCL and Plugins (Tue Aug 09 2011 - 13:45:32 CDT)
- Re: PDB manipulation (Fri Aug 05 2011 - 16:35:52 CDT)
- Re: .car or .xyz output (Fri Aug 05 2011 - 16:15:47 CDT)
- Re: Fwd: hbond analysis (Fri Aug 05 2011 - 16:28:17 CDT)
- Re: problem to render .cms file (Fri Aug 05 2011 - 16:12:31 CDT)
- Re: making movie (Fri Aug 05 2011 - 16:13:28 CDT)
- Re: selection of sugars with VMD (Tue Aug 02 2011 - 17:09:34 CDT)
- Re: converting .dx volumetric data to 2D isocontour (Tue Aug 02 2011 - 16:53:16 CDT)
- VMD User Survey coming to your email inbox soon.... (Tue Aug 02 2011 - 10:19:24 CDT)
- Re: Nvidia quadro Fx1300 problem (Fri Jul 29 2011 - 09:57:18 CDT)
- Re: Question about eval (Tue Jul 26 2011 - 11:40:45 CDT)
- Re: AMBER coordinates with periodic box (Wed Jul 20 2011 - 13:41:23 CDT)
- Re: calculate atom distance between two chain (Mon Jul 18 2011 - 09:57:59 CDT)
- Re: how to draw different set of points for different frames in a trajectory my script does not work (Tue Jul 12 2011 - 13:19:29 CDT)
- Re: A patch for OFF import and a question about representation of surfaces (Tue Jul 12 2011 - 13:22:54 CDT)
- Re: import selection in array for script (Tue Jul 12 2011 - 13:04:43 CDT)
- Re: qpt_conv command of Hole is interactive, how to automate it for multiple frames? (Tue Jul 12 2011 - 13:08:13 CDT)
- Re: Pucker parameters (Tue Jul 12 2011 - 12:53:39 CDT)
- Re: Retrieving Cremer-Pople parameters (Tue Jul 12 2011 - 09:13:36 CDT)
- Re: stereo anaglyph rendering (Sun Jul 10 2011 - 22:17:20 CDT)
- Re: Does this work with VMD: Nvidia 3DVision Glasses + SyncMaster 2233RZ + GTX 580 + Win7? (Sat Jul 09 2011 - 22:20:20 CDT)
- Re: Quadro FX1800 , Stereo and VMD (Fri Jul 08 2011 - 11:38:42 CDT)
- Re: Quadro FX1800 , Stereo and VMD (Fri Jul 08 2011 - 10:41:12 CDT)
- Re: Salt brigde (Thu Jul 07 2011 - 13:01:56 CDT)
- Re: Computer hangs on trying to launch VMD CUDA (Tue Jul 05 2011 - 14:01:24 CDT)
- Re: contacts and pbc (Tue Jul 05 2011 - 13:59:28 CDT)
- Re: VMD atom NUMER problem (Wed Jun 29 2011 - 17:25:42 CDT)
- Re: VMD atom NUMER problem (Wed Jun 29 2011 - 15:21:41 CDT)
- Re: Display Multiple Bond Order (Wed Jun 29 2011 - 15:24:24 CDT)
- Re: color trajectory using specific values rather than color scale (Mon Jun 27 2011 - 10:42:31 CDT)
- Re: not to display atoms in certain region (Fri Jun 24 2011 - 15:45:31 CDT)
- Re: not to display atoms in certain region (Fri Jun 24 2011 - 15:01:06 CDT)
- Re: VMD not working on MacOS X 10.6.7 (Thu Jun 23 2011 - 12:37:18 CDT)
- Re: Question about "orient" script (Tue Jun 21 2011 - 13:15:44 CDT)
- Re: how to get pqr format file with catdcd (Tue Jun 21 2011 - 09:10:16 CDT)
- Re: problem in launching vmd (Tue Jun 21 2011 - 08:57:50 CDT)
- Re: how to get pqr format file with catdcd (Mon Jun 20 2011 - 15:34:01 CDT)
- Re: Re: Fwd: "cuda error cudastreamcreate", (Fri Jun 17 2011 - 01:22:50 CDT)
- Re: Selecting multiple ranges (Fri Jun 10 2011 - 09:43:48 CDT)
- Re: Problem using rotate command in a script ...(2) (Fri Jun 10 2011 - 09:40:45 CDT)
- Re: VMD does not exit after running closest.tcl script in combination with bigdcd (Fri Jun 10 2011 - 09:27:05 CDT)
- Re: VMD does not exit after running closest.tcl script in combination with bigdcd (Thu Jun 09 2011 - 16:02:54 CDT)
- Re: Problem using rotate command in a script .... (Thu Jun 09 2011 - 10:53:17 CDT)
- Re: VMD on Intel core i3 + Ubuntu (Tue Jun 07 2011 - 22:48:47 CDT)
- Re: VMD on Intel core i3 + Ubuntu (Tue Jun 07 2011 - 19:31:07 CDT)
- Re: installation trouble (Tue Jun 07 2011 - 15:58:43 CDT)
- Re: For loops decelerate (Mon Jun 06 2011 - 13:47:41 CDT)
- Re: how do I show contacts with XXX angstroms between a protein and a ligand? (Mon Jun 06 2011 - 13:45:23 CDT)
- Re: how do I show contacts with XXX angstroms between a protein and a ligand? (Mon Jun 06 2011 - 13:42:29 CDT)
- Re: For loops decelerate (Fri Jun 03 2011 - 14:13:14 CDT)
- Re: For loops decelerate (Fri Jun 03 2011 - 13:02:04 CDT)
- Re: installation trouble (Fri Jun 03 2011 - 09:54:39 CDT)
- Re: installation trouble (Thu Jun 02 2011 - 23:11:53 CDT)
- Re: apbs with vmd, no output (Thu Jun 02 2011 - 09:44:03 CDT)
- Re: Compiling plugins without netcdf (Wed Jun 01 2011 - 10:15:46 CDT)
- Re: antechamber for Windows (Fri May 27 2011 - 15:16:20 CDT)
- Re: 3Dconnexion SpaceNavigator (OS X) (Fri May 27 2011 - 14:54:34 CDT)
- Re: Protein cavities (Fri May 27 2011 - 14:47:03 CDT)
- Re: creating psf file (Fri May 27 2011 - 14:37:59 CDT)
- Re: APBS plugin, created file pot-PE0.dx (Fri May 27 2011 - 14:43:04 CDT)
- Re: CAVE and Flystick control (Fri May 27 2011 - 14:41:03 CDT)
- Re: trying to combine closewater.tcl with bigdcd.tcl error frame 3 out of range for molecule 0 (Wed May 25 2011 - 10:18:12 CDT)
- Re: trying to combine closewater.tcl with bigdcd.tcl error frame 3 out of range for molecule 0 (Tue May 24 2011 - 12:13:07 CDT)
- Re: APBS plugin, created file pot-PE0.dx (Mon May 23 2011 - 15:12:51 CDT)
- Re: color atom by stress (Sat May 21 2011 - 22:55:46 CDT)
- Re: Non-cuda version of VMD on Linux? (Sat May 21 2011 - 22:22:42 CDT)
- Re: Large positive non-integer charge (Tue May 17 2011 - 11:03:29 CDT)
- Re: Tkcon on at startup (Tue May 17 2011 - 11:07:55 CDT)
- Re: error in movie generator (Tue May 17 2011 - 10:11:16 CDT)
- Re: Do psf generated by psfgen and psf produced by "$sel writepsf" function in VMD have different impact on MD simulation using NAMD? (Tue May 17 2011 - 10:09:55 CDT)
- Re: Secondary Structure Disappears after Molecule Move (Mon May 16 2011 - 10:30:25 CDT)
- Re: Large positive non-integer charge (Thu May 12 2011 - 16:06:32 CDT)
- Re: Compiling plugins without netcdf support returns an error. (Thu May 12 2011 - 15:58:12 CDT)
- Re: Large positive non-integer charge (Thu May 12 2011 - 14:00:30 CDT)
- Re: command for volume slice? (Wed May 11 2011 - 11:02:12 CDT)
- Re: apbs with vmd, no output (Tue May 10 2011 - 15:09:39 CDT)
- Re: desmond trajectory plugin (Wed May 04 2011 - 22:36:41 CDT)
- Re: CAVE and Flystick control (Wed May 04 2011 - 15:15:20 CDT)
- Re: generating .xsc files using periodic information (Tue Apr 26 2011 - 11:02:48 CDT)
- Re: psfgen: error processing bonds (Tue Apr 26 2011 - 10:53:05 CDT)
- Re: ParseFEP_domain error (Tue Apr 26 2011 - 10:50:18 CDT)
- Re: X3DOM sphere resolution (Thu Apr 21 2011 - 17:14:10 CDT)
- Re: fit dcd is not converging (Thu Apr 21 2011 - 15:02:48 CDT)
- Re: fit dcd is not converging (Thu Apr 21 2011 - 12:15:30 CDT)
- Re: fit dcd is not converging (Thu Apr 21 2011 - 11:17:02 CDT)
- Re: fit dcd is not converging (Thu Apr 21 2011 - 10:22:10 CDT)
- Re: Installation/Upgrade Error (Wed Apr 20 2011 - 16:05:38 CDT)
- Re: Error starting second VMD (Tue Apr 19 2011 - 22:26:56 CDT)
- Re: mdf molfile plugin reader atom_type bug (Mon Apr 18 2011 - 16:14:00 CDT)
- Re: waters selection (Mon Apr 18 2011 - 15:58:07 CDT)
- Re: Question about SASA (Fri Apr 15 2011 - 16:03:05 CDT)
- Re: setting different bond length for different atom pair (Fri Apr 15 2011 - 16:24:55 CDT)
- Re: Res: webpdb load problem (Fri Apr 15 2011 - 15:51:38 CDT)
- Re: X3DOM sphere resolution (Thu Apr 14 2011 - 15:05:00 CDT)
- Re: X3DOM sphere resolution (Wed Apr 13 2011 - 12:51:08 CDT)
- Re: Recent Geforce Cuda GPU cards(GT 440, GTX 560ti) (Wed Apr 13 2011 - 12:57:44 CDT)
- Re: X3DOM sphere resolution (Wed Apr 13 2011 - 10:02:38 CDT)
- Re: X3DOM sphere resolution (Wed Apr 13 2011 - 09:49:34 CDT)
- Re: webpdb load problem (Tue Apr 12 2011 - 14:09:33 CDT)
- Re: Tcl plugin development and debugging (Tue Apr 12 2011 - 09:04:37 CDT)
- Re: electrostatic potential maps. (Wed Apr 06 2011 - 16:39:41 CDT)
- Re: electrostatic potential maps. (Wed Apr 06 2011 - 16:23:13 CDT)
- Re: Transparent image render problem after vmd 1.9 version (Wed Apr 06 2011 - 09:55:32 CDT)
- Re: script problem (Thu Mar 31 2011 - 15:39:01 CDT)
- Re: TCL Callbacks (Thu Mar 31 2011 - 15:04:15 CDT)
- Re: Generate a PSF file for small, simple molecules (Thu Mar 31 2011 - 14:59:37 CDT)
- Re: Molden format plugin (Tue Mar 29 2011 - 10:23:49 CDT)
- Re: Error starting second VMD (Mon Mar 28 2011 - 16:04:34 CDT)
- Re: measure dipole (Mon Mar 28 2011 - 15:52:54 CDT)
- Re: How to add ions for RBCG (Sun Mar 27 2011 - 23:42:36 CDT)
- Re: Software to create 3D PDF documents (Fri Mar 25 2011 - 22:01:53 CDT)
- Re: measure dipole (Fri Mar 25 2011 - 09:11:24 CDT)
- Re: Error starting second VMD (Fri Mar 25 2011 - 09:05:39 CDT)
- Re: Color wheel gradient (Thu Mar 24 2011 - 22:14:38 CDT)
- Re: Compiling on Windows (Thu Mar 24 2011 - 21:38:45 CDT)
- Re: VMD 1.9 builds on MACOSXX86_64 (Thu Mar 24 2011 - 21:56:32 CDT)
- Re: How to maximize the VMD display window (Thu Mar 24 2011 - 21:58:27 CDT)
- Re: Error starting second VMD (Thu Mar 24 2011 - 21:02:06 CDT)
- Re: Hbond rendering issue with VMD 1.9 (Fri Mar 18 2011 - 13:09:41 CDT)
- Re: Linkage problem when compiling fortran bindings for VMD molfile plugins (Fri Mar 18 2011 - 11:25:20 CDT)
- Re: Linkage problem when compiling fortran bindings for VMD molfile plugins (Fri Mar 18 2011 - 10:13:20 CDT)
- Re: Mouse event listener (Thu Mar 17 2011 - 14:02:14 CDT)
- Re: TCL Callbacks (Thu Mar 17 2011 - 14:11:30 CDT)
- Re: Molden format plugin (Thu Mar 17 2011 - 11:28:24 CDT)
- Re: segid & chain id (Thu Mar 17 2011 - 10:10:25 CDT)
- Re: .pdbqt file type (Thu Mar 17 2011 - 09:56:08 CDT)
- Re: problem on making a movie (Tue Mar 15 2011 - 14:14:04 CDT)
- Re: vmd for mac: range in isosurface representation (Tue Mar 15 2011 - 10:35:28 CDT)
- Announce VMD 1.9 released (Mon Mar 14 2011 - 16:49:37 CDT)
- Re: Linkage problem when compiling fortran bindings for VMD molfile plugins (Mon Mar 14 2011 - 16:22:58 CDT)
- Re: problem on making a movie (Fri Mar 11 2011 - 12:37:14 CST)
- Re: snow leopard CUDA and VMD 1.9 (Fri Mar 11 2011 - 10:50:41 CST)
- Re: problem on making a movie (Fri Mar 11 2011 - 10:31:21 CST)
- Re: GLSL with ATI 5750 in Mac OS X 10.6 / 64-bit build (Thu Mar 10 2011 - 16:38:33 CST)
- Re: psf and top (Thu Mar 10 2011 - 09:51:58 CST)
- Re: VMD 1.9 beta 3 posted for download... (Wed Mar 09 2011 - 11:06:56 CST)
- Re: VMD and Kinect (Wed Mar 09 2011 - 10:58:04 CST)
- Re: VMD beta3 windows installer (Wed Mar 09 2011 - 10:43:23 CST)
- Re: ERROR (Wed Mar 09 2011 - 00:19:45 CST)
- Re: VMD 1.9 beta 3 posted for download... (Tue Mar 08 2011 - 09:54:59 CST)
- Re: VMD 1.9 beta 3 posted for download... (Mon Mar 07 2011 - 15:53:04 CST)
- VMD 1.9 beta 3 posted for download... (Mon Mar 07 2011 - 14:53:43 CST)
- Fwd: ACS awards information (Mon Mar 07 2011 - 10:45:17 CST)
- Re: Android support (Sun Mar 06 2011 - 15:44:09 CST)
- Re: Android support (Sun Mar 06 2011 - 15:28:46 CST)
- Re: Android support (Sun Mar 06 2011 - 13:39:44 CST)
- Re: public VMD cvs server (Fri Mar 04 2011 - 09:13:10 CST)
- Re: Bug in VMD? (Thu Mar 03 2011 - 13:38:58 CST)
- Re: Compiling Fortran bindings for the VMD molfile plugins (Thu Mar 03 2011 - 13:28:03 CST)
- Re: Compiling Fortran bindings for the VMD molfile plugins (Wed Mar 02 2011 - 12:46:57 CST)
- Re: VMD.RC Question (Wed Mar 02 2011 - 12:45:53 CST)
- Re: Compiling Fortran bindings for the VMD molfile plugins (Wed Mar 02 2011 - 10:07:35 CST)
- Re: Installing VMD 1.8.7 on i686/SL5 (Wed Mar 02 2011 - 10:02:46 CST)
- Re: Compiling Fortran bindings for the VMD molfile plugins (Tue Mar 01 2011 - 12:32:51 CST)
- Re: Compiling Fortran bindings for the VMD molfile plugins (Tue Mar 01 2011 - 11:28:30 CST)
- Re: Compiling Fortran bindings for the VMD molfile plugins (Tue Mar 01 2011 - 10:54:55 CST)
- Re: Compiling Fortran bindings for the VMD molfile plugins (Tue Mar 01 2011 - 10:38:20 CST)
- Re: Compiling Fortran bindings for the VMD molfile plugins (Tue Mar 01 2011 - 10:24:32 CST)
- VMD 1.9 beta 2 posted for download... (Mon Feb 28 2011 - 21:44:36 CST)
- Re: surf fails with TIP4P water in VMD 1.9b1 (Mon Feb 28 2011 - 10:57:03 CST)
- Re: Intel HD Graphics and VMD (Sun Feb 27 2011 - 23:22:29 CST)
- Re: Pot.dx files (Sun Feb 27 2011 - 22:54:11 CST)
- Re: Re2: ERROR: graphics: color index value '1057' out of range (Sun Feb 27 2011 - 22:03:44 CST)
- Re: Using the MovieMaker (Thu Feb 24 2011 - 20:42:33 CST)
- Re: autopsf-patches C++ error 'expected integer but got "" ""' (Wed Feb 23 2011 - 16:54:55 CST)
- Re: feature request (Wed Feb 23 2011 - 15:45:48 CST)
- Re: Re: VMD 1.9 beta 1 posted for download... (Wed Feb 23 2011 - 15:05:00 CST)
- Re: Incorrect results from 'measure dipole -masscenter' (Wed Feb 23 2011 - 13:55:38 CST)
- Re: abuot avpos (Wed Feb 23 2011 - 13:02:12 CST)
- Re: autopsf-patches C++ error 'expected integer but got "" ""' (Wed Feb 23 2011 - 10:34:09 CST)
- Re: autopsf-patches C++ error 'expected integer but got "" ""' (Wed Feb 23 2011 - 10:47:31 CST)
- Re: Compiling on Windows (Wed Feb 23 2011 - 10:31:18 CST)
- Re: Re: VMD 1.9 beta 1 posted for download... (Wed Feb 23 2011 - 00:11:12 CST)
- Re: Compiling on Windows (Tue Feb 22 2011 - 22:09:56 CST)
- Re: Re: VMD 1.9 beta 1 posted for download... (Tue Feb 22 2011 - 12:45:55 CST)
- Re: Compiling on Windows (Mon Feb 21 2011 - 21:51:33 CST)
- Re: Compiling on Windows (Mon Feb 21 2011 - 21:28:02 CST)
- Re: memory leak 1.8.7 and 1.9b1 (Mon Feb 21 2011 - 09:48:08 CST)
- Re: Compiling on Windows (Fri Feb 18 2011 - 22:19:44 CST)
- Re: Compiling on Windows (Fri Feb 18 2011 - 12:29:42 CST)
- Re: Re: VMD 1.9 beta 1 posted for download... (Fri Feb 18 2011 - 11:54:35 CST)
- Re: Compiling on Windows (Fri Feb 18 2011 - 11:57:33 CST)
- Re: Compiling on Windows (Fri Feb 18 2011 - 11:51:14 CST)
- Re: Compiling on Windows (Fri Feb 18 2011 - 10:06:44 CST)
- Re: Compiling on Windows (Thu Feb 17 2011 - 14:40:24 CST)
- Re: VMD 1.9 beta 1 posted for download... (Thu Feb 17 2011 - 09:36:22 CST)
- Re: Re: VMD 1.9 beta 1 posted for download... (Thu Feb 17 2011 - 09:44:59 CST)
- Re: Re: VMD 1.9 beta 1 posted for download... (Thu Feb 17 2011 - 01:08:54 CST)
- Re: Re: VMD 1.9 beta 1 posted for download... (Wed Feb 16 2011 - 16:08:36 CST)
- Re: VMD 1.9 beta 1 posted for download... (Wed Feb 16 2011 - 11:21:31 CST)
- VMD 1.9 beta 1 posted for download... (Tue Feb 15 2011 - 19:26:31 CST)
- Re: conflict between VMD and Cygwin (Mon Feb 14 2011 - 18:19:52 CST)
- Re: only one model is displayed (Fri Feb 11 2011 - 12:49:23 CST)
- Re: Displaying an overlay of multiple structures with VMD (Thu Feb 10 2011 - 12:56:22 CST)
- Re: Displaying an overlay of multiple structures with VMD (Tue Feb 08 2011 - 14:22:21 CST)
- Re: Multiseq in text mode (Mon Feb 07 2011 - 20:30:11 CST)
- Re: ERROR while using PSF builder (Mon Feb 07 2011 - 20:25:33 CST)
- Re: Installation problem with VMD, Multiseq, and BLAST (Thu Feb 03 2011 - 16:10:24 CST)
- Re: vrml2 output crashes VTK/Paraview (Thu Feb 03 2011 - 09:25:00 CST)
- Re: vmd draw command for text (Tue Feb 01 2011 - 09:47:07 CST)
- Re: License question (Sat Jan 29 2011 - 19:18:20 CST)
- Re: Re: Trouble rendering tranparent atoms with Tachyon (Fri Jan 28 2011 - 10:14:26 CST)
- Re: illegal stereo mode (Fri Jan 28 2011 - 08:55:05 CST)
- Re: vrml2 output crashes VTK/Paraview (Thu Jan 27 2011 - 20:09:15 CST)
- Re: GLSL with ATI 5750 in Mac OS X 10.6 / 64-bit build (Thu Jan 27 2011 - 13:44:16 CST)
- Re: a problem about multiplot (Wed Jan 26 2011 - 20:19:47 CST)
- Re: GLSL with ATI 5750 in Mac OS X 10.6 / 64-bit build (Wed Jan 26 2011 - 14:31:53 CST)
- Re: Problem installing vmd in UBUNTU 10.10 (Sat Jan 15 2011 - 13:15:09 CST)
- Re: problem in extracting frame number (Thu Jan 13 2011 - 09:53:20 CST)
- Re: volumetric trajectory (Mon Jan 10 2011 - 14:28:55 CST)
- Re: vmd with 3d vision (Fri Jan 07 2011 - 17:04:27 CST)
- Re: Running Namd in Window (Mon Jan 03 2011 - 13:46:34 CST)
- Re: problem regarding the MC trajectory (Wed Dec 15 2010 - 16:25:24 CST)
- Re: Bug in AutoIMD (Thu Dec 09 2010 - 16:42:53 CST)
- Re: surface representation question (Thu Dec 09 2010 - 16:40:35 CST)
- Re: Translating protein along one coordinate (Thu Dec 09 2010 - 16:25:47 CST)
- Re: apocynin/1k4u (Tue Dec 07 2010 - 09:23:57 CST)
- Re: Membrane Protein Tutorial (Mon Dec 06 2010 - 09:31:05 CST)
- Re: RE Q?= use gelato render with VMD 1.8.7 for movie (Fri Dec 03 2010 - 14:17:31 CST)
- Re: top2psf - bridging_waters.tcl script (Fri Dec 03 2010 - 12:08:59 CST)
- Re: Can VMD build predicted protein structures by homology? (Fri Dec 03 2010 - 12:02:47 CST)
- Re: use gelato render with VMD 1.8.7 for movie (Fri Dec 03 2010 - 11:55:24 CST)
- Re: top2psf - bridging_waters.tcl script (Mon Nov 29 2010 - 10:32:03 CST)
- Re: tcl script problem using -dispdev text .. (Fri Nov 19 2010 - 21:40:52 CST)
- Re: How to Measure Radius of gyration (Tue Nov 16 2010 - 23:33:36 CST)
- Re: Rendering .dat files created from Movie Maker using Tachyon (Tue Nov 16 2010 - 23:43:17 CST)
- Re: Problem With No Atoms In Selection (Tue Nov 16 2010 - 15:33:50 CST)
- Re: Headtracking software (Tue Nov 16 2010 - 15:23:14 CST)
- Re: vmd-I:Hbonds (Thu Nov 11 2010 - 11:07:55 CST)
- Re: POV renderer and volume coloring problem (Thu Nov 11 2010 - 07:53:50 CST)
- Re: dtr plugin: does it work for forces traj? (Wed Nov 10 2010 - 13:22:07 CST)
- Re: k3b also launches vmd (Wed Nov 10 2010 - 10:47:01 CST)
- Re: Graphics card for VMD, number of atoms, file format (Tue Nov 09 2010 - 11:16:54 CST)
- Re: 3D protein visualization (Mon Nov 08 2010 - 16:33:55 CST)
- Re: 3D protein visualization (Mon Nov 08 2010 - 16:31:45 CST)
- Re: Web Portal NAMD Job Visualisation...possibilities? (Wed Nov 03 2010 - 22:54:44 CDT)
- Re: Regarding merging of two files (Wed Nov 03 2010 - 13:40:30 CDT)
- Re: Regarding merging of two files (Wed Nov 03 2010 - 13:03:11 CDT)
- Re: menus unresponsive in ubuntu 10.10 (Fri Oct 29 2010 - 09:28:23 CDT)
- Re: How to delete a residue (Wed Oct 27 2010 - 12:53:23 CDT)
- Re: psf gen charmm format (Wed Oct 20 2010 - 13:57:18 CDT)
- Re: Adding cadmium into protein (Wed Oct 20 2010 - 10:23:25 CDT)
- Re: problem at convert single trajectory frame to pdb (Tue Oct 19 2010 - 12:35:58 CDT)
- Re: problem at convert single trajectory frame to pdb (Tue Oct 19 2010 - 12:03:43 CDT)
- Re: problem at convert single trajectory frame to pdb (Tue Oct 19 2010 - 11:39:47 CDT)
- Re: Vega ZZ DCD trajectory crashes VMD (Tue Oct 19 2010 - 11:28:45 CDT)
- Re: problem at convert single trajectory frame to pdb (Tue Oct 19 2010 - 10:45:43 CDT)
- Re: Vega ZZ DCD trajectory crashes VMD (Tue Oct 19 2010 - 11:07:27 CDT)
- Re: Vega ZZ DCD trajectory crashes VMD (Tue Oct 19 2010 - 10:39:50 CDT)
- Re: Re: plugin for Abinit output files (Sun Oct 17 2010 - 17:54:20 CDT)
- Re: Memory leak with "mol modselect" and index (Sun Oct 17 2010 - 15:52:47 CDT)
- Re: setenv: Too many arguments (Fri Oct 15 2010 - 16:42:00 CDT)
- Re: Interaction Energy Using Python (Fri Oct 15 2010 - 13:57:51 CDT)
- Re: Bond Colors (Thu Oct 14 2010 - 11:54:04 CDT)
- Re: Real-time ambient occlusion lighting (Wed Oct 13 2010 - 11:22:46 CDT)
- Re: Real-time ambient occlusion lighting (Wed Oct 13 2010 - 10:43:47 CDT)
- Re: Real-time ambient occlusion lighting (Tue Oct 12 2010 - 19:58:12 CDT)
- Re: Selecting by X-coordinate (Tue Oct 12 2010 - 17:43:19 CDT)
- Re: Real-time ambient occlusion lighting (Tue Oct 12 2010 - 16:24:42 CDT)
- Re: Interaction Energy Using Python (Tue Oct 12 2010 - 15:34:49 CDT)
- Re: missing frames in trajectory file (Tue Oct 12 2010 - 15:28:06 CDT)
- Re: Query regarding RMSD calculcation (Tue Oct 12 2010 - 15:25:35 CDT)
- Re: Orientation an rotation of molecules in a movie (Tue Oct 12 2010 - 15:04:26 CDT)
- Re: Combined "Within" atom selection (Tue Oct 12 2010 - 14:59:44 CDT)
- Re: Experience with Asus Netbook (Tue Sep 28 2010 - 10:45:08 CDT)
- Re: Solvent accessible surface area change during MD run (Tue Sep 28 2010 - 10:53:46 CDT)
- Re: minimization changed the occupancy of all atoms to zero (Mon Sep 20 2010 - 16:37:47 CDT)
- Re: ppm files (Mon Sep 20 2010 - 07:39:03 CDT)
- Re: ppm files (Mon Sep 20 2010 - 07:32:29 CDT)
- Re: VMD 1.8.7 terminal window (Mon Sep 20 2010 - 00:23:29 CDT)
- Re: vmd display water molecules error (Sun Sep 19 2010 - 20:58:44 CDT)
- Re: plugin for Abinit output files (Sun Sep 19 2010 - 20:18:56 CDT)
- Re: vmd display water molecules error (Sun Sep 19 2010 - 19:46:44 CDT)
- Re: creating psf file (Sun Sep 19 2010 - 20:09:03 CDT)
- Re: bigdcd + salt-bridge analysis (Sun Sep 19 2010 - 19:39:16 CDT)
- Re: Mouse event listener (Sun Sep 19 2010 - 19:32:23 CDT)
- Re: Compatibility with Orcad (PSpice) ? (Sun Sep 19 2010 - 19:35:12 CDT)
- Re: vasp POSCAR plugin (Sun Sep 19 2010 - 19:26:47 CDT)
- Re: VMD for windows 64-bit (Sun Sep 19 2010 - 16:51:40 CDT)
- Re: minimization changed the occupancy of all atoms to zero (Sun Sep 19 2010 - 14:09:41 CDT)
- Re: Re:vmd_start_problem_in_mac OSX (Tue Sep 14 2010 - 13:03:43 CDT)
- Re: Re:vmd_start_problem_in_mac OSX (Tue Sep 14 2010 - 12:35:46 CDT)
- Re: Error encountered when quitting VMD on the Mac (Mon Sep 13 2010 - 20:08:36 CDT)
- Re: GLXBadLargeRequest and BadLength messages (Mon Sep 13 2010 - 16:34:33 CDT)
- Re: compile windows binary in linux (Mon Sep 13 2010 - 14:28:01 CDT)
- Re: change residue colors? (Mon Sep 13 2010 - 12:42:33 CDT)
- Re: writepdb append (Mon Sep 13 2010 - 12:25:47 CDT)
- Re: Anaglyph rendering problem (Mon Sep 13 2010 - 08:43:16 CDT)
- Re: maximum trajectory size? (Wed Sep 08 2010 - 19:58:19 CDT)
- Re: Loss of VDW upon rendering with POV3 (Wed Sep 08 2010 - 16:08:05 CDT)
- Re: Loss of VDW upon rendering with POV3 (Wed Sep 08 2010 - 14:26:11 CDT)
- Re: two coloring method (Fri Sep 03 2010 - 18:01:00 CDT)
- Re: Matrix based intermediate rotations (Fri Sep 03 2010 - 10:08:34 CDT)
- Re: Faster secondary structure assignment (Tue Aug 31 2010 - 10:57:35 CDT)
- Re: Faster secondary structure assignment (Mon Aug 30 2010 - 11:57:25 CDT)
- Re: RMSD trajectory tool (Fri Aug 27 2010 - 14:32:05 CDT)
- Re: VMD XRequest errors (Fri Aug 27 2010 - 14:23:38 CDT)
- Re: vmd - rendering (Wed Aug 25 2010 - 09:49:28 CDT)
- Re: runsqm plugin required but not installed (Tue Aug 24 2010 - 17:12:24 CDT)
- Re: catdcd usage with Desmond trajectory (Tue Aug 24 2010 - 16:44:25 CDT)
- Re: OSX 10.6 support? (Tue Aug 24 2010 - 10:45:39 CDT)
- Re: OSX 10.6 support? (Tue Aug 24 2010 - 10:02:20 CDT)
- [carlos.simmerling@gmail.com: Re: ACS award information, Oct 15 deadline] (Tue Aug 24 2010 - 09:48:02 CDT)
- Re: (Fri Aug 20 2010 - 14:05:26 CDT)
- Re: catdcd usage with Desmond trajectory (Thu Aug 19 2010 - 20:32:23 CDT)
- Re: PQR parser failure in pqr plugin 0.5 and pqr plugin in latest alpha (Wed Aug 18 2010 - 15:30:39 CDT)
- Re: ion bead (residue based CG) (Wed Aug 18 2010 - 15:06:39 CDT)
- Re: input file (Wed Aug 18 2010 - 15:00:41 CDT)
- Re: VMD 3D movies rendering (Wed Aug 18 2010 - 13:53:52 CDT)
- Re: PQR parser failure in pqr plugin 0.5 and pqr plugin in latest alpha (Wed Aug 18 2010 - 13:38:40 CDT)
- Re: plugin : membrane builder : "integer value too large to represent" (Wed Aug 18 2010 - 13:07:13 CDT)
- Re: VMD plus Phantom (Wed Aug 18 2010 - 13:11:03 CDT)
- Re: Is it possible to load a part of a big xtc file faster... (Wed Aug 18 2010 - 10:00:08 CDT)
- Re: VMD 3D movies rendering (Tue Aug 17 2010 - 13:47:35 CDT)
- Re: VMD 3D movies rendering (Tue Aug 17 2010 - 09:39:58 CDT)
- Re: RSMD of coarse grained molecules (Mon Aug 16 2010 - 21:50:07 CDT)
- Re: RSMD of coarse grained molecules (Mon Aug 16 2010 - 12:57:59 CDT)
- Re: where can I download Tachyon version 0.98.10 ? (Mon Aug 16 2010 - 12:54:37 CDT)
- Re: VMD 3D movies rendering (Mon Aug 16 2010 - 11:20:00 CDT)
- Re: where can I download Tachyon version 0.98.10 ? (Mon Aug 16 2010 - 11:08:36 CDT)
- Re: workaround for DynamicBonds (Mon Aug 16 2010 - 11:05:28 CDT)
- Re: where can I download Tachyon version 0.98.10 ? (Sat Aug 14 2010 - 23:10:51 CDT)
- Re: cant connect Novint Falcon with VMD (Fri Aug 13 2010 - 15:18:58 CDT)
- Re: VMD questions about animating residue distance lines and contact maps (Fri Aug 13 2010 - 13:03:59 CDT)
- Re: cant connect Novint Falcon with VMD (Fri Aug 13 2010 - 12:55:06 CDT)
- Re: VMD questions about animating residue distance lines and contact maps (Thu Aug 12 2010 - 16:43:46 CDT)
- Re: Interpreting a contact map (Thu Aug 12 2010 - 16:33:23 CDT)
- Re: cant connect Novint Falcon with VMD (Thu Aug 12 2010 - 15:00:17 CDT)
- Re: Conversion into POVRay coordinates (Fri Aug 06 2010 - 09:23:02 CDT)
- Re: Focal blur with Tachyon (Thu Aug 05 2010 - 17:09:46 CDT)
- Re: Conversion into POVRay coordinates (Thu Aug 05 2010 - 17:06:54 CDT)
- Re: upgrading vmd's nvidia component (Thu Aug 05 2010 - 16:11:09 CDT)
- Re: surface rendering across X11 windows (Mon Aug 02 2010 - 11:34:31 CDT)
- Re: multiseq/stamp alignment of coiled coil bundle and homo-dimer (Thu Jul 29 2010 - 10:21:11 CDT)
- Re: VMD XRequest errors (Wed Jul 28 2010 - 21:54:21 CDT)
- Re: VMD XRequest errors (Wed Jul 28 2010 - 21:02:30 CDT)
- Re: multiseq/stamp alignment of coiled coil bundle and homo-dimer (Wed Jul 28 2010 - 16:23:51 CDT)
- Re: VMD XRequest errors (Tue Jul 27 2010 - 23:58:01 CDT)
- Re: install on Centos - issues (Wed Jul 28 2010 - 00:01:41 CDT)
- Re: Cannot find "cionize plugin" in VMD (Wed Jul 21 2010 - 16:22:05 CDT)
- Re: Extra lines shown in trajectories in VMD (Wed Jul 21 2010 - 13:08:34 CDT)
- Re: Adding Single Residues to a Protein (Tue Jul 20 2010 - 14:59:19 CDT)
- Re: Cannot find "cionize plugin" in VMD (Tue Jul 20 2010 - 14:09:37 CDT)
- Re: Cannot find "cionize plugin" in VMD (Tue Jul 20 2010 - 12:42:15 CDT)
- Re: trajectory sort by RMSD or other (Tue Jul 20 2010 - 12:44:38 CDT)
- Re: VMD failure of RMSD Traj Tool, time index on each rendered frame, and crash (Tue Jul 20 2010 - 11:04:44 CDT)
- Re: Adding other online PDB data bases to VMD (Tue Jul 20 2010 - 10:52:25 CDT)
- Re: VMD failure of RMSD Traj Tool, time index on each rendered frame, and crash (Tue Jul 20 2010 - 10:39:53 CDT)
- Re: Building VMD on OS X 10.6 with Python and CUDA support (Tue Jul 20 2010 - 10:22:23 CDT)
- Re: Building VMD on OS X 10.6 with Python and CUDA support (Tue Jul 20 2010 - 10:23:56 CDT)
- Re: compilation of vmd 1.8.7 source (Tue Jul 20 2010 - 10:17:44 CDT)
- Re: compilation of vmd 1.8.7 source (Tue Jul 20 2010 - 09:47:22 CDT)
- Re: Cannot find "cionize plugin" in VMD (Tue Jul 20 2010 - 09:41:53 CDT)
- Re: VMD Crashes on Windows Vista when trying to load more than 5000 steps (Mon Jul 19 2010 - 09:55:03 CDT)
- Re: making a movie of an unusual trajectory (Fri Jul 16 2010 - 12:23:01 CDT)
- Re: locating or creating a .vmdsensors file for windows VMD (Wed Jul 14 2010 - 12:52:16 CDT)
- Re: using tcl variables in representation gui (Wed Jul 14 2010 - 09:32:33 CDT)
- Re: Question about vrpn server build for using Phantom with VMD (Tue Jul 13 2010 - 15:13:23 CDT)
- Re: VMD cuda (Tue Jul 13 2010 - 14:50:08 CDT)
- Re: ILS tool fails (Tue Jul 13 2010 - 11:39:50 CDT)
- Re: VMD cuda (Mon Jul 12 2010 - 16:48:39 CDT)
- Re: Install VMD on intel i5 (Mon Jul 12 2010 - 11:52:30 CDT)
- Re: Autoionize does not neutralize the system (Tue Jul 06 2010 - 15:39:48 CDT)
- Re: Autoionize does not neutralize the system (Tue Jul 06 2010 - 10:42:58 CDT)
- Re: Autoionize does not neutralize the system (Tue Jul 06 2010 - 10:16:43 CDT)
- Re: RGB values... (Sat Jul 03 2010 - 09:12:35 CDT)
- Re: Sasa implentation/ algorithm VMD (Sat Jul 03 2010 - 09:14:11 CDT)
- Re: Tachyon Rendering with a Surf Representation (Thu Jul 01 2010 - 10:20:20 CDT)
- Re: getting python to work (Thu Jul 01 2010 - 10:23:41 CDT)
- Re: VMD / Tachyon Questions (Thu Jul 01 2010 - 10:58:26 CDT)
- Re: Invalid command name "His" during Solvation (Fri Jun 25 2010 - 13:51:18 CDT)
- Re: stereo problem with vmd (Fri Jun 25 2010 - 12:56:34 CDT)
- Re: stereo problem with vmd (Fri Jun 25 2010 - 10:14:20 CDT)
- Re: Add/Remove Bonds (Thu Jun 24 2010 - 16:47:36 CDT)
- Re: VMD 1.8.7 and NVIDIA 256.35 driver problems (CUDA issue?) (Thu Jun 24 2010 - 14:58:59 CDT)
- Re: Re: convert prmtop to psf (Tue Jun 22 2010 - 13:58:14 CDT)
- Re: Cannot read MSMS data files (Tue Jun 22 2010 - 11:37:48 CDT)
- Re: vmd on Microsoft 2000 and Phantom (Tue Jun 22 2010 - 11:26:18 CDT)
- Re: Re: convert prmtop to psf (Tue Jun 22 2010 - 11:27:49 CDT)
- Re: OpenGL Display slow/freeze (Tue Jun 22 2010 - 08:54:46 CDT)
- Re: OpenGL Display slow/freeze (Tue Jun 22 2010 - 09:00:38 CDT)
- Re: OpenGL Display slow/freeze (Mon Jun 21 2010 - 22:43:38 CDT)
- Re: Re: convert prmtop to psf (Mon Jun 21 2010 - 16:56:08 CDT)
- Re: Cannot read MSMS data files (Mon Jun 21 2010 - 16:00:36 CDT)
- Re: Deleting/modifying specific molecule representations (Fri Jun 18 2010 - 16:20:57 CDT)
- Re: Gradient Background (Fri Jun 18 2010 - 15:11:05 CDT)
- Re: Fwd: -samples flag of measure sasa (Fri Jun 18 2010 - 15:25:51 CDT)
- Re: -samples flag of measure sasa (Fri Jun 18 2010 - 14:22:19 CDT)
- Re: -samples flag of measure sasa (Fri Jun 18 2010 - 13:10:08 CDT)
- Re: visualize trajectories from lammps parallel results (Thu Jun 17 2010 - 14:41:03 CDT)
- Re: saving a GMX trajectory using tcl script (Thu Jun 17 2010 - 14:43:00 CDT)
- Re: vmd crash at start (Thu Jun 17 2010 - 10:41:34 CDT)
- Re: Change only the CA coordinates in a pdb file via tcl (Mon Jun 14 2010 - 15:12:33 CDT)
- Re: Problems with Linux install... (Wed Jun 09 2010 - 16:17:18 CDT)
- Re: Rending to png format using tachyon or otherwise ? (Wed Jun 09 2010 - 10:06:06 CDT)
- Re: Trouble compiling from source - Mac OS X (Fri Jun 04 2010 - 17:08:33 CDT)
- Re: Retrieving the Cremer-Pople parameters (Fri Jun 04 2010 - 17:03:59 CDT)
- Re: Problems with Linux install... (Fri Jun 04 2010 - 16:19:09 CDT)
- Re: Problems with Linux install... (Fri Jun 04 2010 - 08:37:54 CDT)
- Re: APBS plugin (Thu Jun 03 2010 - 11:37:06 CDT)
- Re: Visualize intersection of overlapping spheres? (Wed Jun 02 2010 - 13:48:36 CDT)
- Re: psfgen plugin (Wed Jun 02 2010 - 12:58:54 CDT)
- Re: Interaction Energy (Wed Jun 02 2010 - 12:54:57 CDT)
- Re: CAN ANY ONE HELP ME (Wed Jun 02 2010 - 12:51:24 CDT)
- Re: Visualize intersection of overlapping spheres? (Wed Jun 02 2010 - 12:57:04 CDT)
- Re: CAN ANY ONE HELP ME (Wed Jun 02 2010 - 11:01:15 CDT)
- Re: Interaction Energy (Wed Jun 02 2010 - 11:02:40 CDT)
- Re: Compiling without graphics (Tue Jun 01 2010 - 22:06:55 CDT)
- Re: Tcl-wrapped "lightweight plugin" in C++ (Tue Jun 01 2010 - 11:04:09 CDT)
- Re: Residue Number Assignment by VMD (Fri May 28 2010 - 13:32:38 CDT)
- Re: Tcl-wrapped "lightweight plugin" in C++ (Thu May 27 2010 - 22:16:44 CDT)
- Re: Selecting CUDA devices in VMD 1.8.7 (Wed May 26 2010 - 10:39:53 CDT)
- Re: Problem with display on Intel graphics card (Wed May 26 2010 - 09:46:45 CDT)
- Re: LANG setting needs to be solved in next release.... (Wed May 19 2010 - 08:41:47 CDT)
- Re: regarding fit_angle.tcl (Tue May 18 2010 - 23:40:16 CDT)
- Re: LANG setting needs to be solved in next release.... (Tue May 18 2010 - 22:18:28 CDT)
- Re: regarding fit_angle.tcl (Tue May 18 2010 - 16:02:37 CDT)
- Re: adding water box (Tue May 18 2010 - 12:36:24 CDT)
- Re: Selecting CUDA devices in VMD 1.8.7 (Tue May 11 2010 - 22:07:03 CDT)
- Re: Selecting CUDA devices in VMD 1.8.7 (Tue May 11 2010 - 19:23:48 CDT)
- Re: problem with "animate delete all" (Mon May 10 2010 - 16:20:55 CDT)
- Re: Stereoscopic visualization (Mon May 10 2010 - 11:47:46 CDT)
- Re: Using RMSD in colvar (Mon May 03 2010 - 14:47:55 CDT)
- Re: animation with variable number/names of atoms (Mon May 03 2010 - 14:46:34 CDT)
- Re: Question Regarding PME Set-up (Mon May 03 2010 - 15:08:32 CDT)
- Re: ellipsoidal particles (Mon May 03 2010 - 15:05:03 CDT)
- Re: Tachyon? (Fri Apr 30 2010 - 12:48:26 CDT)
- Re: Tachyon? (Fri Apr 30 2010 - 12:58:46 CDT)
- Re: VMD: set light coordinates (Thu Apr 29 2010 - 12:10:07 CDT)
- Re: Symmetry Tool Error (Draw): invalid command name "getargs" and expected integer but got "" (Wed Apr 28 2010 - 11:13:11 CDT)
- Re: merge structure: error processing angles (Mon Apr 26 2010 - 19:30:05 CDT)
- Re: Problems with licorice representation when rendering 3D PDF for Power Point (Fri Apr 23 2010 - 12:54:49 CDT)
- Re: Problems with licorice representation when rendering 3D PDF for Power Point (Thu Apr 22 2010 - 17:22:33 CDT)
- Re: pbc and measure hbond (Thu Apr 22 2010 - 10:30:17 CDT)
- Re: problem about running (Thu Apr 22 2010 - 10:36:39 CDT)
- Re: run_vmd_tmp: Permission denied (Thu Apr 22 2010 - 10:32:35 CDT)
- Re: Fragments (Thu Apr 22 2010 - 10:26:59 CDT)
- Re: Coloring atoms based on timeframe range? (Thu Apr 22 2010 - 10:11:43 CDT)
- Re: mol urlload -- this doesn't seem to work in Windows (it does seem to work from Linux) (Fri Apr 16 2010 - 18:22:20 CDT)
- Re: mol urlload -- this doesn't seem to work in Windows (it does seem to work from Linux) (Fri Apr 16 2010 - 18:10:22 CDT)
- Re: mol urlload -- this doesn't seem to work in Windows (it does seem to work from Linux) (Fri Apr 16 2010 - 17:00:15 CDT)
- Re: Colouring atoms named with the same first letter (Fri Apr 16 2010 - 16:42:22 CDT)
- Re: VMD has problem displaying glsl rendermode (Mon Apr 12 2010 - 09:10:01 CDT)
- Re: Creating bonds using VMD (Sun Apr 11 2010 - 23:07:21 CDT)
- Re: regarding installation (Sun Apr 11 2010 - 22:25:56 CDT)
- Re: Rotating the current view (Sun Apr 11 2010 - 22:20:06 CDT)
- Re: creating and appending to DCD in VMD (Thu Apr 08 2010 - 16:18:41 CDT)
- Re: problems with hotkeys and "user add key" command (Mon Apr 05 2010 - 16:45:53 CDT)
- Re: RuntimeError: tk.h version (8.4) doesn't match libtk.a version (8.5) (Fri Apr 02 2010 - 00:26:18 CDT)
- Re: can't find file (Mon Mar 29 2010 - 10:11:23 CDT)
- Re: Visualisation of VTF trajectories using VMD under Windows ? (Wed Mar 24 2010 - 11:01:16 CDT)
- Fwd: [ACS award information, March 30 deadline] (Mon Mar 22 2010 - 12:23:45 CDT)
- Re: writepdb using selection form different molecules (Mon Mar 22 2010 - 11:05:53 CDT)
- Re: Running IMD interactivelly under the shell (Thu Mar 18 2010 - 16:16:06 CDT)
- Re: Installing VMD (Tue Mar 16 2010 - 12:55:29 CDT)
- Re: CUDA out of memory (Mon Mar 15 2010 - 10:20:37 CDT)
- Re: Problems with VMD installation Fedora 12 64bits (Sat Mar 13 2010 - 08:50:37 CST)
- Re: CUDA out of memory (Fri Mar 12 2010 - 09:02:19 CST)
- Re: Isosurface wraps in PME Electrostatics calc'n (Tue Mar 09 2010 - 14:40:45 CST)
- Re: Viewing changing beta along a trajectory (Tue Mar 09 2010 - 10:54:06 CST)
- Re: Error vmd and Nvidia Graphik Card (Tue Mar 09 2010 - 10:37:25 CST)
- Re: Viewing changing beta along a trajectory (Tue Mar 09 2010 - 10:39:57 CST)
- Re: Add a surface to a pdb file (Mon Mar 08 2010 - 14:32:10 CST)
- Re: Mean atom position (Mon Mar 08 2010 - 14:34:04 CST)
- Re: CUDA issues (Mon Mar 08 2010 - 11:19:00 CST)
- Re: Add a surface to a pdb file (Mon Mar 08 2010 - 10:04:00 CST)
- Re: Question Regarding User-Defined Trajectories (Mon Mar 08 2010 - 09:37:25 CST)
- Re: Add a surface to a pdb file (Mon Mar 08 2010 - 09:25:27 CST)
- Re: STRIDE error: too many atoms in res (Fri Mar 05 2010 - 14:46:07 CST)
- Re: MDFF plug-in (Fri Mar 05 2010 - 15:12:10 CST)
- Re: VMD-Cones and Povray rendering (Fri Mar 05 2010 - 08:58:23 CST)
- Re: CUDA issues (Thu Mar 04 2010 - 13:54:49 CST)
- Re: 2 questions about "measure sasa" (Thu Mar 04 2010 - 10:50:11 CST)
- Re: CUDA issues (Thu Mar 04 2010 - 10:32:06 CST)
- Re: CUDA issues (Thu Mar 04 2010 - 08:11:53 CST)
- Re: Finding residues with some distance (Wed Mar 03 2010 - 22:35:10 CST)
- Re: Binary VMD buid for Linux, text mode only (Wed Mar 03 2010 - 17:09:42 CST)
- Re: intersurf plugin missing in VMD 1.8.7 ? (Wed Mar 03 2010 - 11:24:15 CST)
- Re: Can anyone help me get the coordinate of the cylinders in the cartoon representation? (Wed Mar 03 2010 - 10:56:00 CST)
- Re: Generating a PSF for a Non-protien (Wed Mar 03 2010 - 10:47:52 CST)
- Re: 3D Connexion - Space Navigator (OSX drivers) (Wed Mar 03 2010 - 10:34:03 CST)
- Re: Running Python within VMD (Wed Mar 03 2010 - 10:41:49 CST)
- Re: Re: display of the atom number beyond 100000 in pdb file (Wed Mar 03 2010 - 01:11:27 CST)
- Re: Bigdcd and Namdenergy batch problem (Thu Feb 25 2010 - 16:46:08 CST)
- Re: 2 questions about "measure sasa" (Thu Feb 25 2010 - 17:00:31 CST)
- Re: Mutator plugin console (Thu Feb 25 2010 - 16:53:16 CST)
- Re: Regarding coordinates transformation (Thu Feb 25 2010 - 16:33:13 CST)
- Re: slower trajectory loading when CUDA support is enabled (Thu Feb 25 2010 - 15:51:50 CST)
- Re: slower trajectory loading when CUDA support is enabled (Thu Feb 25 2010 - 15:01:19 CST)
- Re: Probe orientations in ILS (Mon Feb 22 2010 - 15:41:08 CST)
- Re: VMD water protein anlysis (Mon Feb 22 2010 - 15:45:47 CST)
- Re: gradient background not rendered (Fri Feb 19 2010 - 16:58:46 CST)
- Re: Numeric Library of Python for VMD 1.8.7 (Thu Feb 18 2010 - 00:11:12 CST)
- Re: slowing down movie maker (Wed Feb 17 2010 - 20:43:50 CST)
- Re: producing high quality video on Mac (Wed Feb 17 2010 - 19:57:08 CST)
- Re: creating a povray file (Wed Feb 17 2010 - 16:07:16 CST)
- Re: problem of installing vmd 1.8.7 on Mac osx 10.4.11 (Wed Feb 17 2010 - 11:55:01 CST)
- Re: creating a povray file (Wed Feb 17 2010 - 10:51:44 CST)
- Re: problem of installing vmd 1.8.7 on Mac osx 10.4.11 (Wed Feb 17 2010 - 09:47:58 CST)
- Re: VMD and Amber coordinates (Tue Feb 16 2010 - 13:12:14 CST)
- Re: get view direction (Tue Feb 16 2010 - 10:25:37 CST)
- Re: X_ChangeProperty error (Mon Feb 15 2010 - 16:18:27 CST)
- Re: Mirror reflection (Sat Feb 13 2010 - 01:32:37 CST)
- Re: Converting tracker coordinates to molecule coordinate for selection (Fri Feb 12 2010 - 11:32:37 CST)
- Re: Converting tracker coordinates to molecule coordinate for selection (Fri Feb 12 2010 - 00:26:09 CST)
- Re: invalid command name 'vmdcon' (Fri Feb 12 2010 - 00:21:01 CST)
- Re: psf file generation.? (Fri Feb 12 2010 - 00:00:21 CST)
- Re: how to set PBC for ILS (Wed Feb 10 2010 - 16:59:29 CST)
- Re: how to set PBC for ILS (Wed Feb 10 2010 - 16:43:43 CST)
- Re: Blank thumbnails and non-working snapshots (Tue Feb 09 2010 - 10:07:31 CST)
- Re: Blank thumbnails and non-working snapshots (Tue Feb 09 2010 - 09:44:00 CST)
- Re: Blank thumbnails and non-working snapshots (Tue Feb 09 2010 - 09:29:32 CST)
- Re: Blank thumbnails and non-working snapshots (Tue Feb 09 2010 - 08:12:37 CST)
- Re: how long do ILS runs take? (Mon Feb 08 2010 - 14:48:16 CST)
- Re: VMD, Tachyon and depth of field (Sat Feb 06 2010 - 15:01:42 CST)
- Re: VMD, Tachyon and depth of field (Sat Feb 06 2010 - 11:15:34 CST)
- Re: Changing decimal places in a label? (Thu Feb 04 2010 - 10:48:38 CST)
- Re: Trouble building VMD 1.8.7 on Mac OS X (Thu Feb 04 2010 - 10:06:33 CST)
- Re: Trouble building VMD 1.8.7 on Mac OS X (Thu Feb 04 2010 - 10:14:13 CST)
- Re: Trouble building VMD 1.8.7 on Mac OS X (Wed Feb 03 2010 - 15:55:51 CST)
- Re: import xyz file (Tue Jan 26 2010 - 20:48:30 CST)
- Re: VMD version 1.8.7 (LINUX OpenGL, CUDA) on UBUNTU 9.10 (Mon Jan 25 2010 - 16:32:25 CST)
- Re: SASA and SESA (Sun Jan 24 2010 - 15:47:28 CST)
- Re: SASA and SESA (Sun Jan 24 2010 - 14:51:08 CST)
- Re: autopsf needs at least one atom error (Sun Jan 24 2010 - 14:18:22 CST)
- Re: autopsf generator need at least one atom error (Sun Jan 24 2010 - 13:51:27 CST)
- Re: VMD installation: Windows OpenGL (Sun Jan 24 2010 - 13:33:16 CST)
- Re: Graphics card for molecular graphics (Sun Jan 24 2010 - 13:01:36 CST)
- Re: Syntax and capabilities of writetrr (Fri Jan 22 2010 - 10:45:53 CST)
- Re: water in a certein box (Thu Jan 21 2010 - 23:43:32 CST)
- Re: sasa function (Thu Jan 21 2010 - 14:09:13 CST)
- Re: bad text display in tk console (ubuntu 8.04 VMD 1.8.7 linux 32 bit) (Wed Jan 20 2010 - 14:12:07 CST)
- Re: Re: namd-l: NAMD ibverbs not working on new cluster (Wed Jan 20 2010 - 12:46:35 CST)
- Re: bad text display in tk console (ubuntu 8.04 VMD 1.8.7 linux 32 bit) (Wed Jan 20 2010 - 12:37:38 CST)
- Re: bad text display in tk console (ubuntu 8.04 VMD 1.8.7 linux 32 bit) (Wed Jan 20 2010 - 12:24:16 CST)
- Re: bad text display in tk console (ubuntu 8.04 VMD 1.8.7 linux 32 bit) (Wed Jan 20 2010 - 10:24:45 CST)
- Re: 3D Stereo : Windows 7, nVIDIA GEFORCE (Wed Jan 20 2010 - 10:05:14 CST)
- Re: 3D glasses with LCD (Wed Jan 20 2010 - 10:08:24 CST)
- Re: visualizing APBS output (Tue Jan 19 2010 - 22:07:43 CST)
- Re: 3D Stereo : Windows 7, nVIDIA GEFORCE (Tue Jan 19 2010 - 17:57:23 CST)
- Re: visualizing APBS output (Tue Jan 19 2010 - 13:50:55 CST)
- Re: bad text display in tk console (ubuntu 8.04 VMD 1.8.7 linux 32 bit) (Fri Jan 15 2010 - 12:01:17 CST)
- Re: Re: VMD CVS Request for Richard Cook (Thu Jan 14 2010 - 23:27:51 CST)
- Re: APBS tutorial link broken (Thu Jan 14 2010 - 17:11:56 CST)
- Re: Re: VMD CVS Request for Richard Cook (Thu Jan 14 2010 - 16:44:32 CST)
- Re: vmdcollab in VMD (Wed Jan 13 2010 - 15:55:01 CST)
- Re: Maestro file export (Tue Jan 12 2010 - 16:46:07 CST)
- Re: display surface amino acid beads (Tue Jan 12 2010 - 14:25:28 CST)
- Re: conflict between VMD and Netbeans IDE on MacOSX (Tue Jan 12 2010 - 14:13:30 CST)
- Re: Compiling VMD plugins on Windows? (Tue Jan 12 2010 - 10:51:39 CST)
- Re: vmd 1.8.7CUDA/1.8.7/1.8.6 can not start (Tue Jan 12 2010 - 10:27:04 CST)
- Re: vmd 1.8.7CUDA/1.8.7/1.8.6 can not start (Wed Jan 06 2010 - 12:56:47 CST)
- Re: New Cartoon representation problem (Wed Jan 06 2010 - 12:49:18 CST)
- Re: VMD hangs up with a file size ~ 1.2 GB ? (Wed Jan 06 2010 - 10:06:34 CST)
- Re: VMD hangs up with a file size ~ 1.2 GB ? (Wed Jan 06 2010 - 10:10:51 CST)
- Re: slow visualization using molecular representations with VMD 1.8.7 on mac (Tue Jan 05 2010 - 08:59:04 CST)
- Re: VMD-Xplor interface problem (Sun Jan 03 2010 - 21:38:24 CST)
- Re: vmd 1.8.7CUDA/1.8.7/1.8.6 can not start (Sun Jan 03 2010 - 17:46:21 CST)
- Re: PDB file (Sun Jan 03 2010 - 02:23:41 CST)
- Re: vmd 1.8.7CUDA/1.8.7/1.8.6 can not start (Sun Jan 03 2010 - 01:56:14 CST)
- Re: reply (Sat Jan 02 2010 - 08:53:01 CST)
- Re: vmd installation in linux (Sat Jan 02 2010 - 01:08:58 CST)
- Re: Re: Re: Superposition of Multiple Trajectory Timesteps (Fri Jan 01 2010 - 17:43:58 CST)
- Re: installation problem (Wed Dec 30 2009 - 13:18:54 CST)
- Re: Re: VMD CVS Request for Richard Cook (Wed Dec 30 2009 - 13:03:05 CST)
- Re: Problem when using VMD Python Library (Wed Dec 30 2009 - 12:46:36 CST)
- Re: IMD in VMD (Wed Dec 30 2009 - 12:39:10 CST)
- Re: IMD in VMD (Wed Dec 30 2009 - 12:55:28 CST)
- Re: installation problem (Wed Dec 30 2009 - 12:53:37 CST)
- Re: Problem generating psf file in psfgen (Sat Dec 19 2009 - 01:52:07 CST)
- Re: vmd won't display in lines (Fri Dec 18 2009 - 16:32:12 CST)
- Re: Re: VMD CVS Request for Richard Cook (Thu Dec 17 2009 - 19:52:56 CST)
- Re: Re: VMD CVS Request for Richard Cook (Thu Dec 17 2009 - 19:20:35 CST)
- Re: Re: VMD CVS Request for Richard Cook (Thu Dec 17 2009 - 19:05:29 CST)
- Re: Re: VMD CVS Request for Richard Cook (Thu Dec 17 2009 - 17:03:07 CST)
- Re: VMD plugin for abinit (Thu Dec 17 2009 - 13:38:12 CST)
- Re: Fwd: Fwd: Re: namd-l: Fwd: conf file for coarse grained simulation (Thu Dec 17 2009 - 13:33:34 CST)
- Re: Request for information (Thu Dec 17 2009 - 13:29:52 CST)
- Re: File owner/group settings after installing precompiled VMD. (Thu Dec 17 2009 - 00:24:11 CST)
- Re: Issues with flickering display using VMD 1.8.7 displaying over X11 to remote Mac (Wed Dec 16 2009 - 23:55:15 CST)
- Re: VMD on AIX --- successful build, failed execution (Wed Dec 16 2009 - 10:56:56 CST)
- Re: VMD plugin: filenames supposed to have dot in it?!?! (Wed Dec 16 2009 - 10:51:29 CST)
- Re: Graphical Representations doesn't recognize chain ID z (Wed Dec 16 2009 - 10:21:12 CST)
- Re: Issues with flickering display using VMD 1.8.7 displaying over X11 to remote Mac (Tue Dec 15 2009 - 15:20:01 CST)
- Re: error in rmsd.tcl for tutorial (Fri Dec 11 2009 - 16:12:22 CST)
- Re: Re: vmd 1.8.7 on Intel 64 bit: segmentation fault (Fri Dec 11 2009 - 14:34:23 CST)
- Re: error in rmsd.tcl for tutorial (Thu Dec 10 2009 - 10:28:16 CST)
- Re: Re: vmd 1.8.7 on Intel 64 bit: segmentation fault" (Thu Dec 10 2009 - 10:15:06 CST)
- Re: vmd-1.8.7 building from source ->few plugins "package could not be loaded" (Wed Dec 09 2009 - 13:57:18 CST)
- Re: A VMD script to emulate the Matlab "jet" colorscale (Wed Dec 09 2009 - 11:48:11 CST)
- Re: desmond plugin (Wed Dec 09 2009 - 09:11:33 CST)
- Re: RMSD for individual residue for a tetarmer (Wed Dec 09 2009 - 00:25:01 CST)
- A VMD script to emulate the Matlab "jet" colorscale (Tue Dec 08 2009 - 16:49:40 CST)
- Re: vmd-1.8.7 building from source ->few plugins "package could not be loaded" (Tue Dec 08 2009 - 14:44:06 CST)
- Re: Re: vmd 1.8.7 on Intel 64 bit: segmentation fault (Tue Dec 08 2009 - 12:34:57 CST)
- Re: Re: vmd 1.8.7 on Intel 64 bit: segmentation fault (however: 1.8.6 works!) (Tue Dec 08 2009 - 01:17:25 CST)
- Re: vmd 1.8.7 on Intel 64 bit: segmentation fault (Mon Dec 07 2009 - 21:45:44 CST)
- Re: vmd-1.8.7 building from source ->few plugins "package could not be loaded" (Mon Dec 07 2009 - 14:43:51 CST)
- Re: FW: VMD 1.8.7 build with VRPN 7.23 (Mon Dec 07 2009 - 14:42:26 CST)
- Re: desmond plugin (Fri Dec 04 2009 - 17:28:31 CST)
- Re: regarding generating movie (Fri Dec 04 2009 - 14:06:51 CST)
- Re: desmond plugin (Fri Dec 04 2009 - 13:54:38 CST)
- Re: desmond plugin (Fri Dec 04 2009 - 10:43:25 CST)
- Re: ccp4 in vmd (Wed Dec 02 2009 - 22:41:17 CST)
- Re: Drawing cylinder in VMD (Wed Dec 02 2009 - 20:36:13 CST)
- Re: Drawing cylinder in VMD (Wed Dec 02 2009 - 17:35:04 CST)
- Re: building VMD is tricky -please help (Wed Dec 02 2009 - 13:39:53 CST)
- Re: VMD 1.8.7 amd64 python libs? (Wed Dec 02 2009 - 11:48:41 CST)
- Re: VMD 1.8.7 amd64 python libs? (Wed Dec 02 2009 - 11:16:06 CST)
- Re: VMD 1.8.7 amd64 python libs? (Wed Dec 02 2009 - 10:29:56 CST)
- Re: building VMD is tricky -please help (Tue Dec 01 2009 - 19:51:37 CST)
- Re: building VMD is tricky -please help (Tue Dec 01 2009 - 15:27:37 CST)
- Re: building VMD is tricky -please help (Tue Dec 01 2009 - 14:03:53 CST)
- Re: Secondary structure with Timeline (Tue Dec 01 2009 - 10:53:00 CST)
- Re: generating .xsc file from .dcd (Tue Dec 01 2009 - 10:07:57 CST)
- Re: building VMD is tricky -please help (Tue Dec 01 2009 - 10:05:01 CST)
- Re: Polyhedra with two selections? (Mon Nov 30 2009 - 09:54:00 CST)
- Re: desmond plug-in error (Thu Nov 26 2009 - 14:16:26 CST)
- Re: GRID maps visualization problems (Wed Nov 25 2009 - 15:05:30 CST)
- Re: Move molecule to the origin of coordinate system (Wed Nov 25 2009 - 11:22:07 CST)
- Re: Using class UIVR (Tue Nov 24 2009 - 11:06:52 CST)
- Re: GRID maps visualization problems (Tue Nov 24 2009 - 09:12:30 CST)
- Re: VMD 1.8.7 amd64 python libs? (Mon Nov 23 2009 - 17:30:30 CST)
- Re: Using class UIVR (Mon Nov 23 2009 - 17:15:49 CST)
- Re: aquire coordinates from the points of the solvent representation (Sat Nov 21 2009 - 01:01:15 CST)
- Re: VMD video-projection in 3D (Mon Nov 16 2009 - 15:22:41 CST)
- Re: Multiseq question (Mon Nov 16 2009 - 15:28:45 CST)
- Re: (Fri Nov 13 2009 - 08:19:04 CST)
- Re: Fwd: version 1.8.7 for amd64 and cg tools (Thu Nov 12 2009 - 23:40:32 CST)
- Re: version 1.8.7 for amd64 and cg tools (Thu Nov 12 2009 - 23:20:18 CST)
- Re: problems displaying newcartoon representation (Thu Nov 12 2009 - 12:24:42 CST)
- Re: Stop using directory from previous session (Wed Nov 11 2009 - 12:38:08 CST)
- Re: vmd bug in ubuntu 9.10 (Wed Nov 11 2009 - 11:15:09 CST)
- Re: Stop using directory from previous session (Wed Nov 11 2009 - 11:13:36 CST)
- Re: bad_alloc error (Wed Nov 11 2009 - 10:12:12 CST)
- Re: bad_alloc error (Wed Nov 11 2009 - 09:20:20 CST)
- Re: Problem with exit button (Tue Nov 10 2009 - 18:41:04 CST)
- Re: Problem with exit button (Tue Nov 10 2009 - 16:33:36 CST)
- Re: rmsd calculation and plot (Tue Nov 10 2009 - 16:25:00 CST)
- Re: VMD autopsfgen and Mg2+ (Fri Nov 06 2009 - 09:55:29 CST)
- Re: Question about Keyboaerd events send from other PC (Thu Nov 05 2009 - 08:46:50 CST)
- Re: VMD autopsfgen and Mg2+ (Wed Nov 04 2009 - 09:49:17 CST)
- Re: radius of gyration units (Tue Nov 03 2009 - 16:32:20 CST)
- Re: Matrix: Warning: no convergence (0.00000000<390.26229858 after 1000 iterations). (Tue Nov 03 2009 - 16:18:43 CST)
- Re: radius of gyration units (Tue Nov 03 2009 - 16:13:10 CST)
- Re: running under Shell using VMD (Tue Nov 03 2009 - 09:11:05 CST)
- Re: Using Tcl functions in a C-plugin (Mon Nov 02 2009 - 14:08:27 CST)
- Re: dll by c++ cannot be recognized by VMD tk console ? (Mon Nov 02 2009 - 13:57:35 CST)
- Re: memory issues (Mon Nov 02 2009 - 13:50:12 CST)
- Re: movie rendering (Mon Nov 02 2009 - 13:54:09 CST)
- Re: Unable to find Stride output file: /usr/tmp/... (Tue Oct 27 2009 - 12:37:28 CDT)
- Re: lammpstrj file as pdb (Tue Oct 27 2009 - 12:06:56 CDT)
- Re: Unable to find Stride output file: /usr/tmp/... (Tue Oct 27 2009 - 12:56:51 CDT)
- Re: Unable to find Stride output file: /usr/tmp/... (Tue Oct 27 2009 - 12:45:16 CDT)
- Re: lammpstrj file as pdb (Tue Oct 27 2009 - 12:21:49 CDT)
- Re: Tachyon Rendering (Tue Oct 27 2009 - 12:05:06 CDT)
- Re: Loading trajectory into Multiseq (Mon Oct 26 2009 - 10:22:21 CDT)
- Re: MDFF sim Problem (Mon Oct 26 2009 - 10:04:16 CDT)
- Re: catdcd (Fri Oct 23 2009 - 13:44:52 CDT)
- Re: CatDCD Desmond Support (Fri Oct 23 2009 - 13:44:15 CDT)
- Re: Selections based on "bonded to" (Fri Oct 23 2009 - 13:39:08 CDT)
- Re: Selections based on "bonded to" (Fri Oct 23 2009 - 11:13:51 CDT)
- Re: Bugs ? Representation window does not update new material (Fri Oct 23 2009 - 11:06:20 CDT)
- Re: Reading output of quantum packages and plotting orbitals (Fri Oct 23 2009 - 09:49:38 CDT)
- Re: Bugs ? Representation window does not update new material (Fri Oct 23 2009 - 09:56:47 CDT)
- Re: Problem with vmd and ssh -X (Fri Oct 23 2009 - 09:52:29 CDT)
- Re: Arbitrary values of isosurface (Thu Oct 22 2009 - 17:10:14 CDT)
- Re: Problem with vmd and ssh -X (Thu Oct 22 2009 - 10:58:34 CDT)
- Re: Cuda an a cluster ? (Thu Oct 22 2009 - 11:04:45 CDT)
- Re: questions (Wed Oct 21 2009 - 16:50:06 CDT)
- Re: Translating an atom along a specific direction and saving the pdb files (Tue Oct 20 2009 - 09:39:48 CDT)
- Re: MDFF sim Problem (Mon Oct 19 2009 - 15:27:43 CDT)
- Re: mac tk widgets (Mon Oct 12 2009 - 15:55:19 CDT)
- Re: Problem using psfgen and carbohydrate charmm parameters. (Mon Oct 12 2009 - 15:50:56 CDT)
- Re: VMD 1.8.7 CUDA on Mac OS X 10.6.1 (Mon Oct 12 2009 - 15:36:23 CDT)
- Re: Install VMD binary with CUDA, CUDA card detected but then error "no CUDA-capable device is available"--Solved (Sun Oct 11 2009 - 22:43:17 CDT)
- Re: CatDCD Desmond Support (Wed Oct 07 2009 - 13:24:00 CDT)
- Re: text timer in vmd animations (Mon Oct 05 2009 - 22:22:10 CDT)
- Re: multiseq and fasta files from pdb (Mon Oct 05 2009 - 21:14:10 CDT)
- Re: Reading output of quantum packages and plotting orbitals (Mon Oct 05 2009 - 21:10:49 CDT)
- Re: RE: Problems with Stride (Mon Oct 05 2009 - 21:08:57 CDT)
- Re: Rx for VMD crashing PC? (Mon Oct 05 2009 - 20:46:10 CDT)
- Re: How to generate a monolayer in VMD (Mon Oct 05 2009 - 20:54:03 CDT)
- Re: Problems with Stride (Fri Oct 02 2009 - 16:22:26 CDT)
- Re: RE: Problems with Stride (Fri Oct 02 2009 - 16:24:48 CDT)
- Re: Rx for VMD crashing PC? (Fri Oct 02 2009 - 10:26:13 CDT)
- Re: Representation problem (Tue Sep 29 2009 - 17:38:21 CDT)
- Re: Representation problem (Mon Sep 28 2009 - 16:34:18 CDT)
- Re: model protein chain not displayed properly (Mon Sep 28 2009 - 15:08:22 CDT)
- Re: text timer in vmd animations (Mon Sep 28 2009 - 10:07:31 CDT)
- Re: Overlaying 2 structures (Fri Sep 25 2009 - 22:17:31 CDT)
- Re: Paratool: QMTool::bondlist error message (Fri Sep 25 2009 - 22:09:51 CDT)
- Re: "Lines" representation does not show (Fri Sep 25 2009 - 10:55:46 CDT)
- Re: ERROR) Error reading bond information. (Fri Sep 25 2009 - 11:03:47 CDT)
- Re: ERROR) Error reading bond information. (Fri Sep 25 2009 - 07:41:11 CDT)
- Re: Frame creation (Thu Sep 24 2009 - 10:02:58 CDT)
- Re: "Lines" representation does not show (Thu Sep 24 2009 - 09:08:57 CDT)
- Re: problem in reading .nc NETCDF FILE (Thu Sep 24 2009 - 08:18:59 CDT)
- Web-based Flash/Quicktime 3-D VMD/Tachyon renderings of PDB structures (Wed Sep 23 2009 - 15:45:30 CDT)
- Re: double bonds (Wed Sep 23 2009 - 13:17:09 CDT)
- Re: "Lines" representation does not show (Wed Sep 23 2009 - 11:03:05 CDT)
- [carlos.simmerling@gmail.com: ACS awards application announcements] (Mon Sep 21 2009 - 12:54:04 CDT)
- Re: Resize window from TCL (Mon Sep 21 2009 - 12:48:08 CDT)
- Re: Re: automated loading (Mon Sep 21 2009 - 11:17:21 CDT)
- Re: label options (Sun Sep 20 2009 - 15:35:25 CDT)
- Re: Install VMD binary with CUDA, CUDA card detected but then error "no CUDA-capable device is available" (Thu Sep 17 2009 - 21:34:36 CDT)
- Re: Reading new amber prmtop formats. (Thu Sep 17 2009 - 12:50:48 CDT)
- Re: Average structure and NamdEnergy (Thu Sep 17 2009 - 11:35:58 CDT)
- Re: Install VMD with plugins to NAMD (Wed Sep 16 2009 - 23:02:35 CDT)
- Re: Install VMD with plugins to NAMD (Wed Sep 16 2009 - 22:04:35 CDT)
- Re: DLP Stereo and VR toolkit integration with vmd (Wed Sep 16 2009 - 16:10:38 CDT)
- Re: Reading new amber prmtop formats. (Wed Sep 16 2009 - 16:08:07 CDT)
- Re: Reading new amber prmtop formats. (Wed Sep 16 2009 - 13:46:26 CDT)
- Re: PSF for AMBER top + crd files (Tue Sep 15 2009 - 16:56:34 CDT)
- Re: Segmentation fault on linux Fedora 11 (Mon Sep 14 2009 - 14:08:35 CDT)
- Re: VMD and NetCDF under Windows Vista 32bit (Mon Sep 14 2009 - 14:10:54 CDT)
- Re: VMD on Suse 11.1 w/ NVIDIA dies. (Thu Sep 10 2009 - 17:24:03 CDT)
- Re: Question about PSF generation (Thu Sep 10 2009 - 11:04:05 CDT)
- Re: How to select a hetatom while get rid of N-term ACE in atomselect (Thu Sep 10 2009 - 10:56:08 CDT)
- Re: (Thu Sep 10 2009 - 11:10:05 CDT)
- Re: (Wed Sep 09 2009 - 14:14:08 CDT)
- Re: (Wed Sep 09 2009 - 14:14:58 CDT)
- Re: catdcd in Windows (Wed Sep 09 2009 - 13:38:54 CDT)
- Re: "measure fit" problem (Wed Sep 09 2009 - 13:34:18 CDT)
- Re: VMD on Suse 11.1 w/ NVIDIA dies. (Tue Sep 08 2009 - 10:57:12 CDT)
- Re: VMD on MacOSX 10.6 Snow Leopard: fast (Mon Sep 07 2009 - 16:31:54 CDT)
- Re: Main menu not compiled? (Fri Sep 04 2009 - 09:27:33 CDT)
- Re: Bond representation of coarse grained molecules (Fri Sep 04 2009 - 09:49:26 CDT)
- Re: 3D pdf problem (Mon Aug 31 2009 - 14:50:33 CDT)
- Re: VMD, MultiSeq, STAMP (Mon Aug 31 2009 - 14:37:44 CDT)
- Re: 3D pdf problem (Mon Aug 31 2009 - 11:51:01 CDT)
- Re: superimpose two proteins with different residue numbers (Mon Aug 31 2009 - 11:34:03 CDT)
- Re: Bond in pbc condition (Fri Aug 28 2009 - 10:22:06 CDT)
- Re: viewing MOs (Fri Aug 28 2009 - 09:55:37 CDT)
- Re: drawing waterbox (Thu Aug 27 2009 - 10:29:08 CDT)
- Re: superimposing proteins with non-similar coordinates (Wed Aug 26 2009 - 16:31:46 CDT)
- Re: drawing waterbox (Wed Aug 26 2009 - 13:29:10 CDT)
- Re: using VMD 1.8.7 on a Mac (Tue Aug 25 2009 - 10:34:02 CDT)
- Re: using VMD 1.8.7 on a Mac (Mon Aug 24 2009 - 15:42:49 CDT)
- Re: using VMD 1.8.7 on a Mac (Sun Aug 23 2009 - 21:32:18 CDT)
- Re: VMD: 1.8.7 win32 opengl runtime error (Fri Aug 21 2009 - 21:58:25 CDT)
- Re: NAMD tutorial for Windows problem reading pgn file from vmd tkconsole (Fri Aug 21 2009 - 16:30:30 CDT)
- Re: VMD: 1.8.7 win32 opengl runtime error (Fri Aug 21 2009 - 09:56:33 CDT)
- Re: Rendering polyhedra with POV-Ray (Tue Aug 18 2009 - 10:59:37 CDT)
- Re: Rendering polyhedra with POV-Ray (Tue Aug 18 2009 - 10:23:05 CDT)
- Re: Antw: Re: CUDA Support (Tue Aug 18 2009 - 01:18:10 CDT)
- Re: Cionize on mac cuda (Mon Aug 17 2009 - 13:49:09 CDT)
- Re: can we control the number and distribution of solvate molecular (Wed Aug 12 2009 - 16:14:30 CDT)
- Re: positioning of a compound (Wed Aug 12 2009 - 14:59:04 CDT)
- Re: Turn off the autobond feature in VMD (Wed Aug 12 2009 - 09:58:01 CDT)
- Re: CUDA Support (Wed Aug 12 2009 - 07:55:30 CDT)
- Re: HRTEM (Fri Aug 07 2009 - 12:22:53 CDT)
- Re: How to compile the source of VMD1.8.7 on linux system (Fri Aug 07 2009 - 00:24:09 CDT)
- Re: Cionize on mac cuda (Thu Aug 06 2009 - 14:48:09 CDT)
- Re: clusters visualization with colours (Thu Aug 06 2009 - 11:11:17 CDT)
- Re: NEW New (Thu Aug 06 2009 - 10:31:36 CDT)
- Re: Cionize on mac cuda (Wed Aug 05 2009 - 20:43:04 CDT)
- Announce: VMD 1.8.7 released (Mon Aug 03 2009 - 14:21:59 CDT)
- Re: visualization problem (Fri Jul 31 2009 - 10:41:30 CDT)
- Re: File to benchmark a new GPU system (Mon Jul 27 2009 - 16:39:45 CDT)
- Re: TkConsole not working (Thu Jul 23 2009 - 14:52:24 CDT)
- Re: Problem: volumetric data coloring fails on AIX5_64 with GXT6500 OpenGL renderer (Thu Jul 23 2009 - 12:49:24 CDT)
- Re: need convert when using VMD to make a movie under Mac (Tue Jul 21 2009 - 01:13:44 CDT)
- Re: VMD on laptop with ATI Radeon 3650 (Mon Jul 20 2009 - 16:09:18 CDT)
- Re: Problem: volumetric data coloring fails on AIX5_64 with GXT6500 OpenGL renderer (Mon Jul 20 2009 - 11:43:38 CDT)
- Re: Problem: volumetric data coloring fails on AIX5_64 with GXT6500 OpenGL renderer (Mon Jul 20 2009 - 11:29:20 CDT)
- Re: algorithm for command *within* (Thu Jul 16 2009 - 11:32:50 CDT)
- Re: make movie w/ VMD in SUSE environment (Thu Jul 16 2009 - 11:27:08 CDT)
- Re: make movie w/ VMD in SUSE environment (Thu Jul 16 2009 - 11:00:29 CDT)
- Re: A problem on SASA measure (Wed Jul 15 2009 - 16:03:25 CDT)
- Re: .xst file disagrees with pbctools/.dcd file - what are the limitations of pbctools? (Wed Jul 15 2009 - 14:32:57 CDT)
- Re: Can I build a structure by VMD? (Wed Jul 15 2009 - 14:36:56 CDT)
- Re: VMD and X forwarding to MacOS 10.5.7 (Wed Jul 15 2009 - 13:48:13 CDT)
- Re: scan interleaved stereo on Zalman M220W monitor (Tue Jul 14 2009 - 13:25:50 CDT)
- Re: measure rmsf (Fri Jul 10 2009 - 13:31:54 CDT)
- Re: measure rmsf (Fri Jul 10 2009 - 10:42:33 CDT)
- Re: GPL compatible PluginMgr/vmddlopen (Mon Jul 06 2009 - 21:45:27 CDT)
- Re: Hardware for NAMD / VMD machine (Mon Jul 06 2009 - 11:04:30 CDT)
- Re: GPL compatible PluginMgr/vmddlopen (Sun Jul 05 2009 - 20:14:35 CDT)
- Re: selection update (Fri Jun 26 2009 - 14:26:51 CDT)
- Re: Rejecting plugin... (Fri Jun 26 2009 - 14:28:30 CDT)
- Re: Multimodel PDB files with Different Models? (Thu Jun 25 2009 - 13:11:30 CDT)
- Re: constant region selection for animation (Thu Jun 25 2009 - 10:03:21 CDT)
- Re: vmd 1.8.7 not spawn new console: feature,bug, or just different? (Thu Jun 25 2009 - 01:06:02 CDT)
- Re: Rejecting plugin... (Wed Jun 24 2009 - 22:31:15 CDT)
- Re: "no CUDA accelerator devices available", Nvidia GeForce 9600 GT card (Wed Jun 24 2009 - 22:17:52 CDT)
- Re: residue index problem (Wed Jun 24 2009 - 16:40:44 CDT)
- Re: trace the distance between center of mass of one certain residue and the other (Wed Jun 24 2009 - 15:34:05 CDT)
- Re: joystick, win32 simple interface (Wed Jun 24 2009 - 15:50:18 CDT)
- Re: vmd 1.8.7 not spawn new console: feature,bug, or just different? (Wed Jun 24 2009 - 15:24:32 CDT)
- Re: Rejecting plugin... (Wed Jun 24 2009 - 14:34:53 CDT)
- Re: Plugins: plz add one more conversion to unit_conversion.h (Mon Jun 22 2009 - 14:54:33 CDT)
- Re: VMD 1.8.7 beta5 probs with NVIDIA Quadro FX3450/4000 graphic card (Mon Jun 22 2009 - 09:29:11 CDT)
- Re: transformation matrix (Thu Jun 18 2009 - 15:39:12 CDT)
- Re: "Re: ABINIT plugin ready for testing: can read GEO and DEN files. (Thu Jun 18 2009 - 09:59:46 CDT)
- Re: Re: ABINIT plugin ready for testing: can read GEO and DEN files. (Wed Jun 17 2009 - 11:33:20 CDT)
- Re: Re: ABINIT plugin ready for testing: can read GEO and DEN files. (Tue Jun 16 2009 - 21:33:31 CDT)
- Re: movie maker (Tue Jun 16 2009 - 09:59:26 CDT)
- Re: Molscripts (Tue Jun 16 2009 - 09:23:24 CDT)
- Re: using atomselect to write a set of atoms and not some residue whose residue numbers are in a list (Mon Jun 15 2009 - 10:38:18 CDT)
- Re: ABINIT plugin ready for testing: can read GEO and DEN files. (Mon Jun 15 2009 - 09:52:21 CDT)
- Re: VMD and X forwarding to MacOS 10.5.7 (Fri Jun 12 2009 - 11:17:22 CDT)
- Re: Transparency settings (Fri Jun 12 2009 - 10:32:15 CDT)
- Re: VMD and X forwarding to MacOS 10.5.7 (Fri Jun 12 2009 - 10:36:49 CDT)
- Re: VMD and X forwarding to MacOS 10.5.7 (Fri Jun 12 2009 - 10:02:33 CDT)
- Re: vmd 1.8.7 - problems loading vmd state file (Fri Jun 12 2009 - 09:44:29 CDT)
- Re: vmd 1.8.7 - problems loading vmd state file (Thu Jun 11 2009 - 21:30:22 CDT)
- Re: vmd 1.8.7 - problems loading vmd state file (Thu Jun 11 2009 - 08:59:54 CDT)
- Re: FW: Unable to render electrostatic potential cube files with most non-HF densities (Thu Jun 11 2009 - 08:54:59 CDT)
- Re: namdplot 1.0 (Wed Jun 10 2009 - 23:03:34 CDT)
- Re: vmd 1.8.7 - problems loading vmd state file (Wed Jun 10 2009 - 11:47:28 CDT)
- Re: plugin: can I load volumetric data as frames (i.e. timesteps)? (Wed Jun 10 2009 - 11:12:17 CDT)
- Re: Transparency settings (Wed Jun 10 2009 - 10:57:58 CDT)
- Re: vmd cannot be launched after successful installation (Wed Jun 10 2009 - 11:02:58 CDT)
- Re: NewCartoon not among Drawing methods (Wed Jun 10 2009 - 10:44:13 CDT)
- Re: NewCartoon not among Drawing methods (Wed Jun 10 2009 - 09:49:59 CDT)
- Re: plugin: can I load volumetric data as frames (i.e. timesteps)? (Wed Jun 10 2009 - 09:43:20 CDT)
- Re: NewCartoon not among Drawing methods (Wed Jun 10 2009 - 10:06:53 CDT)
- Re: NAMDEnergy (Wed Jun 10 2009 - 09:47:29 CDT)
- Re: plugin: can I load volumetric data as frames (i.e. timesteps)? (Wed Jun 10 2009 - 07:24:05 CDT)
- Re: bonds not created as desired (Tue Jun 09 2009 - 14:55:44 CDT)
- Re: vmd 1.8.7 - problems loading vmd state file (Tue Jun 09 2009 - 11:26:01 CDT)
- Re: vmd 1.8.7 - problems loading vmd state file (Tue Jun 09 2009 - 09:48:41 CDT)
- Re: Re: crystal eyes vmd (Tue Jun 09 2009 - 09:47:17 CDT)
- Re: MSMS installation (Mon Jun 08 2009 - 16:09:42 CDT)
- Re: vmd 1.8.7 - problems loading vmd state file (Mon Jun 08 2009 - 16:15:15 CDT)
- Re: Re: crystal eyes vmd (Mon Jun 08 2009 - 09:40:36 CDT)
- Re: Re: crystal eyes vmd (Mon Jun 08 2009 - 08:43:56 CDT)
- Re: Re: crystal eyes vmd (Mon Jun 08 2009 - 09:00:54 CDT)
- Re: vmd 1.8.7 - problems loading vmd state file (Fri Jun 05 2009 - 11:04:08 CDT)
- Re: Energy (Wed Jun 03 2009 - 22:04:04 CDT)
- Re: vmd 1.8.7 - problems loading vmd state file (Wed Jun 03 2009 - 14:05:48 CDT)
- Re: vmd 1.8.7 - problems loading vmd state file (Tue Jun 02 2009 - 14:01:12 CDT)
- Re: vmd 1.8.7 - problems loading vmd state file (Tue Jun 02 2009 - 11:15:39 CDT)
- Re: Accelerating your VMD 1.8.7 calculations with an NVIDIA Tesla GPU (Tue Jun 02 2009 - 10:25:36 CDT)
- Re: vmd 1.8.7 - problems loading vmd state file (Tue Jun 02 2009 - 10:39:18 CDT)
- Re: VMD HOLE Result (Tue Jun 02 2009 - 09:53:26 CDT)
- Re: APBS error : Cannot read output file (Tue Jun 02 2009 - 09:55:51 CDT)
- VMD 1.8.7 beta 5 posted for download (Mon Jun 01 2009 - 16:11:31 CDT)
- Re: Linking to molfile_plugin libraries (Fri May 29 2009 - 13:24:30 CDT)
- Re: Linking to molfile_plugin libraries (Fri May 29 2009 - 13:07:26 CDT)
- Re: Macbook and VMD Tk windows (Fri May 29 2009 - 09:17:20 CDT)
- Re: VMD crash (Thu May 28 2009 - 19:32:44 CDT)
- Re: statistics in VMD (Thu May 28 2009 - 19:25:09 CDT)
- Re: VMD crash (Thu May 28 2009 - 15:13:22 CDT)
- Re: main window missing? (Wed May 27 2009 - 16:00:55 CDT)
- Re: main window missing? (Wed May 27 2009 - 15:30:21 CDT)
- Re: problem with dispdev (Wed May 27 2009 - 16:02:38 CDT)
- Need testers for VMD/Tachyon volumetric coloring feature :-) (Wed May 27 2009 - 14:37:59 CDT)
- Re: default colors (Tue May 26 2009 - 17:03:39 CDT)
- Re: Offset for frame ids in dcd trajectory (Tue May 26 2009 - 15:32:40 CDT)
- Re: new problem (Tue May 26 2009 - 11:05:07 CDT)
- Re: Isosurface and Fieldlines Not rendered in colour (Tue May 26 2009 - 02:42:15 CDT)
- Re: Operations with MD frames - acquiring time infromation (Mon May 25 2009 - 23:44:49 CDT)
- Re: Plugin: molfile_plugin_t filename_extension; problem and bug... (Mon May 25 2009 - 23:28:34 CDT)
- Re: VMD crashes in VolumeSlice representation (Mon May 25 2009 - 23:20:24 CDT)
- Re: "Determine file type" list is far too long... (Mon May 25 2009 - 23:09:16 CDT)
- Re: RMSF (Fri May 22 2009 - 10:57:39 CDT)
- Re: default colors (Wed May 20 2009 - 21:11:25 CDT)
- Re: New vmd Windows version crash (Wed May 20 2009 - 20:57:19 CDT)
- Re: VMD 1.8.7b3 and desktop effects on Fedora 10 (Wed May 20 2009 - 20:54:32 CDT)
- Re: Why is the 'antialias' option is grey? (Wed May 20 2009 - 06:58:21 CDT)
- Re: New vmd Windows version crash (Wed May 20 2009 - 06:55:12 CDT)
- Re: New vmd Windows version crash (Wed May 20 2009 - 06:59:46 CDT)
- Re: New vmd Windows version crash (Tue May 19 2009 - 21:08:44 CDT)
- Re: New vmd Windows version crash (Tue May 19 2009 - 21:02:57 CDT)
- Re: Align mistake (Tue May 19 2009 - 20:32:52 CDT)
- Re: NVidia GeForce 3D Vision (Tue May 19 2009 - 20:28:10 CDT)
- VMD 1.8.7 beta 3 posted for download... (Mon May 18 2009 - 15:24:21 CDT)
- Re: Outline rendering style with Tachyon (Mon May 18 2009 - 14:47:33 CDT)
- Re: resolved [Re: vmd / python / f10] (Mon May 18 2009 - 00:15:06 CDT)
- Re: vmd / python / f10 (Sun May 17 2009 - 12:20:39 CDT)
- Re: vmd / python / f10 (Sat May 16 2009 - 18:57:24 CDT)
- Re: adding bonds with the mouse and writing psf (Thu May 14 2009 - 20:59:20 CDT)
- Re: a small bug in solvate 1.3 (Thu May 14 2009 - 20:45:17 CDT)
- Re: Color problem. (Wed May 13 2009 - 16:17:12 CDT)
- Re: Can bonds radius be controlled by tcl command? (Wed May 13 2009 - 16:19:16 CDT)
- VMD 1.8.7 beta 2 posted for download (Wed May 13 2009 - 14:09:40 CDT)
- Re: vdna 2.0 for VMD (Tue May 12 2009 - 16:04:44 CDT)
- Re: volmap question (Fri May 08 2009 - 09:49:33 CDT)
- Re: BMP snapshot (Thu May 07 2009 - 14:24:57 CDT)
- Re: Display not updated when using move() from Python in VMD 1.8.6 (Thu May 07 2009 - 10:19:09 CDT)
- Re: Satellite tobacco mosaic virus images making by VMD (Tue May 05 2009 - 10:28:42 CDT)
- Re: Selection "@myselection" (Tue May 05 2009 - 10:17:57 CDT)
- Re: VMD 1.8.7beta1 doesn't close OpenGL window (Tue May 05 2009 - 09:27:10 CDT)
- Re: Satellite tobacco mosaic virus images making by VMD (Tue May 05 2009 - 09:24:32 CDT)
- Re: Solvation energies using implicit ligand sampling (Mon May 04 2009 - 13:49:44 CDT)
- Re: VMD on Cray/CNL (Fri May 01 2009 - 10:36:23 CDT)
- Re: VMD on Cray/CNL (Fri May 01 2009 - 01:20:53 CDT)
- Re: VMD 1.8.7 beta 1 posted for download... (Wed Apr 29 2009 - 22:38:21 CDT)
- Re: Size of a protein (Wed Apr 29 2009 - 16:15:05 CDT)
- VMD 1.8.7 beta 1 posted for download... (Wed Apr 29 2009 - 15:06:27 CDT)
- Re: Installation issue (Tue Apr 28 2009 - 09:29:20 CDT)
- Re: RMSD of a protein shell, from the NAMD traj (Sun Apr 26 2009 - 23:59:51 CDT)
- Re: iTrajComp plugin. (Sun Apr 26 2009 - 23:09:29 CDT)
- Re: Using clustering tool (Sun Apr 26 2009 - 23:10:24 CDT)
- Re: Error processing bonds (Fri Apr 24 2009 - 08:03:21 CDT)
- Re: Select atoms using coordinates (Wed Apr 22 2009 - 14:03:32 CDT)
- Re: animate read and write (Wed Apr 22 2009 - 15:42:24 CDT)
- Re: Solvent Accessible Surface Area (Wed Apr 22 2009 - 14:14:01 CDT)
- Re: setbonds (Tue Apr 21 2009 - 23:44:35 CDT)
- Re: Spaceball and OSX (Tue Apr 21 2009 - 13:49:36 CDT)
- Re: Spaceball and OSX (Tue Apr 21 2009 - 12:34:34 CDT)
- Re: Secondary Structure Depiction (Tue Apr 21 2009 - 10:51:48 CDT)
- Re: Possible bug in vmd 1.8.7 alpha? (Sat Apr 18 2009 - 17:02:20 CDT)
- Re: VRPN & PHANToM Omni (Wed Apr 15 2009 - 13:59:42 CDT)
- Re: Multiseq error (Wed Apr 15 2009 - 13:57:57 CDT)
- Re: within, used with pbcwrap (Sat Apr 11 2009 - 09:36:08 CDT)
- Re: Re: Rendering electrostatic surface potentials using Tachyon (Fri Apr 10 2009 - 10:22:45 CDT)
- Re: within, used with pbcwrap (Fri Apr 10 2009 - 09:14:00 CDT)
- Re: Any Mac (Intel) users still running 10.4.x??? (Mon Apr 06 2009 - 11:34:31 CDT)
- Any Mac (Intel) users still running 10.4.x??? (Sun Apr 05 2009 - 10:13:08 CDT)
- Re: OS X intel binary problem (Sun Apr 05 2009 - 09:48:59 CDT)
- Re: questions about the electron density map (Fri Apr 03 2009 - 08:00:39 CDT)
- Re: Synchronization of statements in tcl script (Wed Apr 01 2009 - 00:31:01 CDT)
- Re: vmd cvs compilation with CUDA fails (Tue Mar 31 2009 - 14:26:31 CDT)
- Re: cvs plugins do not compile because of errors in the sgsmooth.C (Tue Mar 31 2009 - 13:34:05 CDT)
- Re: openGL library (Tue Mar 31 2009 - 12:21:00 CDT)
- Re: openGL library (Tue Mar 31 2009 - 11:38:28 CDT)
- Re: Synchronization of statements in tcl script (Sat Mar 28 2009 - 14:41:52 CDT)
- Re: openGL library (Fri Mar 27 2009 - 07:53:34 CDT)
- Re: openGL library (Thu Mar 26 2009 - 21:38:22 CDT)
- Re: how to block psfgen warning messages (Wed Mar 25 2009 - 23:34:08 CDT)
- Re: External renderer not rendering colors from volumetric data (Wed Mar 25 2009 - 09:38:18 CDT)
- Re: near clip (Fri Mar 20 2009 - 14:53:20 CDT)
- Re: near clip (Fri Mar 20 2009 - 11:52:39 CDT)
- VMD 1.8.7 alpha 62 posted for all mainstream platforms... (Fri Mar 20 2009 - 03:30:48 CDT)
- Re: building VMD on LINUX (Tue Mar 17 2009 - 10:03:16 CDT)
- Re: Posting messages to VMD-L truncates the empty spaces in lines (Mon Mar 16 2009 - 20:41:58 CDT)
- Re: Re: superimpose two proteins (Mon Mar 16 2009 - 19:15:00 CDT)
- Re: Posting messages to VMD-L truncates the empty spaces in lines (Mon Mar 16 2009 - 17:49:34 CDT)
- Re: Problem with the script mono2poly.tcl (Sun Mar 15 2009 - 14:22:19 CDT)
- Re: rlwrap bug in Ubuntu (Sun Mar 15 2009 - 14:20:26 CDT)
- Re: rlwrap bug in Ubuntu (Sun Mar 15 2009 - 09:32:06 CDT)
- Re: Problem with the script mono2poly.tcl (Fri Mar 13 2009 - 12:36:37 CDT)
- Re: regarding draw_arrow.tcl (Fri Mar 13 2009 - 10:14:21 CDT)
- Re: Display issue on VMD for Linux (Thu Mar 12 2009 - 17:02:21 CDT)
- Re: color update for xyz trajectory (Thu Mar 12 2009 - 14:57:03 CDT)
- Re: question of iso-surface in VMD graphical representations (Thu Mar 12 2009 - 13:17:23 CDT)
- Re: charmm binary ele. pot. (Wed Mar 11 2009 - 14:45:06 CDT)
- Re: charmm binary ele. pot. (Wed Mar 11 2009 - 13:55:37 CDT)
- Re: obj export (Wed Mar 11 2009 - 11:15:23 CDT)
- Re: regarding draw_arrow.tcl (Wed Mar 11 2009 - 10:36:05 CDT)
- Re: obj export (Wed Mar 11 2009 - 10:15:18 CDT)
- Re: vmd crashes (Tue Mar 10 2009 - 21:58:40 CDT)
- Re: obj export (Tue Mar 10 2009 - 21:56:21 CDT)
- Re: obj export (Tue Mar 10 2009 - 12:01:10 CDT)
- Re: charmm binary ele. pot. (Mon Mar 09 2009 - 09:45:56 CDT)
- Re: the scripting interface (Mon Mar 09 2009 - 09:43:16 CDT)
- Re: vmd crashes (Mon Mar 09 2009 - 09:36:56 CDT)
- Re: problem while integrating bigdcd into a namespace (Thu Mar 05 2009 - 22:36:23 CST)
- Re: Hydrophobicity Scale (Thu Mar 05 2009 - 19:17:49 CST)
- Re: Problem in IMD with Compiled VMD (Wed Mar 04 2009 - 08:34:37 CST)
- Re: images for publication (Wed Mar 04 2009 - 00:11:11 CST)
- Re: images for publication (Tue Mar 03 2009 - 23:49:42 CST)
- Re: volmap masks (Tue Mar 03 2009 - 22:19:47 CST)
- Re: How to convert DCD file into Amber trajectory file in vmd (Tue Mar 03 2009 - 18:35:31 CST)
- Re: (Tue Mar 03 2009 - 15:42:19 CST)
- Re: (Tue Mar 03 2009 - 14:58:22 CST)
- Re: Outline rendering style with Tachyon (Tue Mar 03 2009 - 14:48:32 CST)
- Re: images for publication (Tue Mar 03 2009 - 14:51:18 CST)
- Re: displaying residues within 5 A of ligand in vmd (Tue Mar 03 2009 - 10:25:12 CST)
- Re: wrong bonds during loading pdb file(protein plus lipids) (Mon Mar 02 2009 - 11:15:27 CST)
- Re: (Fri Feb 27 2009 - 18:03:40 CST)
- Re: vmd error related to opengl (Fri Feb 27 2009 - 18:15:37 CST)
- Re: wrong bonds during loading pdb file(protein plus lipids) (Fri Feb 27 2009 - 16:23:19 CST)
- Re: draw command with different material (Thu Feb 26 2009 - 23:46:09 CST)
- Re: Does command "animate delete all" free memory? (Thu Feb 26 2009 - 16:48:58 CST)
- Re: Does command "animate delete all" free memory? (Thu Feb 26 2009 - 15:16:44 CST)
- Re: Displaying local water molecules throughout trajectory (Thu Feb 26 2009 - 14:53:56 CST)
- Re: Weighted RMS fit bug (Thu Feb 26 2009 - 14:25:06 CST)
- Re: to get angle from matrix of rotation around an axis (Wed Feb 25 2009 - 15:37:47 CST)
- Re: Test (Tue Feb 24 2009 - 08:59:26 CST)
- Re: vmd intel compiler prebuild for 64 bit (Tue Feb 24 2009 - 00:54:55 CST)
- Re: Membrane builder ?'s (Tue Feb 24 2009 - 00:06:40 CST)
- Re: Is there a way to add custormized representation method to VMD (Mon Feb 23 2009 - 15:04:06 CST)
- Re: transparent background (Mon Feb 23 2009 - 15:01:32 CST)
- Re: multiple colors for a single atom (Mon Feb 23 2009 - 09:06:43 CST)
- Re: VMD exits immediately after starting on Windows xp (Sun Feb 22 2009 - 17:44:19 CST)
- Re: transparent background (Fri Feb 20 2009 - 18:14:32 CST)
- Re: creating videos where the representation changes throughout (Thu Feb 19 2009 - 23:45:17 CST)
- Re: Unrecognized Chains in VMD for tetrameric protein (Thu Feb 19 2009 - 18:57:54 CST)
- Re: error messages "*** glibc detected *** free(): invalid pointer" (Wed Feb 18 2009 - 17:43:14 CST)
- Re: error messages "*** glibc detected *** free(): invalid pointer" (Wed Feb 18 2009 - 09:44:02 CST)
- Re: making .psf file based on .gro or .pdb (Tue Feb 17 2009 - 19:04:22 CST)
- Re: vmd with cuda1.0 (Mon Feb 16 2009 - 22:23:18 CST)
- Re: vmd with cuda1.0 (Mon Feb 16 2009 - 21:56:04 CST)
- Re: error messages "*** glibc detected *** free(): invalid pointer" (Mon Feb 16 2009 - 13:14:31 CST)
- Re: error messages "*** glibc detected *** free(): invalid pointer" (Mon Feb 16 2009 - 11:43:44 CST)
- Re: error messages "*** glibc detected *** free(): invalid pointer" (Mon Feb 16 2009 - 11:54:45 CST)
- Re: Cannot read MSMS facet file (Mon Feb 16 2009 - 00:27:26 CST)
- Re: about measuring volume of the binding site (Sun Feb 15 2009 - 12:59:15 CST)
- Re: The display windows is out of my screen (Sun Feb 15 2009 - 12:57:36 CST)
- Re: installation (Sun Feb 15 2009 - 12:54:29 CST)
- No 'xterm' needed for next VMD... Was Re: installation (Sat Feb 14 2009 - 19:37:26 CST)
- Re: installation (Sat Feb 14 2009 - 19:34:29 CST)
- Re: installation (Sat Feb 14 2009 - 14:32:53 CST)
- Re: Problem when labeling atoms on machine with intel X4500HD integreted graphic card (Thu Feb 12 2009 - 15:46:21 CST)
- Re: installation (Thu Feb 12 2009 - 13:40:02 CST)
- Re: Load multiple files (Thu Feb 12 2009 - 08:36:11 CST)
- Re: Flow Fields (Tue Feb 10 2009 - 16:28:08 CST)
- Re: problem with "measure fit " (Mon Feb 09 2009 - 16:41:32 CST)
- Re: Equivalent Mouse Capabilities to Tracker CAVELib (Mon Feb 09 2009 - 15:24:34 CST)
- Re: concatenate protein and 2 ligand files (Mon Feb 09 2009 - 15:17:44 CST)
- Re: Atomselect in NAMD GUI (Mon Feb 09 2009 - 00:06:46 CST)
- Re: VMD and IED on Windows XP (Fri Feb 06 2009 - 12:36:04 CST)
- Re: Render alpha-carbon trace as cartoon (Fri Feb 06 2009 - 12:23:33 CST)
- Re: "Sorry, this version VMD was compiled with Python support disabled" (Wed Feb 04 2009 - 16:31:09 CST)
- Re: rmsd matrix (Tue Feb 03 2009 - 10:08:00 CST)
- Re: add a new representation style to VMD (Tue Feb 03 2009 - 09:02:27 CST)
- Re: Link between the electrostatic potential on the surface and the grid.dx generated by APBS (Mon Feb 02 2009 - 10:41:09 CST)
- Re: turn off the 'are you sure you want to quit' sound (Fri Jan 30 2009 - 16:01:04 CST)
- Re: How to install the inorganicbuilder on Windows vista (Fri Jan 30 2009 - 08:28:04 CST)
- Re: how to set color parameters differently for different molecules (Thu Jan 29 2009 - 15:41:18 CST)
- Re: Unable to run VMD in graphical mode/ ubuntu 8.10 / Open GL problem (Wed Jan 28 2009 - 09:25:52 CST)
- Re: [patch] potential CUDA acceleration - load-balancing on different CUDA devices (Wed Jan 28 2009 - 08:21:58 CST)
- Re: trans routine (Tue Jan 27 2009 - 22:29:29 CST)
- Re: VMD window transparent in Opensuse 11.1 ATI system (Tue Jan 27 2009 - 11:56:00 CST)
- Re: get a PDB file from DCD file (Tue Jan 27 2009 - 08:44:32 CST)
- Re: (Resend) Re: Breaking Bonds in VMD (Mon Jan 26 2009 - 15:55:29 CST)
- Note to VMD-L about posting attachments etc... (Mon Jan 26 2009 - 15:58:53 CST)
- Re: accessing bonds angles dihedrals etc lists after PSF file is read into VMD (Mon Jan 26 2009 - 15:42:17 CST)
- Re: accessing bonds angles dihedrals etc lists after PSF file is read into VMD (Thu Jan 22 2009 - 11:33:21 CST)
- Re: Breaking Bonds in VMD (Tue Jan 20 2009 - 17:26:01 CST)
- Re: VMD window transparent in Opensuse 11.1 ATI system (Tue Jan 20 2009 - 15:15:14 CST)
- Re: VMD window transparent in Opensuse 11.1 ATI system (Tue Jan 20 2009 - 10:36:12 CST)
- Re: Breaking Bonds in VMD (Tue Jan 20 2009 - 10:47:17 CST)
- Re: VMD plugin for Desmond (Tue Jan 20 2009 - 09:34:49 CST)
- Re: Problems with tcl/tk 8.5 (Tue Jan 20 2009 - 08:51:08 CST)
- Re: VMD plugin for Desmond (Tue Jan 20 2009 - 08:42:20 CST)
- Re: VMD Installation problem on Ubuntu 8.10 (Tue Jan 20 2009 - 08:46:05 CST)
- Re: VMD window transparent in Opensuse 11.1 ATI system (Tue Jan 20 2009 - 08:44:57 CST)
- Test builds of VMD 1.8.7 using Tcl/Tk 8.5.x... (Fri Jan 16 2009 - 15:34:21 CST)
- Re: ANGLES and DIHEDRALS ... location in VMD code? (Fri Jan 16 2009 - 09:31:01 CST)
- Re: Data fields in vmd (Thu Jan 15 2009 - 11:38:22 CST)
- Re: Data fields in vmd (Thu Jan 15 2009 - 10:34:56 CST)
- Re: loosing color when rendering molecular surface in VMD (Wed Jan 14 2009 - 20:50:03 CST)
- Re: VMD Animation example doesn't work... (Tue Jan 13 2009 - 16:35:01 CST)
- Re: VMD, VRPN, Phantom Desktop (Tue Jan 13 2009 - 16:36:20 CST)
- Re: which model in pdb vill VMD present? (Tue Jan 13 2009 - 14:03:58 CST)
- Re: a problem on Red Hat Enterprise Linux 5 (Mon Jan 05 2009 - 16:13:40 CST)
- Re: measure the distance between center of molecules (Tue Dec 23 2008 - 11:12:38 CST)
- Re: How to get all the angle combinations? (Mon Dec 22 2008 - 10:37:35 CST)
- Re: haptics device "novint falcon" (Mon Dec 15 2008 - 09:26:40 CST)
- Re: vmd on fedora (Tue Dec 09 2008 - 10:34:33 CST)
- Re: vmd on fedora (Mon Dec 08 2008 - 20:34:48 CST)
- Re: How to get number of electrons of an atom in VMD? (Mon Dec 08 2008 - 15:35:39 CST)
- Re: memory leak found (Tue Dec 02 2008 - 09:14:22 CST)
- Re: Other color scales than the predefined ones? (Thu Nov 27 2008 - 09:36:40 CST)
- Re: Desmond trajectory conversion to dcd format (Wed Nov 26 2008 - 16:52:42 CST)
- Re: bug in comments interpretation of vmd (Wed Nov 26 2008 - 11:13:49 CST)
- Re: 3D Graphics (Wed Nov 26 2008 - 11:16:18 CST)
- Re: unloading volumetric data (Mon Nov 24 2008 - 10:32:14 CST)
- Re: General question about the memory usage of VMD (Mon Nov 24 2008 - 11:00:33 CST)
- Re: [patch] Autodetection of formats supported by openbabel (Mon Nov 24 2008 - 10:22:47 CST)
- Re: IED analysis (Mon Nov 24 2008 - 10:34:42 CST)
- Re: 3D Graphics (Mon Nov 24 2008 - 10:40:21 CST)
- Re: use configure.options (Mon Nov 17 2008 - 21:06:12 CST)
- Re: use configure.options (Mon Nov 17 2008 - 20:28:36 CST)
- Re: wavefront and VMD (Fri Nov 14 2008 - 15:46:51 CST)
- Re: How to set the default properties of drawing methods? (Thu Nov 13 2008 - 08:45:40 CST)
- Re: VMD crashes on displaying NewRibbons or New Cartoon (Thu Nov 13 2008 - 08:26:20 CST)
- Re: load MSMS files into vmd (Wed Nov 12 2008 - 13:51:23 CST)
- Re: load MSMS files into vmd (Wed Nov 12 2008 - 09:57:39 CST)
- Re: VMD crashes on displaying NewRibbons or New Cartoon (Wed Nov 12 2008 - 09:35:13 CST)
- Re: OpenGL Display (Tue Nov 11 2008 - 08:05:17 CST)
- Re: Per-frame 'graphics'? (Sat Nov 01 2008 - 10:12:56 CDT)
- Re: problems with manipulating control switches on VMS main menu (Thu Oct 30 2008 - 02:13:11 CDT)
- Re: isosurface question (Wed Oct 29 2008 - 04:47:48 CDT)
- Re: Warning: no convergence in alignment (Mon Oct 27 2008 - 16:35:37 CDT)
- Out of town until November 1 (Thu Oct 16 2008 - 15:53:42 CDT)
- Re: Error in "measure fit" (Thu Oct 16 2008 - 15:43:17 CDT)
- Re: velocity calculations (Wed Oct 15 2008 - 15:58:49 CDT)
- Re: velocity calculations (Wed Oct 15 2008 - 12:39:12 CDT)
- Re: velocity calculations (Wed Oct 15 2008 - 11:11:02 CDT)
- Re: intersurf in vmd (Tue Oct 14 2008 - 16:44:01 CDT)
- Re: why atomselection "protein" can not choose all the protein atoms with different alternate locations? (Tue Oct 14 2008 - 11:43:43 CDT)
- Re: How to visualize only parts of a molecular surface (Wed Oct 08 2008 - 13:51:19 CDT)
- Re: periodic box image in tcl script (Tue Oct 07 2008 - 13:22:02 CDT)
- Re: Fullscreen mode in VMD (Tue Oct 07 2008 - 12:53:07 CDT)
- Re: Pairwise RMSD (Tue Oct 07 2008 - 13:20:12 CDT)
- Re: Problems after installation (ubuntu 8.04) (Tue Oct 07 2008 - 12:05:17 CDT)
- Re: Problems after installation (ubuntu 8.04) (Tue Oct 07 2008 - 11:46:41 CDT)
- Re: Vmd on MACOSX awkward msg at startup and error when running Ubq simulation (Mon Oct 06 2008 - 15:57:08 CDT)
- Re: VMD 1.8.6 for UBUNTU 8.04LTS (Fri Oct 03 2008 - 14:15:18 CDT)
- Re: TAB key in vmd terminal (Fri Oct 03 2008 - 11:16:26 CDT)
- Re: Problems after installation (ubuntu 8.04) (Fri Oct 03 2008 - 09:49:22 CDT)
- Re: suggested graphic card for Mac Pro (Thu Oct 02 2008 - 12:22:39 CDT)
- Re: volumetric maps (Thu Oct 02 2008 - 12:05:19 CDT)
- Re: Re: Does VMD support cfg file format? (Wed Oct 01 2008 - 12:57:19 CDT)
- Re: Does VMD support cfg file format? (Wed Oct 01 2008 - 11:03:05 CDT)
- Re: electrostatic potential (Mon Sep 29 2008 - 16:57:39 CDT)
- Re: question about sscache (Mon Sep 29 2008 - 10:03:46 CDT)
- Re: Help, my molecule is being destroyed (Wed Sep 24 2008 - 15:46:14 CDT)
- Re: electrostatic potential (Wed Sep 24 2008 - 10:50:29 CDT)
- Re: solvate a molecule (Mon Sep 22 2008 - 23:59:54 CDT)
- Re: trouble with running vmd after installation , machine gets hung (Sun Sep 21 2008 - 02:36:43 CDT)
- Re: solvate a molecule (Sat Sep 20 2008 - 02:12:59 CDT)
- Re: Restarting a simulation $ Langevin (Sat Sep 20 2008 - 02:20:34 CDT)
- Re: Projection of a vector on to another. (Sat Sep 20 2008 - 02:11:41 CDT)
- Re: rotation around phi/psi (Sat Sep 20 2008 - 02:05:49 CDT)
- Re: electrostatic potential (Sat Sep 20 2008 - 02:19:15 CDT)
- Re: difficulty in installing VMD on linux. (Fri Sep 19 2008 - 15:11:32 CDT)
- Re: counting gas molecules inside the nanotube (Thu Sep 18 2008 - 12:29:34 CDT)
- Re: counting gas molecules inside the nanotube (Thu Sep 18 2008 - 11:18:43 CDT)
- Re: Trouble installing VMD on LINUX machine (Thu Sep 18 2008 - 11:06:45 CDT)
- Re: regarding rotating dihedral (Wed Sep 17 2008 - 21:58:14 CDT)
- Re: Interface Propensity (Wed Sep 17 2008 - 21:53:13 CDT)
- Re: apbs electrostatics (Wed Sep 17 2008 - 21:42:28 CDT)
- Re: solvation (Wed Sep 17 2008 - 21:46:39 CDT)
- Re: simulation image question (Wed Sep 17 2008 - 12:57:37 CDT)
- Re: problem downloading VMD 1.8.6 source code (Wed Sep 17 2008 - 10:40:41 CDT)
- Re: Tachyon render and Tcl scripting (Tue Sep 16 2008 - 14:00:06 CDT)
- Re: parallel VMD (Tue Sep 16 2008 - 13:35:03 CDT)
- Re: electrostatic potential (Tue Sep 16 2008 - 11:01:18 CDT)
- Re: Installing VMD on Fedora (Tue Sep 16 2008 - 10:58:40 CDT)
- Re: extract centers et radii of beads model (Mon Sep 15 2008 - 16:11:20 CDT)
- Fwd: ACS awards (Mon Sep 15 2008 - 12:53:34 CDT)
- Re: problems with VMD under linux/64-bit machine (Fri Sep 12 2008 - 16:03:48 CDT)
- Re: Rendering problem (Fri Sep 12 2008 - 11:27:01 CDT)
- Re: Volume slice-I: slice color (Thu Sep 11 2008 - 11:06:03 CDT)
- Re: Volume slice: slice color (Wed Sep 10 2008 - 14:07:04 CDT)
- Re: Extensions menu is blank (Tue Sep 09 2008 - 10:52:00 CDT)
- Re: How to generate more segments? (Tue Sep 09 2008 - 01:46:41 CDT)
- Re: solvating a water molecule (Tue Sep 09 2008 - 01:48:46 CDT)
- Re: solvating a water molecule (Mon Sep 08 2008 - 11:41:45 CDT)
- Re: feedback on pc-over-ip technology? (Mon Sep 08 2008 - 11:07:09 CDT)
- Re: Concerning protein rotation (Mon Sep 08 2008 - 11:25:47 CDT)
- Re: Superimposition: atomselect for reverse topology (Mon Sep 08 2008 - 11:16:37 CDT)
- Re: Protein coordinate rotation (Fri Sep 05 2008 - 13:07:55 CDT)
- Re: Re: CONECT Records in .pdb file - bonds not getting plotted (Wed Sep 03 2008 - 14:01:23 CDT)
- Re: solvating a water molecule (Tue Sep 02 2008 - 16:16:49 CDT)
- Re: Is position dependent color possible? (Tue Sep 02 2008 - 12:28:06 CDT)
- Re: Py_atomsel.C: invalid conversion (Fri Aug 29 2008 - 13:05:06 CDT)
- Re: HOLE PROGRAM (Fri Aug 29 2008 - 02:08:14 CDT)
- Re: catDCD (Fri Aug 29 2008 - 01:45:45 CDT)
- Re: catDCD (Wed Aug 27 2008 - 11:58:58 CDT)
- Re: segfault using VMD 1.8.6 32-bit Linux and chromium 1.9 (Mon Aug 25 2008 - 22:45:15 CDT)
- Re: Python callbacks in VMD (Wed Aug 20 2008 - 22:59:53 CDT)
- Re: Inorganic Builder Plugin (Wed Aug 20 2008 - 23:01:45 CDT)
- Re: rmsd (Tue Aug 19 2008 - 01:02:57 CDT)
- Re: RMSD SCRIPT (Tue Aug 19 2008 - 01:01:07 CDT)
- Re: axes (Tue Aug 19 2008 - 00:54:31 CDT)
- Re: how to call dssp in a script (Mon Aug 18 2008 - 11:17:44 CDT)
- Re: Tetrahedral representation (Wed Aug 13 2008 - 18:14:03 CDT)
- Re: renumbering residues (Wed Aug 13 2008 - 18:00:59 CDT)
- Re: Tetrahedral representation (Wed Aug 13 2008 - 13:07:04 CDT)
- Re: catDCD- convert DCD format (Wed Aug 13 2008 - 10:58:21 CDT)
- Re: Depth Cueing and dispdev none (Wed Aug 13 2008 - 09:56:44 CDT)
- Re: Depth Cueing and dispdev none (Mon Aug 11 2008 - 14:13:55 CDT)
- Re: rdf for big systems (Mon Aug 11 2008 - 11:45:07 CDT)
- Re: request ability to append in CatDCD (and NAMD) (Fri Aug 08 2008 - 14:45:52 CDT)
- Re: VMD files to SDF (Thu Aug 07 2008 - 12:52:48 CDT)
- Re: Problems with Newcartoon representation (Wed Aug 06 2008 - 13:38:00 CDT)
- Re: Problems with Newcartoon representation (Wed Aug 06 2008 - 11:33:28 CDT)
- Re: rdf for big systems (Wed Aug 06 2008 - 11:24:27 CDT)
- Re: How to embed 3-D image into powerpoint (Tue Aug 05 2008 - 14:17:47 CDT)
- Re: How to reduce memory usage of a script? (Tue Aug 05 2008 - 00:36:59 CDT)
- Re: How to reduce memory usage of a script? (Mon Aug 04 2008 - 21:44:48 CDT)
- Re: suggested video card for linux (Mon Aug 04 2008 - 11:24:47 CDT)
- Re: SURF and broken surface (Fri Aug 01 2008 - 23:28:04 CDT)
- Re: VMD crasch (Thu Jul 31 2008 - 17:00:22 CDT)
- Re: rdf for big systems (Thu Jul 31 2008 - 13:00:35 CDT)
- Re: How to disable automatic view rotations? (Wed Jul 30 2008 - 15:50:09 CDT)
- Re: How to disable automatic view rotations? (Wed Jul 30 2008 - 15:47:05 CDT)
- Re: How to disable automatic view rotations? (Wed Jul 30 2008 - 14:34:15 CDT)
- Re: Selecting the sides of a benzene ring (Wed Jul 30 2008 - 10:31:50 CDT)
- Re: 3DConnexion SpaceNavigator in 1.8.7alpha30 on OS X (Wed Jul 30 2008 - 10:38:41 CDT)
- Re: 3DConnexion SpaceNavigator in 1.8.7alpha30 on OS X (Wed Jul 30 2008 - 10:25:53 CDT)
- Re: Re: periodic boundary conditions (yes, i read the tutorials) (Tue Jul 29 2008 - 13:22:57 CDT)
- Re: Python for OS X (Tue Jul 29 2008 - 14:09:57 CDT)
- Re: Query (Tue Jul 29 2008 - 13:13:24 CDT)
- Slow mail deliver for next day or so... (Fri Jul 25 2008 - 15:15:09 CDT)
- Re: Selecting the sides of a benzene ring (Wed Jul 23 2008 - 09:15:18 CDT)
- Re: Creating a VMD movie from a Tcl script (Tue Jul 22 2008 - 16:16:15 CDT)
- Re: Creating a VMD movie from a Tcl script (Tue Jul 22 2008 - 13:51:41 CDT)
- Re: Problem writing trajectory to "crd" (Amber) format? (Tue Jul 22 2008 - 14:01:32 CDT)
- Re: Problem to find the number of frames of a trajectory (Tue Jul 22 2008 - 10:15:00 CDT)
- Re: Problem to find the number of frames of a trajectory (Tue Jul 22 2008 - 00:50:30 CDT)
- Re: Problem to find the number of frames of a trajectory (Mon Jul 21 2008 - 23:50:56 CDT)
- Re: Selecting atoms that have real SASA greater than 0, Not using "Surface" (Mon Jul 21 2008 - 10:22:51 CDT)
- Re: Creating a VMD movie from a Tcl script (Mon Jul 21 2008 - 12:46:17 CDT)
- Re: Creating a VMD movie from a Tcl script (Mon Jul 21 2008 - 11:44:58 CDT)
- Re: Creating a VMD movie from a Tcl script (Mon Jul 21 2008 - 10:31:28 CDT)
- Re: vmd MacOSX using dispdev (Thu Jul 17 2008 - 22:12:18 CDT)
- Re: Creating a VMD movie from a Tcl script (Thu Jul 17 2008 - 21:56:35 CDT)
- Re: Compiling from source on Mac OS X 10.5 (Thu Jul 17 2008 - 17:04:38 CDT)
- Re: Error message in VMD console when I try to switch to Python mode. (Thu Jul 17 2008 - 16:50:42 CDT)
- Re: Creating a VMD movie from a Tcl script (Thu Jul 17 2008 - 17:02:05 CDT)
- Re: tachyon rendering on black background figure (Thu Jul 17 2008 - 16:31:06 CDT)
- Re: Tetrahedral representation (Thu Jul 17 2008 - 16:14:35 CDT)
- Re: VMD Does not start on my MacBook (Thu Jul 17 2008 - 15:39:55 CDT)
- Re: Fwd: PDB Bonds versus "distance" bonds (Thu Jul 17 2008 - 09:24:55 CDT)
- Re: Error message in VMD console when I try to switch to Python mode. (Thu Jul 17 2008 - 09:21:29 CDT)
- Re: Error message in VMD console when I try to switch to Python mode. (Wed Jul 16 2008 - 14:19:51 CDT)
- Re: Error message in VMD console when I try to switch to Python mode. (Wed Jul 16 2008 - 13:28:55 CDT)
- Re: ResdueType and hydrophobicity scale (Wed Jul 16 2008 - 02:47:41 CDT)
- Re: purple bacteria and psfgen (Wed Jul 16 2008 - 02:50:49 CDT)
- Re: ResdueType and hydrophobicity scale (Wed Jul 16 2008 - 01:59:34 CDT)
- Re: tachyon rendering on black background figure (Wed Jul 16 2008 - 01:46:53 CDT)
- Re: problem with correct visualization of residues (Tue Jul 15 2008 - 13:04:18 CDT)
- Re: Fwd: PDB Bonds versus "distance" bonds (Tue Jul 15 2008 - 13:00:42 CDT)
- Re: Visualizing History file from DL_POLY (Tue Jul 15 2008 - 10:39:33 CDT)
- Re: Loading Problem (Fri Jul 11 2008 - 10:54:39 CDT)
- Re: measure forces applied in VMD (Fri Jul 11 2008 - 10:48:11 CDT)
- I'm back.. (Tue Jul 08 2008 - 16:24:12 CDT)
- SpaceNavigator test builds (last note before I go offline!) (Fri Jun 20 2008 - 02:04:50 CDT)
- Re: IMD per TCL (Fri Jun 20 2008 - 00:15:33 CDT)
- Re: save NAMD plot as a picture (Thu Jun 19 2008 - 23:51:06 CDT)
- Re: vmd_init (Fri Jun 20 2008 - 00:11:41 CDT)
- Re: Print and save DLPOLY HISTORY plots (Thu Jun 19 2008 - 23:48:06 CDT)
- Away from VMD-L/email until July 8th... (Thu Jun 19 2008 - 19:50:06 CDT)
- Re: Discrepancy between colours when coloured by timestep and Tachyon rendered (Thu Jun 19 2008 - 13:54:40 CDT)
- Re: Discrepancy between colours when coloured by timestep and Tachyon rendered (Thu Jun 19 2008 - 13:25:49 CDT)
- Re: Discrepancy between colours when coloured by timestep and Tachyon rendered (Thu Jun 19 2008 - 13:02:04 CDT)
- Re: Print and save DLPOLY HISTORY plots (Thu Jun 19 2008 - 13:05:02 CDT)
- Re: Discrepancy between colours when coloured by timestep and Tachyon rendered (Thu Jun 19 2008 - 13:05:52 CDT)
- Re: About occupancy volume maps (Thu Jun 19 2008 - 00:38:25 CDT)
- Re: Image rendering using pov-ray (Fri Jun 13 2008 - 14:48:24 CDT)
- Re: Image rendering using pov-ray (Thu Jun 12 2008 - 22:04:47 CDT)
- Re: psf generation of circular proteins (Thu Jun 12 2008 - 00:22:46 CDT)
- Re: psf generation of circular proteins (Wed Jun 11 2008 - 10:18:02 CDT)
- Re: problem loading trajectory in VMD under windows XP (Wed Jun 11 2008 - 01:37:58 CDT)
- Re: SpaceNavigator (Wed Jun 11 2008 - 02:53:39 CDT)
- Re: Total list of Tcl features (Sat Jun 07 2008 - 00:35:26 CDT)
- Re: Long file paths in Mac OS 10.5.3 (Wed Jun 04 2008 - 16:52:10 CDT)
- Re: Long file paths in Mac OS 10.5.3 (Wed Jun 04 2008 - 16:27:03 CDT)
- Re: Batch mode on Mac OS 10.5.3 (Tue Jun 03 2008 - 11:10:18 CDT)
- Postdoc position available... (Sat May 31 2008 - 01:06:59 CDT)
- Re: errors with using surf and MSMS representations (Tue May 27 2008 - 16:13:41 CDT)
- Re: errors with using surf and MSMS representations (Tue May 27 2008 - 15:12:35 CDT)
- Re: Several molecules (Tue May 20 2008 - 10:21:03 CDT)
- Re: Slow tcl/tk script for trajectory analysis (Fri May 16 2008 - 14:45:49 CDT)
- Re: NewCartoons / STRIDE problem (Fri May 16 2008 - 14:55:56 CDT)
- Re: Individual atoms trajectory (Fri May 16 2008 - 01:33:59 CDT)
- Re: Individual atoms trajectory (Thu May 15 2008 - 23:42:40 CDT)
- Re: How to calculate the volume of a molecule using vmd? (Thu May 15 2008 - 23:39:45 CDT)
- Re: 'within' command in VMD (Sun May 11 2008 - 13:12:48 CDT)
- Re: 'within' command in VMD (Sun May 11 2008 - 10:54:53 CDT)
- Re: Recompile VMD with larger index types (Sun May 11 2008 - 00:48:35 CDT)
- Re: Recompile VMD with larger index types (Sat May 10 2008 - 10:24:43 CDT)
- Re: running vmd as pbs job (Fri May 09 2008 - 02:29:22 CDT)
- Re: Charge State Confusion (Thu May 08 2008 - 22:55:36 CDT)
- Re: measure sasa gives different results on different platforms (Thu May 08 2008 - 11:39:07 CDT)
- Re: measure sasa gives different results on different platforms (Wed May 07 2008 - 23:08:22 CDT)
- Re: measure sasa gives different results on different platforms (Wed May 07 2008 - 16:59:55 CDT)
- Re: Vmd too slow on Suse10.x (Mon May 05 2008 - 09:42:31 CDT)
- Re: viewing pca output (Fri May 02 2008 - 16:36:51 CDT)
- Re: a common list problem (Fri May 02 2008 - 10:39:04 CDT)
- Re: viewing pca output (Thu May 01 2008 - 22:38:31 CDT)
- Re: Rendering electrostatic surface potentials using Tachyon (Thu May 01 2008 - 21:56:13 CDT)
- Re: Measuring fit exclusively in 1 plane (Thu May 01 2008 - 21:54:14 CDT)
- Re: creating psf from pgn (Tue Apr 29 2008 - 16:09:24 CDT)
- Re: Can not enter text in VMD plugin window (Mon Apr 28 2008 - 13:25:30 CDT)
- Re: Can not enter text in VMD plugin window (Sat Apr 26 2008 - 00:25:15 CDT)
- Re: Can not enter text in VMD plugin window (Fri Apr 25 2008 - 21:53:05 CDT)
- Re: how to render higher resolution figures for publication? (Fri Apr 25 2008 - 16:07:06 CDT)
- Re: problem while running VMD (Thu Apr 24 2008 - 09:20:17 CDT)
- Re: resolution screen in Linux (Thu Apr 24 2008 - 08:46:50 CDT)
- Re: Compiled version for MacOSX with non-standard options (Wed Apr 23 2008 - 23:45:05 CDT)
- Re: Rendering Labels with Tachyon (Wed Apr 23 2008 - 19:36:49 CDT)
- Re: warnings during plugin build (Mon Apr 21 2008 - 19:50:11 CDT)
- Re: warnings during plugin build (Sat Apr 19 2008 - 14:29:46 CDT)
- Re: warnings during plugin build (Sat Apr 19 2008 - 14:46:06 CDT)
- Re: Compiled version for MacOSX with non-standard options (Fri Apr 18 2008 - 12:55:49 CDT)
- Re: PPMTOMPEG Quality (Thu Apr 17 2008 - 16:38:16 CDT)
- Re: Compiled version for MacOSX with non-standard options (Thu Apr 17 2008 - 13:15:46 CDT)
- Re: compilation with python 2.5 and file permissions from the CVS repository (Mon Apr 14 2008 - 10:26:18 CDT)
- Re: compilation with python 2.5 and file permissions from the CVS repository (Sun Apr 13 2008 - 15:29:57 CDT)
- Re: Visualization in 3-D using NVIDIA quaddro (Wed Apr 09 2008 - 10:28:10 CDT)
- Re: psfgen 999 waters resname X column (Mon Apr 07 2008 - 11:54:54 CDT)
- Re: Insall Problem VMD Linux 1.8.6 Part II! (Sun Apr 06 2008 - 23:48:11 CDT)
- Re: Insall Problem VMD Linux 1.8.6 Part II! (Sun Apr 06 2008 - 23:23:31 CDT)
- Re: Install problem VMD Linux 1.8.6 (Sun Apr 06 2008 - 20:15:31 CDT)
- Re: How to read specific DCD frames directly in Fortran? (Sat Apr 05 2008 - 13:43:21 CDT)
- Re: how to render higher resolution figures for publication? (Fri Apr 04 2008 - 17:59:52 CDT)
- Re: how to render higher resolution figures for publication? (Fri Apr 04 2008 - 16:36:05 CDT)
- Re: render (Thu Apr 03 2008 - 00:24:30 CDT)
- Re: Compiling VMD under Windows XP (Thu Apr 03 2008 - 00:13:12 CDT)
- Re: Cannot perform RMSD analysis (Wed Apr 02 2008 - 23:53:41 CDT)
- Re: Re: porcupine plot (Wed Apr 02 2008 - 23:41:12 CDT)
- Re: render (Tue Apr 01 2008 - 14:14:12 CDT)
- Re: Movie Maker skipping (Tue Apr 01 2008 - 12:53:13 CDT)
- Re: Movie Maker skipping (Tue Apr 01 2008 - 13:37:18 CDT)
- Re: Compiling VMD under Windows XP (Mon Mar 31 2008 - 10:29:59 CDT)
- Re: porcupine plot (Mon Mar 31 2008 - 01:22:18 CDT)
- Re: Re-create Figures in VMD Images and Movies Tutorial (Sun Mar 30 2008 - 15:51:16 CDT)
- Re: Tcl 8.5.x in upcoming versions of VMD... (Thu Mar 27 2008 - 18:11:20 CDT)
- Tcl 8.5.x in upcoming versions of VMD... (Thu Mar 27 2008 - 17:19:47 CDT)
- Test VMD with CUDA support for Linux and MacOS X 10.5.2... (Thu Mar 27 2008 - 17:13:15 CDT)
- Re: time correlation function (Thu Mar 27 2008 - 17:08:08 CDT)
- Re: How to see the original Origin (0,0,0, coordinate) of a system (Thu Mar 27 2008 - 16:51:44 CDT)
- Re: Selection "within x of something" is not updated throughout DCD trajectory? (Thu Mar 27 2008 - 14:04:35 CDT)
- Re: Can we get secondary structure from PDB files? (Wed Mar 26 2008 - 21:26:46 CDT)
- Re: Test (Tue Mar 25 2008 - 21:59:05 CDT)
- Re: Loading a PDB file with different atom counts in models (Mon Mar 24 2008 - 23:31:20 CDT)
- Re: GPU test machine (Thu Mar 20 2008 - 19:29:58 CDT)
- Re: atoms with changing colors (Thu Mar 20 2008 - 17:03:47 CDT)
- Re: atomselect protein (Thu Mar 20 2008 - 16:48:27 CDT)
- Re: GPU test machine (Thu Mar 20 2008 - 15:34:52 CDT)
- Re: GPU test machine (Thu Mar 20 2008 - 11:25:09 CDT)
- Re: problem with gopython (Tue Mar 11 2008 - 10:06:47 CDT)
- Re: snapshot not compatible with -dispdev text? (Mon Mar 10 2008 - 17:46:22 CDT)
- Re: Automatically zoom so that the protein fill the display (Mon Mar 10 2008 - 14:17:27 CDT)
- Re: Automatically zoom so that the protein fill the display (Mon Mar 10 2008 - 14:36:02 CDT)
- Re: calculate volume (Sat Mar 08 2008 - 19:03:06 CST)
- Re: calculate volume (Sat Mar 08 2008 - 00:01:06 CST)
- Re: calculate volume (Fri Mar 07 2008 - 22:20:45 CST)
- Re: how to make smooth movies ? (Fri Mar 07 2008 - 10:52:15 CST)
- Re: VMD 3D stereo hardware (Thu Mar 06 2008 - 10:25:46 CST)
- Re: running vmd in parallel (Wed Mar 05 2008 - 12:31:35 CST)
- Re: TCL/VMD problem (Wed Mar 05 2008 - 12:25:42 CST)
- Re: Visualizing trajectory with changing atoms (Tue Mar 04 2008 - 15:26:04 CST)
- Re: VMD languaje information (Tue Mar 04 2008 - 13:53:24 CST)
- [carlos.simmerling@gmail.com: ACS awards] (Mon Mar 03 2008 - 20:11:56 CST)
- Re: missing basic tutorials for VMD scripting? (Mon Mar 03 2008 - 10:57:10 CST)
- Re: Re: unusual bond between the cysteine and arginine residue during the simulation (Fri Feb 29 2008 - 15:06:49 CST)
- Re: specify the bonds between the atoms (Fri Feb 29 2008 - 14:04:44 CST)
- Re: unusual bond between the cysteine and arginine residue during the simulation (Fri Feb 29 2008 - 13:58:08 CST)
- Re: SASA calculation (protein + small molecules) (Fri Feb 29 2008 - 13:11:37 CST)
- Re: no convergence in align (Fri Feb 29 2008 - 12:39:20 CST)
- Re: no convergence in align (Fri Feb 29 2008 - 11:07:38 CST)
- Re: no convergence in align (Fri Feb 29 2008 - 10:05:34 CST)
- Re: How to get rubber-like surface with Tachyon renderer (Mon Feb 25 2008 - 11:33:21 CST)
- Re: vmd snapshots without display (Fri Feb 22 2008 - 11:33:36 CST)
- Re: VASP CHGCAR (Thu Feb 21 2008 - 17:22:36 CST)
- Re: couldn't fork child process: not enough memory (Thu Feb 21 2008 - 15:39:30 CST)
- Re: Unable to see VDW , CPK representations (Thu Feb 21 2008 - 11:34:53 CST)
- Re: Selection in VMD Graphical representation (Wed Feb 20 2008 - 13:32:03 CST)
- Re: change axes name (Tue Feb 19 2008 - 10:59:23 CST)
- Re: VMD limitation for loading large trajectory file (Fri Feb 15 2008 - 17:03:15 CST)
- Re: Unable to see VDW , CPK representations (Fri Feb 15 2008 - 16:42:15 CST)
- Re: Hinge calculation in MD trajectory using Hingefind plug-in (Fri Feb 15 2008 - 15:40:29 CST)
- Re: display of periodic DCD information (Thu Feb 14 2008 - 16:34:22 CST)
- Re: Volume data formats (Thu Feb 14 2008 - 12:10:26 CST)
- Re: FieldLines (Wed Feb 13 2008 - 14:34:04 CST)
- Re: Improved VMD performance on MacOSX 10.5.2 (Tue Feb 12 2008 - 18:26:09 CST)
- Re: installation problem vmd 1.8.6 on fedora 3 (Fri Feb 08 2008 - 11:27:28 CST)
- Re: heuristic bond computation (Thu Feb 07 2008 - 22:37:45 CST)
- Re: animate read command (Tue Feb 05 2008 - 14:16:00 CST)
- Re: help with animate read command (Tue Feb 05 2008 - 13:48:02 CST)
- Re: About Cluster Plug-in (Tue Feb 05 2008 - 09:45:23 CST)
- Re: To create Tetramer (Tue Feb 05 2008 - 09:55:43 CST)
- Re: Percentage Helicity calculation in VMD (Sat Feb 02 2008 - 15:30:18 CST)
- Re: sausage view of NMR ensembles (Thu Jan 31 2008 - 23:31:36 CST)
- Re: 'gopython' Tkinter and Numeric Python error (Wed Jan 30 2008 - 10:29:49 CST)
- Re: Sasa script in python returns "Runtime error" (Wed Jan 30 2008 - 10:26:18 CST)
- Re: re: script hangs when use full dcd file (Fri Jan 25 2008 - 14:32:42 CST)
- Re: problem with timeline plugin (Fri Jan 25 2008 - 00:17:48 CST)
- Re: problems with a script (Fri Jan 25 2008 - 00:15:14 CST)
- Re: preserving atom index or hexadecimal residue numbers after writepdb (Fri Jan 25 2008 - 00:12:56 CST)
- Re: MSVC Projects Corrupt and Missing (Thu Jan 24 2008 - 22:45:18 CST)
- Re: MSVC Projects Corrupt and Missing (Thu Jan 24 2008 - 23:10:27 CST)
- Re: Electron density (Thu Jan 24 2008 - 18:08:52 CST)
- Re: Can VMD visualize forces? (Thu Jan 24 2008 - 18:01:20 CST)
- Re: Increasing MAXATOMBONDS? (Mon Jan 21 2008 - 12:11:51 CST)
- Re: problem with time line plugin in VMD (Sun Jan 20 2008 - 22:55:40 CST)
- Re: Error in changing on screen options of VMD (Sun Jan 20 2008 - 22:54:33 CST)
- Re: VMD drawing (Sun Jan 20 2008 - 20:59:51 CST)
- Re: error in loading psf file generated from lammps data file. (Sun Jan 20 2008 - 20:46:28 CST)
- Re: MSMS plugin for windows (Thu Jan 17 2008 - 12:56:24 CST)
- Re: Could not locate 'dowser' (Program not found message box) (Thu Jan 17 2008 - 10:43:25 CST)
- Re: problem rendering NewCartoon with tachyon (Tue Jan 15 2008 - 12:44:31 CST)
- Re: Video Card for VMD, 2D or 3D (Sat Jan 12 2008 - 00:11:53 CST)
- Re: measure contacts script (Sat Jan 12 2008 - 00:23:09 CST)
- Re: Link atoms (Wed Jan 09 2008 - 22:51:46 CST)
- Re: Increasing MAXATOMBONDS? (Wed Jan 09 2008 - 01:22:13 CST)
- Re: X_ChangeProperty: BadValue (integer parameter out of range for operation) 0x40 (Tue Jan 08 2008 - 14:09:56 CST)
- Re: X_ChangeProperty: BadValue (integer parameter out of range for operation) 0x40 (Tue Jan 08 2008 - 14:10:41 CST)
- Re: VMD intallation (Mon Jan 07 2008 - 15:33:25 CST)
- Re: Cluster analysis (Mon Jan 07 2008 - 11:51:34 CST)
- Re: Cluster analysis (Mon Jan 07 2008 - 01:59:40 CST)
- Re: Phantom Omni Haptic Device (Mon Jan 07 2008 - 01:49:31 CST)
- VMD-L membership pruning, more anti-spam measures.. (Sat Jan 05 2008 - 00:26:40 CST)
- Re: (UNCLASSIFIED) (Fri Jan 04 2008 - 13:29:49 CST)
- Re: vmd error message (Fri Jan 04 2008 - 13:01:37 CST)
- VMD-L post spam blocking, rescued messages from the last 30 days... (Fri Jan 04 2008 - 12:33:38 CST)
- Re: installation on suse linux 10.3 (Fri Jan 04 2008 - 12:39:02 CST)
- Re: Viewing molden grid files (Fri Jan 04 2008 - 13:06:22 CST)
- Re: replication of bilayer (Fri Jan 04 2008 - 12:42:10 CST)
- Re: VMD movie from XYZ coordinate if file has two type of atoms (Fri Jan 04 2008 - 12:38:08 CST)
- Re: VMD on Linux Suse (Fri Jan 04 2008 - 12:35:27 CST)
- Re: vmd in ubuntu on mac mini (Fri Jan 04 2008 - 12:40:13 CST)
- Re: Hydrogens in vmd (Thu Jan 03 2008 - 14:26:16 CST)
- Re: freevr tool transformation (Thu Jan 03 2008 - 01:12:44 CST)
- Re: Increasing MAXATOMBONDS? (Wed Dec 19 2007 - 20:59:02 CST)
- Re: add Mg2+ (Wed Dec 19 2007 - 15:37:16 CST)
- Re: add Mg2+ (Wed Dec 19 2007 - 14:09:30 CST)
- Re: display bonds (Wed Dec 19 2007 - 14:02:49 CST)
- Re: VMD on Linux Suse (Wed Dec 19 2007 - 01:34:42 CST)
- Re: Increasing MAXATOMBONDS? (Tue Dec 18 2007 - 12:56:55 CST)
- Re: how to transform the coordinate of the atom using vmd (Fri Dec 07 2007 - 15:02:21 CST)
- Re: How to display Chain name in Labels (Thu Dec 06 2007 - 23:53:32 CST)
- Re: Making movies in VMD (UNCLASSIFIED) (Thu Dec 06 2007 - 16:11:00 CST)
- Re: Making movies in VMD (Thu Dec 06 2007 - 12:34:37 CST)
- Re: applying forces on a protein in VMD (Wed Dec 05 2007 - 00:58:14 CST)
- Re: SpaceNavigator (Tue Dec 04 2007 - 22:57:22 CST)
- Re: Rainbow color scheme for VolumeSlice / Volume (Tue Dec 04 2007 - 18:03:05 CST)
- Re: FreeVR wand (Tue Dec 04 2007 - 18:00:55 CST)
- Re: SpaceNavigator (Mon Dec 03 2007 - 18:52:09 CST)
- Re: Multiseq (Sun Dec 02 2007 - 22:57:53 CST)
- Re: Render Snapshot from the Tcl console (jpg gif format) (Sun Dec 02 2007 - 21:19:51 CST)
- Re: Render Snapshot from the Tcl console (jpg gif format) (Sun Dec 02 2007 - 19:53:20 CST)
- Re: SpaceNavigator (Fri Nov 30 2007 - 12:32:28 CST)
- Re: SpaceNavigator (Fri Nov 30 2007 - 10:24:02 CST)
- Re: SpaceNavigator (Thu Nov 29 2007 - 12:16:55 CST)
- Re: Water within the minmax of protein (Thu Nov 29 2007 - 10:30:54 CST)
- Re: Hydrophobicity plots in VMD (Tue Nov 27 2007 - 16:27:58 CST)
- Re: Intersurf and interface residues (Tue Nov 27 2007 - 13:53:24 CST)
- Re: Trying to get VMD to run locally while logged into a remote machine (Mon Nov 26 2007 - 19:00:24 CST)
- Re: cave (Mon Nov 26 2007 - 11:44:33 CST)
- Re: Hydrophobicity plots in VMD (Mon Nov 26 2007 - 11:16:08 CST)
- Re: cave (Sun Nov 25 2007 - 12:54:56 CST)
- Re: cave (Thu Nov 22 2007 - 10:21:30 CST)
- Re: problem with loading trajectories in timline plugin (Thu Nov 22 2007 - 00:35:09 CST)
- Re: vmd command delay (Wed Nov 21 2007 - 13:26:48 CST)
- Re: analysing big trajectories (fwd) (Tue Nov 20 2007 - 18:32:23 CST)
- Re: Trying to get VMD to run locally while logged into a remote machine (Tue Nov 20 2007 - 17:24:36 CST)
- Re: analysing big trajectories (fwd) (Tue Nov 20 2007 - 17:30:59 CST)
- Re: analysing big trajectories (Tue Nov 20 2007 - 16:26:34 CST)
- Re: analysing big trajectories (Tue Nov 20 2007 - 14:41:35 CST)
- Re: Potential map animation, help! (Tue Nov 20 2007 - 13:05:25 CST)
- Re: problem with colouring the surface with electroststic potential (Wed Nov 14 2007 - 11:19:27 CST)
- Re: problem with colouring the surface with electroststic potential (Tue Nov 13 2007 - 10:09:17 CST)
- Re: stride binaries for windows XP OS (Tue Nov 13 2007 - 10:18:59 CST)
- Re: molfile reader plugin woes (Thu Nov 08 2007 - 07:24:35 CST)
- VMD/NAMD at SC2007 (Wed Nov 07 2007 - 21:41:57 CST)
- Re: question about ionization (Wed Nov 07 2007 - 20:17:54 CST)
- Out of office until Nov. 16 (Wed Nov 07 2007 - 11:57:55 CST)
- Re: vmd command delay (Mon Nov 05 2007 - 17:31:24 CST)
- Re: Download vmd for 64-bit Intel Itanium (Mon Nov 05 2007 - 16:55:20 CST)
- Re: Alignment (Sun Nov 04 2007 - 13:53:06 CST)
- Re: Alignment (Sat Nov 03 2007 - 23:30:57 CDT)
- Re: cloning a molecule (Fri Nov 02 2007 - 14:22:26 CDT)
- Re: problem with protein RMSD calculation due to incomplete wrapping of both peptide chains (Thu Nov 01 2007 - 17:39:14 CDT)
- Re: vmd ubuntu crash (Thu Nov 01 2007 - 12:32:57 CDT)
- Re: aligning protein based on one helix of protein (Wed Oct 31 2007 - 17:25:50 CDT)
- Re: status of psfgen support for CHARMM psf format (Tue Oct 30 2007 - 22:57:31 CDT)
- Re: CMYK (Tue Oct 30 2007 - 17:49:30 CDT)
- Re: how to display dcd file written with catdcd using an index file (Fri Oct 26 2007 - 15:50:55 CDT)
- Re: installation of APBS plug-in in VMD 1.8.6 (Thu Oct 25 2007 - 21:29:12 CDT)
- Re: FW: VMD & OpenGL GLX Extension (Wed Oct 24 2007 - 17:36:21 CDT)
- Re: Writing in NAMD binary format in VMD from TCl/Tk console? (Wed Oct 24 2007 - 17:24:52 CDT)
- Re: Color by Volume on an Intel 945GM (Mon Oct 22 2007 - 10:34:50 CDT)
- Re: Problem with bigdcd (Fri Oct 19 2007 - 11:01:24 CDT)
- Re: APBS dx colors depend on order of molec files loaded??? (Thu Oct 18 2007 - 15:08:21 CDT)
- Re: RMSD Trajectory Tool (Wed Oct 17 2007 - 21:56:39 CDT)
- Re: Rotate a box with pcb (Wed Oct 17 2007 - 22:24:58 CDT)
- Re: combine.tcl error (Wed Oct 17 2007 - 22:11:59 CDT)
- Re: Is catdcd running on Windows? (Wed Oct 17 2007 - 21:15:39 CDT)
- Re: multiple attempts before vmd starts up (Wed Oct 17 2007 - 20:34:41 CDT)
- Re: Problems Opening Large .dx File (Wed Oct 17 2007 - 17:28:37 CDT)
- Re: residue selection (water molecule within 5 ang. to protein in simulation) (Tue Oct 16 2007 - 10:57:29 CDT)
- Re: Problem vmd1.8.5 & vmd1.8.6 on a mac-pro running ubuntu (Tue Oct 16 2007 - 10:19:21 CDT)
- Re: Error with stride (Tue Oct 16 2007 - 09:27:10 CDT)
- Re: bonds across periodic boundaries (Tue Oct 16 2007 - 09:22:46 CDT)
- Re: Strange behaviour of MSMS (Tue Oct 16 2007 - 09:20:37 CDT)
- Re: Problems Opening Large .dx File (Mon Oct 15 2007 - 15:26:55 CDT)
- Re: Generating parameter file for Cl2- (Mon Oct 15 2007 - 15:22:08 CDT)
- Re: Fixing the View in a Movie (Fri Oct 12 2007 - 16:14:14 CDT)
- Re: VMD access using XWIN32 or X-Deep (Fri Oct 12 2007 - 15:34:12 CDT)
- Re: Cube Files - proportion of the electron density (Tue Oct 09 2007 - 14:38:06 CDT)
- Re: Normal VMD crashed when pdb load but Debug mode works (Mon Oct 08 2007 - 11:48:43 CDT)
- Re: no transparency on newest iMacs (Fri Oct 05 2007 - 01:35:41 CDT)
- Re: time step (Thu Oct 04 2007 - 23:39:34 CDT)
- Re: no transparency on newest iMacs (Wed Oct 03 2007 - 19:12:40 CDT)
- Re: Storing multiple values in the user field (Fri Sep 28 2007 - 17:12:51 CDT)
- Re: Storing multiple values in the user field (Fri Sep 28 2007 - 16:25:34 CDT)
- Re: video memory and volumetric data (Fri Sep 28 2007 - 16:19:41 CDT)
- Re: Re: python Numeric library problem (Fri Sep 28 2007 - 14:35:25 CDT)
- Re: behavior of "mol addfile first/last" with non-integer frame numbers (Fri Sep 28 2007 - 13:37:49 CDT)
- Re: vmd files between linux and windows (Thu Sep 27 2007 - 10:19:30 CDT)
- Re: How can I get .xyzr file or .xyzrn file? (Wed Sep 26 2007 - 16:38:04 CDT)
- Re: Can't execvp vmd_SOLARISX86 (Sun Sep 23 2007 - 21:49:23 CDT)
- Re: residue selection: conflict between resid and residue (Fri Sep 21 2007 - 15:24:04 CDT)
- Re: smooting structure (Wed Sep 19 2007 - 11:57:16 CDT)
- Re: osx startup script (Mon Sep 17 2007 - 15:34:55 CDT)
- Re: changing the tile angle of a peptide embedded in a membrane (Mon Sep 10 2007 - 13:09:39 CDT)
- Re: GLSL rendering mode is NOT available (Mon Sep 10 2007 - 10:32:37 CDT)
- Re: vmdbasename: Undefined variable (Sat Sep 08 2007 - 22:24:02 CDT)
- Re: is it possible to skip frame when using bigdcd (Fri Sep 07 2007 - 12:38:26 CDT)
- Re: the console window is automatically closed without any error messages (Thu Sep 06 2007 - 12:36:44 CDT)
- Re: the console window is automatically closed without any error messages (Thu Sep 06 2007 - 10:52:49 CDT)
- Re: Problem with saving coordinate (Sat Sep 01 2007 - 21:04:16 CDT)
- Re: Problem with saving coordinate (Fri Aug 31 2007 - 02:08:30 CDT)
- Re: VMD analysis using NAMD plot (Wed Aug 29 2007 - 11:03:24 CDT)
- Re: dcd file error (Wed Aug 29 2007 - 00:08:39 CDT)
- Re: atomselection in order (Wed Aug 29 2007 - 00:11:02 CDT)
- Re: Aggregation analysis (Wed Aug 29 2007 - 00:21:48 CDT)
- Re: atomselection in order (Mon Aug 27 2007 - 14:57:12 CDT)
- Re: coordinates with get command (Sat Aug 25 2007 - 23:04:51 CDT)
- Re: FYI: 1.8.6 runs full GLSL on AMD64 (Wed Aug 22 2007 - 22:55:06 CDT)
- Re: Selection within VMD (Wed Aug 22 2007 - 15:04:15 CDT)
- Re: VMD w/ amber parm7, segnames/chains etc... (Wed Aug 22 2007 - 13:54:14 CDT)
- Re: automating graphic representations (Wed Aug 22 2007 - 13:44:19 CDT)
- Re: FYI: 1.8.6 runs full GLSL on AMD64 (Wed Aug 22 2007 - 13:40:37 CDT)
- Re: VMD crashes during the execution of a computational intensive TCL script (Mon Aug 20 2007 - 16:41:17 CDT)
- Re: povray problem: degenerate cylinder revisited (Tue Aug 14 2007 - 15:42:08 CDT)
- Re: Reference for SASA (Tue Aug 14 2007 - 15:38:20 CDT)
- Re: new machine problems. (Tue Aug 14 2007 - 14:49:09 CDT)
- Re: printing timeline window with axes (Tue Aug 14 2007 - 14:50:19 CDT)
- Re: Increasing use of RAM even if I put unset/delete for selections! Due to use of arrays? (Tue Aug 14 2007 - 12:14:38 CDT)
- Re: Installing VMD to work with MSMS (Tue Aug 14 2007 - 12:23:16 CDT)
- Re: Archived Spam in the VMD-L Mailing List (Tue Aug 14 2007 - 10:13:27 CDT)
- Re: Archived Spam in the VMD-L Mailing List (Tue Aug 14 2007 - 10:07:37 CDT)
- Re: chime vs vmd (Mon Aug 13 2007 - 11:49:24 CDT)
- Re: plotting on Mac (Fri Aug 10 2007 - 15:11:43 CDT)
- Re: Color a protein based on a property (Fri Aug 10 2007 - 15:09:49 CDT)
- Re: dcd reading routines (Fri Aug 10 2007 - 13:15:37 CDT)
- Re: how to make user input during runtime of a tcl program using TkConsole? (Fri Aug 10 2007 - 10:25:55 CDT)
- Re: What does Stride need to draw SS? (Thu Aug 09 2007 - 17:36:23 CDT)
- Re: electron density map is shifted? (Thu Aug 09 2007 - 14:57:55 CDT)
- Re: package require Tcl 8.5 => ::tcl::mathfunc:: (Thu Aug 09 2007 - 11:04:00 CDT)
- Re: package require Tcl 8.5 => ::tcl::mathfunc:: (Thu Aug 09 2007 - 11:01:09 CDT)
- Re: Writing MolFile plugin for CIF (Wed Aug 08 2007 - 12:24:57 CDT)
- Re: VMD acts too slow (Tue Aug 07 2007 - 21:03:37 CDT)
- Re: VMD plugins error (Mon Aug 06 2007 - 23:59:51 CDT)
- Re: within and exwithin macro (Tue Aug 07 2007 - 00:06:53 CDT)
- Re: a problem with installation (to generate the Makefile ) (Mon Aug 06 2007 - 23:56:38 CDT)
- Re: How to calculate the C alpha RMSD from NAMD trajectory (Fri Aug 03 2007 - 10:58:13 CDT)
- Re: Tachyon doesn't take into account ColorID (Mon Jul 30 2007 - 14:32:22 CDT)
- VMD-L moderation fully automatic from now on.... (Mon Jul 30 2007 - 14:46:47 CDT)
- Re: frame number input in tcl and direct mol graph display update (II) (Fri Jul 27 2007 - 12:40:35 CDT)
- Re: dssp in vmd (II) (Fri Jul 27 2007 - 12:42:49 CDT)
- Re: Antw: Re: CAVE & Vmd (Thu Jul 26 2007 - 16:06:00 CDT)
- Re: python and C++ extensions (Thu Jul 26 2007 - 16:40:47 CDT)
- Re: frame number input in tcl and direct mol graph display update (II) (Thu Jul 26 2007 - 16:25:21 CDT)
- Re: installation errors with src/hesstrans_wrap.C (Thu Jul 26 2007 - 16:23:47 CDT)
- Re: Display Grasp potential map in VMD (Thu Jul 26 2007 - 16:16:27 CDT)
- Re: badwater script - help (Thu Jul 26 2007 - 16:28:08 CDT)
- Re: residue_rmsd.tcl (Thu Jul 26 2007 - 16:20:50 CDT)
- Re: residue_rmsd.tcl (Thu Jul 26 2007 - 12:42:11 CDT)
- Re: nonstandard solvate + cyclic peptides in explicit DMSO box + gofr (Thu Jul 26 2007 - 11:33:52 CDT)
- Re: vmd residue position (Thu Jul 26 2007 - 11:29:58 CDT)
- Re: how to run VMD on IBM machines (Wed Jul 25 2007 - 13:02:32 CDT)
- Re: Calculating volumetric data for a molecule (Tue Jul 24 2007 - 23:10:06 CDT)
- Re: Reading a pdbqt file (generated from AutoDock) (Fri Jul 20 2007 - 13:27:53 CDT)
- Re: Recognized atom types by VMD PDB reader (Fri Jul 20 2007 - 13:31:15 CDT)
- Re: Reading a pdbqt file (generated from AutoDock) (Fri Jul 20 2007 - 11:27:39 CDT)
- Re: what's the unit for color scale data range? (Fri Jul 20 2007 - 11:23:46 CDT)
- Re: how to save a list in a file (Tue Jul 17 2007 - 12:07:55 CDT)
- Re: CAVE & Vmd (Tue Jul 17 2007 - 11:46:13 CDT)
- Re: how to save a list in a file (Tue Jul 17 2007 - 11:08:19 CDT)
- Re: VRPN, phantom and VMD... (Mon Jul 16 2007 - 16:11:10 CDT)
- Re: TkCon problem (Mon Jul 16 2007 - 15:39:23 CDT)
- Re: Language definitions - \usepackage{listings} (Mon Jul 16 2007 - 11:58:29 CDT)
- Re: electron density map is shifted? (Thu Jul 12 2007 - 22:28:21 CDT)
- Re: Electron microscopy surface with VMD? (Thu Jul 12 2007 - 16:57:22 CDT)
- Re: shifting of the origin (Wed Jul 11 2007 - 23:56:48 CDT)
- Re: Using multiple CPUS (Tue Jul 10 2007 - 20:26:32 CDT)
- Away until July 12, self-help encouraged! (Thu Jun 28 2007 - 17:22:36 CDT)
- Re: get charge (Thu Jun 28 2007 - 13:07:51 CDT)
- Re: parallel capabilities (Tue Jun 26 2007 - 18:06:07 CDT)
- Re: Text/Labels on ray tracing external renderer (Tue Jun 26 2007 - 15:25:00 CDT)
- Re: Using VMD just to plot some coordinates from a mathematical/geometrical model (Tue Jun 26 2007 - 15:19:17 CDT)
- Re: Text/Labels on ray tracing external renderer (Tue Jun 26 2007 - 15:06:53 CDT)
- Re: help on making stereo diagram (Tue Jun 26 2007 - 15:46:56 CDT)
- Re: redefining macros vs. update of selections (Tue Jun 26 2007 - 14:52:31 CDT)
- Re: parallel capabilities (Tue Jun 26 2007 - 14:56:29 CDT)
- Re: Using VMD just to plot some coordinates from a mathematical/geometrical model (Fri Jun 22 2007 - 17:51:59 CDT)
- Re: center scaling and rotation (Fri Jun 22 2007 - 17:25:01 CDT)
- Re: Rotate dx map (Fri Jun 22 2007 - 17:25:56 CDT)
- Re: Text/Labels on ray tracing external renderer (Fri Jun 22 2007 - 15:35:12 CDT)
- Re: Loading up PDB files in absolute coordinates (Fri Jun 22 2007 - 15:01:26 CDT)
- Re: Loading up PDB files in absolute coordinates (Fri Jun 22 2007 - 14:38:40 CDT)
- Re: Loading up PDB files in absolute coordinates (Fri Jun 22 2007 - 13:52:21 CDT)
- Re: Loading up PDB files in absolute coordinates (Fri Jun 22 2007 - 13:24:30 CDT)
- Re: Text/Labels on ray tracing external renderer (Fri Jun 22 2007 - 13:03:41 CDT)
- Re: VMD 1.8.6 Not Responding! (Thu Jun 21 2007 - 22:58:37 CDT)
- Re: VMD 1.8.6 Not Responding! (Thu Jun 21 2007 - 10:45:07 CDT)
- Re: VMD 1.8.6 Not Responding! (Thu Jun 21 2007 - 00:28:07 CDT)
- Re: Changing Beta values for each frame of a trajectory.. (Wed Jun 20 2007 - 22:50:19 CDT)
- Re: Box dimensions (Wed Jun 20 2007 - 10:55:34 CDT)
- Re: Box dimensions (Tue Jun 19 2007 - 18:03:34 CDT)
- Re: atomsel: writepdb failed for vmd 1.8.6 (Tue Jun 19 2007 - 17:21:01 CDT)
- Re: Tracking bond length changes in a simulation (Tue Jun 19 2007 - 10:53:00 CDT)
- Re: VMD for PPC64 SLES9? (Tue Jun 19 2007 - 10:49:49 CDT)
- Re: vmd visualization and CMAP run problem (Mon Jun 18 2007 - 16:59:19 CDT)
- Re: vmd visualization and CMAP run problem (Mon Jun 18 2007 - 16:47:26 CDT)
- Re: atom position update for reference atom list (Mon Jun 18 2007 - 16:43:13 CDT)
- Re: VMD 1.8.6 Not Responding! (Mon Jun 18 2007 - 16:04:51 CDT)
- Re: Solvate 1.2 problem option -ion (Fri Jun 15 2007 - 16:12:51 CDT)
- Re: Mac OSX TK console issues (Fri Jun 15 2007 - 15:42:52 CDT)
- Re: Help with Tcl script (Wed Jun 13 2007 - 03:23:27 CDT)
- Re: vmd visualization and CMAP run problem (Wed Jun 13 2007 - 03:04:49 CDT)
- Re: script for atom collisions (Wed Jun 13 2007 - 03:01:10 CDT)
- Re: show atom number in xyz file (Wed Jun 13 2007 - 02:52:12 CDT)
- Re: Re: PME plugin (Tue Jun 12 2007 - 16:48:54 CDT)
- Re: superposition (Tue Jun 12 2007 - 15:30:23 CDT)
- Re: Nearest neighbor selection (Tue Jun 12 2007 - 10:36:02 CDT)
- Re: script for atom collisions (Mon Jun 11 2007 - 15:35:55 CDT)
- Re: Question about rendering across multiple frames (Mon Jun 11 2007 - 15:33:26 CDT)
- Re: Python Module (Fri Jun 08 2007 - 10:38:01 CDT)
- Re: .xyz file, namelist index too large error (Thu Jun 07 2007 - 11:11:43 CDT)
- Duplicate VMD-L emails... (Tue Jun 05 2007 - 13:11:26 CDT)
- Re: Fwd: vmd installation Linux Debian i386 (Tue Jun 05 2007 - 13:02:26 CDT)
- Re: Installing VMD 1.8.6 (Tue Jun 05 2007 - 10:31:11 CDT)
- Re: What is the influence of PBC on measure bond? (Tue Jun 05 2007 - 10:12:00 CDT)
- Re: VMD-Main window doesn't load after change in .vmdrc (Mon Jun 04 2007 - 20:59:37 CDT)
- Re: list in TCL (Mon Jun 04 2007 - 19:36:42 CDT)
- Re: Installing VMD 1.8.6 (Mon Jun 04 2007 - 16:45:08 CDT)
- Re: labeling for movie title (Mon Jun 04 2007 - 16:04:21 CDT)
- Re: removing water molecules (Mon Jun 04 2007 - 15:31:53 CDT)
- Re: load state and alignments (Mon Jun 04 2007 - 14:41:21 CDT)
- Re: Distance measurement via measure bond (Mon Jun 04 2007 - 14:36:31 CDT)
- Re: Installing VMD 1.8.6 (Mon Jun 04 2007 - 13:09:42 CDT)
- Re: CCL: show ruler in VMD (Fri Jun 01 2007 - 14:11:07 CDT)
- Re: problem with installing VMD on a LINUX cluster (Wed May 30 2007 - 16:34:37 CDT)
- Re: help on trajectory density map (Tue May 29 2007 - 10:07:15 CDT)
- Re: colomb map in volmap tool (Mon May 28 2007 - 17:17:23 CDT)
- Re: ligand parametrization (Mon May 28 2007 - 16:12:02 CDT)
- Re: Adjusting perspective (Mon May 28 2007 - 15:57:51 CDT)
- Re: non-standard residue (Mon May 28 2007 - 15:50:41 CDT)
- Re: Problem with bondsrecalc (Mon May 28 2007 - 15:38:50 CDT)
- Re: problem with installing VMD on a LINUX cluster (Mon May 28 2007 - 15:43:50 CDT)
- Re: Installation Error Involving TLC (Mon May 28 2007 - 15:35:26 CDT)
- Re: help on trajectory density map (Mon May 28 2007 - 15:34:23 CDT)
- Re: How to use remote GLSL rendering capabilities? (Mon May 28 2007 - 15:32:26 CDT)
- Re: How to use remote GLSL rendering capabilities? (Mon May 28 2007 - 15:24:36 CDT)
- travelling... (Fri May 25 2007 - 11:00:52 CDT)
- Re: volmap command and masks (Sun May 20 2007 - 13:16:38 CDT)
- Re: Automatically shutting down VMD after NAMD terminates IMD connection (Sun May 20 2007 - 13:13:04 CDT)
- Re: the error of the plugin QMTool in read gaussian output file (Fri May 18 2007 - 16:56:20 CDT)
- Re: absolute C.O.M motion calculation script: help (Fri May 18 2007 - 16:54:42 CDT)
- Re: inserting protein into membrane (Fri May 18 2007 - 16:21:10 CDT)
- Re: unreadable prmtop's and reference memory error? (Thu May 17 2007 - 12:21:26 CDT)
- Re: question about making movies (Wed May 16 2007 - 14:44:17 CDT)
- Re: Reading additional atom properties (Tue May 15 2007 - 13:12:34 CDT)
- Re: An remark on PoV output (Mon May 14 2007 - 12:57:26 CDT)
- Re: AutoIMD on vmd 1.8.6 IRIX.... (Mon May 14 2007 - 12:52:34 CDT)
- Re: JMV (Mon May 14 2007 - 12:51:15 CDT)
- Re: GLSL rendering problems (??) (Mon May 14 2007 - 12:42:08 CDT)
- Re: Fast routines for distance evaluations using PBC. (Fri May 11 2007 - 13:46:39 CDT)
- Re: Fast routines for distance evaluations using PBC. (Fri May 11 2007 - 13:15:27 CDT)
- Re: show atom number in xyz file (Fri May 11 2007 - 11:06:17 CDT)
- Re: Fwd: vmd first installation (Fri May 11 2007 - 10:51:53 CDT)
- Re: Problem loading pdb file on VMD (Wed May 09 2007 - 17:56:18 CDT)
- Re: Problem loading pdb file on VMD (Wed May 09 2007 - 02:48:42 CDT)
- Re: drawing a membrane (Tue May 08 2007 - 16:34:02 CDT)
- Re: installing MSMS on OS X 10.4.9 (Intel) (Tue May 08 2007 - 14:20:52 CDT)
- Re: SASA measurements (Tue May 08 2007 - 14:00:49 CDT)
- Re: installing MSMS on OS X 10.4.9 (Intel) (Tue May 08 2007 - 13:44:43 CDT)
- Re: installing MSMS on OS X 10.4.9 (Intel) (Mon May 07 2007 - 21:44:39 CDT)
- Re: color by frame? (Mon May 07 2007 - 10:09:23 CDT)
- Re: How to align a protein normal to lipid bilayer (Sun May 06 2007 - 23:49:40 CDT)
- Re: vmd problem: session ended (Tue May 01 2007 - 12:50:19 CDT)
- Re: Dynamic 'Determine file type' list in main menu !?! (Tue May 01 2007 - 12:38:46 CDT)
- Re: vmd 1.8.6 on MacOS X, with python support, anyone? (Tue May 01 2007 - 12:35:50 CDT)
- Re: GLSL rendering problems (??) (Wed Apr 25 2007 - 09:53:54 CDT)
- Re: GLSL rendering problems (??) (Tue Apr 24 2007 - 16:19:59 CDT)
- Re: GLSL rendering problems (??) (Tue Apr 24 2007 - 15:52:30 CDT)
- Re: how to reset a timed out connection (Tue Apr 24 2007 - 14:57:41 CDT)
- Re: Cheap 3D Glasses (Tue Apr 24 2007 - 14:26:11 CDT)
- Re: how to reset a timed out connection (Tue Apr 24 2007 - 13:44:13 CDT)
- Re: how to reset a timed out connection (Tue Apr 24 2007 - 11:27:22 CDT)
- Re: How to visualize phi maps calculated with delphi V. 4 (Mon Apr 23 2007 - 14:55:59 CDT)
- Re: tcl code atomselect problem in analysis (Mon Apr 23 2007 - 11:12:07 CDT)
- Re: How to visualize phi maps calculated with delphi V. 4 (Fri Apr 20 2007 - 21:07:01 CDT)
- Re: .xyz to .dcd using catdcd (Fri Apr 20 2007 - 15:36:36 CDT)
- Re: process and plot matrix data (Fri Apr 20 2007 - 14:47:44 CDT)
- Re: About using trace (Fri Apr 20 2007 - 12:02:14 CDT)
- Re: How can i obtain a force and trajectory data of a PHANTOM in IMD simulation (Wed Apr 18 2007 - 16:51:47 CDT)
- Re: How can i obtain a force and trajectory data of a PHANTOM in IMD simulation (Wed Apr 18 2007 - 16:50:16 CDT)
- Re: vmd can't start up after being installed in linux (Wed Apr 18 2007 - 16:14:32 CDT)
- Re: secondary_struct script (Wed Apr 18 2007 - 12:48:36 CDT)
- Re: vmd can't start up after being installed in linux (Wed Apr 18 2007 - 11:03:04 CDT)
- Re: vmd can't start up after being installed in linux (Tue Apr 17 2007 - 22:50:39 CDT)
- Re: GLSL rendering in VMD 1.8.6 (Tue Apr 17 2007 - 14:43:58 CDT)
- Re: sasa (Tue Apr 17 2007 - 13:15:22 CDT)
- Re: RE: "which files to make a spatial grid?" => Bug for list command? (Tue Apr 17 2007 - 13:11:52 CDT)
- Re: .xyz to .dcd using catdcd (Tue Apr 17 2007 - 12:48:12 CDT)
- Re: Strange characters using writemol2 (vmd 1.8.5) (Mon Apr 16 2007 - 18:39:17 CDT)
- Re: Tinker trajectory file (Mon Apr 16 2007 - 18:27:52 CDT)
- Re: VMD for Windows 64bits (Mon Apr 16 2007 - 11:01:48 CDT)
- Re: Where is the memory leakage? (Sun Apr 15 2007 - 01:14:52 CDT)
- Re: winvmd error during calculation (Sat Apr 14 2007 - 00:50:21 CDT)
- Re: GLSL rendering in VMD 1.8.6 (Fri Apr 13 2007 - 22:09:35 CDT)
- Re: sasa (Fri Apr 13 2007 - 11:07:50 CDT)
- Re: VMD installation (Fri Apr 13 2007 - 10:38:45 CDT)
- Re: sasa (Thu Apr 12 2007 - 15:08:32 CDT)
- Re: VMD 1.8.6 GLSL problem (Tue Apr 10 2007 - 10:22:57 CDT)
- Re: mismatch between phi and pdb files (Tue Apr 10 2007 - 08:34:19 CDT)
- Re: VMD 1.8.6 GLSL problem (Tue Apr 10 2007 - 08:00:26 CDT)
- Re: If I want to modify measure.C, what should I do? (Mon Apr 09 2007 - 16:52:50 CDT)
- Re: VMD 1.8.6 GLSL problem (Mon Apr 09 2007 - 01:15:44 CDT)
- Re: Re: windows version of VMD (Mon Apr 09 2007 - 01:01:35 CDT)
- Re: 'SURF' representation problem (Sun Apr 08 2007 - 13:47:34 CDT)
- Re: 1.8.6 install for Windows OpenGL (Microsoft Windows 2000/XP/Vista (32-bit) using OpenGL) (Sun Apr 08 2007 - 11:26:33 CDT)
- Announce: VMD 1.8.6 Released! (Sun Apr 08 2007 - 00:51:52 CDT)
- Re: GLSL rendering problems (Thu Apr 05 2007 - 15:34:03 CDT)
- Re: GLSL rendering problems (Thu Apr 05 2007 - 14:55:13 CDT)
- Re: Problem with Reading Binary ccp4 File Generated by CHARMM (Thu Apr 05 2007 - 12:22:23 CDT)
- Re: using Grace instead of Multiplot (Wed Apr 04 2007 - 12:13:45 CDT)
- Re: surface max_density error (Tue Apr 03 2007 - 12:31:16 CDT)
- Re: VMD for Win32 API based PC CAVE (Mon Apr 02 2007 - 11:57:45 CDT)
- Re: VMD for Win32 API based PC CAVE (Mon Apr 02 2007 - 11:55:34 CDT)
- Re: How do I overlap that specific nucletide between a protein and RNA? (Sun Apr 01 2007 - 23:07:46 CDT)
- Re: Can anyone help me out with this script (Sun Apr 01 2007 - 23:03:24 CDT)
- Re: Plugin Issue (Sat Mar 31 2007 - 00:19:20 CDT)
- Re: Can anyone help me out with this script (Sat Mar 31 2007 - 00:05:17 CDT)
- Re: 'SURF' representation problem (Thu Mar 29 2007 - 18:26:50 CDT)
- Re: python pro.align() (Thu Mar 29 2007 - 16:22:23 CDT)
- Re: 'SURF' representation problem (Thu Mar 29 2007 - 16:10:43 CDT)
- Re: how to view the dynamics in power point presentation (Thu Mar 29 2007 - 11:43:52 CDT)
- Re: Moving volume data with molecule (Thu Mar 29 2007 - 11:31:05 CDT)
- Re: dcd header information missing (Thu Mar 29 2007 - 11:03:17 CDT)
- Re: problem creating psf (Wed Mar 28 2007 - 22:27:50 CDT)
- Re: representation selection funnies (Wed Mar 28 2007 - 22:25:26 CDT)
- Re: doubts in movie making using vmd. (Wed Mar 28 2007 - 21:52:17 CDT)
- New VMD 1.8.6b15 installer for Windows XP x64... (Wed Mar 28 2007 - 18:17:29 CDT)
- Re: How to make a movie in VMD using principle component analysis (Wed Mar 28 2007 - 14:43:14 CDT)
- Re: Plugin Issue (Wed Mar 28 2007 - 11:13:06 CDT)
- Re: dynamic bonding (Tue Mar 27 2007 - 15:39:26 CDT)
- Re: representation selection funnies (Tue Mar 27 2007 - 14:25:01 CDT)
- Re: Question about overlaying structures (Tue Mar 27 2007 - 13:06:33 CDT)
- Re: problem creating psf (Tue Mar 27 2007 - 10:34:31 CDT)
- Re: PBCTools Plugin (Mon Mar 26 2007 - 15:56:23 CDT)
- Re: windows version of VMD (Mon Mar 26 2007 - 11:57:37 CDT)
- Re: Re: windows version of VMD (Sat Mar 24 2007 - 17:11:33 CDT)
- Re: Re: windows version of VMD (Sat Mar 24 2007 - 17:06:09 CDT)
- Re: hbond analysis (Sat Mar 24 2007 - 11:13:25 CDT)
- Re: can't read pdb file (Sat Mar 24 2007 - 00:52:55 CDT)
- Re: windows version of VMD (Fri Mar 23 2007 - 17:17:31 CDT)
- Re: VMD_orient (Fri Mar 23 2007 - 14:30:22 CDT)
- Re: hbond (Fri Mar 23 2007 - 14:08:04 CDT)
- Re: script to visualize NMR constrains? (Fri Mar 23 2007 - 14:06:02 CDT)
- Re: coloring names (Fri Mar 23 2007 - 14:01:05 CDT)
- Re: Draw a circle (Fri Mar 23 2007 - 10:25:36 CDT)
- Re: visualizing NMR constrains (Thu Mar 22 2007 - 21:06:20 CDT)
- Re: How to superimpose trajectories (Thu Mar 22 2007 - 10:46:08 CDT)
- Re: colors (Thu Mar 22 2007 - 10:00:06 CDT)
- Re: How to superimpose trajectories (Wed Mar 21 2007 - 15:33:56 CDT)
- Re: How to superimpose trajectories (Wed Mar 21 2007 - 15:26:20 CDT)
- Re: Any way to output contact map data (Wed Mar 21 2007 - 01:42:15 CDT)
- Re: graphic update (Tue Mar 20 2007 - 22:33:34 CDT)
- Re: graphic update (Tue Mar 20 2007 - 20:40:09 CDT)
- Re: OmpF biological unit (Mon Mar 19 2007 - 11:29:09 CDT)
- Re: Need helps about connecting phantom with VMD through VRPN (Mon Mar 19 2007 - 10:08:54 CDT)
- Re: Scripting problem with h-bond listing (Sun Mar 18 2007 - 01:54:15 CDT)
- Re: Question about overlaying structures (Thu Mar 15 2007 - 22:16:12 CDT)
- Re: VMD 1.8.6b binaries for win32? (Thu Mar 15 2007 - 18:48:14 CDT)
- Re: export Ramachandran datas (Thu Mar 15 2007 - 16:23:28 CDT)
- Re: NAMD Energy - Hexagonal Cell (Thu Mar 15 2007 - 14:03:48 CDT)
- Re: molecule orientation in saved state (Thu Mar 15 2007 - 13:40:07 CDT)
- Re: how to set atom index (Thu Mar 15 2007 - 13:20:12 CDT)
- Re: VMD 1.8.6b binaries for win32? (Wed Mar 14 2007 - 17:08:48 CDT)
- Re: Measuring specific distances over a trajectory (Wed Mar 14 2007 - 16:56:18 CDT)
- Re: Problems running APBS (Tue Mar 13 2007 - 14:32:22 CDT)
- Re: Problems running APBS (Tue Mar 13 2007 - 13:44:45 CDT)
- Re: Re: VolumeSlices (Tue Mar 13 2007 - 10:21:19 CDT)
- Re: Movie Maker: How to specify use of trajectory in the movie script file (Mon Mar 12 2007 - 20:56:51 CDT)
- Re: How to specify the orientation of the molecule (Mon Mar 12 2007 - 20:44:34 CDT)
- Re: VolumeSlices (Mon Mar 12 2007 - 17:29:11 CDT)
- Re: ed and vmd (Mon Mar 12 2007 - 17:23:24 CDT)
- Re: vmd on core 2 duo (Mon Mar 12 2007 - 09:21:47 CDT)
- Re: DCD for windows (Mon Mar 12 2007 - 01:15:22 CDT)
- Re: VMD (Sun Mar 11 2007 - 18:49:02 CDT)
- Re: VolumeSlices (Fri Mar 09 2007 - 10:10:11 CST)
- Re: VolumeSlices (Fri Mar 09 2007 - 09:42:39 CST)
- Re: Memory problems with Multiseq (Thu Mar 08 2007 - 17:38:50 CST)
- Re: count variable number of molecules (Wed Mar 07 2007 - 16:45:56 CST)
- Re: morph (Wed Mar 07 2007 - 16:43:29 CST)
- Re: Re: New Molecule (or Load Data) resets viewpoint of Display. Why? (Wed Mar 07 2007 - 16:41:04 CST)
- Re: unusual residue type problem.. (Wed Mar 07 2007 - 13:34:35 CST)
- Re: Locating channel using hole (Wed Mar 07 2007 - 13:26:41 CST)
- Re: DCD for windows (Tue Mar 06 2007 - 16:20:27 CST)
- Re: OpenGL problem (Tue Mar 06 2007 - 16:17:15 CST)
- Re: Delete Volume Maps via Script (Tue Mar 06 2007 - 14:47:07 CST)
- Re: unusual residue type problem.. (Tue Mar 06 2007 - 12:52:25 CST)
- Re: Locating channel using hole (Tue Mar 06 2007 - 12:43:42 CST)
- Re: Configuration file (Tue Mar 06 2007 - 10:02:47 CST)
- Re: New Molecule (or Load Data) resets viewpoint of Display. Why? (Mon Mar 05 2007 - 17:06:29 CST)
- Re: vmd core dump on IRIX (Mon Mar 05 2007 - 16:30:10 CST)
- Re: E-D stereo glasses (Sat Mar 03 2007 - 14:09:22 CST)
- Re: Compiling VMD from source on SDSC Datastar (AIX 5.2) (Fri Mar 02 2007 - 17:15:22 CST)
- Re: Cave and usr keys defined in tcl (Wed Feb 28 2007 - 00:00:22 CST)
- Re: Tracing VMD variables (Tue Feb 27 2007 - 13:31:21 CST)
- Re: Re: bug report in VMD 1.8.5 (Tue Feb 27 2007 - 12:48:46 CST)
- Re: VMD open GL Display problem (Tue Feb 27 2007 - 11:20:36 CST)
- Re: Re: bug report in VMD 1.8.5 (Mon Feb 26 2007 - 16:41:14 CST)
- Re: Small annoyance with tachion (Wed Feb 21 2007 - 17:27:18 CST)
- Re: Isosurface rendering (Wed Feb 21 2007 - 17:21:10 CST)
- Re: Isosurface rendering (Wed Feb 21 2007 - 11:45:22 CST)
- Re: superimposing two structures and getting the coordinates (Tue Feb 20 2007 - 12:56:53 CST)
- Re: Isosurface rendering (Tue Feb 20 2007 - 12:53:21 CST)
- Re: PC-gamess (Tue Feb 20 2007 - 10:55:57 CST)
- Re: Isosurface rendering (Tue Feb 20 2007 - 10:44:36 CST)
- Re: 3D grid data to 2D contour? (Tue Feb 20 2007 - 02:04:57 CST)
- Anyone have cyclic structures I can use for testing? (Tue Feb 20 2007 - 01:28:29 CST)
- Re: Files closing/Memory issues in VMD (Mon Feb 19 2007 - 17:30:16 CST)
- Re: Small annoyance with tachion (Sun Feb 18 2007 - 20:45:22 CST)
- Re: Small annoyance with tachion (Sat Feb 17 2007 - 12:22:25 CST)
- Re: stereo view (Fri Feb 16 2007 - 17:53:08 CST)
- Re: Measure atoms volume on VMD (Thu Feb 15 2007 - 23:02:17 CST)
- Re: Bug in the tcl script (Thu Feb 15 2007 - 22:44:32 CST)
- Re: deleting at vmd console (Thu Feb 15 2007 - 22:39:08 CST)
- Re: GL window offset problem (Thu Feb 15 2007 - 13:05:37 CST)
- Re: aligning molecules with different number of atoms (Mon Feb 12 2007 - 12:01:58 CST)
- Re: VMD-1.8.5: GLSL & NVidia troubles + fixed previous Spaceball problem (Sat Feb 10 2007 - 23:58:18 CST)
- Re: question about rotations (Fri Feb 09 2007 - 18:02:33 CST)
- Re: How to save the snapshot of my protein? (Fri Feb 09 2007 - 10:40:29 CST)
- Re: Changing the display window size in a script (Fri Feb 09 2007 - 03:06:28 CST)
- Re: How to save the snapshot of my protein? (Fri Feb 09 2007 - 02:59:19 CST)
- Re: Assigning Color Codes for stress/force in .xyz trajectory files (Fri Feb 09 2007 - 02:56:59 CST)
- Re: stride failed (Fri Feb 09 2007 - 02:24:12 CST)
- Re: Saving work in VMD--this seems ridiculously difficult! (Thu Feb 08 2007 - 18:34:34 CST)
- Making interactive 3-D PDF files using VMD 1.8.6 beta 7 (Thu Feb 08 2007 - 18:11:53 CST)
- Re: viewpoint (Thu Feb 08 2007 - 12:54:27 CST)
- Re: H-Bond display in VMD (Thu Feb 08 2007 - 12:37:03 CST)
- Re: making movie file (Mon Feb 05 2007 - 23:05:00 CST)
- Re: rendering time bars or other vmd added graphics with povray (Mon Feb 05 2007 - 15:17:08 CST)
- Re: Re: namd-l: too large an area/lipid in POPE bilayers using membrane plugin (Mon Feb 05 2007 - 14:52:48 CST)
- Re: about CHARMM electrostatic potential (Mon Feb 05 2007 - 14:47:51 CST)
- Re: indented atomselect variables (Mon Feb 05 2007 - 14:45:44 CST)
- Re: about CHARMM electrostaic potential (Mon Feb 05 2007 - 11:03:04 CST)
- Re: Units for Measure Dipole (Mon Feb 05 2007 - 10:32:40 CST)
- Re: Error while running scripts: terminate called after throwing an instance of 'std::bad_alloc' (Mon Feb 05 2007 - 10:04:31 CST)
- Re: Regarding com file error (Mon Feb 05 2007 - 10:01:01 CST)
- Re: creating gif animation with povray (Mon Feb 05 2007 - 09:56:28 CST)
- Re: volume slices (Sun Feb 04 2007 - 15:09:52 CST)
- Re: cartoon problems (encore) (Sat Feb 03 2007 - 15:39:17 CST)
- Re: Error while running scripts: terminate called after throwing an instance of 'std::bad_alloc' (Sat Feb 03 2007 - 00:45:58 CST)
- Re: creating gif animation with povray (Sat Feb 03 2007 - 00:54:16 CST)
- Re: Error while running scripts: terminate called after throwing an instance of 'std::bad_alloc' (Fri Feb 02 2007 - 16:21:44 CST)
- Re: addition on CHARMM electrostatic pot. (Thu Feb 01 2007 - 17:27:36 CST)
- Re: VMD performance on Vista (Thu Feb 01 2007 - 17:10:47 CST)
- Re: sending arguments to tcl (Thu Feb 01 2007 - 16:53:24 CST)
- Re: VMD error messages on intel iMac (Thu Feb 01 2007 - 16:02:46 CST)
- Re: sending arguments to tcl (Thu Feb 01 2007 - 14:56:00 CST)
- Re: CHARMM electrostatic potential (Thu Feb 01 2007 - 11:16:38 CST)
- Re: RES: uNABLE TO OPEN VMD ON WINDOWS 2K (Thu Feb 01 2007 - 11:05:32 CST)
- Re: uNABLE TO OPEN VMD ON WINDOWS 2K (Wed Jan 31 2007 - 21:32:47 CST)
- Re: animate write of a selection in Linux version of VMD (Wed Jan 31 2007 - 16:10:46 CST)
- Re: Volume Slice (Wed Jan 31 2007 - 15:59:36 CST)
- Re: About CHARMM electrostaic potential map (Wed Jan 31 2007 - 13:37:30 CST)
- Announce: New VMD Images and Movies tutorial posted online... (Wed Jan 31 2007 - 00:23:46 CST)
- Re: Python development (Tue Jan 30 2007 - 16:49:23 CST)
- Re: GLSL error (Mon Jan 29 2007 - 15:22:50 CST)
- Re: draw line (Fri Jan 26 2007 - 17:16:22 CST)
- Re: Getting (or changing) molinfo matrices (Fri Jan 26 2007 - 02:07:34 CST)
- Re: Regarding paratool (Fri Jan 26 2007 - 02:10:24 CST)
- Re: Error when compiling Plugins from source code (Thu Jan 25 2007 - 14:49:56 CST)
- Re: how to run membrane.tcl from user-defined location ? (Thu Jan 25 2007 - 02:01:12 CST)
- Re: Installing VMD on a PC (Thu Jan 25 2007 - 01:03:19 CST)
- Re: vector (Wed Jan 24 2007 - 12:19:36 CST)
- Re: Getting (or changing) molinfo matrices (Wed Jan 24 2007 - 12:05:08 CST)
- Re: Converting Files with VMD (Tue Jan 23 2007 - 17:47:54 CST)
- Re: [Fwd: pdb from trajectory] some clarification (Tue Jan 23 2007 - 13:45:07 CST)
- Re: Solvent accessibility with sasa (Thu Jan 18 2007 - 16:33:52 CST)
- Re: Large Molecule in CAVE Enviroment (Thu Jan 18 2007 - 01:59:41 CST)
- Re: Tk console issues (Wed Jan 17 2007 - 15:59:16 CST)
- Re: scripts in windows version (Wed Jan 17 2007 - 15:08:24 CST)
- Re: Windows/Cannot generate .dx file! (Wed Jan 17 2007 - 14:16:35 CST)
- Re: Loading DCD files (Wed Jan 17 2007 - 14:06:00 CST)
- Re: VMD quits (Wed Jan 17 2007 - 12:59:16 CST)
- Re: problem writing correct format psf file from vmd tk-console (Wed Jan 17 2007 - 12:26:48 CST)
- Re: loading molecules with increasing number of backbone atoms in VMD (Wed Jan 17 2007 - 12:05:37 CST)
- Re: scripts in windows version (Wed Jan 17 2007 - 12:01:20 CST)
- Re: MSMS on Windows (Wed Jan 17 2007 - 01:35:38 CST)
- Re: How to change title of display window? (Wed Jan 17 2007 - 01:27:52 CST)
- Re: VMD forks to background; can I disable this? (Wed Jan 17 2007 - 01:27:08 CST)
- Re: VMD scene information (Thu Jan 11 2007 - 15:15:22 CST)
- Re: VMD scene information (Wed Jan 10 2007 - 20:01:32 CST)
- Re: VMD scene information (Wed Jan 10 2007 - 12:55:53 CST)
- Re: Antw: Re: Unaligned access to ... (Tue Jan 09 2007 - 14:18:54 CST)
- Re: Grab tool: picking problems (Tue Jan 09 2007 - 14:25:54 CST)
- Re: Anyone have catdcd-4.0 for BlueGene? (Mon Jan 08 2007 - 15:41:10 CST)
- Re: error message using gofr (Mon Jan 08 2007 - 11:29:56 CST)
- Re: Unaligned access to ... (Mon Jan 08 2007 - 11:09:42 CST)
- Re: Removing water in tcl (Thu Jan 04 2007 - 16:38:59 CST)
- Re: vmd questions (Wed Jan 03 2007 - 13:05:34 CST)
- Re: recenter peptide in PBC (Wed Jan 03 2007 - 10:38:43 CST)
- Re: Fwd: Writing pdb without chain identifier (Wed Jan 03 2007 - 10:31:05 CST)
- Re: box information amber crdbox (Wed Jan 03 2007 - 10:23:46 CST)
- Re: Vizualization Problem while opening DX file (Wed Jan 03 2007 - 10:03:25 CST)
- Re: VMD email support next two weeks (Tue Dec 19 2006 - 01:17:02 CST)
- Re: CAVE Sensor Question (Tue Dec 19 2006 - 01:10:20 CST)
- Re: Stride (Tue Dec 19 2006 - 01:00:24 CST)
- VMD email support next two weeks (Sun Dec 17 2006 - 21:19:42 CST)
- Re: How to let vmd do secondary structure judgement for each frame and render it on play movie? (Sat Dec 16 2006 - 02:30:04 CST)
- Re: How to let vmd do secondary structure judgement for each frame and render it on play movie? (Fri Dec 15 2006 - 23:44:27 CST)
- Re: "cartoon" failing to show secondary structure--more info (Fri Dec 15 2006 - 14:08:59 CST)
- Re: "cartoon" failing to show secondary structure (Fri Dec 15 2006 - 11:13:05 CST)
- Re: moveby command in vmd (Fri Dec 15 2006 - 10:35:57 CST)
- Re: Installing VMD Windows version on 64-bit Windows Environment (Thu Dec 14 2006 - 14:41:09 CST)
- Re: electrostatic potential (Wed Dec 13 2006 - 15:56:25 CST)
- Re: Question about RMSD calculator (Tue Dec 12 2006 - 13:50:47 CST)
- Re: CAVE Question (Mon Dec 11 2006 - 10:21:12 CST)
- Re: drawing helices from partial aminoacids (Thu Dec 07 2006 - 11:04:39 CST)
- Re: Installing VMD 1.8.5 pon ubuntu linux (Mon Dec 04 2006 - 15:33:19 CST)
- Re: Antw: Re: CAve Question (Fri Dec 01 2006 - 10:53:06 CST)
- Re: problem with near clip (Fri Dec 01 2006 - 10:49:26 CST)
- Re: Installing VMD 1.8.5 pon ubuntu linux (Fri Dec 01 2006 - 10:41:00 CST)
- Re: problems with large structures (Fri Dec 01 2006 - 10:30:29 CST)
- Re: Poor man's stereolithography (Thu Nov 30 2006 - 10:42:08 CST)
- Re: Shutter glasses on VMD (Wed Nov 29 2006 - 15:19:25 CST)
- Re: Read dcd file error using vmd1.8.5 for windows (Wed Nov 29 2006 - 15:04:27 CST)
- Re: coloring residues with VMD (Wed Nov 29 2006 - 14:55:07 CST)
- Re: Antw: Re: CAve Question (Wed Nov 29 2006 - 14:25:37 CST)
- Re: ZN2 vs MG? (Wed Nov 29 2006 - 14:14:33 CST)
- Re: High res stl files (Tue Nov 28 2006 - 14:09:03 CST)
- Re: Read dcd file error using vmd1.8.5 for windows (Mon Nov 27 2006 - 22:21:59 CST)
- Re: CAve Question (Mon Nov 27 2006 - 14:50:57 CST)
- Re: VMD 1.8.3 works ok for 64-bit windows, but not VMD 1.8.5 (Fri Nov 24 2006 - 00:56:36 CST)
- Re: combine.tcl (Wed Nov 22 2006 - 12:12:14 CST)
- Re: Installing VMD Windows version on 64-bit Windows Environment (Wed Nov 22 2006 - 11:50:36 CST)
- Re: Writing a trajectory - with box information (Tue Nov 21 2006 - 13:22:11 CST)
- Re: Writing a trajectory - with box information (Tue Nov 21 2006 - 11:21:20 CST)
- Re: Running a script using text mode (Tue Nov 21 2006 - 10:31:11 CST)
- Re: Writing a trajectory - with box information (Mon Nov 20 2006 - 22:46:26 CST)
- Re: trajectory from separate frames (Mon Nov 20 2006 - 20:57:38 CST)
- VMD 1.8.6 test versions available, feedback requested... (Mon Nov 20 2006 - 15:26:33 CST)
- Re: Paratool problem (Mon Nov 20 2006 - 13:45:11 CST)
- Re: PSF files append!! (Fri Nov 17 2006 - 16:33:52 CST)
- Re: movie for Openoffice (Fri Nov 17 2006 - 15:55:00 CST)
- Re: Re:Problem rendering NewCartoon (Fri Nov 17 2006 - 13:37:26 CST)
- Re: Problem rendering NewCartoon (Fri Nov 17 2006 - 12:50:31 CST)
- Re: Change properties of representations - batch mode (Fri Nov 17 2006 - 11:13:05 CST)
- Re: VMD 'guesses' no. of frames? (Thu Nov 16 2006 - 22:00:44 CST)
- Re: VMD 'guesses' no. of frames? (Thu Nov 16 2006 - 21:49:09 CST)
- Re: VMD 'guesses' no. of frames? (Thu Nov 16 2006 - 21:27:53 CST)
- Re: Color surfaces by electrostatic potential (Thu Nov 16 2006 - 17:18:24 CST)
- Re: Elastic Properties (Wed Nov 15 2006 - 18:07:44 CST)
- VMD 1.8.5 plugin update 1 posted... (Wed Nov 15 2006 - 17:12:58 CST)
- Re: Paratool problem (Wed Nov 15 2006 - 15:54:55 CST)
- Re: python (Mon Nov 13 2006 - 10:35:02 CST)
- Re: Displaying biological unit revisited (Tue Nov 07 2006 - 17:08:12 CST)
- Re: Reading box info. from PQR file (Tue Nov 07 2006 - 17:05:14 CST)
- Re: Connecting a phantom with NAMD and VMD (Tue Nov 07 2006 - 16:40:45 CST)
- Re: gamess plungin for PC Gamess (Tue Nov 07 2006 - 15:34:33 CST)
- Re: ribbons representation for RNA in vmd 1.8.5 (Mon Nov 06 2006 - 17:26:32 CST)
- Re: IED individual eigenvectors/movie (Thu Nov 02 2006 - 11:27:52 CST)
- Re: .pdb file from XMD (Thu Nov 02 2006 - 10:45:49 CST)
- Re: Displaying biological unit revisited (Wed Nov 01 2006 - 16:32:29 CST)
- Re: VMD 1.8.4 support for AMBER binary trajectory files (Tue Oct 31 2006 - 19:52:15 CST)
- Re: installation problem (Tue Oct 31 2006 - 19:49:04 CST)
- Re: problem about "mol load psf md.pdf pdb md.pdb" (Fri Oct 27 2006 - 13:21:31 CDT)
- Re: VMD - ATI video card (Fri Oct 27 2006 - 12:44:14 CDT)
- Re: xterm problem?? (Fri Oct 27 2006 - 11:39:50 CDT)
- Re: VMD not working with a Matrox Graphic Card (Thu Oct 26 2006 - 11:22:24 CDT)
- Re: How to get the coordinates of periodic image! (Wed Oct 25 2006 - 13:55:20 CDT)
- Re: EIGENVECTOR ANALYSIS (Wed Oct 25 2006 - 12:40:57 CDT)
- Re: external force (Tue Oct 24 2006 - 13:11:11 CDT)
- Re: Error installing VMD 1.8.5. (Mon Oct 23 2006 - 12:13:35 CDT)
- Re: Using VMDPLUGIN_register_tcl (Wed Oct 18 2006 - 13:14:01 CDT)
- Re: retrieving the center of mass for each frame of trajectory (Wed Oct 18 2006 - 12:58:30 CDT)
- Re: differentiating solvent molecules...... (Tue Oct 17 2006 - 12:57:41 CDT)
- Re: Possible bug in LAMMPS plugin (Fri Oct 13 2006 - 16:53:56 CDT)
- Re: HBonds Representation (Fri Oct 13 2006 - 15:00:33 CDT)
- Re: Python on Intel Mac? (Fri Oct 13 2006 - 14:12:10 CDT)
- Re: Volumetric data: Periodic expansion does not work; why? (Fri Oct 13 2006 - 13:55:15 CDT)
- Test build of CHARMM PBEQ electrostatics map reader plugin (Thu Oct 12 2006 - 16:10:49 CDT)
- Re: Python on Intel Mac? (Thu Oct 12 2006 - 15:37:31 CDT)
- Re: IED (Thu Oct 12 2006 - 15:28:12 CDT)
- Re: movie (Wed Oct 11 2006 - 18:25:14 CDT)
- Re: Exporting a protein surface into a mesh (plain text file) (Mon Oct 09 2006 - 12:18:33 CDT)
- Re: trace to newcartoon inconsistent display problem (Fri Oct 06 2006 - 18:06:51 CDT)
- Re: VMD PDB to LEAP Readable PDB (Fri Oct 06 2006 - 14:59:36 CDT)
- Re: problem viewing cube files (Fri Oct 06 2006 - 14:54:06 CDT)
- Re: trace to newcartoon inconsistent display problem (Fri Oct 06 2006 - 14:37:55 CDT)
- Re: Possible bug in LAMMPS plugin (Wed Oct 04 2006 - 00:24:11 CDT)
- Re: lammps trajectory (Wed Oct 04 2006 - 00:19:00 CDT)
- Re: save coordinates after moving them. (Wed Oct 04 2006 - 00:12:59 CDT)
- Re: Changing Text Style (Wed Oct 04 2006 - 00:10:36 CDT)
- Re: Selecting Atomnumber (Wed Oct 04 2006 - 00:06:25 CDT)
- Re: Error on DNA (Tue Oct 03 2006 - 23:52:24 CDT)
- Re: top2psf script (Tue Oct 03 2006 - 23:42:25 CDT)
- Re: save coordinates after moving them. (Tue Oct 03 2006 - 14:35:50 CDT)
- Re: Does volume coloring require GLSL rendering? (Tue Oct 03 2006 - 14:27:52 CDT)
- Re: Connectivity lost when loading second pdb (Tue Oct 03 2006 - 00:38:41 CDT)
- Re: problem loading dcd file (Sun Oct 01 2006 - 21:36:44 CDT)
- Re: Using namdplot from the command line (Thu Sep 28 2006 - 14:18:48 CDT)
- Re: VMD Installation Help (Tue Sep 26 2006 - 12:55:52 CDT)
- Re: GRASP plugin for VMD (Tue Sep 26 2006 - 12:52:06 CDT)
- Re: Re: sidechain atomselection (Mon Sep 25 2006 - 22:55:10 CDT)
- Re: 1.8.5: VASP plugin not correct (Mon Sep 25 2006 - 21:23:42 CDT)
- Re: 1.8.5: VASP plugin not correct (Mon Sep 25 2006 - 09:18:08 CDT)
- Re: 1.8.5: VASP plugin not correct (Mon Sep 25 2006 - 07:48:33 CDT)
- Re: 1.8.5: VASP plugin not correct (Mon Sep 25 2006 - 06:23:48 CDT)
- Re: What unit system does VMD use? (Sat Sep 23 2006 - 21:27:44 CDT)
- Re: visualizing charges (Sat Sep 23 2006 - 03:00:55 CDT)
- Re: 1.8.5: VASP plugin not correct (Fri Sep 22 2006 - 12:36:44 CDT)
- Re: Precompiled 1.8.5 for Linux-IA64 installs with wrong flags in lib directory? (Thu Sep 21 2006 - 05:53:47 CDT)
- Re: Computer for 3D visualization (Thu Sep 21 2006 - 05:51:23 CDT)
- Re: importing VMD python modules from external interpreterr (Thu Sep 21 2006 - 05:41:32 CDT)
- Re: VMD won't make mpg out of my trajectory (Wed Sep 20 2006 - 15:17:46 CDT)
- Re: ribbons representation for RNA in vmd 1.8.5 (Wed Sep 20 2006 - 13:56:33 CDT)
- Re: VMD won't make mpg out of my trajectory (Wed Sep 20 2006 - 13:47:03 CDT)
- Re: importing VMD python modules from external interpreterr (Tue Sep 19 2006 - 22:49:20 CDT)
- Re: how to show biological unit coordiates from PDB using VMD? (Sun Sep 17 2006 - 03:20:39 CDT)
- Re: problem in visualizing gaussian log file (Thu Sep 14 2006 - 13:21:22 CDT)
- Re: puts format (Wed Sep 13 2006 - 16:27:34 CDT)
- Re: antialiasing (Wed Sep 13 2006 - 14:07:44 CDT)
- Re: how to run a plugin from the command line? (Mon Sep 11 2006 - 23:34:01 CDT)
- Re: Graphics cards (Mon Sep 11 2006 - 11:34:32 CDT)
- Re: Labels not appearing with "load state" (Sun Sep 10 2006 - 01:36:13 CDT)
- Re: How to use bigdcd in vmd batch mode? (Fri Sep 08 2006 - 16:32:18 CDT)
- Re: Ramachandran Map of 2 pdbs (Fri Sep 08 2006 - 13:13:23 CDT)
- Re: Win64 version (Wed Sep 06 2006 - 15:10:46 CDT)
- Re: dynamical list of atoms (Wed Sep 06 2006 - 11:01:29 CDT)
- Re: different number of atoms in different frames of a trajectory (Mon Sep 04 2006 - 22:46:01 CDT)
- Re: qsub (torque/maui) and vmd (Mon Sep 04 2006 - 22:38:40 CDT)
- Re: looking for VMD draw scripts. (Fri Sep 01 2006 - 17:03:37 CDT)
- Re: looking for VMD draw scripts. (Fri Sep 01 2006 - 16:07:38 CDT)
- Re: Where did I put those angles? (Thu Aug 31 2006 - 17:57:18 CDT)
- Re: Dynamic bond calculation (Tue Aug 29 2006 - 14:27:46 CDT)
- Re: question about visualization (Tue Aug 29 2006 - 12:58:40 CDT)
- Re: VMD1.8.5 : multiseq db (Tue Aug 29 2006 - 12:55:03 CDT)
- Re: A error of " transforming dcd into pdb " (Tue Aug 29 2006 - 11:51:00 CDT)
- Re: Problem with vmdsphere.frag shader (Mon Aug 28 2006 - 11:58:37 CDT)
- Re: Problem with vmdsphere.frag shader (Mon Aug 28 2006 - 11:44:38 CDT)
- Re: GLSL failure in VMD 1.8.5, Nvidia 6200 card (Mon Aug 28 2006 - 11:37:48 CDT)
- Re: water numbering (Mon Aug 28 2006 - 11:33:18 CDT)
- Re: water numbering (Mon Aug 28 2006 - 11:28:06 CDT)
- Re: Re: autoionize behaviour on big systems (Mon Aug 28 2006 - 01:21:49 CDT)
- Re: autoionize behaviour on big systems (Mon Aug 28 2006 - 00:59:33 CDT)
- Announce: VMD 1.8.5 Released! (Fri Aug 25 2006 - 23:51:22 CDT)
- Re: problems with autoionize (Thu Aug 24 2006 - 21:52:35 CDT)
- Re: animated gif option in VMD for Windows. (Thu Aug 24 2006 - 15:00:01 CDT)
- Re: Unexpected End-of-file? (Thu Aug 24 2006 - 00:44:22 CDT)
- Re: spikes in trajectory, problem with the alignment of frames (Wed Aug 23 2006 - 22:27:52 CDT)
- Re: problems with autoionize (Tue Aug 22 2006 - 21:48:24 CDT)
- Re: problems with autoionize (Tue Aug 22 2006 - 20:56:03 CDT)
- Re: VMD and IED for Tiger? (Tue Aug 22 2006 - 20:17:45 CDT)
- Re: problems with autoionize (Tue Aug 22 2006 - 19:02:12 CDT)
- Re: problems with autoionize (Tue Aug 22 2006 - 17:45:34 CDT)
- Re: md trajectory: centering/h-bonb residence/coordination number (Mon Aug 21 2006 - 11:02:49 CDT)
- Re: changing the name of a residue (Mon Aug 21 2006 - 10:37:59 CDT)
- Re: large mdcrd files (Sun Aug 20 2006 - 14:09:50 CDT)
- Re: RealD (Stereographics) E2SGI emitter on Quadro 3450? (Fri Aug 18 2006 - 22:33:36 CDT)
- Re: load MSMS face file into VMD (Fri Aug 18 2006 - 16:24:55 CDT)
- Re: Fwd: Crystal eyes stereo on un supported Mac G5 GeForce FX5200 (Fri Aug 18 2006 - 11:42:34 CDT)
- Re: reading cmap wih vmd (Thu Aug 17 2006 - 23:43:50 CDT)
- Re: Load (Thu Aug 17 2006 - 14:04:21 CDT)
- Re: Manipulation on loaded MSMS surface (Wed Aug 16 2006 - 23:26:54 CDT)
- Re: Re: stereo enabler (Wed Aug 16 2006 - 16:21:44 CDT)
- Re: rendering transparent objects (Wed Aug 16 2006 - 15:43:57 CDT)
- Re: stereo on LCD display = pipe dream? (Wed Aug 16 2006 - 14:02:24 CDT)
- Re: minimum distance b/w two atoms (Tue Aug 15 2006 - 18:21:12 CDT)
- VMD 1.8.5 beta 7 test version posted (Sun Aug 13 2006 - 17:49:32 CDT)
- Re: color: negative values (Sat Aug 12 2006 - 14:50:14 CDT)
- Re: Installation of VMD on Mandriva Linux 2006 (Sat Aug 12 2006 - 13:34:42 CDT)
- Re: Installation of VMD on Mandriva Linux 2006 (Sat Aug 12 2006 - 10:40:12 CDT)
- Re: right alignment for numbers in color bar (Sat Aug 12 2006 - 03:42:53 CDT)
- Re: right alignment for numbers in color bar (Sat Aug 12 2006 - 00:15:58 CDT)
- Re: right alignment for numbers in color bar (Fri Aug 11 2006 - 23:15:27 CDT)
- Re: Axes dilema (Fri Aug 11 2006 - 22:27:58 CDT)
- favorite VMD material settings? (Fri Aug 11 2006 - 14:47:18 CDT)
- Re: Compiling VMD with full OpenGL (Thu Aug 10 2006 - 17:08:48 CDT)
- Re: test versions of VMD 1.8.5 -DLPOLY (Thu Aug 10 2006 - 11:51:38 CDT)
- Re: Compiling VMD with full OpenGL (Thu Aug 10 2006 - 11:09:35 CDT)
- Re: visualization code (Wed Aug 09 2006 - 22:45:06 CDT)
- Re: making movie from GROMACS trajectory (Wed Aug 09 2006 - 20:27:25 CDT)
- Re: Periodic builder? (Wed Aug 09 2006 - 13:36:16 CDT)
- Re: No stereo display support in Windows Vista... (Tue Aug 08 2006 - 11:26:07 CDT)
- Re: (Tue Aug 08 2006 - 11:08:08 CDT)
- Re: No stereo display support in Windows Vista... (Mon Aug 07 2006 - 23:38:02 CDT)
- No stereo display support in Windows Vista... (Mon Aug 07 2006 - 12:52:00 CDT)
- Re: loading trajectory file (Mon Aug 07 2006 - 11:46:34 CDT)
- Re: Cannot run IED! :( (Thu Aug 03 2006 - 11:30:01 CDT)
- Re: Cannot run IED! :( (Thu Aug 03 2006 - 10:40:15 CDT)
- Re: Cannot run IED! :( (Wed Aug 02 2006 - 21:53:55 CDT)
- 2006 VMD user survey in progress (Wed Aug 02 2006 - 18:05:13 CDT)
- Re: about maximum number of atoms (Wed Aug 02 2006 - 17:25:32 CDT)
- Re: about maximum number of atoms (Wed Aug 02 2006 - 16:53:53 CDT)
- Re: about maximum number of atoms (Wed Aug 02 2006 - 15:39:50 CDT)
- Re: rendering..... (Mon Jul 31 2006 - 17:39:15 CDT)
- Latest list of VMD citations (Wed Jul 26 2006 - 15:58:09 CDT)
- Re: AMBER9 netcdf trajectory loading (Wed Jul 26 2006 - 13:27:37 CDT)
- Re: DL_POLY output files (Tue Jul 25 2006 - 15:59:58 CDT)
- Re: Rendering surfaces from PLT files (Tue Jul 25 2006 - 12:41:53 CDT)
- Re: trajectory file format (Tue Jul 25 2006 - 12:39:40 CDT)
- Re: Unable to ionize a solvated structure using autoionization (Mon Jul 24 2006 - 11:59:11 CDT)
- Re: Rendering surfaces from PLT files (Mon Jul 24 2006 - 11:56:51 CDT)
- Re: Atomselection for negative values (Wed Jul 19 2006 - 17:03:14 CDT)
- Re: Reading Amber .crd files (Tue Jul 18 2006 - 12:38:26 CDT)
- Re: Reading Amber .prd and PARM files into VMD (Tue Jul 18 2006 - 12:37:27 CDT)
- Re: secondary structure assignment (Mon Jul 17 2006 - 16:01:54 CDT)
- Re: Anyone using ATI X1600? (Mon Jul 17 2006 - 11:17:25 CDT)
- Re: secondary structure assignment (Mon Jul 17 2006 - 10:40:43 CDT)
- Re: Selecting the "n" closest waters (Thu Jul 13 2006 - 16:53:32 CDT)
- Re: Selecting the "n" closest waters (Thu Jul 13 2006 - 15:58:49 CDT)
- Re: water selection (Thu Jul 13 2006 - 10:47:11 CDT)
- Re: water selection (Thu Jul 13 2006 - 10:46:37 CDT)
- Re: Anyone using ATI X1600? (Thu Jul 13 2006 - 10:42:38 CDT)
- Re: residue no. greater than 9999 in pdb files created with VMD (Wed Jul 12 2006 - 11:16:21 CDT)
- Re: Feature request: output to Blender 3D modelling software (Wed Jul 12 2006 - 00:07:45 CDT)
- Re: Feature request: output to Blender 3D modelling software (Tue Jul 11 2006 - 16:18:23 CDT)
- Re: Feature request: output to Blender 3D modelling software (Tue Jul 11 2006 - 11:06:43 CDT)
- Re: VMD selection options and local density maps (Fri Jul 07 2006 - 13:49:27 CDT)
- Re: Queries on making polymer (Fri Jul 07 2006 - 13:37:40 CDT)
- Re: residue list of within ? distance (Thu Jul 06 2006 - 16:52:59 CDT)
- Re: 3Dconnexion SpaceTraveler works (Thu Jul 06 2006 - 13:21:22 CDT)
- Re: how to prevent molecule jump around (Thu Jul 06 2006 - 13:19:08 CDT)
- Re: VMD as background job on multiprocessor machine doesn't work? (Thu Jul 06 2006 - 13:00:57 CDT)
- Re: xyz animation (Thu Jul 06 2006 - 12:56:46 CDT)
- Re: Renaming Molecule Names in existing .xyz trajectory files (Tue Jul 04 2006 - 23:11:56 CDT)
- Re: Trajectory Analysis (Tue Jul 04 2006 - 22:56:28 CDT)
- Re: debug (Tue Jul 04 2006 - 22:43:57 CDT)
- Re: Renaming Molecule Names in existing .xyz trajectory files (Tue Jul 04 2006 - 22:37:09 CDT)
- Re: VMD crashed due to: vmd_LINUXAMD64: indirect_vertex_array.c:659: emit_DrawArrays_old: Assertion `elements_per_request >= count' failed (Tue Jun 27 2006 - 17:15:03 CDT)
- Re: VMD performance bottlenecks (Tue Jun 27 2006 - 17:00:26 CDT)
- Re: coordinate translation (Tue Jun 27 2006 - 16:57:41 CDT)
- Re: Tcl commands on Mac (Mon Jun 26 2006 - 18:01:55 CDT)
- Re: water box... (Mon Jun 26 2006 - 17:32:45 CDT)
- Re: bonds forming during simulation (Mon Jun 26 2006 - 14:48:11 CDT)
- Re: GLSL Compile Error (VMD 1.8.4, Nvidia Driver 8762) (Mon Jun 26 2006 - 11:22:48 CDT)
- Re: a question about "measure fit" (Fri Jun 23 2006 - 11:13:26 CDT)
- Re: problem with measure command (Fri Jun 23 2006 - 11:09:00 CDT)
- Re: problem with measure command (Fri Jun 23 2006 - 10:34:03 CDT)
- Re: psfgen (Thu Jun 22 2006 - 15:45:15 CDT)
- Re: .vmdrc (Thu Jun 22 2006 - 15:17:31 CDT)
- Re: error using Namdenergy (Thu Jun 22 2006 - 15:06:12 CDT)
- Re: error message occurred in RMSD Trajectory Tool (Thu Jun 22 2006 - 14:36:46 CDT)
- Re: Is there any script to analyze radius gyration, center of mass of namd traj file dcd? (Thu Jun 22 2006 - 14:07:45 CDT)
- Re: error message occurred in RMSD Trajectory Tool (Thu Jun 22 2006 - 13:53:37 CDT)
- Re: the python library error in VMD when do IED (Thu Jun 22 2006 - 13:51:31 CDT)
- Re: align and superimpose crd structures. (Wed Jun 21 2006 - 17:03:38 CDT)
- Re: error Autoimd (Wed Jun 21 2006 - 14:24:27 CDT)
- Re: pdbalias not working (Wed Jun 21 2006 - 13:55:41 CDT)
- Re: align and superimpose crd structures. (Wed Jun 21 2006 - 13:34:48 CDT)
- Re: align and superimpose crd structures. (Wed Jun 21 2006 - 13:32:33 CDT)
- Re: Average Structure and RMSD (Wed Jun 21 2006 - 13:29:44 CDT)
- Re: (Wed Jun 21 2006 - 13:21:42 CDT)
- Re: Making a Movie (Tue Jun 20 2006 - 16:21:31 CDT)
- Re: RMSF ? (Tue Jun 20 2006 - 16:13:57 CDT)
- Re: the python library error in VMD when do IED (Mon Jun 19 2006 - 15:55:13 CDT)
- Re: Compiling problem (Mon Jun 19 2006 - 14:46:57 CDT)
- Re: VMD crashed due to: vmd_LINUXAMD64: indirect_vertex_array.c:659: emit_DrawArrays_old: Assertion `elements_per_request >= count' failed (Mon Jun 19 2006 - 14:43:06 CDT)
- Re: Compilation propblem (Mon Jun 19 2006 - 13:19:16 CDT)
- Re: error Autoimd (Thu Jun 15 2006 - 15:38:23 CDT)
- Re: user-defined movie (Wed Jun 14 2006 - 16:58:09 CDT)
- Re: how to change paramters in making movie (Wed Jun 14 2006 - 13:45:14 CDT)
- Re: python - writes frames to pdb files (Tue Jun 13 2006 - 15:51:24 CDT)
- Re: fading rep scripts (Tue Jun 13 2006 - 13:42:31 CDT)
- Re: fading rep scripts (Tue Jun 13 2006 - 13:28:10 CDT)
- Re: fading rep scripts (Tue Jun 13 2006 - 12:53:17 CDT)
- Re: missing" Number of frames to render" in VMD window movie generator (Tue Jun 13 2006 - 11:51:15 CDT)
- Re: (no subject) (Tue Jun 13 2006 - 11:47:30 CDT)
- Re: RMSD of not fitted region (Tue Jun 13 2006 - 11:17:07 CDT)
- Re: fading rep scripts (Tue Jun 13 2006 - 11:16:03 CDT)
- Re: fading rep scripts (Mon Jun 12 2006 - 17:43:59 CDT)
- Re: Segmentation fault when trying to load GROMACS trajectories (Mon Jun 12 2006 - 13:42:26 CDT)
- Re: membrane plugin (IRIX version) (Wed Jun 07 2006 - 14:42:43 CDT)
- Re: problem with installation (Wed Jun 07 2006 - 11:32:52 CDT)
- Re: Simple one-liner? (Wed Jun 07 2006 - 11:11:23 CDT)
- Re: problem with installation (Wed Jun 07 2006 - 11:02:06 CDT)
- Re: how to make movies from HISTORY file (Tue Jun 06 2006 - 13:20:32 CDT)
- Re: "tight" selection (Tue Jun 06 2006 - 13:14:42 CDT)
- Re: (Tue Jun 06 2006 - 12:59:57 CDT)
- Re: Incomplete Display (Mon Jun 05 2006 - 17:02:21 CDT)
- Re: Small molecules alignment with VMD (Mon Jun 05 2006 - 10:34:29 CDT)
- Re: vmd in fedora core 5 (Mon Jun 05 2006 - 10:32:15 CDT)
- Re: Incomplete Display (Mon Jun 05 2006 - 10:30:08 CDT)
- Re: Problems with APBS Compatibility (Fri Jun 02 2006 - 13:40:55 CDT)
- Re: How to show 3D images in the display window of VMD (Fri Jun 02 2006 - 12:27:14 CDT)
- Re: vmd 1.8.5 (Fri Jun 02 2006 - 12:24:19 CDT)
- Re: Global Command to load 200 pdb files, without using script files (Fri Jun 02 2006 - 11:52:30 CDT)
- Re: Problems with APBS Compatibility (Thu Jun 01 2006 - 18:01:15 CDT)
- Re: How to make bold font? (Thu Jun 01 2006 - 15:28:27 CDT)
- Re: simple plugin (Thu Jun 01 2006 - 14:02:50 CDT)
- Re: error. Autoimd (Thu Jun 01 2006 - 12:46:38 CDT)
- Re: file bigger than 2GB (Thu Jun 01 2006 - 12:44:28 CDT)
- Re: NewCartoon and mol2 files (Thu Jun 01 2006 - 12:36:29 CDT)
- Re: extended xyz (Wed May 31 2006 - 16:42:07 CDT)
- Re: extended xyz (Wed May 31 2006 - 16:38:03 CDT)
- Re: simple plugin (Wed May 31 2006 - 16:25:08 CDT)
- Re: NewCartoon and mol2 files (Wed May 31 2006 - 10:55:47 CDT)
- Re: AMD64 vmd installation problems (Wed May 31 2006 - 10:38:54 CDT)
- Re: how to save a structure after alignment? (Tue May 30 2006 - 17:32:24 CDT)
- Re: secondary structure assignment (Tue May 30 2006 - 17:01:24 CDT)
- Re: catDCD 4.0 and xplor (Tue May 30 2006 - 15:41:02 CDT)
- Re: PDB CONECT (Tue May 30 2006 - 15:37:41 CDT)
- Re: contact between 2 residues (Tue May 30 2006 - 14:27:24 CDT)
- Re: paratool ? (Fri May 26 2006 - 21:16:21 CDT)
- Re: vmd on opteron (Fri May 26 2006 - 15:12:12 CDT)
- Re: rmsf (Thu May 25 2006 - 14:54:21 CDT)
- Re: the crystal structure of gold: questions about making the psf and about visualization in VMD; (Thu May 25 2006 - 14:48:50 CDT)
- Re: Compilation (Thu May 25 2006 - 14:35:31 CDT)
- Re: Compilation (Thu May 25 2006 - 14:31:03 CDT)
- Re: Compilation (Thu May 25 2006 - 14:24:57 CDT)
- Re: something about simulation of small molecules in NAMD (Thu May 25 2006 - 14:20:40 CDT)
- Re: Fw: (ÈðÐÇÌáÊ¾-´ËÓÊ¼þ¿ÉÄÜÊÇÀ¬»øÓÊ¼þ)Re: vmd-lQ?= gamess plugin error when using symmetry operations (Thu May 25 2006 - 14:17:20 CDT)
- Re: change default drawing and coloring method (Wed May 24 2006 - 16:28:51 CDT)
- Re: xyz files into dcd trajectory (Wed May 24 2006 - 16:19:15 CDT)
- Re: xyz files into dcd trajectory (Wed May 24 2006 - 15:58:23 CDT)
- Re: Display the electrostatic character (delphimap) on the structure file (Wed May 24 2006 - 13:37:50 CDT)
- Re: data file extensions (Wed May 24 2006 - 13:04:16 CDT)
- Re: xyz files into dcd trajectory (Wed May 24 2006 - 13:00:34 CDT)
- Re: the crystal structure of gold: questions about making the psf and about visualization in VMD; update (Tue May 23 2006 - 14:56:30 CDT)
- Re: installation problem: InstallShield (Tue May 23 2006 - 14:39:44 CDT)
- Re: How to make bold font? (Tue May 23 2006 - 13:59:41 CDT)
- Re: change default drawing and coloring method (Tue May 23 2006 - 13:19:13 CDT)
- Re: Gaussian Cube file with VMD (Tue May 23 2006 - 13:14:29 CDT)
- Re: redhat linux vmd (Tue May 23 2006 - 13:09:02 CDT)
- Re: change default drawing and coloring method (Tue May 23 2006 - 13:05:51 CDT)
- Re: gamess plugin error when using symmetry operations (Tue May 23 2006 - 13:02:30 CDT)
- Re: How do I change details of a drawing style using the text interface? (Mon May 22 2006 - 17:52:31 CDT)
- Re: redhat linux vmd (Mon May 22 2006 - 16:19:39 CDT)
- Re: Stereo VMD on Mac G5 (Mon May 22 2006 - 16:13:42 CDT)
- Re: scrolling up in vmd console (Mon May 22 2006 - 15:18:01 CDT)
- Re: how to enable the vmd cachemode in .vmdrc? (Mon May 22 2006 - 15:15:57 CDT)
- Re: Solutions for stereo - is CRT technology dead? (Mon May 22 2006 - 10:54:02 CDT)
- Re: Axel RE: high resolution images (Fri May 19 2006 - 15:30:13 CDT)
- Re: reading DLPoly VMD 1.8.4 (Fri May 19 2006 - 15:28:44 CDT)
- Re: water molecules in residue interaction (Fri May 19 2006 - 11:50:07 CDT)
- Re: ati interlace mode (Fri May 19 2006 - 11:45:48 CDT)
- Re: ati interlace mode (Thu May 18 2006 - 18:32:03 CDT)
- Re: Plugin compilation problem (Thu May 18 2006 - 17:57:48 CDT)
- reporting various NVidia driver bugs... (Thu May 18 2006 - 16:14:43 CDT)
- Re: reading DLPoly VMD 1.8.4 (Thu May 18 2006 - 11:42:17 CDT)
- Re: bug in membrane plugin (Wed May 17 2006 - 13:59:01 CDT)
- Re: ati interlace mode (Wed May 17 2006 - 13:07:24 CDT)
- Re: Display the electrostatic character (delphimap) on the structure file (Tue May 16 2006 - 13:14:20 CDT)
- Re: How to make a disulphide bond (Tue May 16 2006 - 13:12:42 CDT)
- Re: Multiple data files on command line does not seem to work (Tue May 16 2006 - 10:58:05 CDT)
- Re: ati interlace mode (Tue May 16 2006 - 10:47:03 CDT)
- Re: wraping two chains from a simulation (Mon May 15 2006 - 12:39:30 CDT)
- Re: bug in membrane plugin (Mon May 15 2006 - 12:33:29 CDT)
- Re: Display the electrostatic character (delphimap) on the structure file (Mon May 15 2006 - 12:29:27 CDT)
- Re: Display the electrostatic character (delphimap) on the structure file (Mon May 15 2006 - 12:15:11 CDT)
- Re: Plugin compilation (Mon May 15 2006 - 12:13:49 CDT)
- Re: Gamepads and VMD (and MacOSX and ForceFeedback) (Mon May 15 2006 - 12:04:35 CDT)
- Re: ati interlace mode (Mon May 15 2006 - 12:01:50 CDT)
- Re: Display the electrostatic character (delphimap) on the structure file (Tue May 09 2006 - 09:25:09 CDT)
- Re: How to pick up the lost periodic information? (Tue May 09 2006 - 09:21:31 CDT)
- Re: How to pick up the lost periodic information? (Tue May 09 2006 - 09:16:59 CDT)
- Re: How to access the subset after 'fit' and 'move' ? (Mon May 08 2006 - 18:21:19 CDT)
- Re: How to pick up the lost periodic information? (Mon May 08 2006 - 15:40:30 CDT)
- Re: NAMD from command line args (Sat May 06 2006 - 21:25:47 CDT)
- New test version posted... (Fri May 05 2006 - 19:39:47 CDT)
- Re: writing charmm psf files (Fri May 05 2006 - 10:00:11 CDT)
- Re: writing charmm psf files (Fri May 05 2006 - 09:42:18 CDT)
- Re: povray problem: degenerate cylinder (Fri May 05 2006 - 09:38:02 CDT)
- Re: viewing heteroatoms? (Thu May 04 2006 - 20:15:36 CDT)
- Re: visualizing biological molecule? (Thu May 04 2006 - 19:56:50 CDT)
- Re: Re: Refreshing the screen (Thu May 04 2006 - 17:09:17 CDT)
- Re: script for multiple structure superimposition? (Thu May 04 2006 - 16:58:04 CDT)
- Re: Refreshing the screen (Thu May 04 2006 - 12:25:38 CDT)
- Re: visualizing biological molecule? (Thu May 04 2006 - 10:57:22 CDT)
- Re: dlpoly history files in vmd 1.8.4 (Thu May 04 2006 - 10:38:26 CDT)
- Re: dlpoly history files in vmd 1.8.4 (Thu May 04 2006 - 08:28:45 CDT)
- Re: selecting frames from trajectory (Wed May 03 2006 - 18:12:04 CDT)
- Re: Playing part of a trajectory using TCL (Wed May 03 2006 - 18:06:12 CDT)
- Re: selecting frames from trajectory (Wed May 03 2006 - 17:52:21 CDT)
- Re: dlpoly history files in vmd 1.8.4 (Wed May 03 2006 - 17:34:16 CDT)
- Re: Water and protein (Wed May 03 2006 - 14:16:50 CDT)
- Re: missing cell length on DCD (Wed May 03 2006 - 14:15:13 CDT)
- Re: Using RMSD without loading all structures? (Wed May 03 2006 - 12:38:43 CDT)
- Re: dlpoly history files in vmd 1.8.4 (Wed May 03 2006 - 10:24:15 CDT)
- Re: search path and naming conventions for custom TCL scripts (Wed May 03 2006 - 10:12:03 CDT)
- Re: cavity/pocket representation (Tue May 02 2006 - 13:05:12 CDT)
- Re: coordinates of an atom (Tue May 02 2006 - 11:22:37 CDT)
- Re: one residue rmsd (Tue May 02 2006 - 11:00:59 CDT)
- Re: ppmtompeg (Tue May 02 2006 - 10:48:16 CDT)
- Re: saving coordinates of expanded cell (Tue May 02 2006 - 10:44:20 CDT)
- Re: Compile of OpenGL shader vmdsphere failed (Tue May 02 2006 - 10:26:41 CDT)
- Re: coordinates of an atom (Tue May 02 2006 - 10:13:23 CDT)
- Re: OFF drawing method (Tue May 02 2006 - 10:07:49 CDT)
- Re: loading amber topology (Mon May 01 2006 - 14:10:18 CDT)
- Re: Re: Building VMD in Windows (Mon May 01 2006 - 10:17:19 CDT)
- Re: VMD with charmm program (Sun Apr 30 2006 - 09:24:22 CDT)
- Re: Problems with mouse programming in VMD (Sun Apr 30 2006 - 09:16:26 CDT)
- Re: Building VMD in Windows (Sun Apr 30 2006 - 09:11:01 CDT)
- Re: VMD on LINUX with CAVELib (Sun Apr 30 2006 - 00:32:53 CDT)
- Re: Problems with mouse programming in VMD (Sat Apr 29 2006 - 22:50:11 CDT)
- Re: Building VMD in Windows (Sat Apr 29 2006 - 22:48:09 CDT)
- Re: hiding and renaming of graphical objects (Fri Apr 28 2006 - 12:45:21 CDT)
- Re: OpenGL Programmable Shading not available. (Fri Apr 28 2006 - 10:11:21 CDT)
- Re: Problems with mouse programming in VMD (Thu Apr 27 2006 - 12:45:44 CDT)
- Re: Problems with mouse programming in VMD (Thu Apr 27 2006 - 11:52:55 CDT)
- Re: Secondary Structure along a trajectory (Thu Apr 27 2006 - 11:12:29 CDT)
- Re: Compiling problem (Wed Apr 26 2006 - 15:06:11 CDT)
- Re: fedora core 5 and VMD 1.8.4 (Tue Apr 25 2006 - 23:54:27 CDT)
- Re: fedora core 5 and VMD 1.8.4 (Tue Apr 25 2006 - 22:51:55 CDT)
- Re: fedora core 5 and VMD 1.8.4 (Tue Apr 25 2006 - 19:20:27 CDT)
- Re: truncated octahedron from AMBER (Tue Apr 25 2006 - 13:51:41 CDT)
- Re: Problem with wait (Tue Apr 25 2006 - 12:59:07 CDT)
- Re: questions for 1.8.4 (Tue Apr 25 2006 - 10:49:28 CDT)
- Re: Movie for Trajectory analysis (Tue Apr 25 2006 - 10:41:00 CDT)
- Re: Problem with VMD 1.8.4 on Mac OS X 10.4.6 PPC (Tue Apr 25 2006 - 10:29:38 CDT)
- Re: tcl question (Tue Apr 25 2006 - 10:15:55 CDT)
- Updated "Hull" source code for delaunay script... (Mon Apr 24 2006 - 20:11:50 CDT)
- Re: rendering high resolution images (Mon Apr 24 2006 - 16:30:38 CDT)
- Re: tcl logging and plugins (Mon Apr 24 2006 - 14:07:26 CDT)
- Re: core dump (Mon Apr 24 2006 - 03:45:08 CDT)
- Re: questions for 1.8.4 (Fri Apr 21 2006 - 14:52:32 CDT)
- Re: VMD's Python/Tcl - importing libraries (Fri Apr 21 2006 - 11:48:07 CDT)
- Python libs posted for VMD 1.8.4 users... (Wed Apr 19 2006 - 20:33:15 CDT)
- Re: contact map lig-pro (Wed Apr 19 2006 - 17:46:14 CDT)
- Announce: VMD 1.8.4 Released!! (Mon Apr 17 2006 - 11:37:34 CDT)
- Re: VMD-L: how to select water molecules between two residues in a trajectory. (Mon Apr 17 2006 - 11:33:19 CDT)
- Re: python math library (Sun Apr 16 2006 - 22:08:42 CDT)
- Re: vmd 1.8a21 (Sun Apr 16 2006 - 17:06:07 CDT)
- Re: breaking the DCD file (Sun Apr 16 2006 - 17:12:32 CDT)
- Re: vmd 1.8a21 (Sun Apr 16 2006 - 13:05:59 CDT)
- Re: MacBookPro and VMD version (Sun Apr 16 2006 - 02:14:50 CDT)
- Re: python math library (Sun Apr 16 2006 - 00:34:52 CDT)
- Re: VMD-L: how to select water molecules between two residues in a trajectory. (Sat Apr 15 2006 - 17:17:16 CDT)
- Re: python (Thu Apr 13 2006 - 23:01:06 CDT)
- Re: making movie with move on each frame... (Thu Apr 13 2006 - 10:00:51 CDT)
- Re: merging two pdbs??? (Thu Apr 13 2006 - 01:37:20 CDT)
- Re: Warning) Unusual bond between residues 25 and 26 (Thu Apr 13 2006 - 01:34:09 CDT)
- Re: Re: namd-l: error in membrane producing (Thu Apr 13 2006 - 01:21:39 CDT)
- Re: selection in different pcb images (Thu Apr 13 2006 - 00:09:46 CDT)
- Re: python math library (Wed Apr 12 2006 - 22:09:14 CDT)
- Re: python math library (Wed Apr 12 2006 - 21:25:37 CDT)
- Re: a question about ribbon representation (Wed Apr 12 2006 - 16:04:05 CDT)
- Re: (xterm: Command not found) error (Wed Apr 12 2006 - 14:29:07 CDT)
- Re: GLSL rendermode now OK on Linux with NVidia 8756 driver version (Tue Apr 11 2006 - 12:28:43 CDT)
- Re: need HELP with psf file (Mon Apr 10 2006 - 23:55:53 CDT)
- Re: water layers (Mon Apr 10 2006 - 11:35:44 CDT)
- Re: making movie with move on each frame... (Mon Apr 10 2006 - 11:33:37 CDT)
- Re: libcprts.so.6 not found by VMD on RedHat EL3 (ia64). (Mon Apr 10 2006 - 10:20:52 CDT)
- Re: RNA first residue (Thu Apr 06 2006 - 14:29:42 CDT)
- Re: dict command (Thu Apr 06 2006 - 09:55:36 CDT)
- Re: NAMD to Amber (Thu Apr 06 2006 - 09:49:39 CDT)
- Re: STL rendering (Thu Apr 06 2006 - 09:45:01 CDT)
- Re: how to plot waters h-bonded to a protein? (Thu Apr 06 2006 - 09:42:00 CDT)
- Re: download pdb files from PDB with vmd 1.8.4b10 (Thu Apr 06 2006 - 09:36:28 CDT)
- Re: Summing volumetric data within a sub-volume of a simulation cell (Thu Apr 06 2006 - 00:05:04 CDT)
- Re: SURF -rendering problem (Thu Apr 06 2006 - 00:01:55 CDT)
- Re: error during creat .psf file (Wed Apr 05 2006 - 23:14:27 CDT)
- Re: question about psfgen (Wed Apr 05 2006 - 22:57:32 CDT)
- Re: error during creat .psf file (Wed Apr 05 2006 - 21:47:21 CDT)
- Re: warning from psfgen: poorly guessed coordinates... (Wed Apr 05 2006 - 20:47:40 CDT)
- Re: python Numeric library problem (Wed Apr 05 2006 - 20:21:52 CDT)
- Re: membrane loading (Wed Apr 05 2006 - 17:36:06 CDT)
- Re: Re: graphic representation (Wed Apr 05 2006 - 15:30:37 CDT)
- Re: Re: graphic representation (Wed Apr 05 2006 - 15:14:26 CDT)
- Re: membrane loading (Wed Apr 05 2006 - 14:32:38 CDT)
- Re: graphic representation (Wed Apr 05 2006 - 13:33:31 CDT)
- Re: SURF -rendering problem (Wed Apr 05 2006 - 12:32:49 CDT)
- Re: graphic representation (Wed Apr 05 2006 - 12:29:09 CDT)
- Re: dict command (Wed Apr 05 2006 - 10:11:08 CDT)
- Re: box information (Tue Apr 04 2006 - 17:27:17 CDT)
- Re: ied on vmd (Tue Apr 04 2006 - 16:41:02 CDT)
- Re: python Numeric library problem (Tue Apr 04 2006 - 16:00:09 CDT)
- Re: alternative display mode of HBonds (Tue Apr 04 2006 - 14:46:46 CDT)
- Re: question on vmd installation (Tue Apr 04 2006 - 14:43:58 CDT)
- Re: MacBookPro and VMD version (Tue Apr 04 2006 - 14:23:50 CDT)
- Fix for SELinux breaking VMD on FC5 (Tue Apr 04 2006 - 11:28:38 CDT)
- latest beta nVidia driver for Windows looks good so far... (Mon Apr 03 2006 - 20:00:50 CDT)
- Re: question on vmd installation (Mon Apr 03 2006 - 11:18:45 CDT)
- Re: special instructions in psfgen for circular proteins? (Sun Apr 02 2006 - 20:14:28 CDT)
- Re: problem with vmd (Sun Apr 02 2006 - 20:11:42 CDT)
- Re: vmd visualization problems with circular proteins (Sun Apr 02 2006 - 18:13:06 CDT)
- Re: about viewing charge density (Sun Apr 02 2006 - 14:37:46 CDT)
- Re: how to show biological unit coordiates from PDB using VMD? (Fri Mar 31 2006 - 16:27:21 CST)
- Re: how to show biological unit coordiates from PDB using VMD? (Fri Mar 31 2006 - 16:15:14 CST)
- Re: Compiling problem (Fri Mar 31 2006 - 16:13:07 CST)
- Re: how to show biological unit coordiates from PDB using VMD? (Fri Mar 31 2006 - 15:52:08 CST)
- Re: script to change representaiton (Thu Mar 30 2006 - 17:55:05 CST)
- Re: script to change representaiton (Thu Mar 30 2006 - 17:24:24 CST)
- Re: problem with vmd (Wed Mar 29 2006 - 14:26:40 CST)
- Re: Stereo on MacG5 (single processor) for VMD, Chimera UCSF etc. (Wed Mar 29 2006 - 14:23:25 CST)
- Re: stereo on MacG5 with Nvidia GeForce FX 5200 (Wed Mar 29 2006 - 14:20:57 CST)
- Re: strange vdw representation behavior (Wed Mar 29 2006 - 14:18:50 CST)
- Re: stereo on MacG5 (Wed Mar 29 2006 - 12:48:05 CST)
- Re: labels (Wed Mar 29 2006 - 10:54:12 CST)
- Re: script for cutting box (Wed Mar 29 2006 - 10:24:32 CST)
- Re: Stereo on MacG5 (single processor) for VMD, Chimera UCSF etc. (Wed Mar 29 2006 - 10:19:06 CST)
- Re: problem with vmd (Wed Mar 29 2006 - 10:05:30 CST)
- Re: script for cutting box (Wed Mar 29 2006 - 09:48:05 CST)
- Re: problem with vmd (Tue Mar 28 2006 - 14:06:30 CST)
- Re: namd-l: Re: boubt about consistency of measures (Mon Mar 27 2006 - 21:37:55 CST)
- Re: Some errors (Mon Mar 27 2006 - 19:09:30 CST)
- Re: problem with viewing gromacs xtc files in vmd (Mon Mar 27 2006 - 10:12:51 CST)
- Re: boubt about consistency of measures (Mon Mar 27 2006 - 00:47:16 CST)
- Re: extracting values from a dx file (Mon Mar 27 2006 - 00:00:48 CST)
- Re: Possible error in aligning/computing RMSD of 2 molecules with three or two atoms (Sun Mar 26 2006 - 23:58:57 CST)
- Re: Possible error in aligning/computing RMSD of 2 molecules with three or two atoms (Thu Mar 23 2006 - 15:55:38 CST)
- Re: movie quality degradation (Thu Mar 23 2006 - 11:51:41 CST)
- Re: Big trr trajectory (Thu Mar 23 2006 - 10:28:14 CST)
- Re: force over selection (Thu Mar 23 2006 - 10:26:50 CST)
- Re: Analysis (Thu Mar 23 2006 - 10:12:01 CST)
- Re: find neighbour ligand-protein (Thu Mar 23 2006 - 08:57:52 CST)
- Re: autoionize "error procesing bonds" (Wed Mar 22 2006 - 16:58:16 CST)
- Re: distance tween two atoms (Wed Mar 22 2006 - 16:55:45 CST)
- Re: energy calculation in VMD (Wed Mar 22 2006 - 16:48:08 CST)
- Re: euler angles (Wed Mar 22 2006 - 13:30:55 CST)
- Re: Problem with differentiating atoms from different frames for dcd file (Wed Mar 22 2006 - 10:23:41 CST)
- Re: Something about loading LAMMPS trace file (Wed Mar 22 2006 - 01:55:19 CST)
- Re: about the psfgen of vmd (Tue Mar 21 2006 - 10:37:14 CST)
- Re: sausage nmr ensemble (Tue Mar 21 2006 - 10:34:01 CST)
- Re: pdb - generation (Tue Mar 21 2006 - 10:16:00 CST)
- Re: sausage nmr ensemble (Tue Mar 21 2006 - 09:50:08 CST)
- Re: VMD Command (Tue Mar 21 2006 - 01:17:36 CST)
- Re: error loading dcd file on Windows XP (Fri Mar 17 2006 - 16:28:17 CST)
- Re: Problem with gopython (Fri Mar 17 2006 - 11:17:33 CST)
- VMD 1.8.4b12 test version, Wiki / BioCoRE public area (Thu Mar 16 2006 - 16:44:57 CST)
- Re: error loading dcd file on Windows XP (Thu Mar 16 2006 - 15:30:43 CST)
- Re: changing the color of subset of representation (Wed Mar 15 2006 - 18:59:20 CST)
- Re: change default bond cutoff distance (Wed Mar 15 2006 - 18:35:02 CST)
- Re: large selection (Wed Mar 15 2006 - 10:13:58 CST)
- Re: changing the color of subset of representation (Wed Mar 15 2006 - 10:09:46 CST)
- Re: changing the color of subset of representation (Wed Mar 15 2006 - 10:05:55 CST)
- Re: large selection (Tue Mar 14 2006 - 18:05:29 CST)
- Re: changing the color of subset of representation (Tue Mar 14 2006 - 15:34:57 CST)
- Re: Strange GLSL rendering (Tue Mar 14 2006 - 10:20:11 CST)
- Re: changing the color of subset of representation (Tue Mar 14 2006 - 00:39:40 CST)
- Re: cartoon selection (Tue Mar 14 2006 - 00:27:38 CST)
- Re: change default bond cutoff distance (Tue Mar 14 2006 - 00:18:33 CST)
- Re: changing the color of subset of representation (Mon Mar 13 2006 - 11:41:19 CST)
- Re: contact map definition (Mon Mar 13 2006 - 11:34:02 CST)
- Re: changing colours isosurface (Mon Mar 13 2006 - 11:17:08 CST)
- Re: IMD with linux VMD client and IBM namd server (Mon Mar 13 2006 - 10:31:24 CST)
- Re: user field memory demand (Mon Mar 13 2006 - 10:24:21 CST)
- Re: Convert an ascii matrix to an image (Mon Mar 13 2006 - 10:18:17 CST)
- Re: VMD script (Mon Mar 13 2006 - 10:17:25 CST)
- Re: drawing a truncated octahedron (Fri Mar 10 2006 - 18:40:17 CST)
- Re: VMD script (Fri Mar 10 2006 - 13:47:47 CST)
- Re: electrostatic potential maps in vmd (Fri Mar 10 2006 - 11:24:47 CST)
- Re: is possible to remove the waterbox before running VMD (Thu Mar 09 2006 - 10:40:39 CST)
- Re: is possible to remove the waterbox before running VMD (Thu Mar 09 2006 - 10:39:27 CST)
- Re: a display problem (Thu Mar 09 2006 - 10:33:27 CST)
- Re: chain fails (Wed Mar 08 2006 - 16:24:21 CST)
- Re: nVidia Quadro FX1400 Stereo Clone Mode (Wed Mar 08 2006 - 13:35:48 CST)
- Re: About VMD compile in win32 (Wed Mar 08 2006 - 11:18:25 CST)
- Re: Analysis (Wed Mar 08 2006 - 10:55:49 CST)
- Re: Atom name label (Wed Mar 08 2006 - 09:42:02 CST)
- Re: energy minimization of a trajectory with vmd+namd (Wed Mar 08 2006 - 09:39:30 CST)
- Re: change default bond cutoff distance (Tue Mar 07 2006 - 10:55:23 CST)
- Re: pbc and vmd (Tue Mar 07 2006 - 10:05:19 CST)
- Re: pbc and vmd (Mon Mar 06 2006 - 19:20:18 CST)
- Re: manipulate DLPOLY HISTORY files (Mon Mar 06 2006 - 19:14:18 CST)
- Re: question about electrostatic potential maps (Wed Mar 01 2006 - 16:50:00 CST)
- Re: selection of atoms on INSIDE protein (Wed Mar 01 2006 - 16:44:04 CST)
- Re: (Wed Mar 01 2006 - 14:56:46 CST)
- Re: question about electrostatic potential maps (Wed Mar 01 2006 - 09:50:47 CST)
- Re: Q:selection of atoms on the surface of a molecule (Tue Feb 28 2006 - 17:35:00 CST)
- Re: Warning) Unusual bond between residues 25 and 26 (Mon Feb 27 2006 - 16:25:38 CST)
- Re: isplay script that displays a system in the original pbc cell (Mon Feb 27 2006 - 16:11:07 CST)
- Re: question about electrostatic potential maps (Mon Feb 27 2006 - 16:06:56 CST)
- Re: converting pdb to xtc (Mon Feb 27 2006 - 11:13:22 CST)
- Re: Atomselection problem (Fri Feb 24 2006 - 17:07:48 CST)
- Re: representation using COM (Fri Feb 24 2006 - 13:56:40 CST)
- Re: Mapping electronic potential to surface (Fri Feb 24 2006 - 13:08:51 CST)
- Re: loading a trajectory using bigdcd and job launched on a PBS server (Thu Feb 23 2006 - 16:31:10 CST)
- Re: isplay script that displays a system in the original pbc cell (Thu Feb 23 2006 - 13:50:49 CST)
- Re: render text in VMD with Tachyon (Thu Feb 23 2006 - 12:39:51 CST)
- Re: Mapping electronic potential to surface (Thu Feb 23 2006 - 11:48:47 CST)
- Re: Moving domains in VMD (Thu Feb 23 2006 - 11:46:13 CST)
- Re: load multiple CRD trajectories into a PDB file (Thu Feb 23 2006 - 11:42:24 CST)
- Re: very large pdb file (Thu Feb 23 2006 - 11:26:34 CST)
- Re: How to display a periodic image using TCL commands? (Wed Feb 22 2006 - 11:11:23 CST)
- VMD /w >2GB RAM on Windows XP, and Windows XP x64 64-bit version... (Wed Feb 22 2006 - 10:51:19 CST)
- Re: read_next_timestep(...) (Tue Feb 21 2006 - 09:53:55 CST)
- Re: Problem with Hg, H (Mon Feb 20 2006 - 18:41:22 CST)
- Re: catdcd.LINUX (Thu Feb 16 2006 - 14:17:03 CST)
- Re: How can i use the catdcd plugin with the VMD windows version? (Thu Feb 16 2006 - 13:42:30 CST)
- Re: problem with script to get RMSD (Thu Feb 16 2006 - 13:41:21 CST)
- Re: catdcd.LINUX (Thu Feb 16 2006 - 13:32:27 CST)
- Re: PDB Parser cannot interpret ^M ? (Wed Feb 15 2006 - 11:29:03 CST)
- Re: fortran bindings for molfile library (Wed Feb 15 2006 - 10:22:04 CST)
- Re: moving an atom in VMD (Tue Feb 14 2006 - 19:58:28 CST)
- Re: PSF tools in windows and long paths (Tue Feb 14 2006 - 16:11:54 CST)
- Re: Problem with VMD 'animate' command (Tue Feb 14 2006 - 10:32:20 CST)
- Re: water box (Sun Feb 12 2006 - 16:33:58 CST)
- Re: VMD Plugin update for Windows problem (Sun Feb 12 2006 - 16:21:09 CST)
- Re: Problem with VMD 'animate' command (Sun Feb 12 2006 - 16:02:36 CST)
- Re: VMD 1.8.4 beta 11 test version available (Fri Feb 10 2006 - 19:12:57 CST)
- Re: VMD 1.8.4 beta 11 test version available (Fri Feb 10 2006 - 17:50:44 CST)
- VMD 1.8.4 beta 11 test version available (Fri Feb 10 2006 - 17:20:47 CST)
- Re: VTK with VMD (Fri Feb 10 2006 - 13:52:53 CST)
- Re: AtomSel with object index (Python scripting) (Fri Feb 10 2006 - 13:26:44 CST)
- Re: batchmode use of "labels" functions? (Fri Feb 10 2006 - 12:50:40 CST)
- Re: vmd-1.8.4b10/Linux amd64 only libstdc++.so.6 dependancy (Fri Feb 10 2006 - 12:45:19 CST)
- Re: uncompress files in tcl script (Thu Feb 09 2006 - 15:18:24 CST)
- Re: vmd-1.8.4b10/Linux amd64 only libstdc++.so.6 dependancy (Thu Feb 09 2006 - 13:30:59 CST)
- Re: vmd-1.8.4b10/Linux amd64 only libstdc++.so.6 dependancy (Thu Feb 09 2006 - 11:08:19 CST)
- Re: vmd-1.8.4b10/Linux amd64 only libstdc++.so.6 dependancy (Thu Feb 09 2006 - 09:38:08 CST)
- Re: Moving molecules with Spaceball or with a Tool (Wed Feb 08 2006 - 18:06:43 CST)
- Re: OpenGL Shading Program is not available (Wed Feb 08 2006 - 18:04:21 CST)
- Re: vmd-1.8.4b10/Linux amd64 only libstdc++.so.6 dependancy (Wed Feb 08 2006 - 17:48:25 CST)
- Re: Tcl scripting (Wed Feb 08 2006 - 17:34:53 CST)
- Re: trajectory2 (Mon Feb 06 2006 - 18:08:01 CST)
- Re: trajectory (Mon Feb 06 2006 - 12:44:13 CST)
- Looking for x86 Mac testers... (Fri Feb 03 2006 - 19:55:57 CST)
- Re: vmdtext on Mac OS X (Fri Feb 03 2006 - 17:19:37 CST)
- Re: compose pdb (Fri Feb 03 2006 - 12:42:49 CST)
- Re: installing problem python 2.2.2 for ied on amd64 (Thu Feb 02 2006 - 17:51:13 CST)
- Re: vmdtext on Mac OS X (Thu Feb 02 2006 - 17:34:43 CST)
- Re: Problems with Spaceball 4000FLX (Thu Feb 02 2006 - 17:31:45 CST)
- Re: external ??? (Thu Feb 02 2006 - 10:06:02 CST)
- Re: stereo with vmd (Wed Feb 01 2006 - 17:06:00 CST)
- Re: a question about dcd files (Wed Feb 01 2006 - 14:29:15 CST)
- Re: vmd installation on the server (Tue Jan 31 2006 - 13:41:55 CST)
- Re: printing to a file from a procedure to get RMSD (Tue Jan 31 2006 - 10:43:23 CST)
- Re: ntdll.dll problem when changing drawing methods (Mon Jan 30 2006 - 16:32:10 CST)
- Re: timeline - write canvas to ps (Mon Jan 30 2006 - 16:28:10 CST)
- Re: opendx and vmd (Mon Jan 30 2006 - 14:43:39 CST)
- Re: grid (Mon Jan 30 2006 - 10:15:29 CST)
- Re: vmd installation on the server (Mon Jan 30 2006 - 10:08:37 CST)
- Re: installing vmd on IBM AIX 5 (Fri Jan 27 2006 - 16:30:02 CST)
- Re: installing vmd on IBM AIX 5 (Fri Jan 27 2006 - 16:25:29 CST)
- Re: installing vmd on IBM AIX 5 (Fri Jan 27 2006 - 16:13:55 CST)
- Re: installing vmd on IBM AIX 5 (Fri Jan 27 2006 - 15:58:53 CST)
- Re: Can't load a large dcd? (Fri Jan 27 2006 - 15:28:31 CST)
- Re: An APBS problem (Fri Jan 27 2006 - 13:56:03 CST)
- Re: web script (Fri Jan 27 2006 - 12:59:44 CST)
- Re: Question: Cannot input hostname (LINUXAMD64.opengl) (Thu Jan 26 2006 - 14:24:30 CST)
- Re: distances on a isosurface plot (Thu Jan 26 2006 - 14:21:37 CST)
- Re: Changing Graphical Representations (Thu Jan 26 2006 - 14:03:29 CST)
- Re: vmd plugins / external programs (Thu Jan 26 2006 - 13:54:06 CST)
- Re: IED-plugin (Thu Jan 26 2006 - 12:45:52 CST)
- Re: Can't load a large dcd? (Thu Jan 26 2006 - 10:41:41 CST)
- Re: Can't load a large dcd? (Wed Jan 25 2006 - 10:23:36 CST)
- Re: Generating more than 100,000 water molecules (Tue Jan 24 2006 - 15:26:18 CST)
- Re: vmdmovie (ppmtompeg) doesn't work (Tue Jan 24 2006 - 12:50:56 CST)
- Re: pytjhon (Tue Jan 24 2006 - 11:25:06 CST)
- Re: problem with APBS pqr generation... (Tue Jan 24 2006 - 11:21:16 CST)
- Re: error loading pdb files (Tue Jan 24 2006 - 11:13:39 CST)
- Re: Adding New Color Definitions to Color Form (Tue Jan 24 2006 - 10:11:21 CST)
- Re: error loading pdb files (Tue Jan 24 2006 - 10:09:12 CST)
- Re: large DCD file "appears to contain no timesteps" (Mon Jan 23 2006 - 13:28:49 CST)
- Re: 64 bit NAMD on AIX and CatDCD (Mon Jan 23 2006 - 13:21:14 CST)
- Re: rod-like shapes (Fri Jan 20 2006 - 17:05:26 CST)
- Re: measure hbonds question (Fri Jan 20 2006 - 16:43:20 CST)
- Re: measure hbonds question (Fri Jan 20 2006 - 15:31:28 CST)
- Re: measure hbonds question (Fri Jan 20 2006 - 15:02:37 CST)
- Re: creating periodic images of an atom (Fri Jan 20 2006 - 14:39:57 CST)
- Re: X-PLOR EDM files (from AMBER) (Fri Jan 20 2006 - 14:27:39 CST)
- Re: loading X-PLOR grids created with ptraj (Fri Jan 20 2006 - 10:05:01 CST)
- Re: generating a huge number of water molecules (Thu Jan 19 2006 - 14:40:22 CST)
- Re: creating periodic images of an atom (Wed Jan 18 2006 - 17:08:27 CST)
- Re: Secondary Structure Stays at the last frame (Wed Jan 18 2006 - 16:04:52 CST)
- Re: opengl not found (Tue Jan 17 2006 - 10:49:40 CST)
- Re: get values from openDx grid format (Tue Jan 17 2006 - 10:46:10 CST)
- Re: [vmd] max number of molecules on mac (Tue Jan 17 2006 - 10:06:26 CST)
- Re: maximum number of molecules (Fri Jan 13 2006 - 13:36:39 CST)
- Re: mpeg1 movie output makes 0Kb file - any one know why? (Thu Jan 12 2006 - 10:58:22 CST)
- Re: mpeg1 movie output makes 0Kb file - any one know why? (Thu Jan 12 2006 - 10:57:11 CST)
- Re: secondary structure's display - problem (Thu Jan 12 2006 - 10:12:47 CST)
- Re: script no reading correct number of frames (Thu Jan 12 2006 - 10:07:41 CST)
- Re: mpeg1 movie output makes 0Kb file - any one know why? (Thu Jan 12 2006 - 09:57:17 CST)
- Re: Re: breaking a big dcd file (Wed Jan 11 2006 - 16:23:26 CST)
- Re: How to display text on helices ? (Wed Jan 11 2006 - 12:58:00 CST)
- Re: secondary structure's display - problem (Wed Jan 11 2006 - 09:58:28 CST)
- Re: High CPU usage with vmd-1.8.4b6 (99.9 %CPU ...) while using the FPS indicator (Tue Jan 10 2006 - 09:54:52 CST)
- Re: problem with generating movie from pdb files (Mon Jan 09 2006 - 17:08:46 CST)
- Re: how to use APBS (Mon Jan 09 2006 - 16:38:24 CST)
- Re: How to display text on helices ? (Mon Jan 09 2006 - 11:50:38 CST)
- Re: RMSF value of a group of atoms (Mon Jan 09 2006 - 11:34:46 CST)
- Re: problem in using "Automatic PSF Builder" (Mon Jan 09 2006 - 11:17:12 CST)
- Re: question about script for drawing dipole moment for helix (Mon Jan 09 2006 - 11:08:54 CST)
- VMD 1.8.4 beta 7 posted for testers... (Wed Jan 04 2006 - 19:19:35 CST)
- Re: Help on MD animation with VMD (Wed Jan 04 2006 - 18:24:15 CST)
- Re: CMAP problem (Tue Jan 03 2006 - 14:05:32 CST)
- Re: installation problem on solaris 9 (Tue Jan 03 2006 - 10:31:44 CST)
- Re: installing IED on vmd on windows (Tue Jan 03 2006 - 10:25:13 CST)
- Re: pdb structure off the web (Tue Jan 03 2006 - 10:06:25 CST)
- Re: problem in using "Automatic PSF Builder" (Wed Dec 28 2005 - 14:42:36 CST)
- Re: Loading a pdb traj in VMD 1.8.4 beta 6 (Wed Dec 28 2005 - 14:38:11 CST)
- Re: Charmm expanded coordinate file format? (Mon Dec 26 2005 - 12:02:31 CST)
- Re: VMD 1.8.4 beta 6 posted on the web... (Mon Dec 26 2005 - 11:59:43 CST)
- Re: how to use APBS (Thu Dec 22 2005 - 16:49:37 CST)
- VMD 1.8.4 beta 6 posted on the web... (Thu Dec 22 2005 - 16:46:43 CST)
- Re: ati radeon 9200 (Thu Dec 22 2005 - 10:18:17 CST)
- Re: FYI: vmd & vrpn v7.0b5 (Wed Dec 21 2005 - 09:57:26 CST)
- Re: breaking a big dcd file (Tue Dec 20 2005 - 16:28:31 CST)
- Re: Video card compatibility (Tue Dec 20 2005 - 14:54:02 CST)
- Re: vmd and xmgrace (Mon Dec 19 2005 - 17:24:32 CST)
- Re: Calculation of RMSF (Mon Dec 19 2005 - 17:21:51 CST)
- Re: vmd and xmgrace (Mon Dec 19 2005 - 17:13:10 CST)
- Re: Error in running VMD on AMD64-bit machine (Fedora Core 4) (Mon Dec 19 2005 - 16:54:21 CST)
- Re: how to measure the distance between centroids (Mon Dec 19 2005 - 16:51:29 CST)
- Re: message in the console (Mon Dec 19 2005 - 11:47:36 CST)
- Re: question about "then: then/endif not found" in the start VMD. (Fri Dec 16 2005 - 13:17:28 CST)
- Re: vmd-xplor and noe call (Thu Dec 15 2005 - 09:51:52 CST)
- Re: Calculation of RMSF (Wed Dec 14 2005 - 18:45:30 CST)
- Re: RMSD problem on 1.8.4a22 (Linux OpenGL) (Wed Dec 14 2005 - 12:48:00 CST)
- Re: extract euler angles from transformation matrix? (Wed Dec 14 2005 - 10:11:34 CST)
- Re: VMD 1.8.4 hangs on AMD64 (Tue Dec 13 2005 - 13:28:18 CST)
- Re: Re: compilation from source: make error message (Mon Dec 12 2005 - 15:36:49 CST)
- Re: lags on VDW (Mon Dec 12 2005 - 10:44:09 CST)
- Re: compilation from source: make error message (Mon Dec 12 2005 - 10:02:59 CST)
- Re: babel compilation error (Fri Dec 09 2005 - 12:59:39 CST)
- Re: coloring trajectory depending on coordination number (Fri Dec 09 2005 - 10:57:18 CST)
- Re: babel compilation error (Fri Dec 09 2005 - 10:10:20 CST)
- Re: spaceballs, etc. (Fri Dec 09 2005 - 09:54:11 CST)
- Re: animate error handling (Fri Dec 09 2005 - 09:50:32 CST)
- Re: fedora core 4 install problem (Fri Dec 09 2005 - 09:49:22 CST)
- Re: compilation from source: first attempt failed (Fri Dec 09 2005 - 09:46:08 CST)
- Re: Quite confused with Movie Maker (Thu Dec 08 2005 - 18:17:02 CST)
- Re: calling scripts from the command line (Thu Dec 08 2005 - 18:12:26 CST)
- Re: Two questions: MacOS X and Raster3D output (Thu Dec 08 2005 - 16:45:16 CST)
- Re: spaceballs, etc. (Thu Dec 08 2005 - 16:39:36 CST)
- Re: s-s bond in vmd not visualized (Thu Dec 08 2005 - 16:36:29 CST)
- Re: sorry John .. I found them (Thu Dec 08 2005 - 15:16:30 CST)
- Re: plugin source tree (Thu Dec 08 2005 - 15:15:35 CST)
- Re: babel compilation error (Thu Dec 08 2005 - 14:30:13 CST)
- Re: PBC and H-bond detection (Thu Dec 08 2005 - 13:40:13 CST)
- Re: APBS plugin (Thu Dec 08 2005 - 11:16:19 CST)
- Re: APBS plugin (Thu Dec 08 2005 - 10:14:01 CST)
- Re: APBS plugin (Wed Dec 07 2005 - 17:08:21 CST)
- Re: Clipping plane tool and export (Wed Dec 07 2005 - 13:17:20 CST)
- Re: Problem in linking (with TCL included in webpdbplugin.c) (Wed Dec 07 2005 - 10:47:51 CST)
- Re: colorid (Wed Dec 07 2005 - 10:17:58 CST)
- Re: Protein volume and cavityes (Wed Dec 07 2005 - 10:05:27 CST)
- Re: compiling vmd from source--will that solve ied issue? (Wed Dec 07 2005 - 10:01:13 CST)
- Re: Delphi binary phi map problem (Tue Dec 06 2005 - 17:08:10 CST)
- Re: coloring method (Tue Dec 06 2005 - 16:40:15 CST)
- Re: H-Bonds (Tue Dec 06 2005 - 16:34:22 CST)
- Re: MSMS problem (Tue Dec 06 2005 - 16:18:31 CST)
- Re: Delphi binary phi map problem (Mon Dec 05 2005 - 16:22:46 CST)
- Re: Installation problem. (Mon Dec 05 2005 - 14:07:23 CST)
- Re: Fwd: Re: VMD installation on Mac (Mon Dec 05 2005 - 14:02:54 CST)
- Re: MSMS problem (Mon Dec 05 2005 - 13:56:07 CST)
- Re: s-s bond in vmd not visualized (Fri Dec 02 2005 - 13:07:24 CST)
- Re: Bad performance of VMD (Fri Dec 02 2005 - 13:03:20 CST)
- Re: Delphi binary phi map problem (Thu Dec 01 2005 - 17:26:20 CST)
- Re: vmd-1.83's crash upon pdb load (Thu Dec 01 2005 - 15:45:26 CST)
- Re: How to efficiently update a surface (Thu Dec 01 2005 - 15:06:44 CST)
- Re: superposition of molecules (Thu Dec 01 2005 - 15:05:17 CST)
- Re: macros and variables (Thu Dec 01 2005 - 14:34:46 CST)
- Re: Tachyon rendering (Thu Dec 01 2005 - 10:01:03 CST)
- Re: visualizing charmm trajectories? (Wed Nov 30 2005 - 17:44:05 CST)
- Re: MSMS of selection's contribution to total surface (Wed Nov 30 2005 - 10:15:45 CST)
- Re: s-s bond in vmd not visualized (Mon Nov 28 2005 - 11:21:49 CST)
- Re: Bad performance of VMD (Mon Nov 28 2005 - 11:16:13 CST)
- Re: VMD input devices for USB-only Macs ? (Tue Nov 22 2005 - 13:22:58 CST)
- Re: Loading files all at once time to create movie (Mon Nov 21 2005 - 14:59:51 CST)
- Re: STRIDE error (Fri Nov 18 2005 - 13:52:17 CST)
- Re: Use VMD Graphics Primitives to Construct Stilized Cyclodextrins (Fri Nov 18 2005 - 11:06:36 CST)
- Re: STRIDE doesnt recognize unusual protein residue (Fri Nov 18 2005 - 09:59:16 CST)
- Re: visualizing charge density in vmd (Thu Nov 17 2005 - 15:06:18 CST)
- Re: STRIDE doesnt recognize unusual protein residue (Wed Nov 16 2005 - 15:39:11 CST)
- Re: Appending to DCD file with "animate write" (Wed Nov 16 2005 - 15:01:02 CST)
- Re: Problem with Dell Workstation (Tue Nov 15 2005 - 17:51:36 CST)
- Re: illegal mouse mode (Tue Nov 15 2005 - 11:24:07 CST)
- Re: convert PDB file to CRD? (Mon Nov 14 2005 - 11:47:48 CST)
- Re: Error, Tk option requires Tcl (Fri Nov 11 2005 - 13:55:05 CST)
- Re: L/R lighting discrepancy (Thu Nov 10 2005 - 09:52:34 CST)
- Re: L/R lighting discrepancy (Wed Nov 09 2005 - 11:32:57 CST)
- Re: L/R lighting discrepancy (Wed Nov 09 2005 - 10:36:41 CST)
- Re: error when solvating protein/vmd1.8.4a22 (Tue Nov 08 2005 - 15:24:57 CST)
- Re: increase size membrane (Tue Nov 08 2005 - 15:13:33 CST)
- Re: mol files (Tue Nov 08 2005 - 14:35:16 CST)
- Re: L/R lighting discrepancy (Tue Nov 08 2005 - 14:08:01 CST)
- Re: L/R lighting discrepancy (Tue Nov 08 2005 - 10:55:57 CST)
- Re: Problems with Terminal and 1.8.4.a22 under OSX (Tiger 10.4.3) (Tue Nov 08 2005 - 10:04:01 CST)
- Re: error when solvating protein/vmd1.8.4a22 (Tue Nov 08 2005 - 10:00:58 CST)
- Re: graphics card (Tue Nov 08 2005 - 09:56:57 CST)
- Re: explicit secondary structure (Tue Nov 08 2005 - 09:55:11 CST)
- Re: visualizing CCP4 maps in VMD (Mon Nov 07 2005 - 15:22:40 CST)
- Re: indexing water molecules (Thu Nov 03 2005 - 16:43:59 CST)
- Re: intermediate states of a morph (Wed Nov 02 2005 - 14:17:44 CST)
- Re: add a new file to vmd1.8.3 on linux(FC4) (Tue Nov 01 2005 - 15:09:30 CST)
- Re: How to change the colour of isosurface (Mon Oct 31 2005 - 17:29:09 CST)
- Re: changing the default representation for the sequence viewer (Mon Oct 31 2005 - 16:25:10 CST)
- Re: gamess plugin error of vmd 1.8.4a22 on windows (Fri Oct 28 2005 - 12:04:37 CDT)
- Re: structural alignment (Fri Oct 28 2005 - 10:43:27 CDT)
- Re: add a new file type to VMD on linux(FC4) (Fri Oct 28 2005 - 10:24:32 CDT)
- Re: add a new file type to VMD on linux(FC4) (Fri Oct 28 2005 - 09:55:51 CDT)
- Re: tcl/python and readline not working (Fri Oct 28 2005 - 09:45:49 CDT)
- Re: MacOS 10.4 problems (Fri Oct 28 2005 - 09:43:13 CDT)
- Re: Does Vmd support GUI and rendering separate (Thu Oct 27 2005 - 13:43:42 CDT)
- Re: writepsf error... (Thu Oct 27 2005 - 13:15:39 CDT)
- Re: Réf. : Re: Réf. : Re: visualization of DX map (Thu Oct 27 2005 - 11:27:13 CDT)
- Re: RéfQ?= : Re: visualization of DX map (Wed Oct 26 2005 - 17:37:51 CDT)
- Re: core API? (Wed Oct 26 2005 - 14:28:43 CDT)
- Re: Helix display (Wed Oct 26 2005 - 13:13:31 CDT)
- Re: Helix display (Wed Oct 26 2005 - 10:04:26 CDT)
- Re: Does Vmd support GUI and rendering separate (Tue Oct 25 2005 - 15:09:00 CDT)
- Re: solid color clipping plane - render with "scratches" (Tue Oct 25 2005 - 14:08:51 CDT)
- Re: The usual problem with IED (Mon Oct 24 2005 - 17:30:48 CDT)
- Re: How to get a membran.psf from membrane.pdb? (Mon Oct 24 2005 - 17:23:55 CDT)
- Re: Creating bond between two atoms (Mon Oct 24 2005 - 17:20:52 CDT)
- Re: trouble with autopsf (Mon Oct 24 2005 - 17:19:33 CDT)
- Re: VMD display size and position (Mon Oct 24 2005 - 17:08:36 CDT)
- Re: nvidia drivers and 64bit OS VMD/PYMOL (Mon Oct 24 2005 - 13:18:36 CDT)
- Re: visualization of DX map (Mon Oct 24 2005 - 13:15:07 CDT)
- Re: trouble with autopsf (Mon Oct 24 2005 - 13:11:39 CDT)
- Re: problem with writepdb (Mon Oct 24 2005 - 13:10:24 CDT)
- Re: vmd@ks.uiuc.edu,johns@ks.uiuc.edu (Fri Oct 21 2005 - 14:26:27 CDT)
- Re: Creating bond between two atoms (Fri Oct 21 2005 - 12:32:44 CDT)
- Re: Loading multiple molecules in one step / "Apply changes automatically" (Fri Oct 21 2005 - 10:32:20 CDT)
- Re: Loading multiple molecules in one step / "Apply changes automatically" (Fri Oct 21 2005 - 10:28:00 CDT)
- Re: vmd crashes on startup (Fri Oct 21 2005 - 09:59:05 CDT)
- Re: Reference to SASA calculation in VMD (Thu Oct 20 2005 - 15:20:13 CDT)
- Re: Starting v1.8.4a20 vs. v1.8.2a22 (Thu Oct 20 2005 - 15:10:10 CDT)
- VMD testers for ATI+Linux automatic driver workaround... (Thu Oct 20 2005 - 14:56:41 CDT)
- Re: Joystick, VMD and vrpn on Linux (Thu Oct 20 2005 - 14:25:17 CDT)
- Re: Starting v1.8.4a20 vs. v1.8.2a22 (Thu Oct 20 2005 - 14:14:56 CDT)
- Re: vmd crashes on startup (Thu Oct 20 2005 - 13:43:01 CDT)
- Re: vmd crashes on startup (Thu Oct 20 2005 - 13:37:24 CDT)
- Re: vmd crashes on startup (Thu Oct 20 2005 - 12:56:38 CDT)
- Re: can VMD show artificial bond info? (Wed Oct 19 2005 - 18:52:46 CDT)
- Re: Measuring distance during a trajectory (Wed Oct 19 2005 - 16:55:17 CDT)
- Re: new macs out (Wed Oct 19 2005 - 15:36:58 CDT)
- Re: dots per inch? (Wed Oct 19 2005 - 14:56:23 CDT)
- Re: Classroom Stereo projection (Wed Oct 19 2005 - 11:08:29 CDT)
- Re: vmd crashes on startup (Wed Oct 19 2005 - 09:35:08 CDT)
- Re: IED problem update: IED works only with vmd 1.8.2 (Mon Oct 17 2005 - 17:27:23 CDT)
- Re: Classroom Stereo projection (Mon Oct 17 2005 - 17:24:01 CDT)
- Re: The usual problem with IED (Mon Oct 17 2005 - 17:13:35 CDT)
- Re: rdf.tcl one more time (Mon Oct 17 2005 - 17:20:20 CDT)
- Re: Cannot load Gromos96 trajectory file (attached) (Mon Oct 17 2005 - 17:11:32 CDT)
- Re: Re: gamess plugin error of vmd 1.8.4a22 on windows (Mon Oct 17 2005 - 15:03:37 CDT)
- Test version of 1.8.4 posted for Situs users and others... (Fri Oct 14 2005 - 16:15:43 CDT)
- Re: clipplane (Fri Oct 14 2005 - 15:58:31 CDT)
- Re: Interpolation in internal space (Fri Oct 14 2005 - 15:55:29 CDT)
- Re: What's wrong with my VMD (Fri Oct 14 2005 - 15:51:06 CDT)
- Re: Classroom Stereo projection (Fri Oct 14 2005 - 15:45:29 CDT)
- Re: matrix transforms of volume objects (Fri Oct 14 2005 - 15:36:51 CDT)
- Re: RDF.tcl (Fri Oct 14 2005 - 15:18:53 CDT)
- Re: vmd & python (Fri Oct 14 2005 - 14:50:24 CDT)
- Re: (Fri Oct 14 2005 - 14:46:53 CDT)
- Re: TCL: centering molecule into middle of display after translation (Wed Oct 12 2005 - 17:54:13 CDT)
- Re: vmd-xplor (Wed Oct 12 2005 - 17:08:14 CDT)
- Re: Can vmd do symmetry operation? (Wed Oct 12 2005 - 17:03:56 CDT)
- Re: Show a movie from one static structure to another in VMD? (Wed Oct 12 2005 - 17:01:22 CDT)
- Re: puzzling writepdb error (Wed Oct 12 2005 - 16:58:24 CDT)
- Re: rendering problems (Tue Oct 11 2005 - 20:12:57 CDT)
- Re: How can I compile win32-vmd (Tue Oct 11 2005 - 17:03:21 CDT)
- Re: dynamically changing label... (Mon Oct 10 2005 - 16:15:02 CDT)
- Re: dynamically changing label... (Mon Oct 10 2005 - 14:54:18 CDT)
- Re: large output XYZ file > 2 Gio? (Re: [biosimgrid-team] Re: DCD to XYZ conversion) (Mon Oct 10 2005 - 14:53:09 CDT)
- Re: overlapping two structures (Mon Oct 10 2005 - 10:52:00 CDT)
- Re: how can I combine several selection into one selection by TCL (Mon Oct 10 2005 - 10:38:37 CDT)
- Re: getting centre of mass of contacts (Mon Oct 10 2005 - 10:30:20 CDT)
- Re: using scrpt making movies in Windows (Mon Oct 10 2005 - 10:10:58 CDT)
- Re: Hello! (Mon Oct 10 2005 - 10:08:13 CDT)
- Re: changing cpk shere scale in TCL (Wed Oct 05 2005 - 14:47:45 CDT)
- Re: VMD removing slightly misplaced atoms (Tue Oct 04 2005 - 14:27:18 CDT)
- Re: centering the molecule (Mon Oct 03 2005 - 16:32:10 CDT)
- Re: Potential map display in VMD (GRASP) (Mon Oct 03 2005 - 13:57:10 CDT)
- Re: fancy representations for lipids? (Mon Oct 03 2005 - 11:45:35 CDT)
- Re: Changing the title in the viewer window (Mon Oct 03 2005 - 11:43:03 CDT)
- Re: How can I compile win32-vmd (Mon Oct 03 2005 - 11:15:01 CDT)
- Re: Export problem Licorice to STL (Mon Oct 03 2005 - 11:13:07 CDT)
- Re: Display alternative atom locations using vmd (Thu Sep 29 2005 - 14:03:29 CDT)
- Re: about gamess plugin (Thu Sep 29 2005 - 10:59:51 CDT)
- Re: ???UNSURE??? Re: vmd that works with ati/linux (Thu Sep 29 2005 - 00:24:22 CDT)
- Re: Clip (Thu Sep 29 2005 - 00:22:12 CDT)
- Re: Potential map display in VMD (GRASP) (Thu Sep 29 2005 - 00:19:00 CDT)
- Re: vmd that works with ati/linux (Tue Sep 27 2005 - 21:18:03 CDT)
- Re: ptraj (Tue Sep 27 2005 - 09:57:34 CDT)
- Re: your mail (Tue Sep 27 2005 - 09:51:37 CDT)
- Re: Ployhedra in VMD (Mon Sep 26 2005 - 18:20:28 CDT)
- Re: Hello! (Mon Sep 26 2005 - 11:56:43 CDT)
- Re: position of protein respect to membrane (Mon Sep 26 2005 - 10:26:59 CDT)
- Re: Can VMD add other solvent except water in system? (Mon Sep 26 2005 - 10:12:51 CDT)
- Re: Problem building vmd 1.8.3 and destroyed usable 1.8.2 version (Mon Sep 26 2005 - 10:09:15 CDT)
- Re: gopython (Sat Sep 24 2005 - 22:36:07 CDT)
- Re: gopython (Sat Sep 24 2005 - 00:00:33 CDT)
- Re: tachyon rendering and background color (Fri Sep 23 2005 - 17:03:03 CDT)
- Re: vmd crashes upon load of pdb (Fri Sep 23 2005 - 16:09:11 CDT)
- Re: ???UNSURE??? Re: ???UNSURE??? Re: ???UNSURE??? Re: vmd crashes upon load of pdb (Fri Sep 23 2005 - 15:45:32 CDT)
- Re: ???UNSURE??? Re: ???UNSURE??? Re: vmd crashes upon load of pdb (Fri Sep 23 2005 - 15:08:09 CDT)
- Re: ???UNSURE??? Re: vmd crashes upon load of pdb (Fri Sep 23 2005 - 14:36:55 CDT)
- Re: vmd crashes upon load of pdb (Fri Sep 23 2005 - 13:44:07 CDT)
- Re: tachyon rendering and background color (Fri Sep 23 2005 - 09:50:19 CDT)
- Re: Import gromos output file into VMD without format conversion? (Wed Sep 21 2005 - 14:27:45 CDT)
- Re: How to build a crystal structure from a pdb file ? (Wed Sep 21 2005 - 13:37:21 CDT)
- Re: map files (Wed Sep 21 2005 - 13:22:07 CDT)
- Re: problem with coloring surface by electrostatic potential (Wed Sep 21 2005 - 10:36:03 CDT)
- Re: Import gromos output file into VMD without format conversion? (Wed Sep 21 2005 - 10:20:02 CDT)
- Re: problem with coloring surface by electrostatic potential (Tue Sep 20 2005 - 16:56:43 CDT)
- Re: problem with coloring surface by electrostatic potential (Tue Sep 20 2005 - 14:34:02 CDT)
- Re: problem with coloring surface by electrostatic potential (Tue Sep 20 2005 - 11:29:30 CDT)
- Re: secondary structure assingnment (Tue Sep 20 2005 - 10:14:22 CDT)
- Re: molecules drifted away from the focus.... (Mon Sep 19 2005 - 15:13:15 CDT)
- Re: molecules drifted away from the focus.... (Mon Sep 19 2005 - 15:05:17 CDT)
- Re: screen size (Mon Sep 19 2005 - 10:41:28 CDT)
- Re: keywords to access surface? (Mon Sep 19 2005 - 10:19:59 CDT)
- Re: screen size (Fri Sep 16 2005 - 21:08:55 CDT)
- Re: keywords to access surface? (Fri Sep 16 2005 - 21:03:41 CDT)
- Re: .grd and .srf (Fri Sep 16 2005 - 16:37:21 CDT)
- Re: .grd and .srf (Fri Sep 16 2005 - 16:08:13 CDT)
- Re: Generating an average structure from a trajectory (Fri Sep 16 2005 - 15:38:06 CDT)
- Re: your mail (Fri Sep 16 2005 - 11:19:00 CDT)
- Re: writing pdb (Fri Sep 16 2005 - 11:17:13 CDT)
- Re: visualization of ghemical figure (Fri Sep 16 2005 - 10:30:01 CDT)
- Re: .grd and .srf (Fri Sep 16 2005 - 10:25:47 CDT)
- Re: problem rendering traj file with tachyon (Thu Sep 15 2005 - 11:46:54 CDT)
- Re: use phantom with VMD (Thu Sep 15 2005 - 11:45:30 CDT)
- Re: writing pdb (Thu Sep 15 2005 - 11:41:18 CDT)
- Re: several cmds to read structure and trajectory files (Thu Sep 15 2005 - 11:19:43 CDT)
- Re: Ployhedra in VMD (Thu Sep 15 2005 - 11:11:25 CDT)
- Re: Left Right eye stereo flip in Crystal Eyes (Thu Sep 15 2005 - 11:09:35 CDT)
- Re: DCD file format (Thu Sep 15 2005 - 11:07:50 CDT)
- Re: several coor files from dcd file (Thu Sep 15 2005 - 10:54:59 CDT)
- Re: Zooming with Tcl? (Thu Sep 15 2005 - 10:50:31 CDT)
- Re: index (Thu Sep 08 2005 - 10:54:50 CDT)
- Re: index (Thu Sep 08 2005 - 10:39:34 CDT)
- Re: help: i can not type words in hostname textbox in imd (Thu Sep 08 2005 - 10:15:39 CDT)
- Re: 100% of CPU usage (Wed Sep 07 2005 - 22:22:16 CDT)
- Re: Analyzing pdb files remotely with VMD installed locally (Wed Sep 07 2005 - 16:14:26 CDT)
- Re: Fw: visualising bonds in vmd (Wed Sep 07 2005 - 16:11:13 CDT)
- Re: CAVE (Wed Sep 07 2005 - 15:47:10 CDT)
- Re: Analyzing pdb files remotely with VMD installed locally (Wed Sep 07 2005 - 11:33:09 CDT)
- Re: help: i can not type words in hostname textbox in imd (Wed Sep 07 2005 - 10:00:53 CDT)
- Re: CAVE (Tue Sep 06 2005 - 23:32:18 CDT)
- Re: VMD crashes with FX440 and RH Entreprise 4.0 (Tue Sep 06 2005 - 13:13:31 CDT)
- Re: PDB to STL help needed (Tue Sep 06 2005 - 11:15:01 CDT)
- Re: VMD crashes with FX440 and RH Entreprise 4.0 (Tue Sep 06 2005 - 11:13:08 CDT)
- Re: how to start vmd with "menu tkcon on"? (Tue Sep 06 2005 - 09:58:37 CDT)
- Re: VMD crashes with FX440 and RH Entreprise 4.0 (Tue Sep 06 2005 - 09:56:05 CDT)
- Re: Sybyl trajectory (Tue Sep 06 2005 - 09:43:23 CDT)
- Re: IED2.02 Problem (Tue Sep 06 2005 - 09:38:58 CDT)
- Re: how to start vmd with "menu tkcon on"? (Tue Sep 06 2005 - 09:36:23 CDT)
- Re: X error (Mon Sep 05 2005 - 13:44:20 CDT)
- Re: Sybyl trajectory (Mon Sep 05 2005 - 13:41:23 CDT)
- Re: TkCon History (Mon Sep 05 2005 - 13:38:22 CDT)
- Re: TkCon History (Mon Sep 05 2005 - 13:36:28 CDT)
- Re: help: i can not type words in hostname textbox in imd (Mon Sep 05 2005 - 13:28:53 CDT)
- Re: coloring surface by volume (Fri Sep 02 2005 - 17:12:18 CDT)
- Re: Making good trayectory movies (Tue Aug 30 2005 - 13:36:37 CDT)
- Re: Problems with AMBER trajectories (MOVIE!) and crd-files (Tue Aug 30 2005 - 10:15:22 CDT)
- Re: plugin problem (Tue Aug 30 2005 - 10:14:13 CDT)
- Re: Problems with AMBER trajectories (MOVIE!) and crd-files (Mon Aug 29 2005 - 09:43:30 CDT)
- Re: Problems with VMD in Federa 4 (x86_64) (Sat Aug 27 2005 - 22:30:18 CDT)
- Re: No bonds (Thu Aug 25 2005 - 18:11:57 CDT)
- Re: MSMS calculations (Thu Aug 25 2005 - 18:10:50 CDT)
- Re: Read support for CHARMM binary coordinate file? (Thu Aug 25 2005 - 17:44:57 CDT)
- Re: Intersurf & MAC OSX 10.3 (Thu Aug 25 2005 - 17:35:11 CDT)
- Re: molecule.write() (Thu Aug 25 2005 - 10:42:40 CDT)
- Re: No bonds (Wed Aug 24 2005 - 10:21:05 CDT)
- Re: Intersurf & MAC OSX 10.3 (Tue Aug 23 2005 - 15:45:28 CDT)
- Re: protein-lipids v z coordinate (Tue Aug 23 2005 - 12:58:50 CDT)
- Re: Plugins update (Tue Aug 23 2005 - 09:41:09 CDT)
- Re: Using VMD to overlay structures (Mon Aug 22 2005 - 11:11:44 CDT)
- Re: Adjacent surface? (Mon Aug 22 2005 - 11:05:33 CDT)
- Re: Secondary Structure Color Definitions (Mon Aug 22 2005 - 11:00:12 CDT)
- Re: VMD fails to run (Mon Aug 22 2005 - 01:37:12 CDT)
- Re: Selecting residues by number (Wed Aug 17 2005 - 18:51:45 CDT)
- Re: Selecting residues by number (Wed Aug 17 2005 - 18:45:02 CDT)
- Re: Selecting residues by number (Wed Aug 17 2005 - 18:14:32 CDT)
- Re: dssp in vmd (Wed Aug 17 2005 - 14:39:51 CDT)
- Re: Script for calculating energy of a water molecule (Wed Aug 17 2005 - 14:32:41 CDT)
- Re: Visualizing an infinite carbon nanotube (Mon Aug 15 2005 - 14:07:42 CDT)
- Re: Problem with DNA bonds (Mon Aug 15 2005 - 14:05:54 CDT)
- Re: help with BIOMT (Fri Aug 12 2005 - 14:04:21 CDT)
- Re: creating movie files (Fri Aug 12 2005 - 10:58:16 CDT)
- Re: Backbone representation of RNA (Fri Aug 12 2005 - 10:55:56 CDT)
- Re: vmd with no x (Thu Aug 11 2005 - 16:42:59 CDT)
- Re: atom index starting at 0 (Thu Aug 11 2005 - 16:19:57 CDT)
- Re: displaying double, triple bonds (Thu Aug 11 2005 - 15:41:31 CDT)
- Re: output secondary structure assignment into a file (Thu Aug 11 2005 - 14:33:06 CDT)
- Re: all within selection (Thu Aug 11 2005 - 11:56:29 CDT)
- Re: File size limits (Thu Aug 11 2005 - 09:57:11 CDT)
- Re: Question about .vmdsensors configuration (Thu Aug 11 2005 - 09:48:32 CDT)
- Re: 100% of CPU usage (Thu Aug 11 2005 - 09:46:14 CDT)
- Re: using VMD with LAMMPS (Wed Aug 10 2005 - 14:24:22 CDT)
- Re: VMD-1.8.3 installation erRor (Wed Aug 10 2005 - 14:22:15 CDT)
- Re: SASA (Mon Aug 08 2005 - 19:19:47 CDT)
- Re: Atom renumbering in DCD file (Mon Aug 08 2005 - 19:08:03 CDT)
- Re: Draw Bonds (Mon Aug 08 2005 - 18:48:11 CDT)
- Re: Re: wrong bond drawing with pdb files (Fri Aug 05 2005 - 15:43:27 CDT)
- Re: wrapping and extra points in gromacs trajectories (Fri Aug 05 2005 - 14:44:06 CDT)
- Re: Video card driver (Thu Aug 04 2005 - 14:12:49 CDT)
- Re: dihedral angles cleaned up (Thu Aug 04 2005 - 11:08:08 CDT)
- Re: PDB to STL help needed (Wed Aug 03 2005 - 12:59:09 CDT)
- Re: Nanotube Simulations (Tue Aug 02 2005 - 12:34:58 CDT)
- Re: weird atomselect problem (Mon Aug 01 2005 - 14:31:20 CDT)
- Re: rotate atomic coordinates? (Mon Aug 01 2005 - 14:32:54 CDT)
- Re: CMYK images (Fri Jul 29 2005 - 18:21:28 CDT)
- Re: FC4 stereo problems (Thu Jul 28 2005 - 12:55:24 CDT)
- Re: Why vmd can't connect vrpn server in windows xp? (Thu Jul 28 2005 - 12:49:48 CDT)
- Re: sun server with graphics card (Thu Jul 28 2005 - 10:05:16 CDT)
- Re: FC4 stereo problems (Wed Jul 27 2005 - 18:59:05 CDT)
- Re: tcl syntax problem (Wed Jul 27 2005 - 11:47:32 CDT)
- Re: SAS values for a residue (Wed Jul 27 2005 - 10:30:31 CDT)
- Re: Visualizing Delphi output (Tue Jul 26 2005 - 10:11:45 CDT)
- Re: vmd-vrpn in windowsXP (Tue Jul 26 2005 - 09:57:35 CDT)
- Re: VMD + linux (64) + Flock of Birds (Mon Jul 25 2005 - 15:11:19 CDT)
- Re: Re: namd-l: catdcd and dcdunitcell (Mon Jul 25 2005 - 13:50:03 CDT)
- Re: White background (Mon Jul 25 2005 - 13:13:30 CDT)
- Re: VMD running slow (Mon Jul 25 2005 - 13:06:13 CDT)
- Re: problem about hotkey for vmd-1.8.3 windows version (Mon Jul 25 2005 - 12:49:18 CDT)
- Re: VMD running slow (Mon Jul 25 2005 - 12:44:08 CDT)
- Re: VMD + linux (64) + Flock of Birds (Tue Jul 19 2005 - 16:32:46 CDT)
- Re: Re: wrong bond drawing with pdb files (Wed Jul 13 2005 - 10:04:22 CDT)
- Re: vmd mpg movies not working in office 2000 (Tue Jul 12 2005 - 19:18:32 CDT)
- Re: geometric location of amino acids in proteins (Tue Jul 12 2005 - 17:59:40 CDT)
- Re: vmd mpg movies not working in office 2000 (Tue Jul 12 2005 - 17:49:35 CDT)
- Re: wrong bond drawing with pdb files (Tue Jul 12 2005 - 17:37:23 CDT)
- Re: display Gaussian cube file (Tue Jul 12 2005 - 13:05:46 CDT)
- Re: changing occupancy for bunch of PDB file (Fri Jul 08 2005 - 13:58:44 CDT)
- Re: problems to launch VMD 1.83 in MAC os x tiger (Fri Jul 08 2005 - 12:48:39 CDT)
- Re: Test version of VMD 1.8.4 for Linux/IA64 (SGI Prism, Altix, etc..) (Wed Jul 06 2005 - 13:02:03 CDT)
- Re: IndexError in ied (Wed Jul 06 2005 - 12:46:23 CDT)
- Re: Grasp plugin... (Wed Jul 06 2005 - 10:14:05 CDT)
- Re: a suggestion and query on command usage (Tue Jul 05 2005 - 10:06:10 CDT)
- Re: Test version of VMD 1.8.4 for Linux/IA64 (SGI Prism, Altix, etc..) (Tue Jul 05 2005 - 09:58:58 CDT)
- Re: can't see all frames in XYZ file (Thu Jun 30 2005 - 14:03:37 CDT)
- Re: exclude residues (Thu Jun 30 2005 - 13:40:35 CDT)
- Re: Viewing an SDF file in VMD (Thu Jun 30 2005 - 13:38:44 CDT)
- Re: Updating COLOURS for atoms (Tue Jun 28 2005 - 19:26:28 CDT)
- Re: Re: Display shuts down on startup (Tue Jun 28 2005 - 15:35:12 CDT)
- Re: hydrogen bond energy (Tue Jun 28 2005 - 11:09:04 CDT)
- Re: MSMS (Mon Jun 27 2005 - 10:01:45 CDT)
- Re: Display shuts down on startup (Mon Jun 27 2005 - 09:52:56 CDT)
- Re: VMD 1.8.4 test builds, 32-bit and 64-bit AIX5... (Fri Jun 24 2005 - 18:24:55 CDT)
- Re: Test version of VMD 1.8.4 for Linux/IA64 (SGI Prism, Altix, etc..) (Fri Jun 24 2005 - 11:21:56 CDT)
- Re: VMD 1.8.4 test builds, 32-bit and 64-bit AIX5... (Fri Jun 24 2005 - 11:18:50 CDT)
- Re: do not compute/draw bonds? (Fri Jun 24 2005 - 11:02:38 CDT)
- Re: Create a new color category (Wed Jun 22 2005 - 14:19:38 CDT)
- Re: visualising protein dynamics (Wed Jun 22 2005 - 14:03:03 CDT)
- Re: VMD 1.8.4 test builds, 32-bit and 64-bit AIX5... (Wed Jun 22 2005 - 13:45:21 CDT)
- Re: Test version of VMD 1.8.4 for Linux/IA64 (SGI Prism, Altix, etc..) (Wed Jun 22 2005 - 13:34:51 CDT)
- Re: VMD 1.8.4 test builds, 32-bit and 64-bit AIX5... (Wed Jun 22 2005 - 11:11:44 CDT)
- Re: Test version of VMD 1.8.4 for Linux/IA64 (SGI Prism, Altix, etc..) (Wed Jun 22 2005 - 10:58:38 CDT)
- Re: VMD 1.8.4 test builds, 32-bit and 64-bit AIX5... (Tue Jun 21 2005 - 17:50:56 CDT)
- Re: Re: "animate readdel"? (was: multiple automated calls to NAMD) (Tue Jun 21 2005 - 17:42:11 CDT)
- Re: (Tue Jun 21 2005 - 17:23:53 CDT)
- Re: Strange VMD output (Tue Jun 21 2005 - 16:01:12 CDT)
- Re: Create a new color category (Tue Jun 21 2005 - 15:52:39 CDT)
- Re: IMD question (Tue Jun 21 2005 - 15:48:42 CDT)
- Re: autoimd on windows (Tue Jun 21 2005 - 15:43:11 CDT)
- VMD 1.8.4 test builds, 32-bit and 64-bit AIX5... (Tue Jun 21 2005 - 14:46:32 CDT)
- Test version of VMD 1.8.4 for Linux/IA64 (SGI Prism, Altix, etc..) (Tue Jun 21 2005 - 13:51:51 CDT)
- Re: Unable to create OpenGL window for vmd starting (Tue Jun 21 2005 - 10:54:24 CDT)
- Re: vmd 1.8.3 on OS X 10.2.8 (Jaguar) libmx.A.dylib (Tue Jun 21 2005 - 09:40:22 CDT)
- Re: Unable to create OpenGL window for vmd starting (Mon Jun 20 2005 - 18:07:45 CDT)
- Re: vmd 1.8.3 on OS X 10.2.8 (Jaguar) libmx.A.dylib (Mon Jun 20 2005 - 18:06:21 CDT)
- Re: Rotating cube files (Mon Jun 20 2005 - 17:35:43 CDT)
- Re: Creating a demo - updating the OpenGL window (Mon Jun 20 2005 - 14:40:54 CDT)
- Re: Unable to create OpenGL window for vmd starting (Mon Jun 20 2005 - 11:04:56 CDT)
- Re: vmd version for solaris 8 (Mon Jun 20 2005 - 10:00:25 CDT)
- Re: VMD for SGI Altix/Prism, IBM AIX5, etc.. (Mon Jun 20 2005 - 09:58:17 CDT)
- Re: render question (Fri Jun 17 2005 - 17:42:27 CDT)
- Re: vmd load molecule problem (Fri Jun 17 2005 - 17:39:48 CDT)
- Re: Mesa libs + Mac OS X + HW stereo + vmd (Fri Jun 17 2005 - 17:20:52 CDT)
- Re: vmd version for solaris 8 (Fri Jun 17 2005 - 16:33:05 CDT)
- Re: VMD on Debian Linux Urgent (Mon Jun 13 2005 - 13:27:04 CDT)
- Re: Eye position / camera position (Thu Jun 09 2005 - 16:51:33 CDT)
- Re: memory problem p4_Globmemsize (Wed Jun 08 2005 - 16:05:04 CDT)
- Re: Membrane plugin error? (Wed Jun 08 2005 - 13:24:00 CDT)
- Re: about gamess plugin (Mon Jun 06 2005 - 12:49:20 CDT)
- Re: installation of vmd 1.8.3 (Fri Jun 03 2005 - 14:02:11 CDT)
- Re: vmd installation with Mesa installed in a non-standard location (Thu Jun 02 2005 - 17:05:50 CDT)
- Re: Re: [PyMOL] nVidia Driver 7664 for Linux (Thu Jun 02 2005 - 15:12:06 CDT)
- Re: nVidia Driver 7664 for Linux (Thu Jun 02 2005 - 13:27:02 CDT)
- Re: Error message disappears before I can read it! (Thu Jun 02 2005 - 12:56:48 CDT)
- Re: bad resolution and too slow on mandrake 10.0 (Fri May 27 2005 - 15:00:06 CDT)
- Re: lipid definition (Thu May 26 2005 - 10:17:55 CDT)
- Re: molfile plugin and the NetCDF file format (Thu May 26 2005 - 09:49:31 CDT)
- VMD for SGI Altix/Prism, IBM AIX5, etc.. (Wed May 25 2005 - 15:48:27 CDT)
- Re: plugins compilation problem - gcc switches (Wed May 25 2005 - 10:26:12 CDT)
- Re: an inconsistance between psf file and coor file after equilibration (Tue May 24 2005 - 11:12:22 CDT)
- Re: Volume coloring problems (Tue May 24 2005 - 09:06:33 CDT)
- Re: Calculate the area of overlap? (Mon May 23 2005 - 10:22:28 CDT)
- Re: Compiling VMD: Trouble with DispCmds.C (Mon May 23 2005 - 10:04:27 CDT)
- Re: Adding a logo to a screenshot (Fri May 20 2005 - 15:28:47 CDT)
- Re: Hydration (Wed May 18 2005 - 13:36:52 CDT)
- Re: ied.py : tk.h version (8.3) doesn't match libtk.a version (8.4) (Wed May 18 2005 - 13:34:10 CDT)
- Re: Re: fglrx driver workaround? (Wed May 18 2005 - 11:15:59 CDT)
- Re: Re: fglrx driver workaround? (Wed May 18 2005 - 11:03:36 CDT)
- Re: Re: fglrx driver workaround? (Mon May 16 2005 - 19:51:04 CDT)
- Re: VMD does not run on MacOS X 10.4 Tiger (Mon May 16 2005 - 19:41:03 CDT)
- Re: Buried Surface Area (Fri May 13 2005 - 09:52:30 CDT)
- Re: What is missing when using VMDSIMPLEGRAPHICS 1? (Fri May 13 2005 - 02:30:27 CDT)
- Re: VMD crash on athlon64 with licorice representation (Fri May 13 2005 - 01:48:45 CDT)
- Re: What is missing when using VMDSIMPLEGRAPHICS 1? (Fri May 13 2005 - 01:18:00 CDT)
- Re: how can I read volume data in spider-format (Thu May 12 2005 - 20:09:06 CDT)
- Re: VMD crash on athlon64 with licorice representation (Thu May 12 2005 - 13:47:55 CDT)
- Re: VMD crash on athlon64 with licorice representation (Wed May 11 2005 - 10:28:18 CDT)
- Re: Maximum numbers of atoms (Tue May 10 2005 - 22:44:16 CDT)
- Re: select within distance range (Tue May 10 2005 - 13:18:13 CDT)
- Re: select within distance range (Tue May 10 2005 - 10:36:24 CDT)
- Re: radius of gyration (Tue May 10 2005 - 10:16:01 CDT)
- Re: how to delete atoms from the command line? (Tue May 10 2005 - 09:58:51 CDT)
- Re: Head tracking with VRPN and VMD (Mon May 09 2005 - 10:07:04 CDT)
- Re: Plugins... (Sat May 07 2005 - 11:31:35 CDT)
- Re: VMD for ALTIX (Thu May 05 2005 - 13:11:16 CDT)
- Re: How to determine distribution of the orientation of a molecule (Thu May 05 2005 - 10:05:16 CDT)
- Re: Error Encountered in making vmdmovie (Tue May 03 2005 - 09:59:45 CDT)
- Re: compiling VMD 1.8.3 (Mon May 02 2005 - 09:56:44 CDT)
- Re: VMD crash on PDB read (Mon May 02 2005 - 09:54:50 CDT)
- Updated APBS plugin for VMD available for testing... (Thu Apr 28 2005 - 14:15:00 CDT)
- Re: namd-l: Re: Interactive Simulations, ligand size limits.... (Thu Apr 28 2005 - 13:05:40 CDT)
- Re: namd-l: Re: Interactive Simulations, ligand size limits.... (Thu Apr 28 2005 - 10:08:17 CDT)
- Re: Problem with "bigdcd" (Thu Apr 28 2005 - 09:58:49 CDT)
- Re: compiling VMD on mac (Tue Apr 26 2005 - 17:13:36 CDT)
- Re: compiling VMD on mac (Tue Apr 26 2005 - 14:25:13 CDT)
- Re: Sphere size (Fri Apr 22 2005 - 18:08:27 CDT)
- Re: dcd large files, charmm-VMD (Fri Apr 22 2005 - 11:11:45 CDT)
- Re: dcd large files, charmm-VMD (Fri Apr 22 2005 - 11:06:09 CDT)
- Re: dcd large files, charmm-VMD (Fri Apr 22 2005 - 10:34:41 CDT)
- Re: dcd large files, charmm-VMD (Fri Apr 22 2005 - 10:33:21 CDT)
- Re: dcd large files, charmm-VMD (Fri Apr 22 2005 - 10:21:17 CDT)
- Re: console in vmd-1.8.3 amd64 is blank (like white text on white background) so I can't see any output messages (Thu Apr 21 2005 - 17:37:39 CDT)
- Re: console in vmd-1.8.3 amd64 is blank (like white text on white background) so I can't see any output messages (Thu Apr 21 2005 - 17:22:44 CDT)
- Re: representation_problem (Thu Apr 21 2005 - 16:40:07 CDT)
- Re: namd-l: Re: Interactive Simulations, ligand size limits.... (Thu Apr 21 2005 - 16:28:08 CDT)
- Re: Sphere size (Wed Apr 20 2005 - 17:30:30 CDT)
- Re: Interactive Simulations, ligand size limits.... (Wed Apr 20 2005 - 16:12:20 CDT)
- Re: Enabling a menu on the top level (Wed Apr 20 2005 - 15:43:27 CDT)
- Re: compiling VMD on mac (Wed Apr 20 2005 - 14:57:42 CDT)
- Re: AMBER pbsa electrostatic potential map (Tue Apr 19 2005 - 21:16:05 CDT)
- Re: Basic membrane plugin questions (Tue Apr 19 2005 - 18:42:53 CDT)
- Re: Normal mode analysis (Tue Apr 19 2005 - 16:45:19 CDT)
- Re: AMBER pbsa electrostatic potential map (Tue Apr 19 2005 - 16:11:51 CDT)
- Re: Setting the speed of rotation (Tue Apr 19 2005 - 10:28:58 CDT)
- Re: AMBER pbsa electrostatic potential map (Tue Apr 19 2005 - 10:22:21 CDT)
- Re: AMBER pbsa electrostatic potential map (Mon Apr 18 2005 - 10:13:39 CDT)
- Re: wrong bond and bond breaking (Fri Apr 15 2005 - 11:46:09 CDT)
- Re: Adding color scale bar on the screen (Thu Apr 14 2005 - 20:36:53 CDT)
- Re: Converting graphics to a pdb's coord system (Thu Apr 14 2005 - 16:23:19 CDT)
- Re: MSMS on linux and Draw Multiple Frames in VMD 1.8.3 (Thu Apr 14 2005 - 10:27:58 CDT)
- Re: Customizing VMD Sessions (Thu Apr 14 2005 - 09:46:01 CDT)
- Re: Converting graphics to a pdb's coord system (Wed Apr 13 2005 - 17:29:33 CDT)
- Re: dihedral & g(r) (Wed Apr 13 2005 - 09:34:13 CDT)
- Re: vmdcavemem.... (Tue Apr 12 2005 - 09:16:34 CDT)
- Re: mpg image speed (Mon Apr 11 2005 - 14:44:42 CDT)
- Re: only vmd console (Mon Apr 11 2005 - 13:35:17 CDT)
- Re: mpg image speed (Mon Apr 11 2005 - 10:00:16 CDT)
- Re: only vmd console (Mon Apr 11 2005 - 00:29:17 CDT)
- Re: only vmd console (Mon Apr 11 2005 - 00:30:13 CDT)
- Re: makemovie errors (povray) -- VMD 1.8.3 on MacOS 10.3.8 (Fri Apr 08 2005 - 14:38:30 CDT)
- Re: Opening amber files in VMD (Fri Apr 08 2005 - 13:57:01 CDT)
- Re: makemovie errors (povray) -- VMD 1.8.3 on MacOS 10.3.8 (Thu Apr 07 2005 - 15:31:50 CDT)
- FYI: cause of a common Windows VMD install error message... (Thu Apr 07 2005 - 13:01:43 CDT)
- Re: Choice of a Linux machine for VMD and high-end computing (Wed Apr 06 2005 - 16:01:34 CDT)
- Re: (Wed Apr 06 2005 - 15:05:52 CDT)
- Re: dynamic coloring (Wed Apr 06 2005 - 13:49:01 CDT)
- Re: capturing box dimensions from amber coordinate files (Wed Apr 06 2005 - 13:33:12 CDT)
- Re: Choice of a Linux machine for VMD and high-end computing (Wed Apr 06 2005 - 11:27:54 CDT)
- Re: Displaying simulations and rotations (Wed Apr 06 2005 - 11:23:09 CDT)
- Re: Maximum numbers of atoms (Wed Apr 06 2005 - 11:18:24 CDT)
- Re: solvate numbering problems (Wed Apr 06 2005 - 11:14:38 CDT)
- Re: Install VMD on Mandrake Linux (Wed Apr 06 2005 - 10:59:38 CDT)
- Re: superimpose RNA backbones (Tue Apr 05 2005 - 19:00:45 CDT)
- Re: water inside the protein (Tue Apr 05 2005 - 18:46:30 CDT)
- Re: vmd movie maker (Tue Apr 05 2005 - 18:37:47 CDT)
- Re: Maximum numbers of atoms (Tue Apr 05 2005 - 17:41:22 CDT)
- Re: Maximum numbers of atoms (Tue Apr 05 2005 - 17:31:38 CDT)
- Re: rmsd (Tue Apr 05 2005 - 17:17:10 CDT)
- Re: VMD and Cyclotides... (Tue Apr 05 2005 - 12:54:48 CDT)
- Re: GLSL or Clip plane (Mon Apr 04 2005 - 10:23:44 CDT)
- Re: Errors compiling VMD on 1.8.3 on Solaris x86 (Fri Apr 01 2005 - 18:20:20 CST)
- Re: Errors compiling VMD on 1.8.3 on Solaris x86 (Fri Apr 01 2005 - 18:10:36 CST)
- Re: VMD causing xorg crash (Fri Apr 01 2005 - 16:23:11 CST)
- Re: ATI radeon x300 (Fri Apr 01 2005 - 14:06:16 CST)
- Re: snapshots to pdb (Thu Mar 31 2005 - 13:02:42 CST)
- Re: conformational alignment (Thu Mar 31 2005 - 12:50:53 CST)
- Re: conformational alignment (Thu Mar 31 2005 - 12:40:51 CST)
- Re: conformational alignment (Thu Mar 31 2005 - 10:40:42 CST)
- Re: conformational alignment (Thu Mar 31 2005 - 10:29:54 CST)
- Re: fglrx driver workaround? (Thu Mar 31 2005 - 10:12:55 CST)
- Re: TCL atomselect bug (Wed Mar 30 2005 - 16:19:30 CST)
- Re: Maximum numbers of atoms (Wed Mar 30 2005 - 16:08:25 CST)
- Re: conformational alignment (Wed Mar 30 2005 - 15:30:26 CST)
- Re: Maximum numbers of atoms (Wed Mar 30 2005 - 10:03:16 CST)
- Re: TCL atomselect bug (Tue Mar 29 2005 - 14:56:46 CST)
- Re: TCL atomselect bug (Tue Mar 29 2005 - 14:10:38 CST)
- Re: Python, numpy, and so on .... (Tue Mar 29 2005 - 13:54:50 CST)
- Re: vmd 1.8.3 mac OS-X dlpoly history file (Tue Mar 29 2005 - 12:55:06 CST)
- Re: vmd and Re: [PyMOL] pymol crashes with new [7167] nvidia driver (Tue Mar 29 2005 - 12:52:55 CST)
- Re: vmd and Re: [PyMOL] pymol crashes with new [7167] nvidia driver (Tue Mar 29 2005 - 11:31:14 CST)
- Re: TCL atomselect bug (Tue Mar 29 2005 - 10:02:11 CST)
- Re: resid le 250 (Mon Mar 28 2005 - 13:08:57 CST)
- Re: TCL atomselect bug (Mon Mar 28 2005 - 11:58:17 CST)
- Re: vmd and k3b (Mon Mar 28 2005 - 11:50:07 CST)
- Re: winvmd error (Mon Mar 28 2005 - 10:24:50 CST)
- Re: vmd and Re: [PyMOL] pymol crashes with new [7167] nvidia driver (Mon Mar 28 2005 - 09:10:09 CST)
- Re: VMD does not start on Mac OS 10.3.8 (Fri Mar 18 2005 - 13:48:18 CST)
- Re: Problem using ied.py (Fri Mar 18 2005 - 12:16:30 CST)
- Re: Problem using ied.py (Fri Mar 18 2005 - 12:12:39 CST)
- Re: Python, Numeric, and Mac OS X problem (Fri Mar 18 2005 - 12:05:51 CST)
- Out of town until 3/28/2005... (Fri Mar 18 2005 - 10:54:25 CST)
- Re: install 1.8.3 on RHEL4 (Fri Mar 18 2005 - 10:52:52 CST)
- Re: Can't compile VMD 1.8.3: Tachyon 0.97 needed (Fri Mar 18 2005 - 09:42:22 CST)
- Re: Can vmd select residues in radius of 3.5 to a specific residue? (Fri Mar 18 2005 - 08:16:15 CST)
- Re: install 1.8.3 on RHEL4 (Fri Mar 18 2005 - 08:14:00 CST)
- Re: May I use my own radii? (Thu Mar 17 2005 - 21:37:13 CST)
- Re: install 1.8.3 on RHEL4 (Thu Mar 17 2005 - 14:05:45 CST)
- Re: Mac OS X problems with 1.8.3 (Thu Mar 17 2005 - 09:55:26 CST)
- Re: set a different beta field for each frame of trajectory (Tue Mar 15 2005 - 10:03:49 CST)
- Re: LAMMPS Vizualization (Mon Mar 14 2005 - 15:14:04 CST)
- Re: LAMMPS Vizualization (Mon Mar 14 2005 - 13:33:36 CST)
- Re: viewing .brix maps (Mon Mar 14 2005 - 13:08:22 CST)
- Re: Building plugins with Borland Bcc32 (Mon Mar 14 2005 - 09:47:35 CST)
- Re: coloring way in a volume slice (Fri Mar 11 2005 - 17:17:37 CST)
- Re: limit on segment atom number in solvate and autoionize (Fri Mar 11 2005 - 15:13:12 CST)
- Re: limit on segment atom number in solvate and autoionize (Fri Mar 11 2005 - 13:38:23 CST)
- Re: keeping original coordinates in trajectory (Thu Mar 10 2005 - 10:56:41 CST)
- Re: init.tcl startup problem with vmd 1.8.3 (but 1.8.2 works) (Wed Mar 09 2005 - 13:22:59 CST)
- Re: init.tcl startup problem with vmd 1.8.3 (but 1.8.2 works) (Wed Mar 09 2005 - 13:00:15 CST)
- Re: init.tcl startup problem with vmd 1.8.3 (but 1.8.2 works) (Wed Mar 09 2005 - 12:45:19 CST)
- Re: Intersurf plugin (Tue Mar 08 2005 - 10:59:25 CST)
- Re: Display only side chains (Mon Mar 07 2005 - 16:46:47 CST)
- Re: Re: vmd not starting up on Fedora core 3 linux , InsightII to blame (Sun Mar 06 2005 - 21:46:07 CST)
- Re: Intersurf plugin (Sun Mar 06 2005 - 21:35:26 CST)
- Re: coloring way in a volume slice (Sun Mar 06 2005 - 21:36:34 CST)
- Re: Problem starting VMD with Fedora Core3 (Fri Mar 04 2005 - 09:30:05 CST)
- Re: Problem using ied.py (Fri Mar 04 2005 - 00:58:24 CST)
- Re: Apple hardware configuration (Thu Mar 03 2005 - 15:46:17 CST)
- Re: prefferential adsorption analysis (Thu Mar 03 2005 - 15:40:57 CST)
- Re: Is it possible to write CHARMM crd file from VMD? (Thu Mar 03 2005 - 15:27:01 CST)
- Re: surface residues of protein (Thu Mar 03 2005 - 15:24:50 CST)
- Re: Problem using ied.py (Thu Mar 03 2005 - 15:22:48 CST)
- Re: Is it possible to select a sub-trajectory specificities. (Thu Mar 03 2005 - 15:20:59 CST)
- Re: Re: vmd not starting up on Fedora core 3 linux (Thu Mar 03 2005 - 15:17:44 CST)
- Re: Re: vmd not starting up on Fedora core 3 linux , InsightII to blame (Thu Mar 03 2005 - 15:17:02 CST)
- Re: Pair interaction calculation for large number different pairs (Thu Mar 03 2005 - 15:15:02 CST)
- Re: hbonds time series (Thu Mar 03 2005 - 14:28:24 CST)
- Re: RUNNING VMD (Thu Mar 03 2005 - 13:53:11 CST)
- Re: AutoIMD on VMD 1.8.3 (Thu Mar 03 2005 - 10:42:24 CST)
- Re: Is it possible to select a sub-trajectory specificities. (Thu Mar 03 2005 - 09:52:15 CST)
- Re: error message from IED (Wed Mar 02 2005 - 10:02:54 CST)
- Re: Re: vmd not starting up on Fedora core 3 linux , InsightII to blame (Tue Mar 01 2005 - 17:29:13 CST)
- Re: Volumeslice doesn't work in 1.8.3 (Mon Feb 28 2005 - 15:35:00 CST)
- Re: Volumeslice doesn't work in 1.8.3 (Mon Feb 28 2005 - 14:08:52 CST)
- Re: (Mon Feb 28 2005 - 12:12:13 CST)
- Re: Apple hardware configuration (Mon Feb 28 2005 - 10:48:25 CST)
- Re: surface residues of protein (Mon Feb 28 2005 - 10:38:13 CST)
- Re: surface residues of protein (Mon Feb 28 2005 - 10:17:54 CST)
- Re: (Mon Feb 28 2005 - 10:13:25 CST)
- Re: Is it possible to write CHARMM crd file from VMD? (Thu Feb 24 2005 - 17:42:46 CST)
- Re: printing real 3D model using z-printer (Thu Feb 24 2005 - 16:28:37 CST)
- Re: your mail (Thu Feb 24 2005 - 10:03:15 CST)
- Re: Catching error info before it shuts down ... (Wed Feb 23 2005 - 17:37:44 CST)
- Re: Catching error info before it shuts down ... (Wed Feb 23 2005 - 16:53:48 CST)
- Re: potential surface (Wed Feb 23 2005 - 16:46:15 CST)
- Re: Catching error info before it shuts down ... (Wed Feb 23 2005 - 16:33:17 CST)
- Re: VMD object exported to Pymol (Wed Feb 23 2005 - 16:19:17 CST)
- Re: User colors and povray (Wed Feb 23 2005 - 15:54:48 CST)
- Re: LAMMPS reader (Wed Feb 23 2005 - 15:38:34 CST)
- Re: User colors and povray (Wed Feb 23 2005 - 15:15:17 CST)
- Re: VMD object exported to Pymol (Wed Feb 23 2005 - 13:44:32 CST)
- Re: Catching error info before it shuts down ... (Wed Feb 23 2005 - 11:19:30 CST)
- Re: Volumeslice in arbitrary plane (Wed Feb 23 2005 - 11:07:42 CST)
- Re: your mail (Wed Feb 23 2005 - 10:56:05 CST)
- Re: (Mon Feb 21 2005 - 12:05:33 CST)
- Re: VMD object exported to Pymol (Mon Feb 21 2005 - 11:58:32 CST)
- Re: Catching error info before it shuts down ... (Mon Feb 21 2005 - 11:43:05 CST)
- Re: displaying many frames with periodic images (Mon Feb 21 2005 - 11:30:01 CST)
- Re: vmd 1.8.3 on my mac (Sun Feb 20 2005 - 22:37:43 CST)
- Re: vmdmovie plugin (Fri Feb 18 2005 - 10:41:06 CST)
- Re: Call to Stride program failed (Fri Feb 18 2005 - 10:35:00 CST)
- Re: Call to Stride program failed (Fri Feb 18 2005 - 09:49:33 CST)
- Re: Stereo 3D by the Numbers (Thu Feb 17 2005 - 16:47:20 CST)
- Re: (Thu Feb 17 2005 - 16:42:44 CST)
- Re: Tracking system configuration??? (Thu Feb 17 2005 - 16:13:26 CST)
- Re: Keyboard mapping incorrect for OS X (Thu Feb 17 2005 - 14:42:32 CST)
- Re: PBC atom selection and contacts (Thu Feb 17 2005 - 14:29:25 CST)
- Re: Can't compile VMD 1.8.3: Tachyon 0.97 needed (Thu Feb 17 2005 - 09:48:00 CST)
- Re: Tachyon does not render surfaces colored by EP (Wed Feb 16 2005 - 10:03:35 CST)
- Re: Tachyon does not render surfaces colored by EP (Wed Feb 16 2005 - 09:38:47 CST)
- Announce: VMD 1.8.3 released!! (Wed Feb 16 2005 - 00:09:04 CST)
- Re: PBC atom selection and contacts (Mon Feb 14 2005 - 11:29:42 CST)
- Re: window size (Thu Feb 10 2005 - 15:23:39 CST)
- Re: prefferential adsorption analysis (Thu Feb 10 2005 - 10:57:19 CST)
- Re: problem (Wed Feb 09 2005 - 10:05:25 CST)
- Re: Calling Python hackers.... (Tue Feb 08 2005 - 14:00:36 CST)
- Re: vrml2 export without PROTO? (Tue Feb 08 2005 - 10:15:41 CST)
- Re: Surface accesible area w/v1.8.3beta (Mon Feb 07 2005 - 19:48:40 CST)
- Re: volume shading in 1.8.3b1 ? (Mon Feb 07 2005 - 11:56:58 CST)
- Re: Surface accesible area w/v1.8.3beta (Mon Feb 07 2005 - 11:53:12 CST)
- Re: Surface accesible area w/v1.8.3beta (Mon Feb 07 2005 - 11:39:06 CST)
- Re: SMD (Mon Feb 07 2005 - 10:33:32 CST)
- Re: volume shading in 1.8.3b1 ? (Mon Feb 07 2005 - 10:07:46 CST)
- Re: vrml2 export without PROTO? (Mon Feb 07 2005 - 10:03:35 CST)
- Re: Calling Python hackers.... (Sun Feb 06 2005 - 20:00:30 CST)
- Calling Python hackers.... (Fri Feb 04 2005 - 14:56:59 CST)
- Re: openGL error (Fri Feb 04 2005 - 14:32:28 CST)
- Re: installation of VIDEOMACH, how to point to the location of the files (Fri Feb 04 2005 - 14:31:15 CST)
- Re: openGL error (Fri Feb 04 2005 - 11:09:01 CST)
- Re: installation of VIDEOMACH, how to point to the location of the files (Fri Feb 04 2005 - 09:57:09 CST)
- Re: openGL error (Fri Feb 04 2005 - 09:55:38 CST)
- Re: trio and osX (Thu Feb 03 2005 - 18:22:19 CST)
- Re: multiple alignment tool (Thu Feb 03 2005 - 14:22:49 CST)
- Re: How to activate E2SUN emitter (Thu Feb 03 2005 - 14:20:28 CST)
- Re: Outputing Dihedral Indexes for key structures (backbone, alpha-helix, etc...) (Wed Feb 02 2005 - 10:08:07 CST)
- Re: dummy atom ? (Wed Feb 02 2005 - 09:59:34 CST)
- Re: How to activate E2SUN emitter (Tue Feb 01 2005 - 15:59:56 CST)
- Re: Crosseye stereo image rendering (Tue Feb 01 2005 - 15:32:03 CST)
- Re: Vibration (Tue Feb 01 2005 - 12:57:20 CST)
- Re: variable atom count in XYZ multiframe trajectory (Tue Feb 01 2005 - 11:12:55 CST)
- Re: Matrix in VMD (Mon Jan 31 2005 - 14:18:17 CST)
- Re: molecular orientation (Mon Jan 31 2005 - 13:40:42 CST)
- Re: vmdmovie command line (Mon Jan 31 2005 - 13:35:36 CST)
- Re: making animations (Mon Jan 31 2005 - 13:21:05 CST)
- Re: How to activate E2SUN emitter (Mon Jan 31 2005 - 09:44:28 CST)
- Re: Display on a Graphic Cluster (Fri Jan 28 2005 - 17:37:08 CST)
- Re: How do I use the plugin to read the DLPOLY HISTORY file? (Fri Jan 28 2005 - 15:50:45 CST)
- Re: Display on a Graphic Cluster (Fri Jan 28 2005 - 13:55:58 CST)
- Re: sidechain atomselection (Thu Jan 27 2005 - 16:39:24 CST)
- Re: vmd and hull (Thu Jan 27 2005 - 11:16:40 CST)
- Re: parm7 plugin (Wed Jan 26 2005 - 10:12:00 CST)
- Re: script for mapping the electrostatic potential from APBS on surfaces (Wed Jan 26 2005 - 09:38:50 CST)
- Re: which nForce to use? (Tue Jan 25 2005 - 12:54:35 CST)
- Re: APBS Plugin (Tue Jan 25 2005 - 11:22:53 CST)
- Re: Grasp file format for VMD!! (Mon Jan 24 2005 - 17:26:08 CST)
- Re: HOW TO: visualization of electron density maps (Mon Jan 24 2005 - 14:31:33 CST)
- Re: unwrapping 'wrapping' DCd files (Mon Jan 24 2005 - 14:22:45 CST)
- Re: how to display PDB with MODEL card (Fri Jan 21 2005 - 17:32:35 CST)
- Re: Autoionize / SODIUM (Fri Jan 21 2005 - 17:30:29 CST)
- Re: dynamic coloring (Fri Jan 21 2005 - 17:26:46 CST)
- Re: python or Tcl/Tk (Fri Jan 21 2005 - 17:27:24 CST)
- Re: model export (Wed Jan 19 2005 - 16:48:59 CST)
- Re: 3D/stereo hardware recommendations wanted!!! (Fri Jan 14 2005 - 11:29:36 CST)
- Stereo 3D matters to me (Fri Jan 14 2005 - 10:02:50 CST)
- Re: stereo for XP and Linux (Wed Jan 12 2005 - 11:30:18 CST)
- Re: Deleting atomselect selections for proper memory management (Wed Jan 12 2005 - 10:22:00 CST)
- Re: Fwd: linux FC3 VMD vs insightII conflict (Wed Jan 12 2005 - 10:20:08 CST)
- Re: angle between two vectors (Tue Jan 11 2005 - 19:05:43 CST)
- Re: vmd exit tcl callback (Tue Jan 11 2005 - 15:41:03 CST)
- Re: vmd not starting up on Fedora core 3 linux , nVidia quadro 980 XGL, nVidia 6629 driver (Tue Jan 11 2005 - 11:09:17 CST)
- Re: vmd not starting up on Fedora core 3 linux , nVidia quadro 980 XGL, nVidia 6629 driver (Mon Jan 10 2005 - 18:44:30 CST)
- Re: atom index starting at 0 (Mon Jan 10 2005 - 18:38:51 CST)
- Re: Re: vmd not starting up on Fedora core 3 linux , nVidia quadro 980 XGL, nVidia 6629 driver (Mon Jan 10 2005 - 18:05:54 CST)
- Re: VMD and windows (Mon Jan 10 2005 - 18:02:41 CST)
- Re: Possible values for "select_method"? (Mon Jan 10 2005 - 17:01:31 CST)
- Re: atom index starting at 0 (Fri Jan 07 2005 - 16:10:41 CST)
- Re: vmd not starting up on Fedora core 3 linux , nVidia quadro 980 XGL, nVidia 6629 driver (Thu Jan 06 2005 - 17:28:14 CST)
- Re: nvidia quadro, linux_x86, and performance difference w/nvidia drivers 1.0.5336 vs anything newer or older on VMD 1.8.2 (Tue Jan 04 2005 - 18:22:52 CST)
- Re: nvidia quadro, linux_x86, and performance difference w/nvidia drivers 1.0.5336 vs anything newer or older on VMD 1.8.2 (Tue Jan 04 2005 - 17:45:07 CST)
- Re: nvidia quadro, linux_x86, and performance difference w/nvidia drivers 1.0.5336 vs anything newer or older on VMD 1.8.2 (Tue Jan 04 2005 - 16:26:29 CST)
- Re: pdb files (Tue Jan 04 2005 - 10:26:53 CST)
- Re: pdb files (Tue Jan 04 2005 - 10:23:26 CST)
- Re: dcd file appears to contain no timesteps (Tue Jan 04 2005 - 10:18:52 CST)
- Re: merge (Mon Jan 03 2005 - 16:20:51 CST)
- Re: your mail (Mon Jan 03 2005 - 15:15:20 CST)
- Re: ERROR) Failed to create Surf atom radii input file (Wed Dec 29 2004 - 18:14:08 CST)
- Re: Drawing oriented cylinders (Wed Dec 29 2004 - 18:04:17 CST)
- Re: about vmd (Wed Dec 29 2004 - 18:07:49 CST)
- Re: Stereo on an SGI Octane2 using Crystal Eyes (Tue Dec 28 2004 - 11:23:35 CST)
- Re: VMD and Remote X-Servers (Tue Dec 28 2004 - 10:56:26 CST)
- Re: ERROR) Failed to create Surf atom radii input file (Tue Dec 28 2004 - 10:46:02 CST)
- Re: VMD on Linux RH9 with ATI's fglrx-4.3.0-3.14.6 1280x1024@100Hz dumping core ... any helpful advice :>? (Tue Dec 21 2004 - 10:22:46 CST)
- Re: torsions = NaN ? (Tue Dec 21 2004 - 10:14:12 CST)
- Re: turning Info output off in vmd console? (Fri Dec 17 2004 - 10:32:39 CST)
- Re: VMD for ALTIX (Fri Dec 17 2004 - 10:31:05 CST)
- Re: VMDNUMPY and OS X (Panther) (Thu Dec 16 2004 - 16:22:12 CST)
- Re: Solvent accessible area/Radii definition (Thu Dec 16 2004 - 13:55:00 CST)
- Re: DynamicBonds representation (Thu Dec 16 2004 - 13:33:13 CST)
- Re: VMD plugin: Membrane: POPG (Thu Dec 16 2004 - 13:35:23 CST)
- Re: Autoionize plugin problem (Thu Dec 16 2004 - 11:30:21 CST)
- Re: Screen corruption (Wed Dec 15 2004 - 08:57:05 CST)
- Re: Virtual Reality and VMD (Tue Dec 14 2004 - 10:45:45 CST)
- Re: CAVE on OS X (Tue Dec 14 2004 - 09:44:54 CST)
- Re: Virtual Reality and VMD (Tue Dec 14 2004 - 09:10:30 CST)
- Re: Multiple Sequence Alignment Extension (Tue Dec 14 2004 - 08:55:41 CST)
- Re: How to use solvate add water in amber crd/parm files? (Fri Dec 10 2004 - 02:22:22 CST)
- Re: Solvent accessible surface area (Wed Dec 08 2004 - 22:51:02 CST)
- Re: VMD 1.8.3 beta 1 available for testing/feedback (Mon Dec 06 2004 - 12:42:59 CST)
- Re: problem Nvidia and vmd (Mon Dec 06 2004 - 11:14:26 CST)
- Re: solvate problem (Mon Dec 06 2004 - 09:42:54 CST)
- VMD 1.8.3 beta 1 available for testing/feedback (Sun Dec 05 2004 - 22:44:56 CST)
- Re: Difficulties using Crystal Eyes 3 (Thu Dec 02 2004 - 12:54:23 CST)
- Re: VMD compatibility with graphics card (Thu Dec 02 2004 - 09:55:55 CST)
- Re: Difficulties using Crystal Eyes 3 (Thu Dec 02 2004 - 09:51:12 CST)
- Re: distribution analysis (Wed Dec 01 2004 - 10:43:51 CST)
- Re: distribution analysis (Wed Dec 01 2004 - 10:02:22 CST)
- Re: MSMS variable (Tue Nov 30 2004 - 16:53:35 CST)
- Re: MSMS variable (Tue Nov 30 2004 - 16:34:41 CST)
- Re: Povray & color gradients (Mon Nov 29 2004 - 00:31:16 CST)
- Re: MSMS variable (Mon Nov 29 2004 - 00:08:22 CST)
- Re: Problems with Mac OSX VMD and certain PDB files (Wed Nov 24 2004 - 13:26:50 CST)
- Re: MSMS variable (Wed Nov 24 2004 - 09:51:44 CST)
- Re: Label using TCL (Mon Nov 22 2004 - 21:16:10 CST)
- Re: obtaining lists of bond, angle, and dihedral interactions (Mon Nov 22 2004 - 21:11:43 CST)
- Re: Tcl startup error on 3X3 tiled display (Fri Nov 19 2004 - 13:05:31 CST)
- Re: measure fit alignment problems (Fri Nov 19 2004 - 10:24:35 CST)
- Re: Updating selections.... (Thu Nov 18 2004 - 18:47:11 CST)
- Re: Re: your mail (Thu Nov 18 2004 - 17:41:57 CST)
- Re: Re: your mail (Thu Nov 18 2004 - 17:16:45 CST)
- Re: Drawing Vectors (Thu Nov 18 2004 - 17:06:08 CST)
- Re: Move molecule (Thu Nov 18 2004 - 14:26:51 CST)
- Re: your mail (Thu Nov 18 2004 - 10:11:18 CST)
- Re: Converting .txt trajectory files to VMD compatible format (Wed Nov 17 2004 - 11:20:27 CST)
- Re: VMD newbie question (Wed Nov 17 2004 - 11:17:10 CST)
- Re: Drawing Vectors (Wed Nov 17 2004 - 10:23:17 CST)
- Re: Electrostatic potential mapping (Mon Nov 15 2004 - 15:40:21 CST)
- Re: loading limits (Fri Nov 12 2004 - 10:36:00 CST)
- Re: Coloring by type? (Thu Nov 11 2004 - 21:51:00 CST)
- Re: LAMMPS visualization (Thu Nov 11 2004 - 15:13:14 CST)
- Re: Coloring by type? (Thu Nov 11 2004 - 10:57:55 CST)
- Re: writepdb and list problem (Thu Nov 11 2004 - 10:39:11 CST)
- Re: plot color scale for volume slice (Sun Nov 07 2004 - 21:02:23 CST)
- Re: Any methods for real stereo viewing with Mac and OsX (Sat Nov 06 2004 - 12:41:30 CST)
- Re: Converting .txt trajectory files to VMD compatible format (Fri Nov 05 2004 - 11:25:08 CST)
- Re: linux installation (Wed Nov 03 2004 - 10:02:40 CST)
- Re: trajectory loading (Tue Nov 02 2004 - 09:31:44 CST)
- Re: question on ion size (Mon Nov 01 2004 - 18:09:26 CST)
- Re: web script (Mon Nov 01 2004 - 14:55:37 CST)
- Re: web script (Mon Nov 01 2004 - 13:51:05 CST)
- Re: web script (Fri Oct 29 2004 - 19:08:40 CDT)
- Re: Install VMD on Window XP (Fri Oct 29 2004 - 15:34:06 CDT)
- Re: multistructure XYZ (Thu Oct 28 2004 - 17:32:28 CDT)
- Re: multistructure XYZ (Thu Oct 28 2004 - 16:47:07 CDT)
- Re: multistructure XYZ (Thu Oct 28 2004 - 16:19:47 CDT)
- Re: Problems with povray (Tue Oct 26 2004 - 15:20:48 CDT)
- Re: error while loading shared libraries: libGLU.so.1 (Tue Oct 26 2004 - 13:43:49 CDT)
- Re: python2.3 and vmd (Tue Oct 26 2004 - 13:25:45 CDT)
- Re: python2.3 and vmd (Tue Oct 26 2004 - 13:18:13 CDT)
- Re: python2.3 and vmd (Tue Oct 26 2004 - 12:59:48 CDT)
- Re: error while loading shared libraries: libGLU.so.1 (Tue Oct 26 2004 - 12:38:06 CDT)
- Re: Defining graphics colors (Mon Oct 25 2004 - 14:33:57 CDT)
- Re: Problems with povray (Mon Oct 25 2004 - 14:01:21 CDT)
- Re: "same as" failing? (Mon Oct 25 2004 - 13:49:14 CDT)
- Re: python2.3 and vmd (Mon Oct 25 2004 - 13:37:31 CDT)
- Re: python2.3 and vmd (Mon Oct 25 2004 - 13:28:44 CDT)
- Re: question about electrostatic map visualizing (Mon Oct 25 2004 - 13:27:12 CDT)
- Re: outputing xyz coordinates of selection (Mon Oct 25 2004 - 13:25:50 CDT)
- Re: Problems with povray (Mon Oct 25 2004 - 13:15:43 CDT)
- Re: python2.3 and vmd (Fri Oct 22 2004 - 15:40:26 CDT)
- Re: python2.3 and vmd (Fri Oct 22 2004 - 13:49:56 CDT)
- Re: trajectory file with xyz (Fri Oct 22 2004 - 10:47:36 CDT)
- Re: python2.3 and vmd (Fri Oct 22 2004 - 10:43:56 CDT)
- Re: error while loading shared libraries: libGLU.so.1 (Thu Oct 21 2004 - 15:20:33 CDT)
- Re: error while loading shared libraries: libGLU.so.1 (Thu Oct 21 2004 - 13:35:23 CDT)
- Re: python2.3 and vmd (Thu Oct 21 2004 - 10:56:29 CDT)
- Re: xyz file (Wed Oct 20 2004 - 17:49:01 CDT)
- Re: selection of 2 molecules (Wed Oct 20 2004 - 14:32:47 CDT)
- Re: save states with relative directory structure (Wed Oct 20 2004 - 09:40:09 CDT)
- Re: xyz (Tue Oct 19 2004 - 18:41:03 CDT)
- Re: AutoIMD (Fri Oct 15 2004 - 16:36:38 CDT)
- Re: change color from script (Fri Oct 15 2004 - 10:44:47 CDT)
- Re: VMD on Linux Fedora Core 2 (Thu Oct 14 2004 - 21:30:29 CDT)
- Re: amd64/nvidiaFX1100/linux crash (Tue Oct 05 2004 - 16:50:30 CDT)
- Re: problem in autoionize (Thu Sep 30 2004 - 14:16:14 CDT)
- Re: Defining graphics colors (Thu Sep 30 2004 - 14:09:38 CDT)
- Re: docking (Wed Sep 29 2004 - 20:33:05 CDT)
- Re: Defining graphics colors (Wed Sep 29 2004 - 16:12:24 CDT)
- Re: Writing pdb files for trajectory frames (Wed Sep 29 2004 - 15:22:49 CDT)
- Re: Defining graphics colors (Wed Sep 29 2004 - 13:05:16 CDT)
- Re: Can we fix the position of two atoms while minimization? (Wed Sep 29 2004 - 12:40:52 CDT)
- Re: how can I get hole program (Wed Sep 29 2004 - 10:08:01 CDT)
- Re: Defining graphics colors (Wed Sep 29 2004 - 09:55:59 CDT)
- Re: problem in autoionize (Wed Sep 29 2004 - 09:37:19 CDT)
- Re: IMD Plugin Errors (Tue Sep 28 2004 - 15:01:04 CDT)
- Re: how can I get hole program (Tue Sep 28 2004 - 14:59:18 CDT)
- Re: Defining graphics colors (Tue Sep 28 2004 - 12:31:28 CDT)
- Re: How does VMD predict alpha helices (Tue Sep 28 2004 - 12:26:09 CDT)
- Re: Phosphate mass (Tue Sep 28 2004 - 09:55:29 CDT)
- Re: Python error (Mon Sep 27 2004 - 13:49:25 CDT)
- Re: tkcon problem with my vmd (Mon Sep 27 2004 - 13:21:24 CDT)
- Re: how to make a snapshot that... (Mon Sep 27 2004 - 09:29:40 CDT)
- Re: Updating atom names/types in xyz-files (Fri Sep 24 2004 - 10:57:41 CDT)
- Re: Hydrogen bond representation and cut off distance (Fri Sep 24 2004 - 10:51:02 CDT)
- Re: How do I set the color scale for beta? (Fri Sep 24 2004 - 10:06:15 CDT)
- Re: quitting VMD (Thu Sep 23 2004 - 13:22:48 CDT)
- Re: question about rendering images (Wed Sep 22 2004 - 17:07:11 CDT)
- Re: displaying neighboring residues (Wed Sep 22 2004 - 12:36:51 CDT)
- Re: superimposing frames (Wed Sep 22 2004 - 11:15:19 CDT)
- Re: problems with vecdist in accepting variables (Tue Sep 21 2004 - 16:40:26 CDT)
- Re: Quadro 750 XGL problem (Tue Sep 21 2004 - 09:56:16 CDT)
- Re: how to make a snapshot that... (Mon Sep 20 2004 - 16:35:03 CDT)
- Re: BUG with MODEL card in PDB file (Mon Sep 20 2004 - 16:02:12 CDT)
- Re: Phantom and VMD (Mon Sep 20 2004 - 15:58:40 CDT)
- Re: BUG with MODEL card in PDB file (Mon Sep 20 2004 - 15:39:29 CDT)
- Re: MSMS under Windows (Mon Sep 20 2004 - 15:37:30 CDT)
- Re: how to make a snapshot that... (Mon Sep 20 2004 - 15:18:47 CDT)
- Re: (Mon Sep 20 2004 - 13:26:17 CDT)
- Re: how to make a snapshot that... (Mon Sep 20 2004 - 13:23:14 CDT)
- Re: Quadro 750 XGL problem (Mon Sep 20 2004 - 09:44:11 CDT)
- Re: Sharp 3D stereo monitors (Mon Sep 20 2004 - 09:04:07 CDT)
- Re: Changing the atom species during animation (Wed Sep 15 2004 - 17:56:07 CDT)
- Away from email until Sunday... (Wed Sep 15 2004 - 17:48:55 CDT)
- Re: multiple entry mol2 file (Wed Sep 15 2004 - 16:45:38 CDT)
- Re: Solvate (Wed Sep 15 2004 - 13:23:15 CDT)
- Re: Getting started with VMD/freeVR (Wed Sep 15 2004 - 13:20:03 CDT)
- Re: New Athlon64/Opteron AMD64/EMT64 test version... (Tue Sep 14 2004 - 21:35:21 CDT)
- New Athlon64/Opteron AMD64/EMT64 test version... (Tue Sep 14 2004 - 16:49:29 CDT)
- Re: Default resource file (.vmdrc) (Mon Sep 13 2004 - 15:59:23 CDT)
- Re: error python (Mon Sep 13 2004 - 10:02:20 CDT)
- Re: Compiling NAMD from SRC: Tungsten@NCSA (Fri Sep 10 2004 - 20:16:25 CDT)
- Re: dynamic bonds question?? (Thu Sep 09 2004 - 17:38:07 CDT)
- Re: new user: how to load output file (Tue Sep 07 2004 - 16:27:38 CDT)
- Re: problem with memory (Tue Sep 07 2004 - 10:05:00 CDT)
- Re: thanks (Fri Sep 03 2004 - 16:26:44 CDT)
- Re: Slow file importing and movie generating in Linux system (Thu Sep 02 2004 - 12:37:07 CDT)
- Re: Slow file importing and movie generating at Linux system (Thu Sep 02 2004 - 11:24:43 CDT)
- Re: VMD-VRPN-PHANTOM problem ? (Thu Sep 02 2004 - 09:50:23 CDT)
- Re: VMD-VRPN-PHANTOM problem ? (Thu Sep 02 2004 - 01:32:22 CDT)
- Re: Slow file importing and movie generating at Linux system (Wed Sep 01 2004 - 21:10:37 CDT)
- Re: Extensions question (Wed Sep 01 2004 - 13:45:20 CDT)
- Re: xyz-file loading (Wed Sep 01 2004 - 13:14:24 CDT)
- Re: VMD on NetBSD (Wed Sep 01 2004 - 10:59:00 CDT)
- Re: VMD on NetBSD (Wed Sep 01 2004 - 09:37:17 CDT)
- Re: to get SURFACE CHARGE DISTRIBUTION of protein (Tue Aug 31 2004 - 15:35:15 CDT)
- Re: VMD on NetBSD (Tue Aug 31 2004 - 15:32:44 CDT)
- Re: python callbacks (Tue Aug 31 2004 - 15:26:21 CDT)
- Re: rmsd problem (Tue Aug 31 2004 - 15:11:47 CDT)
- Re: convert DCD files to GROMACS .XTC format (Tue Aug 31 2004 - 15:11:09 CDT)
- Re: VRML2 export and viewpoints (Tue Aug 31 2004 - 15:06:35 CDT)
- Re: g03 output and editing features for VMD (Mon Aug 30 2004 - 11:18:25 CDT)
- Re: VMD on NetBSD (Fri Aug 27 2004 - 17:21:39 CDT)
- Re: How to select water molecules within certain distance from a protein (Fri Aug 27 2004 - 15:27:01 CDT)
- Re: Re: Installation on vmd-1.8 on mandrake10 (Fri Aug 27 2004 - 10:13:41 CDT)
- Re: Re: Installation on vmd-1.8 on mandrake10 (Fri Aug 27 2004 - 09:28:48 CDT)
- Re: Weird lighting in CAVE (Thu Aug 26 2004 - 14:16:51 CDT)
- Re: Periodic display problem (Thu Aug 26 2004 - 14:04:59 CDT)
- Re: Slow file importing and movie generating at Linux system (Thu Aug 26 2004 - 14:12:03 CDT)
- Re: Installation on vmd-1.8 on mandrake10 (Thu Aug 26 2004 - 14:09:52 CDT)
- Re: VMD on NetBSD (Thu Aug 26 2004 - 14:07:43 CDT)
- Re: Molscript (Thu Aug 26 2004 - 14:06:04 CDT)
- Re: Periodic display problem (Wed Aug 25 2004 - 10:18:51 CDT)
- Re: Molscript (Wed Aug 25 2004 - 09:29:13 CDT)
- Re: ATI fglrx 3.11 drivers for Radeon 8500 LE with linux 2.6 kernel, quad buffered stereo on sony G520??? (Wed Aug 25 2004 - 09:23:09 CDT)
- Re: Periodic display problem (Tue Aug 24 2004 - 12:44:43 CDT)
- Re: Periodic display problem (Tue Aug 24 2004 - 10:13:25 CDT)
- Re: center of mass position (Tue Aug 24 2004 - 10:03:40 CDT)
- Re: monitoring h bonds (Tue Aug 24 2004 - 09:58:04 CDT)
- Re: Periodic display problem (Tue Aug 24 2004 - 09:29:15 CDT)
- Re: Molscript (Tue Aug 24 2004 - 09:41:23 CDT)
- Re: problem (Tue Aug 24 2004 - 09:33:01 CDT)
- Re: no main window (Tue Aug 24 2004 - 09:18:44 CDT)
- Re: monitoring h bonds (Mon Aug 23 2004 - 14:03:01 CDT)
- Re: Installer problem (Sat Aug 21 2004 - 12:20:36 CDT)
- Re: VMD too slow on my Linux system (Fri Aug 20 2004 - 14:06:23 CDT)
- Re: get average coord. from .pdb file? (Tue Aug 17 2004 - 13:13:49 CDT)
- Re: Calculate accessible surface area (Tue Aug 17 2004 - 13:12:05 CDT)
- Re: multiple entry mol2 file (Tue Aug 17 2004 - 12:56:43 CDT)
- Re: get average coord. from .pdb file? (Mon Aug 16 2004 - 15:01:31 CDT)
- Re: Calculate accessible surface area (Mon Aug 16 2004 - 14:12:02 CDT)
- Re: Plugins and did I compile VMD correctly? (Thu Aug 12 2004 - 18:13:01 CDT)
- Re: Plugins and did I compile VMD correctly? (Thu Aug 12 2004 - 16:14:01 CDT)
- Windows XP SP2 and some OpenGL drivers.... (Wed Aug 11 2004 - 15:35:03 CDT)
- Re: Slow down the update speed in animation (Tue Aug 10 2004 - 22:15:44 CDT)
- Re: VolumeSlice (Tue Aug 10 2004 - 16:41:24 CDT)
- Re: isosurface question (Tue Aug 10 2004 - 16:38:23 CDT)
- Re: Re: to load multiple trajectory files (Tue Aug 10 2004 - 13:27:16 CDT)
- Re: analysis scripts: VMD text /batch mode (Tue Aug 10 2004 - 13:03:22 CDT)
- Re: to load multiple trajectory files (Tue Aug 10 2004 - 10:52:44 CDT)
- Re: VideoMach/personable Label/label by ResName (Mon Aug 09 2004 - 23:27:28 CDT)
- Re: molecular surface/multiple trajectory files/the speed in animation (Mon Aug 09 2004 - 23:22:56 CDT)
- Re: molecular surface/multiple trajectory files/the speed in animation (Mon Aug 09 2004 - 16:17:12 CDT)
- Re: VideoMach/personable Label/label by ResName (Mon Aug 09 2004 - 16:10:23 CDT)
- Re: Changing the label for resname (Mon Aug 09 2004 - 16:06:46 CDT)
- Re: translating a molecule (Mon Aug 09 2004 - 10:11:45 CDT)
- Re: Trajectory Files (Mon Aug 09 2004 - 10:08:36 CDT)
- Re: CVS access is back online... (Fri Aug 06 2004 - 16:08:41 CDT)
- CVS access is back online... (Fri Aug 06 2004 - 10:12:15 CDT)
- Re: How to Solvate protiens in any other solvent (Wed Aug 04 2004 - 17:11:26 CDT)
- Re: Variable number of atoms in XYZ file format (Tue Aug 03 2004 - 14:57:35 CDT)
- Nightly VMD web updates running again... (Tue Aug 03 2004 - 10:20:37 CDT)
- Re: Loading a script (Mon Aug 02 2004 - 17:48:04 CDT)
- Re: CVS root directory not found (Mon Aug 02 2004 - 16:10:27 CDT)
- Re: readable files (Mon Aug 02 2004 - 15:50:33 CDT)
- Re: How to enable Python on Windows XP (Mon Aug 02 2004 - 10:00:44 CDT)
- Re: Error in modifying and concatenating two pdb files into one [plz Help!] (Mon Aug 02 2004 - 09:59:02 CDT)
- Re: 1.8.3 (Fri Jul 30 2004 - 14:33:35 CDT)
- Re: tcl: wait for exec (Thu Jul 29 2004 - 21:50:46 CDT)
- Re: movie showing loop movement (Thu Jul 29 2004 - 18:15:03 CDT)
- Re: GLXBadLargeRequest (Thu Jul 29 2004 - 18:14:05 CDT)
- Re: Rendering (Thu Jul 29 2004 - 17:54:11 CDT)
- Re: GLXBadLargeRequest (Thu Jul 29 2004 - 14:03:00 CDT)
- Re: stereo with GForce video board (Thu Jul 29 2004 - 10:58:05 CDT)
- Re: angles (Thu Jul 29 2004 - 10:53:38 CDT)
- Re: Compiling VMD (Thu Jul 29 2004 - 10:49:14 CDT)
- Re: your mail (Thu Jul 29 2004 - 10:46:44 CDT)
- Re: XYZ file to video (Wed Jul 28 2004 - 08:42:17 CDT)
- Re: Tachyon Internal Rendering (Mon Jul 26 2004 - 09:41:27 CDT)
- Re: FPS indicator color (Wed Jul 21 2004 - 11:12:48 CDT)
- Re: VMD slowdown on MacOS X 10.3.4 (Wed Jul 21 2004 - 10:31:29 CDT)
- Re: mol clipplane very slow (Wed Jul 21 2004 - 09:50:13 CDT)
- Re: VMD slowdown on MacOS X 10.3.4 (Tue Jul 20 2004 - 11:01:54 CDT)
- Re: FPS indicator color (Mon Jul 19 2004 - 11:35:36 CDT)
- Re: Axes are not rotated? (Mon Jul 19 2004 - 10:22:44 CDT)
- Re: FPS indicator color (Mon Jul 19 2004 - 10:16:20 CDT)
- Re: Picking atoms: romoving or changing the position of atoms (Mon Jul 19 2004 - 10:11:32 CDT)
- Re: File Reader Plugin Issues (Mon Jul 19 2004 - 10:07:45 CDT)
- Re: "Selection not understood" (Fri Jul 16 2004 - 13:18:59 CDT)
- Re: File Reader Plugin Issues (Fri Jul 16 2004 - 10:31:22 CDT)
- Re: Box of non-polar solvent (Fri Jul 16 2004 - 10:36:28 CDT)
- Re: Default radii and colors (Fri Jul 16 2004 - 10:12:01 CDT)
- Re: Elliptic molecules (Fri Jul 16 2004 - 10:09:06 CDT)
- Re: Elliptic molecules (Fri Jul 16 2004 - 00:58:02 CDT)
- Re: problems loading dcd files (Thu Jul 15 2004 - 13:58:24 CDT)
- Re: vmd psfgen problem with CHARMM (Thu Jul 15 2004 - 12:50:25 CDT)
- Re: Elliptic molecules (Thu Jul 15 2004 - 10:40:55 CDT)
- Re: vmd psfgen problem with CHARMM (Thu Jul 15 2004 - 10:58:58 CDT)
- Re: nvidia 6106 kernel drivers and opengl (Tue Jul 13 2004 - 21:00:36 CDT)
- Re: Updated Bonding Connectivity each frame (Tue Jul 13 2004 - 10:15:33 CDT)
- Re: polar surface area with VMD! (Mon Jul 12 2004 - 10:10:04 CDT)
- Re: coloring.tlc script (Fri Jul 09 2004 - 16:48:29 CDT)
- Re: Isosurface and stepsize (Fri Jul 09 2004 - 13:09:09 CDT)
- Re: vmd 1.8.3a7 no longer works after installing NVIDIA dr iver x86_64 -1.0-6106 (Thu Jul 08 2004 - 17:21:15 CDT)
- Re: vmd 1.8.3a7 no longer works after installing NVIDIA driver x86_64 -1.0-6106 (Thu Jul 08 2004 - 16:41:06 CDT)
- New and updated VMD plugins posted (update 4, 7/8/2004) (Thu Jul 08 2004 - 11:08:11 CDT)
- Re: I can not load mdcrd file after simulation with sander (Wed Jul 07 2004 - 14:16:33 CDT)
- Re: periodic display and space group and VMD (Tue Jul 06 2004 - 10:28:43 CDT)
- Re: (Mon Jul 05 2004 - 14:31:03 CDT)
- Re: problem with MSMS and VMD (Mon Jul 05 2004 - 14:18:33 CDT)
- Re: CONECT in pdb files (Mon Jul 05 2004 - 14:16:13 CDT)
- Re: mol clipplane (Mon Jul 05 2004 - 14:12:41 CDT)
- Re: suggested citation versus pubmed entry (Mon Jul 05 2004 - 13:58:31 CDT)
- Re: (Mon Jul 05 2004 - 13:57:46 CDT)
- Re: autostereograms in VMD? (Mon Jul 05 2004 - 13:52:38 CDT)
- Re: (Wed Jun 30 2004 - 17:16:57 CDT)
- Gone until July 6th. (Wed Jun 30 2004 - 15:59:08 CDT)
- Re: your mail (Wed Jun 30 2004 - 15:18:22 CDT)
- Re: your mail (Wed Jun 30 2004 - 14:05:36 CDT)
- Recent VMD-L mails, etc.. (Wed Jun 30 2004 - 13:40:21 CDT)
- Re: your mail (Wed Jun 30 2004 - 13:32:28 CDT)
- Re: Making movies (Wed Jun 30 2004 - 13:29:10 CDT)
- Re: isosurface question (Wed Jun 30 2004 - 13:04:29 CDT)
- Re: PBCWrap for Gromacs? (Tue Jun 29 2004 - 13:52:45 CDT)
- Re: drawing a plane (Tue Jun 29 2004 - 13:45:14 CDT)
- Re: Making movies (Tue Jun 29 2004 - 13:24:16 CDT)
- Re: PBCwrap: wrapping DCD files (Tue Jun 29 2004 - 13:20:48 CDT)
- Re: Making movies (Mon Jun 28 2004 - 15:32:30 CDT)
- Re: shifting the origin of the box (Mon Jun 28 2004 - 15:24:24 CDT)
- Re: wrapping DCD files (Mon Jun 28 2004 - 15:25:39 CDT)
- Re: isosurface question (Mon Jun 28 2004 - 15:11:03 CDT)
- Re: Making movies (Fri Jun 25 2004 - 17:54:33 CDT)
- Re: Transparency rendering (Fri Jun 25 2004 - 18:03:15 CDT)
- Re: mpeg doesn't run on media player (Fri Jun 25 2004 - 17:50:10 CDT)
- VMD/NAMD downloads, web site status (Fri Jun 25 2004 - 17:16:37 CDT)
- Re: Making movies (Tue Jun 22 2004 - 16:49:18 CDT)
- Re: incompatibility between VMD & NAMD for reading Amber crd files (Mon Jun 21 2004 - 14:53:13 CDT)
- Re: Animate the "beta" field (Mon Jun 21 2004 - 14:17:38 CDT)
- Re: draw lines (Mon Jun 21 2004 - 14:02:54 CDT)
- Re: labeling a residue (Mon Jun 21 2004 - 13:59:02 CDT)
- Re: thank you! (Mon Jun 21 2004 - 13:33:18 CDT)
- Re: incompatibility between VMD & NAMD for reading Amber crd files (Mon Jun 21 2004 - 09:58:31 CDT)
- Test version of VMD for flaky graphics boards/drivers (Fri Jun 18 2004 - 15:53:18 CDT)
- Re: Vmd 1.8.1 or 1.8.2 on Linux not starting text interpreter (Fri Jun 18 2004 - 11:23:11 CDT)
- Re: opening VMD on OSX (Fri Jun 18 2004 - 11:08:59 CDT)
- Re: visualizing trr files (Fri Jun 18 2004 - 10:24:54 CDT)
- Re: Vmd 1.8.1 or 1.8.2 on Linux not starting text interpreter (Thu Jun 17 2004 - 16:01:18 CDT)
- Re: problem with tool command (Wed Jun 16 2004 - 10:12:50 CDT)
- Re: Vmd 1.8.1 or 1.8.2 on Linux not starting text interpreter (Wed Jun 16 2004 - 09:26:33 CDT)
- Re: word too long (Wed Jun 16 2004 - 09:08:08 CDT)
- Re: base plane not being filled in for terminal adenines in ribbons/new ribbons (Tue Jun 15 2004 - 14:38:30 CDT)
- Re: vmdnumpy ? (IED 2.0 on MacOS X /w VMD 1.8.2) (Tue Jun 15 2004 - 13:45:47 CDT)
- Re: vmdnumpy ? (IED 2.0 on MacOS X /w VMD 1.8.2) (Fri Jun 11 2004 - 16:28:44 CDT)
- Re: vmdnumpy ? (IED 2.0 on MacOS X /w VMD 1.8.2) (Fri Jun 11 2004 - 14:33:34 CDT)
- Re: Need a few testers for Linux version of VMD 1.8.3... (Fri Jun 11 2004 - 11:10:15 CDT)
- Need a few testers for Linux version of VMD 1.8.3... (Fri Jun 11 2004 - 10:33:55 CDT)
- Re: "measure fit" inaccuracy? (Fri Jun 11 2004 - 10:16:03 CDT)
- Re: rmsd option in timeline (Fri Jun 11 2004 - 09:20:50 CDT)
- Re: xyz file format (Fri Jun 11 2004 - 09:16:53 CDT)
- Re: "measure fit" inaccuracy? (Fri Jun 11 2004 - 09:04:43 CDT)
- Re: xyz file format (Wed Jun 09 2004 - 14:06:24 CDT)
- Re: vmd-1.8.2, Spaceball and FC2 (Mon Jun 07 2004 - 14:21:20 CDT)
- Re: Van der Waal's radii of atoms (Thu Jun 03 2004 - 17:00:32 CDT)
- Re: Little problem with VolumeSlice (Thu Jun 03 2004 - 15:28:50 CDT)
- Re: Torsional Angles (Mon May 31 2004 - 12:44:40 CDT)
- Re: Torsional Angles (Mon May 31 2004 - 12:40:22 CDT)
- Re: vmd and Konqueror web browser under Suse 9? (Mon May 31 2004 - 12:28:35 CDT)
- Re: Pore volume/radius in protein bundles (Fri May 28 2004 - 19:10:15 CDT)
- Re: vmd1.8.2 on laptop (Thu May 27 2004 - 10:31:55 CDT)
- Re: How to read i8(64 bit) .crd file with 32 bit VMD (Sun May 23 2004 - 15:40:35 CDT)
- Re: analysis of energy with water excluded from dcd file (Sun May 23 2004 - 15:46:26 CDT)
- Re: How to read i8(64 bit) .crd file with 32 bit VMD (Sat May 22 2004 - 19:45:39 CDT)
- Re: Help about Contact Map plugin (Sat May 22 2004 - 00:25:19 CDT)
- Re: python disabled (still?) (Sat May 22 2004 - 00:31:39 CDT)
- Re: changing the representation of all loaded molecules (Thu May 20 2004 - 09:13:35 CDT)
- Re: VMD-1.8.2 OpenGL Shader Extns. and Chromium (Wed May 19 2004 - 23:47:05 CDT)
- Re: some visualization challenges (Tue May 18 2004 - 09:21:44 CDT)
- Re: displaying tube/ribbon with varying diameter ? (Tue May 18 2004 - 08:56:09 CDT)
- Re: some visualization challenges (Tue May 18 2004 - 00:58:22 CDT)
- Re: some visualization challenges (Sun May 16 2004 - 20:25:59 CDT)
- Re: dcd to coor files (Sat May 15 2004 - 14:08:20 CDT)
- Re: unit of force using Haptic during IMD (Fri May 14 2004 - 10:33:10 CDT)
- Re: high resolution ps or eps picture (Wed May 12 2004 - 20:26:54 CDT)
- Re: Compile from Source Crashes 5/11/04 (Wed May 12 2004 - 18:41:32 CDT)
- Re: tkCon window - how to make font bigger? (Wed May 12 2004 - 14:24:24 CDT)
- Re: vmd 1.8.2 - slow on linux (Wed May 12 2004 - 14:13:31 CDT)
- Re: Surface - upper limit for number of coordinates? (Wed May 12 2004 - 14:18:15 CDT)
- Re: vmd 1.8.2 - slow on linux (Tue May 11 2004 - 14:19:15 CDT)
- Re: Surface rendering crashes PC (Tue May 11 2004 - 13:10:40 CDT)
- Re: Surface - upper limit for number of coordinates? (Tue May 11 2004 - 10:06:48 CDT)
- Re: How to make VMD to work with Phantom Haptic Device (Tue May 11 2004 - 09:41:54 CDT)
- Re: vmd 1.8.2 - slow on linux (Tue May 11 2004 - 09:01:06 CDT)
- Re: trouble loading dcd files (Sun May 09 2004 - 08:24:25 CDT)
- Re: VMD: Potential Energy Calculation (Fri May 07 2004 - 09:30:26 CDT)
- Re: how to look for overlaps? (Thu May 06 2004 - 21:51:27 CDT)
- Re: Stereo on Mac OX 10.3.3 (Thu May 06 2004 - 21:53:39 CDT)
- Re: core when using some features of vmd-xplor (Thu May 06 2004 - 16:45:02 CDT)
- Re: VMD: Potential Energy Calculation (Thu May 06 2004 - 10:15:39 CDT)
- Re: variable atom number and dynamic bonds (Wed May 05 2004 - 16:58:03 CDT)
- ATI 3.7.6 driver bugs (and VMD..) (Wed May 05 2004 - 16:46:01 CDT)
- Re: variable atom number and dynamic bonds (Wed May 05 2004 - 15:49:55 CDT)
- Re: Coloring with an XYZ file (Wed May 05 2004 - 01:18:01 CDT)
- Re: script problem (Fri Apr 30 2004 - 16:02:12 CDT)
- Re: Re: namd-l: dcd files generated with catdcd (Fri Apr 30 2004 - 12:47:59 CDT)
- Re: Amber periodic images (Thu Apr 29 2004 - 13:52:17 CDT)
- Re: Amber periodic images (Thu Apr 29 2004 - 13:49:52 CDT)
- Re: Amber periodic images (Thu Apr 29 2004 - 10:56:26 CDT)
- Re: MOE discussion (Wed Apr 28 2004 - 17:03:31 CDT)
- Re: Rendering of screen/display different (Tue Apr 27 2004 - 00:26:28 CDT)
- Re: coloring selection (Mon Apr 26 2004 - 18:27:50 CDT)
- Re: Bond display and Periodic Boxes (Mon Apr 26 2004 - 17:51:03 CDT)
- Re: Rendering of screen/display different (Mon Apr 26 2004 - 11:58:41 CDT)
- Re: (Sat Apr 24 2004 - 15:41:39 CDT)
- Re: Rendering of screen/display different (Fri Apr 23 2004 - 10:53:51 CDT)
- Re: Rendering of screen/display different (Thu Apr 22 2004 - 15:59:02 CDT)
- Re: Help in VMD (Thu Apr 22 2004 - 10:29:50 CDT)
- Re: error with top2psf (Wed Apr 21 2004 - 13:40:22 CDT)
- Re: Amber trajectory loading (Wed Apr 21 2004 - 13:22:49 CDT)
- Re: Rendering of screen/display different (Wed Apr 21 2004 - 10:51:57 CDT)
- Re: python 2.3 (Tue Apr 20 2004 - 15:02:25 CDT)
- Re: Add H-atoms to Pdb file for NMR (Tue Apr 20 2004 - 15:06:59 CDT)
- Re: xyz plugin (Tue Apr 20 2004 - 09:37:19 CDT)
- Re: file type specification question (Mon Apr 19 2004 - 18:06:03 CDT)
- Re: vmd linux binary / native build on netbsd (Mon Apr 19 2004 - 17:08:18 CDT)
- Re: top2psf (Mon Apr 19 2004 - 11:51:14 CDT)
- Re: xyz plugin (Mon Apr 19 2004 - 11:49:49 CDT)
- Updated plugins for VMD 1.8.2 (Mon Apr 19 2004 - 10:34:55 CDT)
- Re: VMD Bug ? (Mon Apr 19 2004 - 09:38:36 CDT)
- Re: Webpdb crashing (Sun Apr 18 2004 - 19:48:23 CDT)
- Re: file type specification question (Sun Apr 18 2004 - 19:44:40 CDT)
- Re: how to make whole biological unit / virus capsid from pdb BIOMT records (Sun Apr 18 2004 - 19:29:30 CDT)
- Re: move molecule using tcl (Sun Apr 18 2004 - 19:24:40 CDT)
- Re: Re: how to make unique chain pdb identifier of virus capsid 60 mer? (Sun Apr 18 2004 - 19:34:43 CDT)
- Re: Required Assistance for VMD (Sun Apr 18 2004 - 12:19:19 CDT)
- Re: Webpdb crashing (Fri Apr 16 2004 - 13:27:44 CDT)
- Re: your mail (Thu Apr 15 2004 - 16:24:29 CDT)
- Re: Viewing MD trajectories (Tue Apr 13 2004 - 16:44:44 CDT)
- Re: file type specification question (Tue Apr 13 2004 - 16:05:56 CDT)
- Re: Viewing MD trajectories (Tue Apr 13 2004 - 15:59:32 CDT)
- Re: Viewing MD trajectories (Tue Apr 13 2004 - 15:12:08 CDT)
- Re: file type specification question (Tue Apr 13 2004 - 14:23:17 CDT)
- Re: xyz aluminium connectivity questions (Tue Apr 13 2004 - 13:42:52 CDT)
- Re: could not make avi file (Tue Apr 13 2004 - 13:33:33 CDT)
- Re: (Mon Apr 12 2004 - 21:59:15 CDT)
- Re: Viewing MD trajectories (Fri Apr 09 2004 - 20:12:46 CDT)
- Re: Typing Au(111) surface (Fri Apr 09 2004 - 10:00:14 CDT)
- Re: mapping delphi potential maps on surfaces (Thu Apr 08 2004 - 17:49:37 CDT)
- Re: making ps files (Thu Apr 08 2004 - 17:41:29 CDT)
- Re: question about the definition of secondary motiffs (Thu Apr 08 2004 - 16:57:13 CDT)
- Re: mapping delphi potential maps on surfaces (Thu Apr 08 2004 - 16:48:43 CDT)
- Re: file type specification question (Thu Apr 08 2004 - 16:53:04 CDT)
- Re: Typing Au(111) surface (Thu Apr 08 2004 - 16:50:46 CDT)
- Re: file type specification question (Wed Apr 07 2004 - 15:32:42 CDT)
- Re: drawing poligons (Tue Apr 06 2004 - 09:57:04 CDT)
- Re: how to make whole biological unit / virus capsid from pdb BIOMT records (Tue Apr 06 2004 - 09:59:56 CDT)
- Re: how to make whole biological unit / virus capsid from pdb BIOMT records (Mon Apr 05 2004 - 14:11:45 CDT)
- Re: startup failure (Fri Apr 02 2004 - 19:19:28 CST)
- Re: VMD shows bad structure with 'line' type (Fri Apr 02 2004 - 10:36:41 CST)
- Re: startup failure (Thu Apr 01 2004 - 17:33:35 CST)
- Re: animating drawn objects (Thu Apr 01 2004 - 13:26:17 CST)
- Re: about dynamical change color of atoms (Thu Apr 01 2004 - 12:57:33 CST)
- Re: how to save coordinates after moving molecule in VMD? (Thu Apr 01 2004 - 11:08:11 CST)
- Re: how to save coordinates after moving molecule in VMD? (Thu Apr 01 2004 - 10:40:51 CST)
- Re: configure do nothing in Linux(???) (Wed Mar 31 2004 - 10:20:28 CST)
- Re: Molecular ruler ? (Tue Mar 30 2004 - 15:18:25 CST)
- Re: Molecular ruler ? (Tue Mar 30 2004 - 11:28:00 CST)
- Re: Stereo projection ? (Mon Mar 29 2004 - 19:44:51 CST)
- Re: residence time (Wed Mar 24 2004 - 16:01:07 CST)
- Re: xyz to psf (Wed Mar 24 2004 - 15:47:03 CST)
- New and updated plugins for VMD 1.8.2 posted (Wed Mar 24 2004 - 15:17:29 CST)
- Re: .cshrc error prevents VMD working on OSX10.3.3??? or something else??? (Tue Mar 23 2004 - 10:54:22 CST)
- Re: VMD1.82 version with MacOS10.3.3 Problem solved (Tue Mar 23 2004 - 09:48:35 CST)
- Re: Periodic Images (Mon Mar 22 2004 - 11:40:42 CST)
- Re: coloring method User (Mon Mar 22 2004 - 11:45:35 CST)
- Re: Re: msms and vmd on amd athlon64. (Mon Mar 22 2004 - 11:21:55 CST)
- Re: coloring method User (Mon Mar 22 2004 - 11:18:35 CST)
- Re: VMD1.82 version with MacOS10.3.3 DO NOT WORK (Mon Mar 22 2004 - 10:03:24 CST)
- Re: HOLE output visualization (Mon Mar 22 2004 - 10:16:37 CST)
- Re: VMD1.82 version with MacOS10.3.3 DO NOT WORK (Mon Mar 22 2004 - 09:50:25 CST)
- Re: dcd with fixed atoms (Thu Mar 18 2004 - 19:31:16 CST)
- Re: Black & white VMD in CAVE? (Thu Mar 18 2004 - 11:02:10 CST)
- VMD-L digests available (Wed Mar 17 2004 - 18:01:56 CST)
- Re: dcd with fixed atoms (Wed Mar 17 2004 - 10:13:00 CST)
- Re: digest form (Wed Mar 17 2004 - 10:06:24 CST)
- Re: density profile (Tue Mar 16 2004 - 18:49:27 CST)
- Fwd: Announce: STRAP (Tue Mar 16 2004 - 16:06:47 CST)
- Re: loading PDB+PSF (Tue Mar 16 2004 - 12:46:46 CST)
- Re: How to make VMD work with Phantom haptic device? (Tue Mar 16 2004 - 10:33:33 CST)
- Re: digest form (Tue Mar 16 2004 - 10:09:07 CST)
- Re: Formation of a gold layer (Tue Mar 16 2004 - 10:24:23 CST)
- Re: loading PDB+PSF (Tue Mar 16 2004 - 09:55:55 CST)
- Suggestions on sending VMD bug reports/questions, etc... (Mon Mar 15 2004 - 14:09:51 CST)
- Re: Solvate Package (Mon Mar 15 2004 - 13:55:29 CST)
- Re: Rotatind a chain (some further Qs) (Mon Mar 15 2004 - 13:49:01 CST)
- Re: change location of temporay file storage (Win2k) (Mon Mar 15 2004 - 13:53:02 CST)
- Re: msms and vmd on amd athlon64. (Mon Mar 15 2004 - 12:58:52 CST)
- Re: msms and socketPort (Fri Mar 12 2004 - 17:06:36 CST)
- Re: Rotatind a chainn (Fri Mar 12 2004 - 12:46:47 CST)
- Re: is VMD compatible with NVIDIA 3D stereo drivers ? (Fri Mar 12 2004 - 10:56:37 CST)
- Re: msms and socketPort (Fri Mar 12 2004 - 10:11:26 CST)
- Re: gromos96 files (Thu Mar 11 2004 - 14:35:03 CST)
- Re: coloring of trajectory (Thu Mar 11 2004 - 14:29:47 CST)
- Re: Coloring based on POS (Thu Mar 11 2004 - 10:16:19 CST)
- Re: VMD as command line interface (Thu Mar 11 2004 - 09:59:51 CST)
- Re: gromos96 files (Wed Mar 10 2004 - 15:56:08 CST)
- Re: coloring of trajectory (Wed Mar 10 2004 - 11:19:55 CST)
- Re: hydrophobic surface area calculation (Mon Mar 08 2004 - 17:38:54 CST)
- Re: your mail (Mon Mar 08 2004 - 17:20:52 CST)
- Re: Problems with RMSD (Mon Mar 08 2004 - 17:31:26 CST)
- Re: your mail athlon 64/opteron VMD (Mon Mar 08 2004 - 17:41:17 CST)
- Re: unusual bonds (Mon Mar 08 2004 - 17:28:46 CST)
- Re: rotating a representation (Mon Mar 08 2004 - 16:38:18 CST)
- Re: gziped files (Mon Mar 08 2004 - 14:33:41 CST)
- Re: numeric python (Mon Mar 08 2004 - 10:17:18 CST)
- Re: How to make VMD work with Phantom haptic device? (Mon Mar 08 2004 - 10:14:42 CST)
- Re: your mail (Sat Mar 06 2004 - 13:05:07 CST)
- Re: athlon64 version of vmd (Fri Mar 05 2004 - 17:39:47 CST)
- Updated plugins for VMD 1.8.x (Fri Mar 05 2004 - 13:23:45 CST)
- Re: passive stereo setup on linux (Thu Mar 04 2004 - 13:11:00 CST)
- Re: Non-serious query (Thu Mar 04 2004 - 10:54:22 CST)
- Re: color problem with Ati Fire GL E1 (Wed Mar 03 2004 - 21:02:04 CST)
- Re: passive stereo setup on linux (Wed Mar 03 2004 - 14:50:20 CST)
- Re: Non-serious query (Wed Mar 03 2004 - 13:20:30 CST)
- Re: Using VMD for non-atomic simulations? (Wed Mar 03 2004 - 10:03:13 CST)
- Re: Color error on loading (Wed Mar 03 2004 - 09:58:20 CST)
- Re: Color error on loading (Tue Mar 02 2004 - 17:24:45 CST)
- Re: passive stereo setup on linux (Tue Mar 02 2004 - 12:48:17 CST)
- Re: Using VMD with Chromium (Tue Mar 02 2004 - 09:56:59 CST)
- Re: passive stereo setup on linux (Mon Mar 01 2004 - 18:53:27 CST)
- Re: passive stereo setup on linux (Mon Mar 01 2004 - 18:54:17 CST)
- Re: Using VMD with Chromium (Mon Mar 01 2004 - 09:51:04 CST)
- Re: I've tried latest vmd but still problems with mdcrd/crd/rst parser (Fri Feb 27 2004 - 14:07:28 CST)
- Re: atomselect within (Wed Feb 25 2004 - 13:28:37 CST)
- Re: vmd on ppc (G4) (Mon Feb 23 2004 - 16:30:39 CST)
- Test version of VMD 1.8.3 for Linux on AMD x86_64 (Athlon64 / Opteron) available... (Mon Feb 23 2004 - 14:14:33 CST)
- Re: Stationary labels; delays ("wait") in scripts (Mon Feb 23 2004 - 13:18:57 CST)
- Re: add a new color (Mon Feb 23 2004 - 11:07:41 CST)
- Re: Rama plot (Mon Feb 23 2004 - 10:58:56 CST)
- Re: Compiling vmd for ppc linux (Fri Feb 20 2004 - 16:23:33 CST)
- Re: ca contact map (Tue Feb 17 2004 - 10:40:01 CST)
- Re: Customizing vdw radius (Tue Feb 17 2004 - 10:32:22 CST)
- Re: veclength (Mon Feb 16 2004 - 23:56:13 CST)
- Re: your mail (Mon Feb 16 2004 - 22:19:55 CST)
- Re: Some pdb file contains many frames : How Can I retrieve all in a frame... (Mon Feb 16 2004 - 17:25:36 CST)
- Re: repitition of residue numbers in LIPIDS (Mon Feb 16 2004 - 17:45:08 CST)
- Re: duplicate atom coordinates in PDB files (Mon Feb 16 2004 - 15:10:06 CST)
- VMD-L downtime Feb 18/19... (Mon Feb 16 2004 - 15:21:14 CST)
- Re: Some pdb file contains many frames : How Can I retrieve all in a frame... (Mon Feb 16 2004 - 11:50:58 CST)
- Re: missing RMSD tool in extensions menu (Sat Feb 14 2004 - 01:28:56 CST)
- Re: removing surrounding water molecules (Fri Feb 13 2004 - 17:40:24 CST)
- Re: Problems with graphics.color function under VMD's python interpreter (Fri Feb 13 2004 - 17:43:27 CST)
- Re: Some pdb file contains many frames : How Can I retrieve all in a frame... (Fri Feb 13 2004 - 11:31:34 CST)
- Re: Apple VMD not showing gro file properly (Fri Feb 13 2004 - 10:52:02 CST)
- Re: solvating lipid bilayers (Thu Feb 12 2004 - 17:17:19 CST)
- Re: Apple VMD not showing gro file properly (Thu Feb 12 2004 - 17:22:02 CST)
- Re: stripping off oxygen groups (Thu Feb 12 2004 - 16:49:01 CST)
- Re: Where can I read the specifications on molecular file formats? (Thu Feb 12 2004 - 00:51:08 CST)
- Re: any body else have VMD problems with Linux + ATI FireGL X1-256p + fglrx-glc22-4.3.0-3.7.0 (Wed Feb 11 2004 - 20:02:26 CST)
- Re: New stage? (Wed Feb 11 2004 - 18:57:25 CST)
- Re: attempting to source a script (Wed Feb 11 2004 - 18:39:41 CST)
- Re: xyz files and VMD 1.8.2 (Wed Feb 11 2004 - 18:49:54 CST)
- Re: any body else have VMD problems with Linux + ATI FireGL X1-256p + fglrx-glc22-4.3.0-3.7.0 (Wed Feb 11 2004 - 18:33:51 CST)
- Re: Apple VMD not showing gro file properly (Tue Feb 10 2004 - 09:56:58 CST)
- Re: experience using VMD with 3-D printers? (Mon Feb 09 2004 - 10:49:31 CST)
- Re: Densities for protein and ligand (Fri Feb 06 2004 - 13:56:17 CST)
- Re: Error loading .cor files from CHARMM using dcd (Wed Feb 04 2004 - 13:02:45 CST)
- Re: How to install VMD on AIX5 OpenGL server (Wed Feb 04 2004 - 13:06:43 CST)
- Re: random graphics outages on startup (Wed Feb 04 2004 - 10:42:19 CST)
- Re: few colors in new ribbons representation - raytrace output (Sat Jan 31 2004 - 16:47:43 CST)
- fwd [Re: Does VMD support LES simulations?] (Fri Jan 30 2004 - 13:10:34 CST)
- VMD-L mail delivery rate... was Re: test (Fri Jan 30 2004 - 10:02:45 CST)
- Re: Does VMD support LES simulations? (Fri Jan 30 2004 - 01:26:48 CST)
- Re: few colors in new ribbons representation - raytrace output (Fri Jan 30 2004 - 00:57:40 CST)
- Re: few colors in new ribbons representation - raytrace output (Thu Jan 29 2004 - 20:21:53 CST)
- Re: an arrow for a dipole (Wed Jan 28 2004 - 18:26:45 CST)
- Re: Perspective Ratio Problems (Wed Jan 28 2004 - 14:59:21 CST)
- Re: OpenGL library loading (Tue Jan 27 2004 - 16:31:56 CST)
- Re: surf for mac (Tue Jan 27 2004 - 15:32:11 CST)
- Re: OpenGL library loading (Tue Jan 27 2004 - 15:20:56 CST)
- Re: OpenGL library loading (Tue Jan 27 2004 - 13:04:08 CST)
- Re: surf for mac (Mon Jan 26 2004 - 16:38:59 CST)
- Re: OpenGL library loading (Thu Jan 22 2004 - 16:13:37 CST)
- Re: about frame (Tue Jan 20 2004 - 10:50:37 CST)
- Re: How to install VMD on AIX5 OpenGL server (Tue Jan 20 2004 - 10:44:30 CST)
- Re: docking in VMD (Mon Jan 19 2004 - 07:54:36 CST)
- Re: Hi (Sun Jan 18 2004 - 23:44:30 CST)
- Re: Hybond calulator and display (Fri Jan 16 2004 - 13:07:09 CST)
- Re: solvate function (Sat Jan 10 2004 - 17:33:36 CST)
- Re: Question about Python and Mac osx (Sat Jan 10 2004 - 17:32:00 CST)
- Re: PBC (Tue Jan 06 2004 - 18:27:10 CST)
- Re: PBC (Tue Jan 06 2004 - 18:25:44 CST)
- Re: VMD 1.8.2 on MacOS 10.3 (Tue Jan 06 2004 - 01:30:26 CST)
- Re: dcd reading error (Sat Jan 03 2004 - 21:35:03 CST)
- Re: dcd reading error (Fri Jan 02 2004 - 14:34:07 CST)
- Re: Cartoon representation for large molecules (Fri Jan 02 2004 - 13:29:32 CST)
- Re: dcd reading error (Fri Jan 02 2004 - 13:05:17 CST)
- Re: vmd and msms for mac (Mon Dec 22 2003 - 11:29:25 CST)
- Re: graphics display works sometimes (Tue Dec 16 2003 - 23:07:43 CST)
- Re: CHARMM CRD files: COR plugin (Tue Dec 16 2003 - 21:02:57 CST)
- Re: movie making in batch mode (Tue Dec 16 2003 - 20:47:04 CST)
- Re: ACTC Triangle Consolidation (Fri Dec 12 2003 - 14:32:00 CST)
- Re: ACTC Triangle Consolidation (Fri Dec 12 2003 - 10:06:50 CST)
- Re: Different number of atoms trajectory frames (Thu Dec 11 2003 - 10:41:34 CST)
- Re: remote display (Thu Dec 11 2003 - 10:39:01 CST)
- Re: Different number of atoms trajectory frames (Thu Dec 11 2003 - 10:12:35 CST)
- Re: .psf and .params files for IMD (Thu Dec 11 2003 - 10:15:30 CST)
- Re: New version very slow?... me too (Wed Dec 10 2003 - 09:49:14 CST)
- Re: stride error (Wed Dec 10 2003 - 00:42:08 CST)
- Re: New version very slow? (Wed Dec 10 2003 - 00:07:59 CST)
- Re: your mail (Mon Dec 08 2003 - 23:58:26 CST)
- Announce: VMD 1.8.2 released!! (Fri Dec 05 2003 - 14:53:13 CST)
- Re: vmd crashes after startup... (Wed Dec 03 2003 - 18:44:26 CST)
- Re: Stride problems in XP.... (Tue Dec 02 2003 - 13:41:03 CST)
- Re: Matching electron density map and PDB (Mon Dec 01 2003 - 17:27:09 CST)
- Re: MSMS probe radius and CHARMM VDW radii (Mon Dec 01 2003 - 15:37:46 CST)
- Re: periodic box lines (Mon Dec 01 2003 - 12:43:36 CST)
- Re: draw multiple frames (Mon Dec 01 2003 - 12:16:16 CST)
- Re: vmdmovie in OS X.3 (Tue Nov 25 2003 - 15:51:28 CST)
- Re: Running VTK from VMD's python (Tue Nov 25 2003 - 13:52:55 CST)
- Re: vmdmovie in OS X.3 (Mon Nov 24 2003 - 21:07:12 CST)
- Re: vmdmovie in OS X.3 (Mon Nov 24 2003 - 18:51:01 CST)
- Re: about command readpdb? (Mon Nov 24 2003 - 14:14:21 CST)
- Re: Running VTK from VMD's python (Fri Nov 21 2003 - 17:51:02 CST)
- Re: Naming in XmGrace (Thu Nov 20 2003 - 09:51:04 CST)
- Re: (Wed Nov 19 2003 - 10:36:55 CST)
- Re: (Wed Nov 19 2003 - 10:22:01 CST)
- Re: Rodlike mixture (Wed Nov 19 2003 - 10:27:33 CST)
- Re: x-plor map file and readedm (Tue Nov 18 2003 - 14:54:13 CST)
- Updated VMD-L archive page... (Tue Nov 18 2003 - 13:10:07 CST)
- Re: Naming in XmGrace (Tue Nov 18 2003 - 10:05:04 CST)
- Re: subscribe and questions (Fri Nov 14 2003 - 14:45:33 CST)
- Re: send data on demand using IMD? (Fri Nov 14 2003 - 10:24:05 CST)
- Re: POV-Ray (Wed Nov 12 2003 - 17:23:27 CST)
- Re: unit cell (Wed Nov 12 2003 - 17:21:32 CST)
- Re: Highlighting nearest atom ? (wrt to a tool) (Wed Nov 12 2003 - 10:27:19 CST)
- Re: Highlighting nearest atom ? (wrt to a tool) (Tue Nov 11 2003 - 17:40:47 CST)
- Re: stereo problem and VMD 1.8.2beta5 (Tue Nov 11 2003 - 15:36:04 CST)
- Re: x-plor map file and readedm (Tue Nov 11 2003 - 10:56:28 CST)
- Re: unit cell (Mon Nov 10 2003 - 16:44:22 CST)
- Re: POV-Ray (Mon Nov 10 2003 - 13:17:30 CST)
- Re: VMD 1.8.1 MacOSX running very slow on new G4 1 GHz Powerbook (Mon Nov 10 2003 - 11:13:26 CST)
- Re: Running VTK from VMD's python (Mon Nov 10 2003 - 11:01:04 CST)
- Re: running vmd in batch mode (Thu Nov 06 2003 - 19:26:27 CST)
- Re: running vmd in batch mode (Thu Nov 06 2003 - 17:28:49 CST)
- Re: Running VTK from VMD's python (Thu Nov 06 2003 - 16:50:53 CST)
- Re: Calculating angles between subunits (Thu Nov 06 2003 - 16:10:35 CST)
- Re: VMD and Mandrake Linux 9.1 (Thu Nov 06 2003 - 15:34:46 CST)
- Re: (Thu Nov 06 2003 - 09:26:23 CST)
- Re: Re: making movie on Mac OSX (Tue Nov 04 2003 - 13:16:25 CST)
- Re: Re: loading MD trajectories (Tue Nov 04 2003 - 13:18:33 CST)
- Re: installation problem (Tue Nov 04 2003 - 10:47:44 CST)
- Re: stereo projection, Mac (Mon Nov 03 2003 - 17:00:12 CST)
- Re: VMD and chromium (Mon Nov 03 2003 - 15:47:03 CST)
- Re: VMD and chromium (Fri Oct 31 2003 - 16:14:52 CST)
- Re: secondary structure update (Fri Oct 31 2003 - 12:37:52 CST)
- Re: Radeon FireGL drivers crash VMD (Fri Oct 31 2003 - 09:47:36 CST)
- Re: secondary structure update (Fri Oct 31 2003 - 09:45:07 CST)
- Re: Radeon FireGL drivers crash VMD (Fri Oct 31 2003 - 09:41:48 CST)
- Re: VMD and Chromium (Thu Oct 30 2003 - 15:22:14 CST)
- Updated plugins for VMD 1.8.1... (Thu Oct 30 2003 - 14:46:09 CST)
- Re: VMD and Chromium (Thu Oct 30 2003 - 13:51:51 CST)
- Re: How to improve the running of VMD with data on remote servers (Thu Oct 30 2003 - 13:26:15 CST)
- Re: VMD and Chromium (Thu Oct 30 2003 - 13:28:30 CST)
- Re: Running VTK from VMD's python (Thu Oct 30 2003 - 10:42:15 CST)
- Re: coloring by charge (Wed Oct 29 2003 - 13:46:01 CST)
- Re: Measuring distances between two sets of atoms in a dcd file (Tue Oct 28 2003 - 14:18:12 CST)
- Re: How to improve the running of VMD with data on remote servers (Tue Oct 28 2003 - 08:57:08 CST)
- Re: getting ramachandran plots with VMD (Mon Oct 27 2003 - 15:50:51 CST)
- Re: Calculating angles between subunits (Fri Oct 24 2003 - 19:11:25 CDT)
- Re: VDW radii in input files (Fri Oct 24 2003 - 19:27:32 CDT)
- Re: Viewing Amber6 trajectory with VMD 1.8.1 (Fri Oct 24 2003 - 19:05:32 CDT)
- Re: Bond drawing questino (Fri Oct 24 2003 - 18:51:59 CDT)
- Re: vmd 1.8 Linux mesa on RedHat (Fri Oct 24 2003 - 16:46:04 CDT)
- Re: VMD 1.8.1 MacOSX running very slow on new G4 1 GHz Powerbook (Thu Oct 23 2003 - 16:14:49 CDT)
- Re: VMD and XP (Thu Oct 23 2003 - 09:47:29 CDT)
- Re: VMD 1.8.1 MacOSX running very slow on new G4 1 GHz Powerbook (Thu Oct 23 2003 - 09:46:37 CDT)
- Re: VMD and Chromium (Thu Oct 23 2003 - 02:32:50 CDT)
- Re: VMD and XP (Wed Oct 22 2003 - 17:35:10 CDT)
- Re: ribbon representation :: VRML (Tue Oct 21 2003 - 15:43:26 CDT)
- Re: vmd 1.8.1 (Tue Oct 21 2003 - 15:54:51 CDT)
- Re: mousing problem under OS X (Tue Oct 21 2003 - 15:57:22 CDT)
- Re: show hbonds (Fri Oct 17 2003 - 18:16:47 CDT)
- Re: ribbon representation (Fri Oct 17 2003 - 18:14:17 CDT)
- Re: loading crd files into VMD (Wed Oct 15 2003 - 17:00:12 CDT)
- Re: VMD performance on Mac OSX, 10.2.8 (Wed Oct 15 2003 - 14:36:32 CDT)
- Re: VMD performance on Mac OSX, 10.2.8 (Wed Oct 15 2003 - 13:24:02 CDT)
- Re: vmd 1.8 Linux mesa on RedHat (Wed Oct 15 2003 - 10:25:47 CDT)
- Re: vmd 1.8 Linux mesa on RedHat (Tue Oct 14 2003 - 16:59:24 CDT)
- Re: vmd 1.8 Linux mesa on RedHat (Tue Oct 14 2003 - 15:45:51 CDT)
- Re: VMD performance on Mac OSX, 10.2.8 (Tue Oct 14 2003 - 15:43:18 CDT)
- Re: Compiling VMD on IRIX 6.5 redux (Tue Oct 14 2003 - 15:25:49 CDT)
- Re: Setting default viewing window location in XP (Tue Oct 14 2003 - 11:03:04 CDT)
- Re: vmd information (Wed Oct 08 2003 - 22:45:18 CDT)
- Re: water sphere (Wed Oct 08 2003 - 15:21:02 CDT)
- Re: VDW radii in input files (Tue Oct 07 2003 - 15:42:28 CDT)
- Re: VDW radii in input files (Tue Oct 07 2003 - 15:35:08 CDT)
- Re: water sphere (Tue Oct 07 2003 - 14:40:53 CDT)
- Re: water sphere (Tue Oct 07 2003 - 13:32:33 CDT)
- Re: water sphere (Tue Oct 07 2003 - 13:37:23 CDT)
- [kwiseon_kim@nrel.gov: RE: NVIDIA Quadro - CrystalEyes - Windows] (Mon Oct 06 2003 - 17:39:34 CDT)
- Re: Feature request: PBC from CHARMM DCD files (Thu Oct 02 2003 - 16:49:14 CDT)
- Re: HBonds (Thu Oct 02 2003 - 14:55:14 CDT)
- Re: nvidia driver (Wed Oct 01 2003 - 14:08:32 CDT)
- Re: python support and pipes in vmd (Tue Sep 30 2003 - 16:05:49 CDT)
- Re: Python's future in VMD (Tue Sep 30 2003 - 12:30:15 CDT)
- Re: NVIDIA Quadro - CrystalEyes - Linux (Tue Sep 30 2003 - 11:03:20 CDT)
- Re: nvidia driver (Tue Sep 30 2003 - 10:04:21 CDT)
- Re: Python's future in VMD (Tue Sep 30 2003 - 10:14:34 CDT)
- Re: vizualization of modes (Tue Sep 30 2003 - 10:17:49 CDT)
- Re: NAMD, IMD, VMD and interaction (Mon Sep 29 2003 - 15:11:40 CDT)
- Re: File format of DCD Trajectory file (Mon Sep 29 2003 - 10:53:21 CDT)
- Re: AtomLexer/lex.yy.c error (Fri Sep 26 2003 - 13:59:38 CDT)
- Re: AtomLexer/lex.yy.c error (Thu Sep 25 2003 - 16:35:22 CDT)
- Re: vmd script library (Thu Sep 25 2003 - 14:31:54 CDT)
- Re: Mac OS X -dispdev options (Thu Sep 25 2003 - 11:25:57 CDT)
- Re: vrml (Wed Sep 24 2003 - 13:12:14 CDT)
- Re: text mode to calculate Internal Energy (Wed Sep 24 2003 - 13:39:30 CDT)
- Re: water sphere (Wed Sep 24 2003 - 13:16:05 CDT)
- Re: spacemice (Tue Sep 23 2003 - 13:25:41 CDT)
- Re: keyframe animations (Tue Sep 23 2003 - 10:53:08 CDT)
- Re: water sphere (Tue Sep 23 2003 - 10:04:39 CDT)
- Re: showing all vmd output (Thu Sep 18 2003 - 15:59:55 CDT)
- Re: Drawing of bonds while trajectory animation. (Thu Sep 18 2003 - 14:09:30 CDT)
- Re: making movie with snapshot - bogus images (Wed Sep 17 2003 - 16:20:20 CDT)
- Re: VMD, CAVEs and pointing devices (Wed Sep 17 2003 - 13:53:56 CDT)
- Re: vmd 1.8.2b3 (September 16, 2003) on freebsd (Wed Sep 17 2003 - 00:16:02 CDT)
- Re: AtomLexer/lex.yy.c error (Tue Sep 16 2003 - 12:06:33 CDT)
- Re: Systematic VMD crash above critical size (Mon Sep 15 2003 - 10:37:10 CDT)
- Re: Systematic VMD crash above critical size (Mon Sep 15 2003 - 10:21:50 CDT)
- Re: OpenGLExtensions.C compile problem (Sun Sep 14 2003 - 14:44:31 CDT)
- Re: updating cartoon representation in trajectory (Sun Sep 14 2003 - 11:00:11 CDT)
- Re: loading trj file (Fri Sep 12 2003 - 15:16:48 CDT)
- Re: IMD interface code and endianness (Fri Sep 12 2003 - 14:10:51 CDT)
- Re: "Distributed Cavelib" VMD port (Fri Sep 12 2003 - 11:15:00 CDT)
- Re: trio program (Fri Sep 12 2003 - 10:12:57 CDT)
- Re: static text (Thu Sep 11 2003 - 13:06:06 CDT)
- Re: Backspace not functionning in console (Thu Sep 11 2003 - 10:04:29 CDT)
- Re: OpenGLExtensions.C compile problem (Thu Sep 11 2003 - 10:12:19 CDT)
- Re: Reading large traj file error or how to divide a large traj file into parts? (Wed Sep 10 2003 - 16:07:34 CDT)
- Re: numerical output for SURF? (Wed Sep 10 2003 - 15:42:33 CDT)
- Re: Reading large traj file error or how to divide a large traj file into parts? (Wed Sep 10 2003 - 14:56:18 CDT)
- Re: Backspace not functionning in console (Wed Sep 10 2003 - 10:07:34 CDT)
- Re: compile VMD on freebsd 4.8 (Tue Sep 09 2003 - 19:43:33 CDT)
- Re: python: packages not found also...(repost) (Tue Sep 09 2003 - 02:10:39 CDT)
- Re: drawing objects (Tue Sep 09 2003 - 02:20:35 CDT)
- Re: hardware stereo with nVidia card (Wed Sep 03 2003 - 22:44:38 CDT)
- Re: simple question (Wed Sep 03 2003 - 22:39:14 CDT)
- Re: reading/writing (Thu Aug 28 2003 - 19:58:15 CDT)
- Re: Amber prmtop/inpcrd files (Thu Aug 28 2003 - 15:46:52 CDT)
- Re: reading/writing (Thu Aug 28 2003 - 15:38:18 CDT)
- Re: Graphics workstation and Xenon problems with VMD? (Wed Aug 27 2003 - 13:39:17 CDT)
- VMD support -- Out of town until Sept. 9th (Wed Aug 27 2003 - 11:02:20 CDT)
- Re: Graphics workstation and Xenon problems with VMD? (Wed Aug 27 2003 - 00:26:11 CDT)
- Re: linux mesa binaries no longer available? (Tue Aug 26 2003 - 14:13:11 CDT)
- Re: More Script Problems (Tue Aug 26 2003 - 13:32:18 CDT)
- Re: More Script Problems (Tue Aug 26 2003 - 09:31:24 CDT)
- Re: support for multi-frame XYZ files? (Tue Aug 26 2003 - 00:13:35 CDT)
- Re: reading/writing (Mon Aug 25 2003 - 19:11:16 CDT)
- Re: Using Solvate Script (Mon Aug 25 2003 - 13:27:45 CDT)
- Re: colors changed in animation (Mon Aug 25 2003 - 10:32:47 CDT)
- Re: truncated octahedron box in namd (fwd) (Mon Aug 25 2003 - 10:24:18 CDT)
- Re: VMD print out (Thu Aug 14 2003 - 22:15:42 CDT)
- Re: rgb to mpg (Thu Aug 14 2003 - 22:01:08 CDT)
- Re: configuring vmd w/ browser on OS X (Mon Aug 11 2003 - 11:22:14 CDT)
- Re: rgb to mpg (Mon Aug 11 2003 - 10:50:42 CDT)
- Re: rgb to mpg (Fri Aug 08 2003 - 18:34:46 CDT)
- Re: Bondlength information! (Wed Aug 06 2003 - 11:04:57 CDT)
- Re: python: cannot find library (Wed Aug 06 2003 - 11:02:24 CDT)
- Re: error when making a movie (Wed Aug 06 2003 - 10:38:57 CDT)
- Re: error when making a movie (Tue Aug 05 2003 - 23:00:52 CDT)
- Re: error when making a movie (Tue Aug 05 2003 - 21:59:45 CDT)
- Re: Vmd -dispdev text under OS X (Mon Aug 04 2003 - 20:13:47 CDT)
- Re: problems compiling vmd (1.8.1) (Mon Aug 04 2003 - 14:34:24 CDT)
- Re: Amber prmtop/inpcrd files (Thu Jul 31 2003 - 18:01:25 CDT)
- Re: Amber prmtop/inpcrd files (Thu Jul 31 2003 - 11:44:38 CDT)
- Re: Some improvements for 1.8.2 (Fri Jul 25 2003 - 20:37:46 CDT)
- Re: volume slice problem (Fri Jul 25 2003 - 10:12:03 CDT)
- VMD at Siggraph next week... (Thu Jul 24 2003 - 14:18:17 CDT)
- Re: compile VMD on freebsd 4.8 (Wed Jul 23 2003 - 14:27:04 CDT)
- New VMD CVS tree location, update your aliases... (Wed Jul 23 2003 - 14:23:55 CDT)
- New VMD-L subject lines... (Tue Jul 22 2003 - 16:53:05 CDT)
- Re: Labels (atom type, partial charge) (Thu Jul 17 2003 - 20:14:25 CDT)
- Re: superposition (Thu Jul 17 2003 - 19:55:49 CDT)
- Re: STL files (Thu Jul 17 2003 - 11:21:22 CDT)
- Re: superposition (Thu Jul 17 2003 - 09:48:20 CDT)
- Re: Problem with Vmd on SGI + Cavelib (Wed Jul 16 2003 - 16:34:45 CDT)
- Re: Problem with Vmd on SGI + Cavelib (Tue Jul 15 2003 - 23:33:55 CDT)
- Re: PLT file format? (Tue Jul 15 2003 - 23:16:39 CDT)
- Re: question (Tue Jul 15 2003 - 17:08:58 CDT)
- Re: question (Tue Jul 15 2003 - 16:33:13 CDT)
- Re: VMD and doubleprecision trajectories (Tue Jul 15 2003 - 09:48:44 CDT)
- Re: Problem with Vmd on SGI + Cavelib (Fri Jul 11 2003 - 12:59:49 CDT)
- Re: animate delete (Fri Jul 11 2003 - 10:20:11 CDT)
- Re: VMD (Tue Jul 08 2003 - 10:44:23 CDT)
- Re: print results to file (Mon Jul 07 2003 - 18:16:26 CDT)
- Note about VMD 1.8.1 on on MacOS X 10.1.x.... (Mon Jul 07 2003 - 17:20:21 CDT)
- Re: MSMS and VMD: vertices discripancy (Thu Jul 03 2003 - 14:37:27 CDT)
- Re: PLT file format? (Thu Jul 03 2003 - 13:58:53 CDT)
- Re: PLT file format? (Tue Jun 24 2003 - 10:46:43 CDT)
- Re: question on resname (Tue Jun 24 2003 - 10:31:10 CDT)
- Re: your mail (Tue Jun 24 2003 - 10:18:33 CDT)
- Re: .XYZ File format (DL_POLY conversion) (Mon Jun 23 2003 - 09:37:34 CDT)
- Re: Visualizing CURVES output (Fri Jun 20 2003 - 15:11:25 CDT)
- Re: quicktime/mpeg movies (Fri Jun 20 2003 - 14:59:37 CDT)
- Re: coloring method: user (Fri Jun 20 2003 - 10:03:15 CDT)
- Re: Bond Lengths (Fri Jun 20 2003 - 09:55:54 CDT)
- Re: coloring waters (Thu Jun 19 2003 - 19:50:02 CDT)
- Re: PLT file format? (Thu Jun 19 2003 - 11:03:28 CDT)
- Re: New User of VMD (Wed Jun 18 2003 - 13:43:53 CDT)
- Re: MacOSX VMD errors. (solved) (Wed Jun 18 2003 - 12:57:00 CDT)
- Re: quicktime/mpeg movies (Wed Jun 18 2003 - 11:21:53 CDT)
- Re: MacOSX VMD errors. (Wed Jun 18 2003 - 10:55:19 CDT)
- Re: VMD & NAMD (Wed Jun 18 2003 - 10:09:35 CDT)
- Re: amber trajectory (Wed Jun 18 2003 - 09:55:39 CDT)
- Re: opengl window resize hangs on linux/nvidia (Tue Jun 17 2003 - 15:32:29 CDT)
- Re: MSMS and VMD: vertices discripancy (Tue Jun 17 2003 - 12:51:20 CDT)
- Re: MSMS and VMD: vertices discripancy (Tue Jun 17 2003 - 12:22:39 CDT)
- Re: MSMS and VMD: vertices discripancy (Mon Jun 16 2003 - 18:48:56 CDT)
- Re: osX anti aliasing and rendering speed / window size on linux (Mon Jun 16 2003 - 11:26:06 CDT)
- Re: osX anti aliasing and rendering speed / window size on linux (Mon Jun 16 2003 - 10:11:33 CDT)
- Re: Announce: VMD 1.8.1 released!! (Sun Jun 15 2003 - 23:37:12 CDT)
- Announce: VMD 1.8.1 released!! (Sun Jun 15 2003 - 15:38:19 CDT)
- Re: NAMD IMD large protein model (Fri Jun 13 2003 - 15:53:15 CDT)
- Re: double image for one eye with crystal eyes stereo (Fri Jun 13 2003 - 10:13:58 CDT)
- Re: double image for one eye with crystal eyes stereo (Fri Jun 13 2003 - 10:04:58 CDT)
- Re: Support Contours? (Fri Jun 13 2003 - 09:53:49 CDT)
- Re: stereo glasses and VMD (Thu Jun 12 2003 - 15:26:17 CDT)
- Re: double image for one eye with crystal eyes stereo (Thu Jun 12 2003 - 11:24:51 CDT)
- Re: double image for one eye with crystal eyes stereo (Thu Jun 12 2003 - 11:07:01 CDT)
- Re: double image for one eye with crystal eyes stereo (Thu Jun 12 2003 - 10:11:43 CDT)
- Re: VMD Error! (fwd) (Wed Jun 11 2003 - 09:44:48 CDT)
- Re: VMD and Situs (Thu Jun 05 2003 - 09:10:21 CDT)
- Re: Situs (Wed Jun 04 2003 - 17:36:45 CDT)
- Re: distance to solvent accessible surface (Wed Jun 04 2003 - 16:23:06 CDT)
- Re: Format of the axes (Wed Jun 04 2003 - 14:22:20 CDT)
- Re: Situs (Wed Jun 04 2003 - 14:03:56 CDT)
- Re: Situs (Wed Jun 04 2003 - 13:52:49 CDT)
- Re: Dihedral angle calculation! (Wed Jun 04 2003 - 11:32:15 CDT)
- Re: tubes (Tue Jun 03 2003 - 13:41:23 CDT)
- Re: Rotating dihedrals (Fri May 30 2003 - 16:04:54 CDT)
- Re: problem in loading dcd file? (Fri May 30 2003 - 16:02:50 CDT)
- Re: cartoon representation (Fri May 30 2003 - 15:46:30 CDT)
- Re: Rotating dihedrals (Fri May 30 2003 - 15:16:18 CDT)
- Re: problem in loading dcd file? (Fri May 30 2003 - 10:29:32 CDT)
- Re: trajectory_path (Fri May 30 2003 - 10:19:55 CDT)
- Re: Missing bonds (Fri May 30 2003 - 10:03:34 CDT)
- Re: load multiple pdb files simultaneously (Wed May 28 2003 - 19:28:34 CDT)
- Re: advice for a PCI video card on redhat (Wed May 28 2003 - 15:49:07 CDT)
- Re: IMD interface code and endianness (Wed May 28 2003 - 14:36:42 CDT)
- Re: IMD interface code and endianness (Wed May 28 2003 - 13:55:17 CDT)
- Re: 3-d visualization (Wed May 28 2003 - 12:29:25 CDT)
- Re: implicit casting (Fri May 23 2003 - 15:20:51 CDT)
- VMD 1.8.1 beta 8 posted... (Fri May 23 2003 - 00:28:04 CDT)
- Re: your mail (Thu May 22 2003 - 23:18:11 CDT)
- Re: compiling/porting vmd (Thu May 22 2003 - 23:03:06 CDT)
- Wrapping atoms around unit cell boundaries (Thu May 22 2003 - 10:14:18 CDT)
- VMD 1.8.1 beta 7 posted.. (Tue May 20 2003 - 18:21:42 CDT)
- Re: Graphics Cards (Tue May 20 2003 - 10:55:24 CDT)
- Re: VMD 1.8.1 beta 6 posted... (Mon May 19 2003 - 18:15:09 CDT)
- VMD 1.8.1 beta 6 posted... (Mon May 19 2003 - 18:13:55 CDT)
- Re: Graphics Cards (Mon May 19 2003 - 12:27:54 CDT)
- Re: VMD mods for the CAVE (Fri May 16 2003 - 10:11:15 CDT)
- Re: solute + solvent temperature? (Fri May 16 2003 - 10:00:27 CDT)
- Re: VMD 1.8 on Windows2000 to crash when executing simple scripts (Thu May 15 2003 - 17:52:44 CDT)
- VMD 1.8.1 beta 5 posted for testing... (Thu May 15 2003 - 17:35:00 CDT)
- Re: changing atom number in animation (Thu May 15 2003 - 16:21:24 CDT)
- Re: solute + solvent temperature? (Thu May 15 2003 - 16:19:58 CDT)
- Re: VMD on redhat9 (Thu May 15 2003 - 16:00:04 CDT)
- Re: Where is the Tracker Menu (Tue May 13 2003 - 21:15:17 CDT)
- Re: VMD 1.8.1 beta 4 posted... (Mon May 12 2003 - 18:59:46 CDT)
- Re: Is it possible to read a discover trajectory into VMD? (Mon May 12 2003 - 15:37:44 CDT)
- VMD 1.8.1 beta 4 posted... (Mon May 12 2003 - 15:25:22 CDT)
- Re: changing atom number in animation (Mon May 12 2003 - 11:07:32 CDT)
- Re: Plugins Problem with 1.8.1b2 (Mon May 12 2003 - 11:03:23 CDT)
- Re: about superimposing by VMD (Fri May 09 2003 - 10:46:46 CDT)
- Re: vmdmovie on OS X current (Fri May 09 2003 - 09:48:56 CDT)
- Re: Wavefront output of VMD (Wed May 07 2003 - 11:09:12 CDT)
- Re: new color scale (Tue May 06 2003 - 13:06:01 CDT)
- Re: Memory problems using the "move" command inside a loop! (Fri May 02 2003 - 15:30:39 CDT)
- Re: VMD on Solaris 2.x doesn't compile (Fri May 02 2003 - 13:08:22 CDT)
- Re: Save_state and Load_state (Fri May 02 2003 - 10:04:44 CDT)
- Re: VMD on Solaris 2.x doesn't compile (Fri May 02 2003 - 09:52:53 CDT)
- Re: cursor size/shape in pick mode (Thu May 01 2003 - 08:30:57 CDT)
- Re: VMD on redhat9 (Wed Apr 30 2003 - 20:48:02 CDT)
- Re: Some comments about stereo with nvidia cards & shutter glasses (Wed Apr 30 2003 - 20:45:29 CDT)
- Re: Memory problems using the "move" command inside a loop! (Wed Apr 30 2003 - 10:05:19 CDT)
- Re: problem with labels (Tue Apr 29 2003 - 17:53:40 CDT)
- Re: VMD on redhat9 (Tue Apr 29 2003 - 13:41:30 CDT)
- Re: problem with labels (Tue Apr 29 2003 - 13:36:00 CDT)
- Re: problem with labels (Tue Apr 29 2003 - 13:07:30 CDT)
- Re: DCD file format? (Fri Apr 25 2003 - 17:40:04 CDT)
- Re: unit cell information (Fri Apr 25 2003 - 17:28:48 CDT)
- Re: Text-line command for Graphics? (Fri Apr 25 2003 - 16:05:46 CDT)
- Re: DCD file format? (Fri Apr 25 2003 - 16:02:00 CDT)
- Re: Updating colors (Wed Apr 23 2003 - 15:30:28 CDT)
- Re: Updating colors (Wed Apr 23 2003 - 15:24:57 CDT)
- Re: Updating colors (Wed Apr 23 2003 - 15:01:05 CDT)
- Re: installation problems with Redhat 9 (Wed Apr 23 2003 - 13:27:57 CDT)
- Re: Movie Script (Wed Apr 23 2003 - 09:48:40 CDT)
- VMD 1.8.1 beta 2 available for testing.... (Tue Apr 22 2003 - 15:25:05 CDT)
- Re: question about periodicity (Tue Apr 22 2003 - 13:57:56 CDT)
- Re: Memory problems with XP (Mon Apr 21 2003 - 11:31:59 CDT)
- Fwd: FW: centering selection on screen (Thu Apr 17 2003 - 12:38:35 CDT)
- Re: Wait command in Win2000 (Fri Apr 11 2003 - 17:24:22 CDT)
- Re: Wait command in Win2000 (Fri Apr 11 2003 - 16:47:41 CDT)
- Re: Wait command in Win2000 (Fri Apr 11 2003 - 15:52:33 CDT)
- Re: water box (Fri Apr 11 2003 - 14:56:41 CDT)
- Re: water box (Fri Apr 11 2003 - 14:55:44 CDT)
- Re: a few questions on uninstall, labels, rasmol,seq window (Fri Apr 11 2003 - 14:49:49 CDT)
- Re: water box (Thu Apr 10 2003 - 19:30:22 CDT)
- Re: plotting wave functions (Thu Apr 10 2003 - 19:27:36 CDT)
- Re: Error compiling trio (Wed Apr 09 2003 - 10:08:53 CDT)
- Re: Metal-Metal distance (Tue Apr 08 2003 - 17:42:22 CDT)
- Re: Drawing bonds to metals (Tue Apr 08 2003 - 17:10:39 CDT)
- Re: python: error importing packages (Tue Apr 08 2003 - 10:56:41 CDT)
- Re: gamepad on linux? (Wed Apr 02 2003 - 11:15:44 CST)
- Re: your mail (Mon Mar 31 2003 - 10:09:49 CST)
- Re: Problem with stride, surf and tachyon in Windows2000 (Fri Mar 28 2003 - 15:37:49 CST)
- Re: animation question (Thu Mar 27 2003 - 22:51:57 CST)
- Re: Problem with stride, surf and tachyon in Windows2000 (Wed Mar 26 2003 - 13:42:54 CST)
- Re: Compilation issues with tcl.h (Tue Mar 25 2003 - 22:33:02 CST)
- Re: drawing bonds (Tue Mar 25 2003 - 09:36:38 CST)
- Re: Can't import python math module (Mon Mar 24 2003 - 10:47:19 CST)
- Re: Distance, angle (Mon Mar 24 2003 - 10:27:52 CST)
- Re: mouse-move-rep in VMD 1.8 (Fri Mar 21 2003 - 16:44:59 CST)
- Re: Memory problems with TCL scripts in VMD. (Fri Mar 21 2003 - 16:36:02 CST)
- Re: Missing vmdplugin.h in VMD source code (Fri Mar 21 2003 - 16:31:34 CST)
- Re: PBC - setting box size (Thu Mar 20 2003 - 21:58:52 CST)
- Re: your mail (Thu Mar 20 2003 - 14:01:56 CST)
- Re: AMBER parmfiles (Mon Mar 17 2003 - 10:06:11 CST)
- Re: problems with the Surf... (Fri Mar 14 2003 - 11:09:15 CST)
- Re: question on Force (Wed Mar 12 2003 - 17:18:12 CST)
- Re: atom velocity arrows (Wed Mar 12 2003 - 15:24:31 CST)
- Re: stereo display on NVIDIA Quadro4 750 XGL (Wed Mar 12 2003 - 15:01:15 CST)
- Re: question on Force (Wed Mar 12 2003 - 14:27:54 CST)
- Re: Trasperent images (Wed Mar 12 2003 - 13:53:32 CST)
- Re: atom velocity arrows (Wed Mar 12 2003 - 13:45:21 CST)
- Re: bond connectivity for different frames (Tue Mar 11 2003 - 10:26:52 CST)
- Re: msms question... (Fri Mar 07 2003 - 17:00:41 CST)
- Re: msms question... (Fri Mar 07 2003 - 09:40:43 CST)
- Re: Backspace and delete (Thu Mar 06 2003 - 18:46:50 CST)
- Re: two molecules (Thu Mar 06 2003 - 14:38:49 CST)
- Re: volume problems (Thu Mar 06 2003 - 13:42:53 CST)
- Re: two molecules (Thu Mar 06 2003 - 12:30:12 CST)
- Re: Protein Reorientation (Thu Mar 06 2003 - 10:52:52 CST)
- Re: problems with the Surf... (Thu Mar 06 2003 - 10:18:30 CST)
- Re: problems with the Surf... (Thu Mar 06 2003 - 10:07:23 CST)
- Re: residue labels in vmd (Thu Mar 06 2003 - 10:05:37 CST)
- Re: 'topology' command crashes vmd 1.8 (LINUX) (Wed Mar 05 2003 - 09:57:56 CST)
- Re: Suggested graphic card :: LINUX (Mon Mar 03 2003 - 10:51:31 CST)
- Re: same view in VMD and Molscript (Tue Feb 25 2003 - 15:08:47 CST)
- Re: multiple cells representation (Mon Feb 24 2003 - 22:04:47 CST)
- Re: Problems loading shared object, vmd1.8 linux mesa binaries (Mon Feb 24 2003 - 11:28:14 CST)
- Re: Updating colors at each trajectory step (Mon Feb 24 2003 - 10:49:00 CST)
- Re: making movie SGI (Fri Feb 21 2003 - 15:37:25 CST)
- Announce: Updated VMD 1.8 plugins available (Fri Feb 14 2003 - 16:47:39 CST)
- Fwd: Postdoctoral position available in Molecular Modeling (Fri Feb 14 2003 - 13:27:31 CST)
- Re: rna pdb file (Thu Feb 13 2003 - 14:13:58 CST)
- Re: New user questions (Thu Feb 13 2003 - 13:54:00 CST)
- Re: rna pdb file (Wed Feb 12 2003 - 16:08:55 CST)
- Re: plug-in for multiple frame xyz files (Mon Feb 10 2003 - 14:32:39 CST)
- Re: Making VMD movies (Mon Feb 10 2003 - 12:22:39 CST)
- Re: Making VMD movies (Sun Feb 09 2003 - 23:33:23 CST)
- Re: Making VMD movies (Sun Feb 09 2003 - 23:05:20 CST)
- Re: install of new VMD 1.8 (Thu Feb 06 2003 - 17:27:38 CST)
- [tripp@fis.unam.mx: Re: Pls help me to render files with only traces of proteins!] (Thu Feb 06 2003 - 13:55:43 CST)
- Re: Pls help me to render files with only traces of proteins! (Thu Feb 06 2003 - 10:53:38 CST)
- Re: Pls help me to render files with only traces of proteins! (Thu Feb 06 2003 - 10:51:46 CST)
- Re: Pls help me to render files with only traces of proteins! (Wed Feb 05 2003 - 19:28:31 CST)
- Re: PNY Quadro4 980XGL Card (Wed Feb 05 2003 - 12:40:35 CST)
- Re: VMD 1.8 problems with AMBER parm and crd file (Wed Feb 05 2003 - 09:33:25 CST)
- Re: VMD 1.8 problems with AMBER parm and crd file (Tue Feb 04 2003 - 15:29:38 CST)
- Re: VMD 1.8 problems with AMBER parm and crd file (Tue Feb 04 2003 - 15:00:55 CST)
- Re: remote control (fifo/socket) ? (Tue Feb 04 2003 - 10:08:06 CST)
- Re: different colors (Tue Feb 04 2003 - 10:01:19 CST)
- Bugfix: new save_state.tcl for VMD 1.8 installations... (Fri Jan 31 2003 - 14:02:44 CST)
- Re: SASA (Fri Jan 31 2003 - 10:24:41 CST)
- Re: save_state (Thu Jan 30 2003 - 13:28:24 CST)
- Re: mol volume (Wed Jan 29 2003 - 13:51:23 CST)
- Re: compiling vmd... (Tue Jan 28 2003 - 09:39:36 CST)
- Re: Stereo mode on NVidia/Win2000 (Mon Jan 27 2003 - 22:54:53 CST)
- Re: Stereo mode on NVidia/Win2000 (Fri Jan 24 2003 - 17:58:35 CST)
- Re: Stereo mode on NVidia/Win2000 (Fri Jan 24 2003 - 14:18:32 CST)
- Re: Stereo mode on NVidia/Win2000 (Fri Jan 24 2003 - 14:01:55 CST)
- Re: Stereo mode on NVidia/Win2000 (Fri Jan 24 2003 - 10:20:10 CST)
- [jrui@ci.uc.pt: Re: visualizing Delphi output (electrostatic potential)] (Thu Jan 23 2003 - 14:37:36 CST)
- Re: visualizing Delphi output (electrostatic potential) (Thu Jan 23 2003 - 10:23:09 CST)
- Re: Surfaces/Cavities (Thu Jan 23 2003 - 09:42:38 CST)
- Re: 2 more quick questions (Wed Jan 22 2003 - 18:18:30 CST)
- Re: Surfaces/Cavities (Wed Jan 22 2003 - 14:56:05 CST)
- Re: Surfaces/Cavities (Wed Jan 22 2003 - 14:16:49 CST)
- Re: 20 colors for 20 amino acids! (Wed Jan 22 2003 - 10:13:30 CST)
- Re: Tachyon VMD and MPI (Tue Jan 21 2003 - 15:44:11 CST)
- Re: aligntool docs?... (Tue Jan 21 2003 - 15:36:56 CST)
- Re: SHAKE/namd (Thu Jan 16 2003 - 20:54:37 CST)
- Re: pdb files in VMD/NAMD TUTORIAL (Thu Jan 16 2003 - 15:11:53 CST)
- Re: SCRIPT directory... (Wed Jan 15 2003 - 11:47:47 CST)
- Re: Maximum number of atoms/bonds (Wed Jan 15 2003 - 10:33:03 CST)
- Re: solvate option in vmd (Wed Jan 15 2003 - 10:29:36 CST)
- [ARitger@nvidia.com: Re: problems with stereo display on NVIDIA Quadro4 750 XGL] (Tue Jan 14 2003 - 13:07:58 CST)
- Re: movie from amber traj (Tue Jan 14 2003 - 13:02:30 CST)
- Re: stereo display on NVIDIA Quadro4 750 XGL (Mon Jan 13 2003 - 17:14:06 CST)
- Re: stereo display on NVIDIA Quadro4 750 XGL (Tue Jan 07 2003 - 09:42:35 CST)
- Re: hydrophobicity on the Connolly surface (Thu Jan 02 2003 - 10:33:33 CST)
- Re: Stereo VMD (Thu Dec 26 2002 - 15:40:43 CST)
- Re: STL format file - rendering (Thu Dec 19 2002 - 15:34:41 CST)
- Re: vmd version 1.8 (Wed Dec 18 2002 - 14:46:11 CST)
- Re: surface problems (Wed Dec 18 2002 - 09:11:52 CST)
- Re: amber trajectory (Tue Dec 17 2002 - 23:44:51 CST)
- Re: saving a tiff file (Tue Dec 17 2002 - 16:36:56 CST)
- Re: saving a tiff file (Mon Dec 16 2002 - 17:43:51 CST)
- Re: Loading multiple PDB files in VMD 1.8 (Tue Dec 10 2002 - 18:02:39 CST)
- Re: Loading XYZ trajectory file (Tue Dec 10 2002 - 12:39:23 CST)
- Re: Tachyon VMD and MPI (Mon Dec 09 2002 - 18:47:57 CST)
- Re: Empty Extension menu on OSX (Mon Dec 09 2002 - 17:35:32 CST)
- Announce: VMD 1.8 is available! (Mon Dec 09 2002 - 15:22:28 CST)
- Re: 3D printing (Fri Dec 06 2002 - 16:17:24 CST)
- Re: rotate a molecule (Thu Dec 05 2002 - 17:12:33 CST)
- Re: converting (Wed Dec 04 2002 - 16:16:22 CST)
- Re: draw a vector (Sat Nov 30 2002 - 15:17:39 CST)
- Fwd: GROMOS to AMBER and reverse (Fri Nov 29 2002 - 23:23:53 CST)
- Re: dti monitor linux (Fri Nov 29 2002 - 15:58:59 CST)
- Re: polar coordinates (Wed Nov 27 2002 - 12:34:10 CST)
- Re: unix -vmd (Tue Nov 26 2002 - 17:39:34 CST)
- VMD 1.8 beta 6 Unix binaries available... (Tue Nov 26 2002 - 16:16:16 CST)
- Re: Using Magellan Spacemouse with VMD (Tue Nov 26 2002 - 14:49:38 CST)
- Re: Raytracing with tachyon/povray because of pb with raster3d (Tue Nov 26 2002 - 13:34:38 CST)
- Re: Raytracing with tachyon/povray because of pb with raster3d (Tue Nov 26 2002 - 13:11:26 CST)
- Re: Raytracing with tachyon/povray because of pb with raster3d (Tue Nov 26 2002 - 11:17:33 CST)
- Re: breaking the last bond when loading (Tue Nov 26 2002 - 11:06:20 CST)
- Re: breaking the last bond when loading (Tue Nov 26 2002 - 09:34:35 CST)
- Re: A very minor question on the MacOS X native bundle version (Sun Nov 24 2002 - 20:43:06 CST)
- New AMBER 7 file reader plugin, testers needed :-) (Wed Nov 20 2002 - 13:23:32 CST)
- VMD 1.8 beta 2 available for testing! (Mon Nov 18 2002 - 17:01:35 CST)
- Re: Maintaining original coordinates from PDB ? (Mon Nov 18 2002 - 09:54:24 CST)
- Re: How to add atoms to a molecule? (Mon Nov 18 2002 - 00:35:43 CST)
- MacOS X window resizing fix... (Mon Nov 18 2002 - 00:21:53 CST)
- Re: AMBER6 format (Mon Nov 18 2002 - 00:20:19 CST)
- Re: cartoon representation (Fri Nov 15 2002 - 09:58:43 CST)
- Re: cartoon representation (Thu Nov 14 2002 - 16:02:48 CST)
- Re: avoiding distance based bond search when reading a PDB file (Thu Nov 14 2002 - 15:25:53 CST)
- Re: CRD problems and CRD to DCD conversion (Wed Nov 13 2002 - 15:06:39 CST)
- Re: mpeg movie from trajectory (Wed Nov 13 2002 - 09:40:41 CST)
- Re: mpeg movie from trajectory (Wed Nov 13 2002 - 09:38:49 CST)
- Re: Problems with color (Mon Nov 11 2002 - 10:07:57 CST)
- Re: Labels 'springs' in labels form (Fri Nov 08 2002 - 17:33:21 CST)
- Re: alignment and rmsd fit (Fri Nov 08 2002 - 17:00:06 CST)
- Re: Stereo quality and Save State Problems (Fri Nov 08 2002 - 14:36:04 CST)
- Re: Beta color of atoms (Fri Nov 08 2002 - 11:38:47 CST)
- Re: sources (Fri Nov 08 2002 - 11:36:08 CST)
- Re: No stereo mode in vmd -dispdev none ?? (Thu Nov 07 2002 - 16:46:02 CST)
- [mjd@dti3d.com: Re: VMD 1.8 alpha 29 available for testing!] (Thu Nov 07 2002 - 15:11:38 CST)
- Re: animation with PDBs (Thu Nov 07 2002 - 10:33:26 CST)
- Re: VMD 1.8 alpha 29 available for testing! (Wed Nov 06 2002 - 14:40:16 CST)
- Re: Display size in VMD 1.8a29 for OS X (Tue Nov 05 2002 - 10:41:46 CST)
- Re: command args to MSMS in VMD (Tue Nov 05 2002 - 10:27:26 CST)
- Re: vmd runs slowly on vmware (Mon Nov 04 2002 - 18:31:54 CST)
- Re: AMBER6 format (Mon Nov 04 2002 - 14:56:12 CST)
- Re: VMD 1.8 alpha 29 available for testing! (Mon Nov 04 2002 - 10:51:34 CST)
- Re: VMD 1.8 alpha 29 available for testing! (Sat Nov 02 2002 - 00:25:51 CST)
- Re: Coloring of atoms/molecules (Fri Nov 01 2002 - 21:18:42 CST)
- VMD 1.8 alpha 29 available for testing! (Fri Nov 01 2002 - 17:52:09 CST)
- Re: xyz movie (Thu Oct 31 2002 - 19:56:59 CST)
- Re: helices in coil (Wed Oct 30 2002 - 10:48:47 CST)
- Re: Another feature request for vmd 1.8 (Wed Oct 30 2002 - 10:41:11 CST)
- Re: hydrogen bonding (Wed Oct 30 2002 - 10:37:02 CST)
- Re: Unable to use short loabels (Wed Oct 30 2002 - 10:14:14 CST)
- Re: positioning a protein with trans etc. (Wed Oct 30 2002 - 10:02:35 CST)
- Re: Gromacs file formats gro, xtc and trr (Tue Oct 29 2002 - 16:14:37 CST)
- Re: positioning a protein with trans etc. (Tue Oct 29 2002 - 15:56:18 CST)
- Re: reference about structure (Tue Oct 29 2002 - 09:49:31 CST)
- Re: vmd checking socket in tcl (Mon Oct 28 2002 - 19:46:12 CST)
- Re: rms dumping in a file (Mon Oct 28 2002 - 10:34:44 CST)
- Re: core dump when launching vmd1.8a21 (Thu Oct 24 2002 - 20:36:16 CDT)
- Re: core dump when launching vmd1.8a21 (Thu Oct 24 2002 - 19:55:21 CDT)
- Re: Vmd console window colors in Irix 6.5 (Thu Oct 24 2002 - 14:31:47 CDT)
- Re: Antialiasing ? (Wed Oct 23 2002 - 10:07:15 CDT)
- Re: XTC files in 1.8a21 (Wed Oct 16 2002 - 10:22:41 CDT)
- Re: load molecule made by amber7. (Tue Oct 15 2002 - 15:52:00 CDT)
- Re: MacOSX and the solvate package (Fri Oct 11 2002 - 22:48:14 CDT)
- Windows XP refresh rate bug/stereo, information page (Tue Oct 08 2002 - 17:25:08 CDT)
- Re: VDW radii (Thu Oct 03 2002 - 09:39:22 CDT)
- Re: "Pick item mode" inactive in OSX bundle ? (Thu Oct 03 2002 - 08:47:32 CDT)
- Re: Native OSX VMD version for 10.2 (Wed Oct 02 2002 - 13:18:51 CDT)
- Re: quick help (Wed Oct 02 2002 - 00:54:33 CDT)
- Re: VRML2.0 (Tue Oct 01 2002 - 10:05:37 CDT)
- VMD 1.8a28 bundle for MacOS X 10.2 available... (Thu Sep 26 2002 - 18:19:18 CDT)
- Re: How to show the strain energies of each atom (Thu Sep 26 2002 - 16:38:08 CDT)
- Re: How to select the interacting atoms between two molecules in two different pdb files (Tue Sep 24 2002 - 15:30:25 CDT)
- Fwd: superimposing molecules (Tue Sep 24 2002 - 14:23:24 CDT)
- Re: multiple structure PDB files (Tue Sep 24 2002 - 14:19:01 CDT)
- Re: Menu is missing? (Tue Sep 24 2002 - 11:09:51 CDT)
- Re: Save state miss some parameters ! (Tue Sep 24 2002 - 09:36:49 CDT)
- Re: Native OSX VMD version for 10.2 (Mon Sep 23 2002 - 15:22:38 CDT)
- Re: CDROM/Windows/Linux (Thu Sep 19 2002 - 15:16:54 CDT)
- Re: Centre of gravity for movies (Tue Sep 17 2002 - 11:25:07 CDT)
- Re: Is vmd working in float environment ? (Tue Sep 17 2002 - 09:37:14 CDT)
- Re: VMD 1.7.1 on HPUX in text mode (Tue Sep 17 2002 - 09:31:01 CDT)
- Re: vrml output (Mon Sep 16 2002 - 16:02:31 CDT)
- Re: Surface calculation (Mon Sep 16 2002 - 11:04:51 CDT)
- Re: High-Res and Eye 3D glasses and SynthaGram Monitors (Wed Sep 11 2002 - 17:22:56 CDT)
- Re: VMD and CHARMm format (Fri Sep 06 2002 - 15:39:07 CDT)
- Re: All that I never took the time to ask about VMD ... (Fri Sep 06 2002 - 14:51:50 CDT)
- Re: vmd and catdcd (Fri Sep 06 2002 - 14:04:13 CDT)
- Re: VMD 1.7.1 on HPUX (Thu Sep 05 2002 - 14:02:38 CDT)
- Re: Trouble with tcl script (puts command) (Thu Sep 05 2002 - 14:00:11 CDT)
- Re: springs (Thu Sep 05 2002 - 13:58:50 CDT)
- Re: assigning variables for representations (Thu Sep 05 2002 - 13:53:27 CDT)
- People having plugin troubles, READ THIS (Fri Aug 30 2002 - 13:54:55 CDT)
- Re: Getting history and file completion to work in vmd console ? (Fri Aug 30 2002 - 09:58:28 CDT)
- Re: Stereo on Linux: Eyes3D Premium + Nvidia (Thu Aug 29 2002 - 09:40:40 CDT)
- Re: from points to a surface ? (Wed Aug 28 2002 - 16:43:21 CDT)
- Re: ftp failed (Wed Aug 28 2002 - 15:28:00 CDT)
- Re: from points to a surface ? (Wed Aug 28 2002 - 15:05:35 CDT)
- Re: Stereo on Linux: Eyes3D Premium + Nvidia (Wed Aug 28 2002 - 14:58:20 CDT)
- Re: Problem with VMD 1.8a21 under MacOS X 10.2 (Tue Aug 27 2002 - 12:53:55 CDT)
- Re: stereo on linux: DTI monitors? (Mon Aug 26 2002 - 11:10:48 CDT)
- Re: ftp failed (Mon Aug 26 2002 - 10:58:43 CDT)
- Re: reading cube files (Thu Aug 22 2002 - 11:34:29 CDT)
- Re: SPACEBALLS .. in Europe ? (Thu Aug 22 2002 - 09:50:12 CDT)
- Re: SPACEBALLS (Wed Aug 21 2002 - 17:39:15 CDT)
- Re: save (Tue Aug 20 2002 - 17:23:26 CDT)
- Re: [Contribute] transparent MacOS X icon for VMD (Mon Aug 19 2002 - 11:47:21 CDT)
- Re: rmsd problem (Mon Aug 19 2002 - 11:42:08 CDT)
- Re: Charge coloring and Stereo hot keys (Mon Aug 19 2002 - 10:29:48 CDT)
- Re: SURF_BIN and psfgen missing? (Mon Aug 19 2002 - 09:45:59 CDT)
- Re: Couldn't open required GL library (Fri Aug 16 2002 - 15:13:30 CDT)
- Re: Couldn't open required GL library (Fri Aug 16 2002 - 14:40:18 CDT)
- Re: Saving two molecules into one PDB file (Fri Aug 16 2002 - 13:44:32 CDT)
- Re: Cannot start CAVE display (Fri Aug 16 2002 - 11:32:42 CDT)
- Re: [Contribute] transparent MacOS X icon for VMD (Thu Aug 15 2002 - 17:08:44 CDT)
- Re: rmsd problem (Wed Aug 14 2002 - 11:35:17 CDT)
- Re: VMD and rendering packages (Wed Aug 14 2002 - 11:30:51 CDT)
- Re: Phantom on Sgi? (Wed Aug 14 2002 - 10:16:58 CDT)
- Re: Windows XP and Eye3D glasses (Tue Aug 13 2002 - 17:01:37 CDT)
- Re: Windows XP and Eye3D glasses (Tue Aug 13 2002 - 15:29:37 CDT)
- Re: Cannot start CAVE display (Tue Aug 13 2002 - 15:15:27 CDT)
- Re: Joysticks for VMD on Windows XP (Mon Aug 12 2002 - 18:49:35 CDT)
- Re: vmdmovie problem (Fri Aug 09 2002 - 17:00:08 CDT)
- Re: Couldn't open required GL library (Fri Aug 09 2002 - 15:32:33 CDT)
- Re: Gromacs XTC reader broken in 1.8beta version (Thu Aug 08 2002 - 12:46:19 CDT)
- Re: VMD with stereo on RedHat Linux (Wed Aug 07 2002 - 21:17:15 CDT)
- Re: VMD with stereo on RedHat Linux (Wed Aug 07 2002 - 21:14:55 CDT)
- Structural Biology Software Database updated... (Tue Aug 06 2002 - 10:24:14 CDT)
- Re: Chromium (Mon Aug 05 2002 - 14:33:57 CDT)
- Re: Problem with stride (Mon Aug 05 2002 - 12:30:56 CDT)
- Re: Projection on plane (Fri Aug 02 2002 - 10:48:41 CDT)
- Re: vmdmovie problem (Thu Aug 01 2002 - 23:53:24 CDT)
- Re: vmdmovie problem (Thu Aug 01 2002 - 20:00:51 CDT)
- Re: Chromium (Thu Aug 01 2002 - 16:15:00 CDT)
- Re: Chromium (Thu Aug 01 2002 - 15:48:34 CDT)
- Re: delete bonds in TIP3P (Wed Jul 31 2002 - 08:12:28 CDT)
- Re: Linux compile error (Mon Jul 29 2002 - 13:46:08 CDT)
- Re: More Linux woes (Mon Jul 29 2002 - 13:42:58 CDT)
- Re: white background (Mon Jul 29 2002 - 11:01:12 CDT)
- Re: 2D projection (Fri Jul 26 2002 - 09:40:38 CDT)
- Re: bonds in graphical representation (Tue Jul 23 2002 - 22:10:19 CDT)
- Re: No sequence tool for DNA (Tue Jul 23 2002 - 22:01:06 CDT)
- Re: tracker coordinate calibration (Sat Jul 20 2002 - 00:58:51 CDT)
- [gcarter@circular.dna.caltech.edu: Re: Stereoglasses Linux] (Fri Jul 19 2002 - 13:37:11 CDT)
- VMD 1.8 alpha 21 available for testing! (Thu Jul 18 2002 - 19:49:09 CDT)
- Re: vmd python availability on other platforms (Wed Jul 17 2002 - 15:13:46 CDT)
- Re: Simple format for animation (Wed Jul 17 2002 - 15:08:14 CDT)
- Re: problem reading AMBER7 parm file (Wed Jul 17 2002 - 10:23:08 CDT)
- Re: icon in LABEL (Wed Jul 17 2002 - 10:10:03 CDT)
- Re: problem reading AMBER7 parm file (Wed Jul 17 2002 - 09:55:15 CDT)
- Re: Windows vs. Linux (Wed Jul 17 2002 - 09:43:32 CDT)
- Re: VMD and Trackers (Tue Jul 16 2002 - 15:04:35 CDT)
- Re: plugin problems (Tue Jul 16 2002 - 14:45:39 CDT)
- Re: VMD and Trackers (Tue Jul 16 2002 - 14:39:12 CDT)
- Re: vmd on mac 9.1 (Tue Jul 16 2002 - 14:05:06 CDT)
- New VMD 1.8 alpha 20 MacOS X native OpenGL test version... (Sat Jul 13 2002 - 22:39:49 CDT)
- Re: Problem installing on linux (Fri Jul 12 2002 - 14:24:12 CDT)
- VMD / Eye3D stereo works on Mac G4... (Fri Jul 12 2002 - 13:18:21 CDT)
- Re: Problem installing on linux (Fri Jul 12 2002 - 11:38:09 CDT)
- Re: Compressed files (Thu Jul 11 2002 - 10:26:13 CDT)
- Re: MacOS X VMD 1.8 alpha 16 "bundle" test version... (Tue Jul 09 2002 - 14:05:23 CDT)
- Re: MacOSX bundle (Sat Jul 06 2002 - 18:08:10 CDT)
- Re: Simple format for animation (Wed Jul 03 2002 - 19:45:33 CDT)
- MacOS X VMD 1.8 alpha 16 "bundle" test version... (Wed Jul 03 2002 - 14:47:59 CDT)
- Re: problem with bitmap rendering (Wed Jul 03 2002 - 09:24:14 CDT)
- Re: VMD 1.8 alpha 16 MacOSX depends on xterm (Mon Jul 01 2002 - 21:55:40 CDT)
- Re: VMD 1.8 alpha 16 MacOSX depends on xterm (Mon Jul 01 2002 - 14:36:44 CDT)
- Re: Issue with wildcat 3 cards (Mon Jul 01 2002 - 14:34:08 CDT)
- Re: Q: Compiling VMD on IRIX 6.5 (Mon Jul 01 2002 - 09:27:10 CDT)
- Re: viewing insight trajectories with vmd (Tue Jun 25 2002 - 15:15:22 CDT)
- Re: image jumps (Tue Jun 25 2002 - 15:00:36 CDT)
- Re: Mac OSX version (Tue Jun 25 2002 - 12:49:54 CDT)
- Re: MacOS native version resource attach info... (Tue Jun 25 2002 - 11:02:08 CDT)
- RMSD (Re-send of James Cavenaugh's bounced mail) (Tue Jun 25 2002 - 10:50:33 CDT)
- Re: animations with molecular surfaces (Mon Jun 24 2002 - 14:17:12 CDT)
- MacOS native version resource attach info... (Mon Jun 24 2002 - 11:46:10 CDT)
- Re: vmd1.8a16 - no stereo on linux any more (Mon Jun 24 2002 - 11:35:41 CDT)
- Re: Unable to generate surface (Mon Jun 24 2002 - 11:33:52 CDT)
- Re: vmd1.8a16 - no stereo on linux any more (Mon Jun 24 2002 - 10:28:07 CDT)
- VMD 1.8 alpha 16, publically available for testing.... (Fri Jun 21 2002 - 16:14:14 CDT)
- Re: No 'Primary File Type' in Load menu (v1.8a10 on MacOSX) (Thu Jun 20 2002 - 10:12:40 CDT)
- Re: moving objects (Mon Jun 17 2002 - 13:40:21 CDT)
- Re: Tracking devices and VMD (Mon Jun 17 2002 - 11:38:55 CDT)
- Re: vmd-1.8a10; psfgen; AMBER-trajectories; strange bondlengths (Wed Jun 12 2002 - 01:18:34 CDT)
- Re: Mac Titanium video card (Sat Jun 08 2002 - 23:45:47 CDT)
- Re: Default parameters for image renderers (Sat Jun 08 2002 - 22:24:24 CDT)
- Re: Problem with instalation process (Fri Jun 07 2002 - 14:30:28 CDT)
- Re: vibration (Fri Jun 07 2002 - 14:27:39 CDT)
- Re: Problem with instalation process (Fri Jun 07 2002 - 14:08:57 CDT)
- Re: psfgen crashes VMD (Fri Jun 07 2002 - 11:44:41 CDT)
- Re: Problem with instalation process (Fri Jun 07 2002 - 11:42:32 CDT)
- Re: vibration (Fri Jun 07 2002 - 11:32:21 CDT)
- Re: Mandrake and VMD (Thu Jun 06 2002 - 09:55:07 CDT)
- Re: haptic interfaces && namd on clusters (Thu Jun 06 2002 - 01:41:32 CDT)
- Re: haptic interfaces (Thu Jun 06 2002 - 00:24:19 CDT)
- Re: compilation problem using vmd1.8 alpha (Thu May 30 2002 - 20:11:30 CDT)
- VMD 1.8 alpha 10, publically available for testing.... (Fri May 24 2002 - 16:20:54 CDT)
- Re: Metal_Envornment Script (Fri May 24 2002 - 15:40:24 CDT)
- Re: Metal_Envornment Script (Fri May 24 2002 - 12:05:19 CDT)
- Re: Metal_Envornment Script (Fri May 24 2002 - 12:02:42 CDT)
- Re: atoms filter? (Thu May 16 2002 - 10:09:07 CDT)
- Re: about graphics accelaration (Wed May 15 2002 - 11:21:56 CDT)
- Re: Main window (button bars) does not start (Tue May 14 2002 - 10:11:44 CDT)
- Re: transparency (Mon May 13 2002 - 13:25:59 CDT)
- Re: transparency (Mon May 13 2002 - 11:42:13 CDT)
- Re: transparency (Fri May 10 2002 - 12:57:52 CDT)
- Re: compilation error (Fri May 10 2002 - 10:31:05 CDT)
- Re: VMD 1.7.1 (Thu May 09 2002 - 14:28:43 CDT)
- Re: RDFs, TCFs etc. (Mon May 06 2002 - 10:15:14 CDT)
- Re: color by resid (Thu Apr 25 2002 - 14:02:30 CDT)
- Re: About drawing bonds. (Wed Apr 24 2002 - 10:11:10 CDT)
- Re: GnuPlot works! (Mon Apr 22 2002 - 17:09:31 CDT)
- Re: How to plot the data created by VMD analysis script - difference_matrix? (Mon Apr 22 2002 - 14:48:19 CDT)
- Re: stl (Wed Apr 17 2002 - 08:52:40 CDT)
- Re: about graphics accelaration (Fri Apr 12 2002 - 12:27:41 CDT)
- Re: VMD 1.7.1 in CAVE? (Fri Apr 12 2002 - 09:28:46 CDT)
- RE: Animation (Wed Apr 10 2002 - 09:18:24 CDT)
- Re: Linking with FLTK 1.1.0b12 (Tue Apr 09 2002 - 16:01:55 CDT)
- Re: Which drawing method is used in the picture? (Tue Apr 09 2002 - 15:50:12 CDT)
- Re: Which drawing method is used in the picture? (Tue Apr 09 2002 - 15:01:03 CDT)
- Re: Animation (Tue Apr 09 2002 - 14:24:36 CDT)
- Re: Geforce 3 DRI crashes (Tue Apr 09 2002 - 13:07:18 CDT)
- Re: Electron Density Map Display (Tue Apr 09 2002 - 13:02:21 CDT)
- Re: Geforce 3 DRI crashes (Tue Apr 09 2002 - 09:57:55 CDT)
- Announce: new vmdmovie script available... (Mon Apr 08 2002 - 22:23:01 CDT)
- Re: draw text or title in pov (Thu Apr 04 2002 - 21:56:25 CST)
- Re: strange bond (Wed Apr 03 2002 - 14:01:36 CST)
- Re: resid color (Wed Apr 03 2002 - 12:40:29 CST)
- Re: strange bond (Wed Apr 03 2002 - 10:45:40 CST)
- Re: orthographic views and size (Wed Apr 03 2002 - 09:53:30 CST)
- Re: strange bond (Wed Apr 03 2002 - 09:48:14 CST)
- Re: picture/resid color (Tue Apr 02 2002 - 11:18:55 CST)
- Re: Exceeded maximum number of bonds (8) (Sun Mar 31 2002 - 16:38:11 CST)
- Re: Resolution of movie? (Tue Mar 26 2002 - 18:00:20 CST)
- Re: another trivial question regarding the key setting. (Mon Mar 25 2002 - 09:07:14 CST)
- Re: Test release of VMD movie maker (Fri Mar 22 2002 - 10:39:38 CST)
- Re: Test release of VMD movie maker (Fri Mar 22 2002 - 01:43:28 CST)
- Re: Test release of VMD movie maker (Thu Mar 21 2002 - 22:59:10 CST)
- Re: Help on script (Thu Mar 21 2002 - 22:55:31 CST)
- Re: graph button on label form (Mon Mar 18 2002 - 15:23:35 CST)
- Re: smooth movie (Sat Mar 16 2002 - 11:57:54 CST)
- Re: Loading trajectory frames - bug ? Tcl-equivalent ? (Fri Mar 15 2002 - 20:01:41 CST)
- Re: how vmd calculate dihedral angle (Fri Mar 15 2002 - 10:18:23 CST)
- Re: Best hardware for 3d. (Fri Mar 15 2002 - 10:06:09 CST)
- Re: boolean operators in graphics (Thu Mar 14 2002 - 22:39:09 CST)
- Re: New version of VMD movie script/plugin available (Wed Mar 13 2002 - 12:21:54 CST)
- Re: New version of VMD movie script/plugin available (Wed Mar 13 2002 - 10:34:28 CST)
- Re: New version of VMD movie script/plugin available (Wed Mar 13 2002 - 09:34:12 CST)
- Re: Molscript (Wed Mar 13 2002 - 09:31:36 CST)
- New version of VMD movie script/plugin available (Wed Mar 13 2002 - 00:04:10 CST)
- Re: Can any of you help me out in building VMD pls (Mon Mar 11 2002 - 00:11:44 CST)
- Re: Can any of you help me out in building VMD pls (Fri Mar 08 2002 - 09:47:04 CST)
- Re: selection and coloring (Tue Mar 05 2002 - 10:35:48 CST)
- Re: how to color one residue with two or three different colors? (Mon Mar 04 2002 - 15:48:37 CST)
- fwd (Re: coloring method) (Fri Mar 01 2002 - 15:01:54 CST)
- Re: Access to Python libraries from Mandrake8.1 (Thu Feb 28 2002 - 09:59:42 CST)
- Re: Removing perspective projection at startup (Thu Feb 28 2002 - 09:41:57 CST)
- Re: Plotting elect. pot. surface (Wed Feb 27 2002 - 01:34:49 CST)
- Re: Plotting elect. pot. surface (Mon Feb 25 2002 - 17:26:28 CST)
- Re: Plotting elect. pot. surface (Mon Feb 25 2002 - 13:25:22 CST)
- Re: Plotting elect. pot. surface (Mon Feb 25 2002 - 13:17:44 CST)
- Re: Plotting elect. pot. surface (Mon Feb 25 2002 - 11:27:53 CST)
- Re: AtomSel and Graphics (Fri Feb 22 2002 - 16:07:07 CST)
- VMD: EDM and Gaussian "Cube" reader scripts available (Fri Feb 22 2002 - 15:25:18 CST)
- Re: Using Python (Fri Feb 22 2002 - 12:59:19 CST)
- Re: Loading new molecules into VMD from an application (Wed Feb 20 2002 - 20:48:56 CST)
- Re: animated colors, trajectories, etc.. (Tue Feb 19 2002 - 18:41:02 CST)
- VMD CVS and build procedure changes... (Tue Feb 19 2002 - 18:15:06 CST)
- Radial distribution function script (fwd) (Thu Feb 07 2002 - 21:29:50 CST)
- Announce: VMD 1.7.2 (Windows-only GUI update) is available (Wed Feb 06 2002 - 19:07:55 CST)
- Re: van der Waals volume (Tue Feb 05 2002 - 19:29:42 CST)
- NVidia GeForce issues on PCs (article URL) (Tue Feb 05 2002 - 14:25:30 CST)
- Re: Nothing happens with Window's install (Tue Feb 05 2002 - 12:50:45 CST)
- Re: Nothing happens with Window's install (Tue Feb 05 2002 - 11:33:43 CST)
- Re: VMD/Eye3d/Linux/Nvidia question (Fri Feb 01 2002 - 16:23:25 CST)
- Re: Main window off top of screen (Fri Feb 01 2002 - 11:02:17 CST)
- Re: Drawing electron density surfaces (from cube files) (Thu Jan 31 2002 - 15:36:29 CST)
- Re: seeing ions (Thu Jan 24 2002 - 13:23:46 CST)
- Re: Stereo in linux/oxygen gvx1/xig driver (Thu Jan 24 2002 - 12:53:41 CST)
- Re: vmdmovie (Thu Jan 24 2002 - 12:41:36 CST)
- Re: Volumetric Data Formats for VMD (Thu Jan 24 2002 - 09:51:44 CST)
- Re: Stereo in linux/oxygen gvx1/xig driver (Wed Jan 23 2002 - 19:49:00 CST)
- Re: vmd-1.7.1 installation problems (Wed Jan 23 2002 - 09:47:04 CST)
- Re: display panel only showed 1/4 of its area on the screen. (Sun Jan 20 2002 - 13:25:32 CST)
- Re: up arrow for previous commands (Fri Jan 18 2002 - 11:03:39 CST)
- Re: cavetracker (Fri Jan 18 2002 - 01:32:48 CST)
- Re: immersadesk (Fri Jan 18 2002 - 01:27:40 CST)
- Test release of VMD movie maker (Wed Jan 16 2002 - 11:38:14 CST)
- High-end PC graphics boards for VMD... (Fri Jan 04 2002 - 17:23:23 CST)
- Announce: VMD 1.7.1 released! (Sun Dec 23 2001 - 22:53:26 CST)
- Re: Announce: VMD 1.7.1b1 test version is available... (Sat Dec 22 2001 - 21:56:00 CST)
- Re: Pictures (Fri Dec 21 2001 - 11:08:48 CST)
- Re: 3D visualization (Thu Dec 20 2001 - 14:16:33 CST)
- Re: 3D visualization (Thu Dec 20 2001 - 14:09:12 CST)
- Announce: Struc. Bio. Software DB updates (Thu Dec 06 2001 - 11:21:57 CST)
- Announce: VMD 1.7.1b1 test version is available... (Wed Dec 05 2001 - 21:14:37 CST)
- Re: Display problem (Tue Dec 04 2001 - 09:44:20 CST)
- Re: your mail (Tue Dec 04 2001 - 01:55:14 CST)
- Re: save config & RMSD not functioning (Thu Nov 29 2001 - 11:26:24 CST)
- Re: opengl libraries (Tue Nov 27 2001 - 15:04:55 CST)
- Re: opengl libraries (Mon Nov 26 2001 - 12:32:53 CST)
- VMD Spaceball and Magellan/SpaceMouse support for Windows... (Tue Nov 20 2001 - 15:02:06 CST)
- Re: more animating trajectories (Sun Nov 04 2001 - 11:02:59 CST)
- Re: Announce: JMV version 0.7 is available! (Fri Nov 02 2001 - 15:30:28 CST)
- Re: more animating trajectories (Thu Nov 01 2001 - 13:13:47 CST)
- Announce: JMV version 0.7 is available! (Tue Oct 30 2001 - 16:15:33 CST)
- Re: Superimposing two frames (Mon Oct 22 2001 - 10:41:36 CDT)
- Re: SMP, coord transform, cpu usage (Mon Oct 08 2001 - 10:11:18 CDT)
- Re: movie under Windows (Fri Oct 05 2001 - 16:40:32 CDT)
- Re: SMP, coord transform, cpu usage (Fri Oct 05 2001 - 14:40:30 CDT)
- Re: new user animation question (Fri Oct 05 2001 - 12:49:10 CDT)
- VMD 1.7.1 pre-alpha, volume visualization, new stereo modes, etc. (Thu Aug 30 2001 - 23:29:56 CDT)
- Re: Making movies of trajectories (Thu Aug 30 2001 - 21:49:52 CDT)
- Re: problem with RMSD script (Fri Aug 17 2001 - 14:00:10 CDT)
- VMD 1.7 AIX and MacOS X distributions updated... (Wed Aug 08 2001 - 00:57:16 CDT)
- Re: Work around and problem with 1.7 for MacOS X (Tue Aug 07 2001 - 21:35:41 CDT)
- Re: raster3d (Thu Aug 02 2001 - 19:13:49 CDT)
- Announce: VMD 1.7 Released!! (Thu Aug 02 2001 - 14:26:09 CDT)
- Re: fixing a molecule (Mon Jul 30 2001 - 20:40:28 CDT)
- Announce: VMD 1.7b2 is available! (Wed Jul 25 2001 - 10:12:11 CDT)
- (fwd) Re: Dialboxes (Mon Jul 23 2001 - 10:00:55 CDT)
- (fwd) vmd 1.7b1 sequence window disappeares (Mon Jul 23 2001 - 09:59:20 CDT)
- Re: Dialboxes (Sun Jul 22 2001 - 23:58:19 CDT)
- (forwarded) cylinder drawing bug in 1.7b1 on NT? (Fri Jul 20 2001 - 10:20:06 CDT)
- (forwarded) Modifying a Tcl script (Fri Jul 20 2001 - 10:17:04 CDT)
- Announce: VMD 1.7b1 is available! (Tue Jul 10 2001 - 18:15:45 CDT)
- Re: Coloring mols by carbon only (Mon Jul 09 2001 - 10:53:28 CDT)
- Re: follow up (Mon Jun 04 2001 - 15:47:29 CDT)
- Re: Surface slices (Fri May 11 2001 - 13:08:34 CDT)
- VMD 1.6.1 IRIX6_64 startup script fix (Thu May 03 2001 - 11:16:05 CDT)
- Re: bond length definition (Wed Apr 25 2001 - 13:39:35 CDT)
- Announce: VMD 1.6.1 Released! (Tue Apr 24 2001 - 10:03:39 CDT)
- Re: Some newbie questions (Sun Apr 22 2001 - 16:17:35 CDT)
- Re: need help - hardware stereo on a Windows PC (Fri Apr 13 2001 - 00:21:10 CDT)
- Re: Card for VMD with OpenGL & Linux (Wed Apr 11 2001 - 01:31:59 CDT)
- Re: Card for VMD with OpenGL & Linux (Mon Apr 09 2001 - 16:46:34 CDT)
- Re: animation and reps (Sat Mar 31 2001 - 11:02:23 CST)
- NVidia OpenGL HOWTO for Linux users... (Tue Mar 27 2001 - 01:01:37 CST)
- Announce: VMD 1.6.1a3 is available (Mon Mar 12 2001 - 17:46:34 CST)
- Re: switching off the location axes (Fri Mar 09 2001 - 02:51:46 CST)
- Re: Bug in VMD-1.6 (linux, GL) (Fri Mar 09 2001 - 00:25:26 CST)
- Announce: VMD 1.6.1a2 is available (Mon Mar 05 2001 - 15:17:19 CST)
- Re: How can I change the wireframe look (Thu Mar 01 2001 - 14:21:30 CST)
- Announce: VMD Users Image Gallery (Thu Feb 22 2001 - 13:43:31 CST)
- Re: Stereoscopic rendering on Linux (Wed Feb 21 2001 - 11:00:57 CST)
- TkCon, an alternative VMD console... (Mon Feb 19 2001 - 15:07:16 CST)
- Re: vmd, linux & dri (Tue Feb 13 2001 - 10:06:46 CST)
- Re: a question (Tue Feb 06 2001 - 09:55:21 CST)
- Re: vmd, linux & dri (Fri Jan 12 2001 - 17:44:29 CST)
- Announce: Structural Biology Software Database (Thu Jan 04 2001 - 14:04:34 CST)
- Announce: VMD 1.6 Released (Fri Dec 22 2000 - 17:17:04 CST)
- Re: povray images allways perspective? (Thu Dec 14 2000 - 12:45:27 CST)
- Re: povray images allways perspective? (Thu Dec 14 2000 - 10:51:17 CST)
- Re: files (Fri Dec 08 2000 - 12:40:43 CST)
- Re: making a movie with a serie of pdb's (Thu Dec 07 2000 - 09:51:36 CST)
- Re: VMD + MSMS + WinNT (Thu Nov 30 2000 - 21:20:53 CST)
- Announce: MDTools update (Thu Nov 30 2000 - 14:51:44 CST)
- VMD stereo (Win/SGI) and graphics accelerators... (Wed Nov 29 2000 - 11:29:57 CST)
- Re: VMD 1.6a4 core dumps. (Thu Nov 23 2000 - 19:45:08 CST)
- Announce: VMD 1.6a4 is available (Tue Nov 21 2000 - 00:19:42 CST)
- Re: rending softwares for win98 (Fri Nov 17 2000 - 01:42:17 CST)
- Using VMD on Redhat 7.0 (Wed Nov 15 2000 - 11:29:07 CST)
- 2000 VMD Survey Report is up (Mon Nov 13 2000 - 18:08:44 CST)
- Re: vmd stereo (Mon Oct 30 2000 - 01:04:12 CST)
- Re: Selection (Tue Oct 17 2000 - 11:42:30 CDT)
- VMD Script Library pages updated... (Fri Oct 13 2000 - 14:39:38 CDT)
- Re: problem compiling on redhat 7.0 (Sun Oct 08 2000 - 22:49:58 CDT)
- Announce: VMD 1.6a3 is available (Fri Oct 06 2000 - 14:37:27 CDT)
- MSMS 2.5.3 is available for VMD users!! (Fri Oct 06 2000 - 09:25:38 CDT)
- Re: several questions, (Thu Oct 05 2000 - 16:43:57 CDT)
- Re: a few questions about VMD (Fri Sep 22 2000 - 16:34:17 CDT)
- Re: a few questions about VMD (Wed Sep 20 2000 - 19:55:26 CDT)
- Re: Building VMD under Windows 2000 (Mon Sep 18 2000 - 09:53:51 CDT)
- Re: parallel rendering across clusters? (Fri Sep 15 2000 - 18:18:53 CDT)
- Re: msms 2.5 and vmd? (Thu Sep 14 2000 - 13:25:48 CDT)
- Announce: VMD 1.6a2 is available (Thu Sep 14 2000 - 02:38:08 CDT)
- Re: File Selector in VMD1.6a1 (Wed Sep 13 2000 - 23:15:21 CDT)
- Re: viewing CHARMM trajectory (Wed Sep 13 2000 - 22:33:09 CDT)
- Re: viewing CHARMM trajectory (Wed Sep 13 2000 - 22:30:44 CDT)
- Re: nvidia woes. (Tue Sep 12 2000 - 11:04:08 CDT)
- Re: animation (Wed Aug 30 2000 - 13:00:24 CDT)
- Re: animation (Wed Aug 30 2000 - 11:06:03 CDT)
- Announce: VMD 1.6a1 is available (Thu Aug 24 2000 - 18:43:53 CDT)
- Re: vmd on redhat6.2 and elsa gladiac (Tue Aug 15 2000 - 22:11:05 CDT)
- Re: RMSD calculation/fit doesn't work? (Mon Aug 14 2000 - 18:58:34 CDT)
- Re: loading molecule from command line (Fri Jul 28 2000 - 15:11:02 CDT)
- Re: Erro compiling vmd and or fltk (Sun Jul 16 2000 - 14:12:10 CDT)
- Re: Spheres with OpenGL (was Re: linux graphics adapters?) (Sun Jul 16 2000 - 14:06:08 CDT)
- Re: linux graphics adapters? (Thu Jul 13 2000 - 12:50:58 CDT)
- Re: linux graphics adapters? (Thu Jul 13 2000 - 10:10:48 CDT)
- Re: Problems with VMD 1.5b1 and XFree4/DRI OpenGL under linux (Thu Jun 29 2000 - 15:12:53 CDT)
- VMD 1.5 is available! (Wed Jun 28 2000 - 15:46:17 CDT)
- Re: DCD command-line options (Wed Jun 28 2000 - 11:05:34 CDT)
- Re: Problems with VMD 1.5b1 and XFree4/DRI OpenGL under linux (Mon Jun 26 2000 - 15:57:45 CDT)
- Re: VMD command line Windows98 (Sun Jun 18 2000 - 10:59:25 CDT)
- Re: POV failure 2nd try (Fri May 26 2000 - 13:24:42 CDT)
- Re: VMD on XFree86 4.0 /w hardware acceleration... (Thu May 25 2000 - 22:14:34 CDT)
- VMD 1.5b1 is available! (Thu May 25 2000 - 14:18:24 CDT)
- Re: using trackers (Wed May 24 2000 - 09:54:10 CDT)
- VMD on XFree86 4.0 /w hardware acceleration... (Fri May 19 2000 - 18:22:39 CDT)
- Re: problem with vmd/namd connection on linux (Tue Apr 18 2000 - 18:49:25 CDT)
- VMD 1.5a2 is available... (Thu Apr 06 2000 - 17:50:42 CDT)
- Re: surface in raster3d (Thu Apr 06 2000 - 10:42:51 CDT)
- Re: MSMS help (Mon Apr 03 2000 - 15:19:25 CDT)
- Re: Stereo on Linux? (Fri Mar 17 2000 - 16:18:09 CST)
- VMD 1.5a1 is available... (Fri Mar 17 2000 - 10:01:47 CST)
- Re: MSMS in VMD (Fri Mar 17 2000 - 09:16:16 CST)
- Re: SGI O2 stereo problems (Wed Mar 08 2000 - 15:04:34 CST)
- Re: Graphics algorithm (fwd) (Wed Mar 01 2000 - 09:30:42 CST)
- Re: msms & vmd (Fri Feb 18 2000 - 12:11:25 CST)
- Re: script for generating stereo postscript images (Fri Feb 11 2000 - 15:55:06 CST)
- Re: Stereo on SGI Indigo2? - Linux? (Wed Jan 19 2000 - 11:09:23 CST)
- Re: 6DOF controllers (Sat Jan 08 2000 - 21:23:23 CST)
- VMD 1.4 Released (long) (Fri Jan 07 2000 - 17:59:02 CST)
John Young
- Beginner's problem (Tue Nov 14 2006 - 11:20:01 CST)
Jon
- Extracting chi angles / Saving coordinate with a script (Mon Sep 24 2012 - 03:56:59 CDT)
Jon Savian
- Trouble installing VMD (Tue Jan 10 2006 - 17:54:34 CST)
Jonas Landsgesell
- new VMD plugin for H5MD file format (Thu Apr 09 2015 - 15:25:52 CDT)
- new VMD plugin for H5MD file format (Thu Apr 09 2015 - 15:27:50 CDT)
- new VMD plugin for H5MD file format (Wed Apr 08 2015 - 08:33:41 CDT)
Jonasz Sowada
- Acetone as solvent (Sat Dec 31 2016 - 17:34:33 CST)
jonathan
- Re: Color wheel gradient (Fri Mar 25 2011 - 09:03:34 CDT)
- Combined "Within" atom selection (Mon Oct 11 2010 - 11:59:08 CDT)
- Re: Writing Python Plugins properly (Wed Aug 11 2010 - 06:54:10 CDT)
- Writing Python Plugins properly (Mon Aug 09 2010 - 11:48:25 CDT)
Jonathan Ashar
- trajectory file format (Tue Jul 25 2006 - 12:31:00 CDT)
JONATHAN BLACK
- dcd format (Wed Oct 22 2008 - 04:30:19 CDT)
- (no subject) (Tue Oct 21 2008 - 04:16:29 CDT)
Jonathan Booth
- Selecting structure closest to average (Tue Feb 03 2015 - 10:46:38 CST)
Jonathan Gough
- Re: converting a .cif file into a vmd readable format, how? (Thu Oct 23 2014 - 12:52:51 CDT)
- converting a .cif file into a vmd readable format, how? (Thu Oct 23 2014 - 11:58:07 CDT)
jonathan KHAO
- Re: IMD - remove forces on mouse release (Sun Apr 08 2012 - 15:50:44 CDT)
- IMD - remove forces on mouse release (Sun Apr 08 2012 - 13:05:45 CDT)
- Color wheel gradient (Tue Mar 22 2011 - 12:57:08 CDT)
Jonathan Phillips
- RE: load speed of dcds (Wed Jun 26 2013 - 06:45:28 CDT)
- RE: load speed of dcds (Tue Jun 25 2013 - 15:09:53 CDT)
- periodic boxes (Fri Jun 14 2013 - 16:53:33 CDT)
Joost Van Durme
- GeForce FX5800 and VMD 1.8.1 (Thu Jun 05 2003 - 12:19:59 CDT)
Jordi Bujons
- RE: Re: 3d visualization setup (Thu Feb 21 2019 - 10:02:31 CST)
- Timeline error (Tue Jul 24 2018 - 12:13:01 CDT)
Jordi Cohen
- Re: question about ligand volmap (Wed Jun 27 2007 - 11:29:31 CDT)
- Re: volmap commands (Wed Jun 20 2007 - 21:56:08 CDT)
- Re: Nanotube Simulations (Tue Aug 02 2005 - 14:41:03 CDT)
- Re: autoimd error (Wed Jun 15 2005 - 13:13:25 CDT)
- Re: AutoIMD and fixedatoms (Tue Feb 01 2005 - 12:32:38 CST)
- Re: Auto IMD (Mon Jan 24 2005 - 14:27:49 CST)
Jordi Faraudo
- UPDATE OCCUPANCY (Fri Nov 11 2011 - 06:04:50 CST)
Jorge Hernandez Fernandez
- Hinge calculation in MD trajectory using Hingefind plug-in (Mon Feb 11 2008 - 13:02:59 CST)
- (xterm: Command not found) error (Wed Apr 12 2006 - 14:14:58 CDT)
- Re: bad resolution and too slow on mandrake 10.0 (Fri May 27 2005 - 14:50:09 CDT)
Jorge Hernanez Fernandez
- Stride problems in XP.... (Tue Dec 02 2003 - 11:52:19 CST)
Jorge Pikunic
- H-H bond in solvate (Wed Jul 27 2005 - 14:25:09 CDT)
- loading two dcd files in VMD (Mon Apr 18 2005 - 10:40:51 CDT)
- CMAP and psfgen (Fri Oct 08 2004 - 12:38:47 CDT)
- Re: problem (Fri Oct 08 2004 - 10:29:25 CDT)
- VMD and XP (Wed Oct 22 2003 - 14:40:23 CDT)
Jorgen Simonsen
- setup path to write (Fri Dec 27 2013 - 13:38:32 CST)
- Re: center of mass (Fri Jul 05 2013 - 13:59:18 CDT)
- center of mass (Fri Jul 05 2013 - 11:25:55 CDT)
- select by residue (Mon Feb 18 2013 - 11:45:55 CST)
- bash scripts quits after few frames (Tue Nov 22 2011 - 03:55:02 CST)
- run and close vmd with bash script? (Wed May 18 2011 - 07:04:26 CDT)
- convert prmtop to psf (Tue May 17 2011 - 04:17:33 CDT)
- psf gen charmm format (Wed Sep 22 2010 - 06:18:45 CDT)
- hydrophobic accessible surface area (Tue Aug 24 2010 - 13:55:20 CDT)
- lowest energy structure (Mon Jul 19 2010 - 22:52:59 CDT)
- rotate dihedral angle (Mon Sep 14 2009 - 14:08:21 CDT)
- Re: Mac and cmd line (Mon Aug 24 2009 - 17:50:49 CDT)
- Mac and cmd line (Mon Aug 24 2009 - 11:58:16 CDT)
- python and vmd (Wed Jul 15 2009 - 04:23:12 CDT)
- Dihedrale angles in VMD (Thu Jul 03 2008 - 07:43:07 CDT)
- Re: topology files L/D form (Mon Apr 14 2008 - 12:55:11 CDT)
- topology files L/D form (Mon Apr 14 2008 - 04:50:08 CDT)
- Re: no convergence in align (Fri Feb 29 2008 - 12:15:49 CST)
- no convergence in align (Fri Feb 29 2008 - 07:03:18 CST)
- how to set molinfo from python (Tue Feb 19 2008 - 02:03:16 CST)
- rmsd different from rmsd implemented in VMD (Wed Feb 13 2008 - 10:18:19 CST)
Jos Aerts
- VMD 1.8 on Windows2000 to crash when executing simple scripts (Thu May 15 2003 - 07:10:50 CDT)
Jose Dinto
- Unable to ionize a solvated structure using autoionization (Mon Jul 24 2006 - 09:56:41 CDT)
Jose Borreguero
- can VMD render movies in stereo quad-buffered mode? (Fri Oct 31 2014 - 13:11:58 CDT)
- how to extract a frame in a binary coordinate restart file format for NAMD ? (Wed Oct 24 2012 - 14:13:37 CDT)
- VMD (and NAMD) fail to read simple AMBER prmtop file (and it's not the SCEE and SCNB flags) (Sat Oct 20 2012 - 15:57:16 CDT)
- Re: saving dcd file different if by script or by interactive mode (Tue Apr 10 2012 - 18:23:01 CDT)
- saving dcd file different if by script or by interactive mode (Tue Apr 10 2012 - 17:32:11 CDT)
JOSE MANUEL ROMO HERRERA
- Updating color_scale_bar_new.tcl (Tue Nov 08 2005 - 13:19:08 CST)
Josef Scheiber
- Re: Sybyl trajectory (Tue Sep 06 2005 - 05:38:38 CDT)
- Sybyl trajectory (Mon Sep 05 2005 - 01:56:04 CDT)
Joseph Antoine Garate
- Parse Fep plugin error (Fri Dec 23 2011 - 08:27:39 CST)
Joseph Baker
- VMD Composite Extension/swrast Error on Centos 6.6 (Mon Aug 03 2015 - 16:31:41 CDT)
Joseph Bylund
- mono2poly question (Sun Feb 26 2012 - 23:24:00 CST)
- Re: Coloring by RMSD during trajectory (Wed Feb 01 2012 - 23:49:19 CST)
- Query Fields (Tue Jan 31 2012 - 08:32:40 CST)
- Coloring by RMSD during trajectory (Fri Jan 06 2012 - 11:40:27 CST)
- Re: coloring bonds on the same segments differently from those between segments (Thu Oct 20 2011 - 20:13:59 CDT)
- Display Multiple Bond Order (Wed Jun 29 2011 - 11:57:50 CDT)
- Re: Aligning two proteins of varying atom numbers (Thu May 19 2011 - 11:31:52 CDT)
- moving rotational center to display center (Tue Apr 12 2011 - 12:01:27 CDT)
- Re: script for projection of c-alpha atom cordinates on xy plane (Fri Mar 18 2011 - 13:39:37 CDT)
- Re: Re: VMD 1.9 beta 1 posted for download... (Fri Feb 18 2011 - 11:19:38 CST)
- surface representation question (Wed Dec 08 2010 - 12:15:02 CST)
- Re: 3D protein visualization (Mon Nov 08 2010 - 18:39:42 CST)
- Re: Regarding merging of two files (Wed Nov 03 2010 - 13:08:21 CDT)
- Re: Distance lines (Thu Sep 09 2010 - 16:46:55 CDT)
- representation question (Mon Apr 26 2010 - 14:01:40 CDT)
- Re: Coloring atoms based on timeframe range? (Thu Apr 22 2010 - 10:04:08 CDT)
- rmsd trajectory tool question (Tue Apr 20 2010 - 13:23:07 CDT)
- Re: how to pick certain water molecular from a .mdcrd (Tue Apr 13 2010 - 05:30:48 CDT)
- Re: Installing VMD (Tue Mar 16 2010 - 13:22:27 CDT)
- Re: problems displaying newcartoon representation (Thu Nov 12 2009 - 12:43:24 CST)
- Problems with selecting atoms for representations (Tue Oct 13 2009 - 10:39:52 CDT)
Joseph E. Curtis
- ATOM or HETATM record (Fri Jan 07 2005 - 16:46:16 CST)
- VMDNUMPY and OS X (Panther) (Thu Dec 16 2004 - 15:40:16 CST)
Joseph Edward Curtis
- Suggested graphic card :: LINUX (Mon Mar 03 2003 - 10:07:19 CST)
Joseph Fernandez
- Re: uncompress files in tcl script (Thu Feb 09 2006 - 14:56:51 CST)
- uncompress files in tcl script (Thu Feb 09 2006 - 09:55:05 CST)
- VMD crashes with FX440 and RH Entreprise 4.0 (Tue Sep 06 2005 - 09:52:07 CDT)
- Error when running ied.py (Fri Jul 08 2005 - 09:50:59 CDT)
Joseph Geraci
- Fit function (Wed Mar 13 2013 - 14:00:55 CDT)
Joseph Landman
- building VMD on SGI IRIX 6.x (Wed Mar 26 1997 - 11:55:35 CST)
Joseph Norris
- install on Centos - issues (Fri Jul 23 2010 - 18:48:04 CDT)
Josh
- Re: parseFEP and solvate pulgins in VMD 1.9.3 (Mon Feb 05 2024 - 14:54:25 CST)
- Re: SASA Cutoff Value for Residues on Protein Surface (Wed Nov 22 2023 - 11:20:46 CST)
- Re: Error on VMD Tkconsole : syntax error near unexpected token (Thu Nov 02 2023 - 15:36:48 CDT)
- Re: Script to Build Cyclic Peptides (Thu Oct 26 2023 - 13:53:06 CDT)
- Re: Script to Build Cyclic Peptides (Wed Oct 25 2023 - 09:01:37 CDT)
- Re: Script to Build Cyclic Peptides (Mon Oct 23 2023 - 07:57:20 CDT)
- Re: ffTK Opt Torsions Refine Section i.e. PERIODICITY, PHASE SHIFT Values? (Mon Oct 23 2023 - 07:51:12 CDT)
- Re: ffTK FATAL ERROR: UNABLE TO FIND IMPROPER PARAMETERS Inquiry (Fri Oct 20 2023 - 09:32:45 CDT)
- Re: Update structure on-the-fly (Mon Oct 16 2023 - 08:54:23 CDT)
- Re: How to shortening bonds length in a molecule ? (Thu Aug 31 2023 - 09:15:35 CDT)
- Re: Issues with urea and autopsf (Tue Aug 29 2023 - 09:15:58 CDT)
- Re: Custom selection variable (Fri Aug 11 2023 - 08:32:12 CDT)
- Re: Diffusion Coefficient calculation (Wed Aug 09 2023 - 13:49:47 CDT)
Josh Vermaas
- Re: molefacture isn't writing PDB coords (Tue Mar 04 2025 - 12:11:39 CST)
- Re: molefacture isn't writing PDB coords (Tue Mar 04 2025 - 09:18:20 CST)
- Re: Using python interpreter in VMD (Tue Jan 21 2025 - 13:04:06 CST)
- Re: Using python interpreter in VMD (Tue Jan 21 2025 - 10:53:25 CST)
- Re: Using python interpreter in VMD (Tue Jan 21 2025 - 08:08:27 CST)
- Re: .str file generation of nitrile group containing ligands (Wed Sep 25 2024 - 09:09:41 CDT)
- Re: altloc pdb entries (Wed Aug 14 2024 - 09:44:24 CDT)
- Re: selecting first instance of a ligand from several in pdb file (Mon Jul 29 2024 - 09:42:33 CDT)
- Re: Compiling CUDAMarchingCubes.cu build error (Thu Jul 25 2024 - 08:23:05 CDT)
- Re: Issue sending forces to atoms with IMD and LAMMPS (Fri May 31 2024 - 14:51:44 CDT)
- Re: saving a PDB in a different order than it was loaded (Fri May 03 2024 - 11:12:21 CDT)
- Re: Re: ffTK HF/6-31G Base Set QM or a Different QM Base Set? (Thu Apr 25 2024 - 09:23:26 CDT)
- Re: MD Videos and fixing the view into a certain perspective (Thu Apr 18 2024 - 12:05:24 CDT)
- Re: Atoms poorly guessed after applying a patch in Psfgen (Fri Mar 29 2024 - 11:58:43 CDT)
- Re: Atoms poorly guessed after applying a patch in Psfgen (Fri Mar 29 2024 - 09:47:58 CDT)
- Re: Atoms poorly guessed after applying a patch in Psfgen (Mon Mar 25 2024 - 15:01:52 CDT)
- Re: looking for help to solve FATAL ERRORQ=BC=9A_Didn=27t_find_vdw_parameter_for_atom_type_C11?= (Thu Mar 07 2024 - 13:18:13 CST)
- Re: How to define an atom selection for a dynamic space (Wed Mar 06 2024 - 15:15:26 CST)
- Re: Random Sudden Increase in RMSD Near End of Simulation (Mon May 01 2023 - 12:02:21 CDT)
- Re: Python crash VMD1.9.4 (Tue Apr 18 2023 - 09:20:51 CDT)
- Re: Python crash VMD1.9.4 (Mon Apr 17 2023 - 12:59:42 CDT)
- Re: Running VMD 1.9.4alpha on newer GPUs that require CUDA 11+ and OptiX 7+ (Tue Jan 31 2023 - 08:58:37 CST)
- Re: Image render in VMD (Tue Jan 31 2023 - 09:02:35 CST)
- Re: Atomselect entire water molecule using pbwithin (Fri Nov 11 2022 - 16:46:51 CST)
- Re: Extracting hydrogen bond information of water (Thu Nov 03 2022 - 15:29:05 CDT)
- Re: Extracting Voxel-based or STL from QuickSurf Representation (Wed Oct 05 2022 - 16:51:57 CDT)
- Re: Overriding default bond heuristics (Mon Oct 03 2022 - 14:36:53 CDT)
- Re: How to calculate number of water molecules close to a nanostructure (Mon Oct 03 2022 - 09:03:37 CDT)
- Re: Ramachandran Dihedral Angles Suspiciously Constant (Fri Sep 23 2022 - 15:36:58 CDT)
- Re: Ramachandran Dihedral Angles Suspiciously Constant (Fri Sep 23 2022 - 07:54:53 CDT)
- Re: tcl measure bond length script (Wed Sep 14 2022 - 08:05:29 CDT)
- Re: Most relevant VMD install (Wed Sep 07 2022 - 07:56:34 CDT)
- Re: Angle Cutoff variable for Hydrogen Bonds (Thu Aug 18 2022 - 08:29:35 CDT)
- Re: Protein residue read as solvent (Wed Aug 17 2022 - 08:23:19 CDT)
- Re: MultiSeq QR structure factorization on the command line (Wed Jun 29 2022 - 20:47:32 CDT)
- Re: VMD 1.9.4 crashes after running the "Merge Structures" plugin (with psfgen 2.0) (Mon Apr 04 2022 - 11:15:30 CDT)
- Re: GPU-accelerated RDF Calculation (Thu Mar 31 2022 - 19:12:38 CDT)
- Re: Protein-ligand interactions (Mon Jan 31 2022 - 11:43:36 CST)
- Re: How to create a color ramp in VMD? (Thu Oct 28 2021 - 09:12:57 CDT)
- Re: Visualizing segmentation/labeling without python dependency (Thu Sep 02 2021 - 09:12:24 CDT)
- Re: Voltool Averaging Maps (Mon Aug 16 2021 - 10:00:14 CDT)
- Re: Discrepancy in value of dihedral angles of a sugar molecule by VMD tools (Thu Jul 22 2021 - 08:44:49 CDT)
- Re: Residue numbers changing after addition of simulation boxes below and above membrane cell (Mon Jun 21 2021 - 07:54:41 CDT)
- Re: Found bad contact (Thu Jun 10 2021 - 10:35:11 CDT)
- Re: Install VMD with goal of enabling Intel OSPray renderer (Fri Jan 01 2021 - 13:13:55 CST)
- Re: CHARMM parameters for ADP-ribosylated arginine? (Tue Dec 29 2020 - 18:28:59 CST)
- Re: Movie Making Troubles (Wed Dec 09 2020 - 10:54:39 CST)
- Re: Movie Making Troubles (Tue Dec 08 2020 - 20:00:30 CST)
- Re: AVX512 support on Linux. (Thu Nov 19 2020 - 11:15:29 CST)
- Re: Analysis of DLG filles (Fri Nov 06 2020 - 20:10:53 CST)
- Re: Analysis of DLG filles (Thu Nov 05 2020 - 14:24:19 CST)
- Re: Calculating mean square displacement and removing PBC (Thu Oct 22 2020 - 14:50:49 CDT)
- Re: Error in PSFGEN (Wed Oct 14 2020 - 19:58:08 CDT)
- videostream command? (Sat Oct 10 2020 - 17:58:41 CDT)
- Re: Glu-Lys Isopeptide Bond Parameters? (Wed Oct 07 2020 - 14:48:53 CDT)
- Re: How select atoms from mol 0 within "x" of mol 1? (Thu Oct 01 2020 - 19:01:07 CDT)
- Re: How to make the trajectory file show the right bonds information in VMD (Thu Sep 24 2020 - 09:57:06 CDT)
- Re: topo tool guess bond algorithm (Tue Sep 15 2020 - 15:12:00 CDT)
- Re: VMD write pdb error (Wed Sep 09 2020 - 13:40:17 CDT)
- Re: Do different version of NAMD would give different results? (Sun Sep 06 2020 - 17:00:53 CDT)
- Re: VMD python3 version (Sat Sep 05 2020 - 14:29:29 CDT)
- Re: Creating a .tpr file from NAMD files Error (Wed Aug 05 2020 - 13:45:27 CDT)
- Re: Creating a .tpr file from NAMD files Error (Wed Aug 05 2020 - 11:54:56 CDT)
- Re: building VMD with Ubuntu 18.04 (Mon Aug 03 2020 - 10:18:55 CDT)
- Re: Color specific frames with specific colors in a trajectory (Sun Aug 02 2020 - 16:44:16 CDT)
- Re: Displaying disulfide bonds with updated VMD (Sat Aug 01 2020 - 16:48:19 CDT)
- Re: Re: Error with initiation of additional production simulation using Qwikmd (Thu Jul 30 2020 - 16:33:10 CDT)
- Re: Non-standard solvents in Solvate (Thu Jul 30 2020 - 16:26:05 CDT)
- Re: getting VMD to obey me (Sun Jul 05 2020 - 15:33:12 CDT)
- Re: Atomic bond counting wuth VMD (Fri Jun 19 2020 - 15:47:22 CDT)
- Re: Atomic bond counting wuth VMD (Fri Jun 19 2020 - 08:55:59 CDT)
- Re: Movie Maker in VMD (Thu Jun 18 2020 - 20:54:48 CDT)
- Re: Movie Maker in VMD (Thu Jun 18 2020 - 12:16:55 CDT)
- Re: resname X and pbwithin resname X excluding intramolecular (Fri Jun 05 2020 - 10:34:36 CDT)
- Re: monomer to tatramer conversion (Thu Jun 04 2020 - 13:06:02 CDT)
- Re: PSFGEN (Wed Jun 03 2020 - 16:12:53 CDT)
- Re: PSFGEN (Wed Jun 03 2020 - 11:32:06 CDT)
- Re: Extrabonds issue (Wed May 27 2020 - 10:49:31 CDT)
- Re: Issues generating a .psf file (Tue May 26 2020 - 09:50:12 CDT)
- Re: Create covalent bonds between 2 atoms via Tk console (Mon May 25 2020 - 11:19:29 CDT)
- Re: cgenff atom type issue (Fri May 22 2020 - 13:16:15 CDT)
- Re: MDAnalysis/VMD discrepancy (Fri May 08 2020 - 16:02:50 CDT)
- Re: Solvation in mixed solvent (Thu Apr 30 2020 - 07:45:14 CDT)
- Re: Problem with Surf representation in the latest version macOS Catalina (Mon Apr 27 2020 - 15:25:36 CDT)
- Re: mapping values on protein structure (Fri Apr 24 2020 - 08:37:53 CDT)
- Re: compiling VMD with cuda from source (Mon Apr 20 2020 - 10:16:47 CDT)
- Re: Counting the number of ligand molecules around my protein (Thu Apr 16 2020 - 11:42:08 CDT)
- Re: Setting graphical representations from the command line (Fri Apr 10 2020 - 15:19:21 CDT)
- Re: compiling VMD with cuda from source (Fri Apr 10 2020 - 11:21:31 CDT)
- Re: namd-l: .coor and .vel output files not generated (Thu Apr 09 2020 - 22:04:49 CDT)
- Re: Peptides with Linkage between N-Terminus and Side Chain (Thu Apr 09 2020 - 17:04:14 CDT)
- Re: VMD Compatible with Windows with 64-bit OS? (Thu Apr 09 2020 - 16:23:38 CDT)
- Re: Peptides with Linkage between N-Terminus and Side Chain (Tue Apr 07 2020 - 15:29:25 CDT)
- Re: faced error in operating vmd (Mon Apr 06 2020 - 12:00:22 CDT)
- Re: MDFF chirality restrain error - measure imprp: empty atom index (Mon Apr 06 2020 - 12:04:07 CDT)
- Re: Dangling Bonds (Thu Apr 02 2020 - 15:55:08 CDT)
- Re: MDFF chirality restrain error - measure imprp: empty atom index (Wed Apr 01 2020 - 18:26:44 CDT)
- Re: Visualizing coarse grained particles in VMD (Thu Mar 26 2020 - 19:00:48 CDT)
- Re: namd-l: Pair interaction calculation is not supported in CUDA version (Sun Mar 15 2020 - 14:58:45 CDT)
- Re: Recommended Hardware (Sat Mar 14 2020 - 23:14:06 CDT)
- Re: Saving visualization state coordinates (Fri Mar 13 2020 - 16:48:59 CDT)
- Re: Saving visualization state coordinates (Fri Mar 13 2020 - 15:06:39 CDT)
- Re: Rendering resolution (Mon Mar 02 2020 - 12:50:48 CST)
- Re: VMD doesn't handle AMBER Restart files correct (Sun Feb 23 2020 - 16:36:58 CST)
- Re: SDS molecules agglomeration. (Tue Feb 18 2020 - 08:59:16 CST)
- Re: defining/updating atom selection within loop (Thu May 26 2016 - 15:35:18 CDT)
- Re: defining/updating atom selection within loop (Thu May 26 2016 - 13:14:36 CDT)
- Re: defining/updating atom selection within loop (Thu May 26 2016 - 06:46:36 CDT)
- Re: vmd install on ubuntu 15.04 -- no display (Mon May 23 2016 - 16:37:38 CDT)
- Re: TP2 Phosphotyrosine Patch Issue (Tue May 03 2016 - 16:29:00 CDT)
- Re: Superimposing 2 dcd files (Mon May 02 2016 - 09:23:10 CDT)
- Re: Re: VMD HBonds Plugin Produce Duplicate Results (Tue Apr 26 2016 - 20:45:09 CDT)
- Re: solvate fails to set coordinates for the first few residues of the first chain? (Tue Apr 19 2016 - 17:09:00 CDT)
- Re: solvate fails to set coordinates for the first few residues of the first chain? (Tue Apr 19 2016 - 16:27:38 CDT)
- Re: Clonerep GUI issue with VMD CVS (Fri Apr 08 2016 - 09:22:36 CDT)
- Re: constructing spherical molecule? (Tue Apr 05 2016 - 11:05:11 CDT)
- Re: constructing spherical molecule? (Mon Apr 04 2016 - 17:06:46 CDT)
- Re: rlwrap problem (Mon Mar 21 2016 - 09:08:04 CDT)
- Re: rlwrap problem (Fri Mar 18 2016 - 13:42:51 CDT)
- Re: Adding hydrogens breaks "protein" atomselection and bonds (Wed Mar 16 2016 - 09:29:31 CDT)
- Re: Units of moments of inertia (Tue Mar 15 2016 - 10:00:00 CDT)
- Re: Wrap with PBCTools (Tue Mar 08 2016 - 09:59:30 CST)
- Re: catdcd error (Fri Mar 04 2016 - 18:49:23 CST)
- Re: visualizing MDFF results with explicit solvent (Tue Mar 01 2016 - 10:14:21 CST)
- Re: Not all frames loaded (Mon Feb 29 2016 - 15:35:40 CST)
- Re: New atom types in VMD (Mon Feb 29 2016 - 09:50:45 CST)
- Re: New atom types in VMD (Mon Feb 29 2016 - 08:43:14 CST)
- Re: wrapping multi chain proteins (Fri Feb 19 2016 - 12:10:53 CST)
- Re: wrapping multi chain proteins (Fri Feb 19 2016 - 11:54:04 CST)
- Re: wrapping multi chain proteins (Fri Feb 19 2016 - 09:50:34 CST)
- Re: vmd console problem (Fri Feb 05 2016 - 15:08:26 CST)
- Re: Specify stride from command line (Tue Feb 02 2016 - 09:40:56 CST)
- Re: VMD Hbond criterion vs. other software (Mon Feb 01 2016 - 08:56:09 CST)
- Re: making a movie in a tcl script using graphics commands (Thu Jan 28 2016 - 14:52:33 CST)
- Re: vmd does not start (Mon Jan 25 2016 - 12:57:00 CST)
- Re: pdb was not generated (Thu Jan 14 2016 - 13:55:15 CST)
- Re: pdb was not generated (Thu Jan 14 2016 - 13:41:00 CST)
- Re: Recommended method to attach labels to atoms in VMD (Wed Jan 13 2016 - 16:39:19 CST)
- Re: Improving movie clarity (Thu Dec 31 2015 - 08:28:32 CST)
- Re: Improving movie clarity (Tue Dec 29 2015 - 19:17:08 CST)
- Re: mol add url (Fri Dec 18 2015 - 18:00:02 CST)
- Re: namd-l: Problems with GLUP and ASPP with CHARMM36 (Fri Dec 11 2015 - 09:25:11 CST)
- Re: namd-l: Problems with GLUP and ASPP with CHARMM36 (Fri Dec 11 2015 - 08:45:00 CST)
- Re: Ubuntu launcher and WM_CLASS (Thu Dec 10 2015 - 16:57:51 CST)
- Re: measure contacts not working as expected (Fri Dec 04 2015 - 09:04:34 CST)
- Re: Loading .vel files into vmd (Wed Dec 02 2015 - 13:14:37 CST)
- Re: Minimum content/format of PSF file to specify bonds? (Mon Nov 23 2015 - 13:43:08 CST)
- Re: periodic boundry in movie (Fri Nov 20 2015 - 07:54:16 CST)
- Re: loading a several structures in the same time (Wed Nov 18 2015 - 18:09:19 CST)
- Re: Fwd: Compiling VMD with python interpreter on MacOSX (Wed Nov 18 2015 - 09:45:12 CST)
- Re: VDW-radius-and-Interstitial-Space (Tue Nov 10 2015 - 20:21:34 CST)
- Re: VMD script variable is (Fri Nov 06 2015 - 10:07:48 CST)
- Re: TachyonL-Optix render command (Tue Oct 20 2015 - 13:24:13 CDT)
- Re: Consistent size (Thu Oct 15 2015 - 11:33:43 CDT)
- Re: Re: VMD Tricky selection of protein water bridge (2 bridge waters) (Mon Oct 05 2015 - 11:06:14 CDT)
- Re: Plugin to read DCD files (Thu Sep 17 2015 - 18:26:37 CDT)
- Re: Bonds appearing as elongated lines (Thu Sep 17 2015 - 09:32:23 CDT)
- Re: -restrict option in measure sasa (Thu Sep 17 2015 - 09:27:36 CDT)
- Re: Autopsf problem (Tue Sep 15 2015 - 09:48:02 CDT)
- Re: Distances from the command line VMD 1.9.2 (Tue Sep 01 2015 - 09:05:18 CDT)
- Re: Calculate torsional angle with big_dcd adding a boolean control for pyrimidines and purines selection (Wed Aug 26 2015 - 09:09:01 CDT)
- Re: Calculate torsional angle with big_dcd adding a boolean control for pyrimidines and purines selection (Wed Aug 26 2015 - 08:04:56 CDT)
- Re: Python.h error when compile VMD-1.9.2 (Wed Aug 19 2015 - 09:29:31 CDT)
- Re: nvidia cuda mismatch (Thu Aug 13 2015 - 15:27:55 CDT)
- Re: rlwrap/ffTK issues with vmd 1.9.2 (Wed Aug 12 2015 - 08:54:41 CDT)
- Re: why vmd cannot load situs type file in MDFF? (Wed Aug 12 2015 - 08:56:53 CDT)
- Re: Merging two structures with duplicate segment names using TCL/Tk Console (Tue Aug 11 2015 - 09:48:47 CDT)
- Re: Exporting Average Structure to .pdb file (Mon Aug 03 2015 - 13:09:50 CDT)
- Re: Generating PSF for several proteins in one shot (Tue Jul 21 2015 - 13:44:49 CDT)
- Re: Finding RMSD of atoms (Fri Jul 10 2015 - 14:23:56 CDT)
- Re: Re: Welcome to vmd-l (Fri Jul 10 2015 - 14:09:21 CDT)
- Re: script rotation of system with graphics (Thu Jul 09 2015 - 02:41:30 CDT)
- Re: Fwd: Removing all non polar hydrogens (Sat Jun 27 2015 - 19:42:45 CDT)
- Re: Removing all non polar hydrogens (Fri Jun 26 2015 - 14:55:56 CDT)
- Re: Later protein diffusion through membrane--PBC tools problem (Wed Jun 24 2015 - 16:46:52 CDT)
- Re: Drawing extended arrow to show direction vector on VMD (Tue Jun 23 2015 - 12:34:31 CDT)
- Re: Visualizing and counting broken bonds in VMD (Fri Jun 19 2015 - 14:55:13 CDT)
- Re: Merging multiple PDB files (Mon Jun 15 2015 - 15:03:16 CDT)
- Re: Generating psf for uranyl ion (Mon Jun 15 2015 - 11:28:14 CDT)
- Re: Fwd: unwap/wrap failure in recomposing splitted system from periodic cells (Fri Jun 12 2015 - 11:20:26 CDT)
- Re: unwap/wrap failure in recomposing splitted system from periodic cells (Fri Jun 12 2015 - 09:47:24 CDT)
- Re: unwap/wrap failure in recomposing splitted system from periodic cells (Thu Jun 11 2015 - 14:31:39 CDT)
- Re: Comparing distance.tcl/bigdcd.tcl with resid/CA vs index (Thu Jun 04 2015 - 10:46:12 CDT)
- Re: IR Spectroscopy plugin questions (Wed Jun 03 2015 - 18:33:48 CDT)
- Re: bigdcd for distance problems (Wed Jun 03 2015 - 14:03:58 CDT)
- Re: (Fri May 29 2015 - 10:58:07 CDT)
- Re: Modification of terminal N-amino and C-carboxyl of peptide (Fri May 29 2015 - 10:56:45 CDT)
- Re: Protein Builder terminus (Tue May 26 2015 - 11:21:41 CDT)
- Re: How can I swap specific atoms for all frames of xyz file? (Wed May 13 2015 - 20:51:23 CDT)
- Re: How can I swap specific atoms for all frames of xyz file? (Wed May 13 2015 - 19:00:28 CDT)
- Re: How can I swap specific atoms for all frames of xyz file? (Wed May 13 2015 - 16:29:28 CDT)
- Re: How can I swap specific atoms for all frames of xyz file? (Wed May 13 2015 - 13:44:50 CDT)
- Re: using the colvar module in VMD within a tcl loop through trajectory frames (Mon Apr 27 2015 - 10:58:33 CDT)
- Re: measure sasa of a complex (CNT and protein) (Thu Apr 16 2015 - 13:05:25 CDT)
- Re: Residues within a specified distance across all trajectories time steps (Mon Apr 06 2015 - 15:49:34 CDT)
- Re: How to populate lib/ directory when compiling (Fri Apr 03 2015 - 16:22:44 CDT)
- Re: Resid and residue atomselect bug (Thu Apr 02 2015 - 08:16:39 CDT)
- Re: Optimizing an inter-residue distance measurement (Wed Apr 01 2015 - 15:51:35 CDT)
- Re: Fw: Colour coordinating atoms in a trajectory by Coordination Number (Mon Mar 30 2015 - 11:14:53 CDT)
- Re: MSD calculation - Memory saving. (Fri Mar 27 2015 - 08:49:36 CDT)
- Re: Colour coordinating atoms in a trajectory by Coordination Number (Thu Mar 26 2015 - 12:12:29 CDT)
- Re: Script to impose coordinates from separate file onto equivalent selection of atoms (Thu Mar 26 2015 - 08:27:33 CDT)
- Re: Visualizing H-bonds between two segnames or chains (Wed Mar 25 2015 - 11:22:30 CDT)
- Re: Periodic Tab with PDB input (Wed Mar 25 2015 - 09:48:04 CDT)
- Re: PBC Plugin (Wed Mar 11 2015 - 11:07:36 CDT)
- Re: How to write coordinates to a pdb without replacing existing entries (Mon Mar 09 2015 - 08:30:25 CDT)
- Re: movie making (Sat Feb 28 2015 - 14:41:41 CST)
- Re: Moving making with short trajectories (Sat Feb 28 2015 - 13:11:03 CST)
- Re: movie making (Sat Feb 28 2015 - 13:13:49 CST)
- Re: (Mon Feb 23 2015 - 17:15:49 CST)
- Re: adding additional atoms to psf and dcd (Sat Feb 21 2015 - 14:29:49 CST)
- Re: FFTK scan torsions question (Tue Feb 17 2015 - 08:50:02 CST)
- Re: vmd command not found (Fri Feb 13 2015 - 08:10:20 CST)
- Re: Change VDW scaling in CPK drawing method (Thu Feb 12 2015 - 11:54:22 CST)
- Re: VMD Tcl Getting first index from residue number (Wed Feb 11 2015 - 18:30:25 CST)
- Re: Problem by removing vmd 1.9.1 and installing 1.9.2. (Thu Feb 05 2015 - 21:13:34 CST)
- Re: (Tue Feb 03 2015 - 09:21:06 CST)
- Re: quick tcl question with vmd/psfgen (Thu Jan 29 2015 - 13:42:33 CST)
- Re: Exposed area of a particular residue from dehydrated trajectory (Mon Jan 26 2015 - 11:30:46 CST)
- Re: within command (Fri Jan 23 2015 - 15:40:38 CST)
- Re: optixRender error (Fri Jan 23 2015 - 13:26:05 CST)
- Re: TachyonL-OptiX not shown in renderer list (Thu Jan 22 2015 - 08:00:34 CST)
- Re: vmd-1: Colors in Representations Tab (Tue Jan 20 2015 - 17:02:57 CST)
- Re: Is a PDB file hiding something ??? (Sat Jan 17 2015 - 09:18:02 CST)
- Re: Fwd: VMD 1.9.2 released! (Mon Jan 12 2015 - 11:40:34 CST)
- Re: write bonding/connectivity to file (Thu Jan 08 2015 - 16:45:32 CST)
- Re: Change bond per atom limit of VMD (Tue Jan 06 2015 - 13:32:09 CST)
- Re: show water around a residue for all the frames of the MD trajectory (Mon Jan 05 2015 - 10:49:39 CST)
- Re: ribbon rendering errors (Tue Dec 30 2014 - 20:07:48 CST)
- Re: the usage of measure bond (Mon Dec 29 2014 - 06:14:52 CST)
- Re: ribbon rendering errors (Fri Dec 26 2014 - 07:20:29 CST)
- Re: non-bonded interactions (Thu Dec 25 2014 - 21:52:34 CST)
- Re: need help for tcl script (Sun Dec 14 2014 - 14:35:14 CST)
- Re: FFTK most probably doesn't work with molecules containing new atom types (Sat Dec 13 2014 - 13:54:38 CST)
- Re: Fwd: How find water mediated hydrogen bond (Wed Dec 10 2014 - 17:57:40 CST)
- Re: Topotools not changing psf (Thu Dec 04 2014 - 13:12:20 CST)
- Re: truncated atom types after merge (Mon Nov 24 2014 - 16:47:27 CST)
- Re: create psf file without hydrogens (Thu Nov 20 2014 - 13:55:24 CST)
- Re: Protein went out of the Box (Tue Nov 11 2014 - 18:23:25 CST)
- Re: psfgen N-terminal patches (Fri Oct 31 2014 - 16:41:52 CDT)
- Re: Graphics card suitable for VMD (Fri Oct 31 2014 - 13:35:02 CDT)
- Re: Dynamic atomselect (Thu Oct 30 2014 - 09:55:16 CDT)
- Re: Extensions menu empty (Thu Oct 23 2014 - 14:14:12 CDT)
- Re: Extensions menu empty (Thu Oct 23 2014 - 12:13:23 CDT)
- Re: Python text interpreter in VMD (Tue Oct 21 2014 - 15:10:10 CDT)
- Re: Python text interpreter in VMD (Tue Oct 21 2014 - 11:53:38 CDT)
- Re: GTP and GDP parameter files (Wed Oct 15 2014 - 14:04:06 CDT)
- Re: making psf files (Mon Oct 13 2014 - 09:23:13 CDT)
- Re: Displaying residue name in simulation movie (Mon Oct 13 2014 - 09:15:38 CDT)
- Re: Error while calculating rotational angle (Fri Oct 10 2014 - 08:19:20 CDT)
- Re: Error while calculating rotational angle (Thu Oct 09 2014 - 15:31:13 CDT)
- Re: psfgen not parsing toppar_all36_lipid_detergent.str (Mon Oct 06 2014 - 17:24:32 CDT)
- Re: psfgen not parsing toppar_all36_lipid_detergent.str (Mon Oct 06 2014 - 16:31:42 CDT)
- Re: psfgen not parsing toppar_all36_lipid_detergent.str (Mon Oct 06 2014 - 16:09:00 CDT)
- Re: topotools question regarding ordering of bonds, angles, etc in output. (Fri Oct 03 2014 - 12:21:34 CDT)
- Re: Tk script (Tue Sep 30 2014 - 14:22:56 CDT)
- Re: Protein went out of the Box (Mon Sep 29 2014 - 09:14:02 CDT)
- Re: Labels for part of a trajectory (Thu Sep 25 2014 - 11:29:14 CDT)
- Re: Atom Selection Rectangle (Wed Sep 24 2014 - 15:50:37 CDT)
- Re: Resname CHARMM to NAMD (Tue Sep 23 2014 - 09:28:30 CDT)
- Re: Selecting atoms based on the charges (Tue Sep 23 2014 - 09:08:07 CDT)
- Re: CatDCD on Windows (Mon Sep 22 2014 - 19:08:55 CDT)
- Re: namd-l: Problem with running namdenergy plugin from text interface (Mon Sep 22 2014 - 15:09:10 CDT)
- Re: Solvate Plugin: Why "Rotate to minimize volume" along 2 instead of 3 axes? (Mon Sep 22 2014 - 10:58:56 CDT)
- Re: Constraining two sets of atoms (Mon Sep 15 2014 - 19:41:49 CDT)
- Re: question about hbonds in vmd tutorial Version 1.9.2beta1 (Mon Sep 15 2014 - 12:10:47 CDT)
- Re: problems with tachyon (Fri Sep 12 2014 - 09:01:12 CDT)
- Re: Half of a dimer out of the box in a simulation (Wed Sep 10 2014 - 15:44:26 CDT)
- Re: Unable to read corrupted binary DCD trajectory file (Mon Sep 08 2014 - 14:23:00 CDT)
- Re: Unable to read corrupted binary DCD trajectory file (Mon Sep 08 2014 - 10:15:23 CDT)
- Re: Selection along line in 3D (Sun Sep 07 2014 - 12:22:46 CDT)
- Re: Selection along line in 3D (Sat Sep 06 2014 - 11:53:40 CDT)
- Re: Making trajectory movie last longer. (Wed Sep 03 2014 - 13:50:03 CDT)
- Re: strange behavior of render command (Thu Aug 28 2014 - 11:48:42 CDT)
- Re: Making an extensive search of PDB (Tue Aug 19 2014 - 19:30:45 CDT)
- Re: python 2.7 probelms (Fri Aug 15 2014 - 16:28:42 CDT)
- Re: python 2.7 probelms (Thu Aug 14 2014 - 20:48:22 CDT)
- Re: Reading PSF files with longer than 4-letter atom types (Wed Aug 13 2014 - 11:55:16 CDT)
- Re: Persistent troubles with tk fonts (Wed Aug 13 2014 - 09:48:33 CDT)
- Re: averaged structure (Tue Aug 12 2014 - 11:49:12 CDT)
- Re: averaged structure (Tue Aug 12 2014 - 09:36:49 CDT)
- Re: Using more than 9 atom types for coloring method and visualizing half of a structure (Fri Aug 08 2014 - 15:23:20 CDT)
- Re: To the developers: TCL implementation of autofit zoom (Fri Aug 08 2014 - 08:41:56 CDT)
- Re: Feature suggestion: "glow" representation (Wed Aug 06 2014 - 09:21:04 CDT)
- Re: Vmd problem in display of surface in Md movie ( Gromacs trajectory) (Tue Aug 05 2014 - 10:59:23 CDT)
- Re: Reï¼š display water (Mon Aug 04 2014 - 08:58:10 CDT)
- Re: display water (Sun Aug 03 2014 - 07:25:55 CDT)
- Re: drop off in IO speed for bigdcd analysis (Thu Jul 31 2014 - 09:43:50 CDT)
- Re: export trajectory all frames coordinates to numpy array (Thu Jul 24 2014 - 17:54:39 CDT)
- Re: vmd-1.9.1 linux installation problem (Mon Jul 21 2014 - 12:15:52 CDT)
- Re: vmd-1.9.1 linux installation problem (Mon Jul 21 2014 - 08:13:35 CDT)
- Re: origin in VMD (Thu Jul 10 2014 - 12:25:04 CDT)
- Re: Subtract structure to a trajectory (Thu Jul 10 2014 - 10:54:09 CDT)
- Re: Subtract structure to a trajectory (Thu Jul 10 2014 - 10:01:15 CDT)
- Re: origin in VMD (Thu Jul 10 2014 - 09:58:17 CDT)
- Re: How to contribute to VMD? (Wed Jul 09 2014 - 13:33:15 CDT)
- Re: tcl script (Tue Jul 08 2014 - 11:27:51 CDT)
- Re: residue within x of <geometric centre> (Sun Jul 06 2014 - 16:02:34 CDT)
- Re: Which function for animate speed (Fri Jun 27 2014 - 10:52:24 CDT)
- Re: tachyon renderer syntax (Fri Jun 27 2014 - 10:37:00 CDT)
- Re: what is the center of rotation for the transformation matrix obtained by "measure fit" command? (Fri Jun 27 2014 - 10:15:58 CDT)
- Re: any way to rotate and translate with mouse without changing modes? (Wed Jun 25 2014 - 10:49:48 CDT)
- Re: regarding .vmdrc file (Tue Jun 17 2014 - 02:10:24 CDT)
- Re: Re: Hydrogen bond occupancy (Wed Jun 04 2014 - 22:09:45 CDT)
- Re: NAMD energy plugin (Wed Jun 04 2014 - 13:54:51 CDT)
- Re: membrane generation question (Tue Jun 03 2014 - 13:32:21 CDT)
- Re: psfgen-reading residues above 10 thousand (Fri May 30 2014 - 07:08:27 CDT)
- Re: Re: Hydrogen bond occupancy (Fri May 30 2014 - 07:11:42 CDT)
- Re: Calculating RMSF for a lot of trajectories (Thu May 29 2014 - 13:22:25 CDT)
- Re: psfgen-reading residues above 10 thousand (Thu May 29 2014 - 08:46:30 CDT)
- Re: Select atoms within certain distance of vertical symmetry axis (Tue May 20 2014 - 17:39:09 CDT)
- Re: REï¼š proper enviroment for the VMD namdenergy plugin (Sun May 18 2014 - 16:11:45 CDT)
- Re: default representations for multiple molecules (Thu May 15 2014 - 17:49:51 CDT)
- Re: Trajectory from multiple .gro files (Mon May 12 2014 - 09:40:55 CDT)
- Re: choosing an optimal workstation video card for VMD (Tue May 06 2014 - 12:48:05 CDT)
- Re: number of water molecules within 5 angstroms of the ligand (Mon May 05 2014 - 14:06:43 CDT)
- Re: How do i merge files with mergemols (Fri Apr 25 2014 - 10:29:15 CDT)
- Re: alchemical transformations (Mon Apr 21 2014 - 10:24:57 CDT)
- Re: printf in tcl script (Fri Apr 18 2014 - 17:49:32 CDT)
- Re: convert AMBER format file to CHARMM format file or NAMD format file (Thu Apr 17 2014 - 10:27:43 CDT)
- Re: convert AMBER format file to CHARMM format file or NAMD format file (Wed Apr 16 2014 - 14:29:44 CDT)
- Re: How do i merge files with mergemols (Wed Apr 16 2014 - 11:04:15 CDT)
- Re: how to control the superposition (measure fit) ? (Sat Apr 12 2014 - 09:37:43 CDT)
- Re: how to control the superposition (measure fit) ? (Fri Apr 11 2014 - 10:29:18 CDT)
- Re: how to control the superposition (measure fit) ? (Fri Apr 11 2014 - 09:28:15 CDT)
- Re: generatei psf file for a dimer protein (Tue Apr 01 2014 - 09:30:24 CDT)
- Re: cant find output file from tachyon render. (Thu Mar 27 2014 - 13:12:33 CDT)
- Re: Re: impropers dropped when using psfgen (Mon Mar 24 2014 - 11:13:55 CDT)
- Re: impropers dropped when using psfgen (Fri Mar 21 2014 - 14:18:07 CDT)
- Re: psfgen, adding residues with command "residue" (Wed Mar 19 2014 - 18:39:10 CDT)
- Re: Writing dcd/pdb file of selection from NAMD velocity dcd file (Wed Mar 19 2014 - 17:35:41 CDT)
- Re: psfgen, adding residues with command "residue" (Wed Mar 19 2014 - 14:01:37 CDT)
- Re: radial pair distribution function (Tue Mar 11 2014 - 22:00:13 CDT)
- Re: distance selection (Fri Mar 07 2014 - 14:19:02 CST)
- Re: Mutate Residue Extension (Tue Mar 04 2014 - 20:28:34 CST)
- Re: Mutate Residue Extension (Tue Mar 04 2014 - 15:39:16 CST)
- Re: Writing new coordinates to file. (Tue Mar 04 2014 - 13:27:36 CST)
- Re: Writing new coordinates to file. (Tue Mar 04 2014 - 13:01:17 CST)
- Re: Writing new coordinates to file. (Mon Mar 03 2014 - 16:27:05 CST)
- Re: Atom selection to identify residues that clash (Tue Feb 25 2014 - 21:44:09 CST)
- Re: psfgen and unknown residue types (Mon Feb 24 2014 - 18:05:26 CST)
- Re: psfgen and unknown residue types (Mon Feb 24 2014 - 15:14:09 CST)
- Re: psfgen and unknown residue types (Mon Feb 24 2014 - 11:20:10 CST)
- Re: Atom selection to identify residues that clash (Sat Feb 22 2014 - 17:49:43 CST)
- Re: coordinates: visual and in-file (Wed Feb 19 2014 - 00:18:03 CST)
- Re: AW: namd-l: Solvation in non standard solvent (Fri Feb 14 2014 - 12:41:36 CST)
- Re: Modulus atom selection (Wed Feb 12 2014 - 17:16:06 CST)
- Re: VMD can't read 1OXY (Tue Feb 11 2014 - 09:42:22 CST)
- Re: self-diffusion coefficient from RMSD (Mon Feb 03 2014 - 19:04:56 CST)
- Re: self-diffusion coefficient from RMSD (Thu Jan 30 2014 - 08:12:14 CST)
- Re: VMD crash on large DCD files. (Wed Jan 29 2014 - 14:50:06 CST)
- Re: psfgen error for Argon atoms (Mon Jan 27 2014 - 11:41:08 CST)
- Re: psfgen error for Argon atoms (Sun Jan 26 2014 - 16:29:06 CST)
- Re: FATAL ERROR: UNABLE TO FIND DIHEDRAL PARAMETERS FOR NH3 CT1 CT2A CT2 (ATOMS 1 5 7 10) (Thu Jan 23 2014 - 15:12:34 CST)
- Re: select and save every X atom (Tue Jan 21 2014 - 16:16:13 CST)
- Re: merging multiple structures (Wed Jan 15 2014 - 14:08:56 CST)
- Re: Display APBS on Solvent Accessible Surface (Thu Jan 09 2014 - 16:36:59 CST)
- Re: Surface Area Calculation (Tue Jan 07 2014 - 14:22:10 CST)
- Re: Issues with tachyon internal renderer (Fri Jan 03 2014 - 16:13:15 CST)
- Re: Unit of RMSF calculated by measure (Mon Dec 16 2013 - 09:29:33 CST)
- Re: vmd-1.9.1 broken after upgrade to Ubuntu 13.10 (Sun Dec 08 2013 - 15:01:36 CST)
- Re: Domain Error while using ParseFEP plugin (Tue Dec 03 2013 - 10:08:48 CST)
- Re: vmd-1.9.1 broken after upgrade to Ubuntu 13.10 (Tue Nov 26 2013 - 18:42:09 CST)
- Re: issue with ppmtompeg movie making (Thu Nov 14 2013 - 13:16:36 CST)
- Re: Re: Depicting hydrogen bonds between water and residues (Tue Nov 12 2013 - 08:42:11 CST)
- Re: Problems with large solvation boxes (Mon Nov 11 2013 - 15:55:34 CST)
- Re: generate parameter and topology file (Mon Nov 04 2013 - 16:35:20 CST)
- Re: How to prevent psfgen from adding atoms (Fri Nov 01 2013 - 13:01:03 CDT)
- Re: Hydrogen Bond Calculation in VMD for DNA in VMD (Tue Oct 29 2013 - 09:57:38 CDT)
- Re: writing PDB (Thu Oct 24 2013 - 17:03:50 CDT)
- Re: fftk-charges (Mon Oct 21 2013 - 14:50:44 CDT)
- Re: writepsf method of atomselect objects generates bad atom types (Wed Oct 16 2013 - 14:37:33 CDT)
- Re: clipping plane (Wed Oct 09 2013 - 17:08:15 CDT)
- Re: namdenergy fulldirect (Fri Oct 04 2013 - 16:04:40 CDT)
- Re: Creating very large solvation boxes (Wed Oct 02 2013 - 19:47:40 CDT)
- Re: convert dcd file to xyz (Wed Oct 02 2013 - 13:24:13 CDT)
- Re: ffTK dihedral fitting question and cmap derivation (Wed Oct 02 2013 - 09:00:54 CDT)
- Re: RE: get resisue names from atom index number (Mon Sep 30 2013 - 10:10:17 CDT)
- Re: Hbonds color in VMD (Mon Sep 16 2013 - 10:34:05 CDT)
- Re: regd arrangment of atom types in psf and par from fftk (Sun Sep 15 2013 - 17:04:51 CDT)
- Re: Hbonds color in VMD (Sun Sep 15 2013 - 17:11:27 CDT)
- Re: Problem in buried surface area calculation (Tue Aug 27 2013 - 10:34:32 CDT)
- Re: problem with building psf file (Mon Aug 26 2013 - 15:38:04 CDT)
- Re: problem with building psf file (Mon Aug 26 2013 - 12:17:44 CDT)
- Re: problem with building psf file (Sun Aug 25 2013 - 16:34:44 CDT)
- Re: gofr CUDA in script (Fri Aug 09 2013 - 19:38:37 CDT)
- Re: Considering special bonds not all of bonds, (Wed Aug 07 2013 - 15:15:45 CDT)
- Re: Considering special bonds not all of bonds, (Wed Aug 07 2013 - 14:28:46 CDT)
- Re: VMD Mutate to nonstandard amino acid residue (Tue Aug 06 2013 - 17:45:18 CDT)
- Re: Segmentation fault (core dumped) (Thu Aug 01 2013 - 16:52:19 CDT)
- Re: Problem with autoionize plugin and long atomtypes (Mon Jul 29 2013 - 12:35:01 CDT)
- Re: How can I easily show ball and stick residues across all molecules and representations? (Thu Jul 18 2013 - 19:48:04 CDT)
- Re: Movies in VMD (Wed Jul 10 2013 - 15:01:07 CDT)
- Re: Water interaction generation step in ffTK (Tue Jul 09 2013 - 16:02:24 CDT)
- Re: manipulation of atomselections (Fri Jul 05 2013 - 17:12:43 CDT)
- Re: center of mass (Fri Jul 05 2013 - 13:37:32 CDT)
- Re: calculating distance between center of mass of two set of residues (Thu Jun 27 2013 - 14:29:11 CDT)
- Re: load speed of dcds (Tue Jun 25 2013 - 21:11:01 CDT)
- Re: Atom Selection & List Generation (Thu Jun 20 2013 - 16:13:25 CDT)
- Re: Atom Selection & List Generation (Wed Jun 19 2013 - 15:29:41 CDT)
- Re: Atom Selection & List Generation (Mon Jun 17 2013 - 18:37:43 CDT)
- Re: Problem with writepsf and CGenFF long atomtypes (Thu Jun 13 2013 - 14:16:46 CDT)
- Re: autopsf (Tue Jun 04 2013 - 11:55:58 CDT)
- Re: autopsf (Wed May 29 2013 - 07:52:53 CDT)
- Re: Error when compiling plugins: tcl.h not found (Tue May 14 2013 - 12:38:42 CDT)
- Re: convert pdb file from angstorm to nm units (Tue May 07 2013 - 17:26:52 CDT)
- Re: convert pdb file from angstorm to nm units (Tue May 07 2013 - 15:09:09 CDT)
- Re: cannot ionize coarse-grained system (Wed May 01 2013 - 15:40:40 CDT)
- Re: Detecting Custom "h-bonds" (Thu Apr 25 2013 - 19:07:30 CDT)
- Re: Detecting Custom "h-bonds" (Thu Apr 25 2013 - 17:53:44 CDT)
- Re: Detecting Custom "h-bonds" (Thu Apr 25 2013 - 17:39:51 CDT)
- Re: Detecting Custom "h-bonds" (Thu Apr 25 2013 - 14:51:15 CDT)
- Re: VMD: Mutator --> ASP to ASN problems (Tue Apr 23 2013 - 17:49:23 CDT)
- Re: how vmd return actual vector for given atom (Tue Apr 23 2013 - 10:21:03 CDT)
- Re: No bonds in the generated psf file (Wed Apr 17 2013 - 18:32:56 CDT)
- Re: FATAL ERROR: UNKNOWN PARAMETER IN CHARMM PARAMETER FILE toppar_water_ions.str LINE=*set nat ?NATC* (Wed Apr 17 2013 - 17:57:01 CDT)
- Re: No bonds in the generated psf file (Wed Apr 17 2013 - 17:34:14 CDT)
- Re: Improper parameters for CNT (Sun Apr 14 2013 - 17:38:37 CDT)
- Re: how to convert dcd AND ALIGN molecules then to pdbs in command line (Wed Apr 10 2013 - 11:10:03 CDT)
- Re: how to convert dcd to pdbs in command line (Tue Apr 09 2013 - 20:06:05 CDT)
- Re: how to convert dcd to pdbs in command line (Tue Apr 09 2013 - 09:25:07 CDT)
- Re: Merge Protein/Small Molecule psf/pdb (Mon Apr 08 2013 - 18:18:59 CDT)
- Re: complex buried area (Wed Apr 03 2013 - 12:58:51 CDT)
- Re: FFTK bond optimization +idlepoll request (Sun Mar 31 2013 - 14:14:42 CDT)
- Re: Error with NAMD Energy (Thu Mar 28 2013 - 17:19:01 CDT)
- Re: Error with NAMD Energy (Thu Mar 28 2013 - 16:57:04 CDT)
- Re: problems aligning two simillar structures (Tue Mar 26 2013 - 15:16:46 CDT)
- Re: Fwd: FFTK plugin, Water Inter issue (Tue Mar 26 2013 - 13:48:40 CDT)
- Re: atomselect within a loop (Mon Mar 18 2013 - 13:29:23 CDT)
- Re: Calculating rdfs without the VMD gui (Wed Mar 13 2013 - 19:03:32 CDT)
- Re: Calculating rdfs without the VMD gui (Wed Mar 13 2013 - 15:15:18 CDT)
- Re: transparent material: set different opacity (Fri Mar 08 2013 - 09:18:28 CST)
- Re: Radial pair distribution function (Fri Mar 01 2013 - 09:49:31 CST)
- Re: measure fit rotation matrix convention (Tue Feb 26 2013 - 09:34:01 CST)
- Re: edit pdb file (Wed Feb 20 2013 - 19:27:45 CST)
- Re: select by residue (Mon Feb 18 2013 - 12:58:36 CST)
- Re: Spring script not working (Mon Feb 18 2013 - 09:11:48 CST)
- Re: making time lapse video (Fri Feb 15 2013 - 09:03:28 CST)
- Re: NameError: name 'AtomSel' is not defined (Mon Jan 28 2013 - 14:12:43 CST)
- Re: Dynamic bond representations (Tue Jan 22 2013 - 18:18:52 CST)
Josh Ward
- Re: TCL atomselect bug (Tue Mar 29 2005 - 14:47:27 CST)
- Re: TCL atomselect bug (Tue Mar 29 2005 - 09:36:39 CST)
- TCL atomselect bug (Thu Mar 24 2005 - 15:49:44 CST)
- Re: Webpdb crashing (Fri Apr 16 2004 - 11:43:18 CDT)
- Re: Webpdb crashing (Fri Apr 16 2004 - 11:57:58 CDT)
- Re: Webpdb crashing (Fri Apr 16 2004 - 11:59:18 CDT)
- Webpdb crashing (Fri Apr 16 2004 - 09:24:41 CDT)
- COR plugin for SGI (Fri Mar 05 2004 - 08:27:57 CST)
- Color error on loading (Tue Mar 02 2004 - 14:30:51 CST)
- CHARMM CRD files: COR plugin (Fri Dec 12 2003 - 14:52:22 CST)
Joshua A. Anderson
- Re: Re: CUDA driver for Mac OS X 10.7 on Late 2008 13 inch Macbook with NVIDA GeForce 9400M 256 MB ? (Wed Jan 25 2012 - 14:50:27 CST)
- Re: Re: CUDA driver for Mac OS X 10.7 on Late 2008 13 inch Macbook with NVIDA GeForce 9400M 256 MB ? (Thu Jan 19 2012 - 14:02:42 CST)
- Re: Re: CUDA driver for Mac OS X 10.7 on Late 2008 13 inch Macbook with NVIDA GeForce 9400M 256 MB ? (Thu Jan 19 2012 - 12:47:21 CST)
- Re: rlwrap problem on (Tue Nov 01 2011 - 13:46:10 CDT)
- Re: color trajectory using specific values rather than color scale (Mon Jun 27 2011 - 11:50:44 CDT)
- Re: X3DOM sphere resolution (Wed Apr 13 2011 - 11:34:52 CDT)
- X3DOM sphere resolution (Wed Apr 13 2011 - 07:09:37 CDT)
- Re: VMD 1.9 builds on MACOSXX86_64 (Fri Mar 25 2011 - 12:54:56 CDT)
- VMD 1.9 builds on MACOSXX86_64 (Tue Mar 22 2011 - 08:55:00 CDT)
- Re: GLSL with ATI 5750 in Mac OS X 10.6 / 64-bit build (Thu Jan 27 2011 - 06:35:56 CST)
- GLSL with ATI 5750 in Mac OS X 10.6 / 64-bit build (Wed Jan 26 2011 - 14:17:05 CST)
- Re: maximum trajectory size? (Thu Sep 09 2010 - 06:50:43 CDT)
- Re: OSX 10.6 support? (Tue Aug 24 2010 - 07:00:36 CDT)
Joshua A. Speidel
- Periodic Images (Fri Mar 19 2004 - 14:10:07 CST)
Joshua Adelman
- Re: namdenergy: different results for single vs multiple frames (Tue Mar 12 2013 - 14:42:25 CDT)
- namdenergy: different results for single vs multiple frames (Tue Mar 12 2013 - 11:53:01 CDT)
- Re: VMD Tutorial Help (Tue Feb 26 2013 - 10:48:28 CST)
- Re: Getting trajectories from DCD files? (Sun Sep 23 2012 - 19:01:42 CDT)
- Re: problem with catdcd (Sun Feb 12 2012 - 08:38:22 CST)
- Re: to use tcl script in command line (Thu Dec 08 2011 - 07:32:08 CST)
- Re: Server for structural models of the unfolded state of proteins (Fri Feb 25 2011 - 20:53:53 CST)
- Re: removing all water molecules (Thu Jan 27 2011 - 08:24:09 CST)
- Re: orientation of protein molecule (Wed Jan 05 2011 - 19:59:46 CST)
- Re: regarding counting water molecules (Wed Dec 22 2010 - 07:26:33 CST)
- Re: selection of amino acids with certain distance each others (Sun Dec 19 2010 - 15:00:40 CST)
- Re: delete water molecules (Sat Dec 18 2010 - 09:07:59 CST)
- Re: delete water molecules (Fri Dec 17 2010 - 10:31:41 CST)
- Re: Water molecules within a definite radius (Mon Nov 15 2010 - 17:06:05 CST)
- Re: Script for counting water molecules (Mon Nov 08 2010 - 15:26:02 CST)
- Re: regarding merging of protein and a ligand (Sat Nov 06 2010 - 18:03:19 CDT)
- Re: Regarding merging of two files (Wed Nov 03 2010 - 13:44:08 CDT)
- Re: PCA analysis of NAMD dcd files (Tue Oct 19 2010 - 07:30:16 CDT)
- Re: write pdbs of selected frames of a trajectory (Wed Sep 22 2010 - 15:52:11 CDT)
- Re: visualizing small molecule in a trajectory file .trr and .gro using VMD (Sat Jun 05 2010 - 08:16:16 CDT)
- Re: namd-l: Error in running minimization (Fri May 21 2010 - 07:56:06 CDT)
- Re: namd gui problem (Tue May 11 2010 - 07:26:58 CDT)
- Re: (Mon Mar 15 2010 - 19:56:04 CDT)
- Re: superimposed structure (Tue Dec 15 2009 - 07:15:52 CST)
- Re: About "Visualization and Analysis of CPMD data with VMD" tutorial (Thu Dec 10 2009 - 05:29:17 CST)
- Re: porcupine plots for PC1 (Mon Dec 07 2009 - 06:49:11 CST)
- Re: porcupine plots for PC1 (Sun Dec 06 2009 - 15:22:06 CST)
- Re: Move molecule to the origin of coordinate system (Wed Nov 25 2009 - 12:46:13 CST)
- Re: parent molecule (Wed Nov 18 2009 - 11:43:00 CST)
- Re: polymer bead spring model file format (Wed Nov 18 2009 - 06:48:36 CST)
- Re: parent molecule (Sun Nov 15 2009 - 07:06:58 CST)
- Re: parent molecule (Sat Nov 14 2009 - 07:47:23 CST)
- Solvate-GUI Problem: Collapses Solvent to Origin (Mon Oct 26 2009 - 20:03:37 CDT)
- Re: MDFF sim Problem (Sat Oct 24 2009 - 22:42:12 CDT)
- Re: MDFF sim Problem (Sun Oct 18 2009 - 22:19:28 CDT)
- MDFF sim Problem (Fri Oct 16 2009 - 16:20:03 CDT)
Joshua Anderson
- Re: Issues using VMD 1.91. with CUDA on Mac OSX 10.9.1 (Tue Mar 04 2014 - 13:01:15 CST)
- Re: Which Linux distribution works best with Quadro cards? (Tue Jun 04 2013 - 06:40:06 CDT)
- Re: Color atoms (Mon Oct 01 2012 - 06:31:58 CDT)
- Re: Colouring atoms named with the same first letter (Fri Apr 16 2010 - 12:25:47 CDT)
- Re: Colouring atoms named with the same first letter (Fri Apr 16 2010 - 11:09:23 CDT)
- Re: Trouble building VMD 1.8.7 on Mac OS X (Thu Feb 04 2010 - 10:04:53 CST)
- Re: Trouble building VMD 1.8.7 on Mac OS X (Thu Feb 04 2010 - 07:26:10 CST)
- Trouble building VMD 1.8.7 on Mac OS X (Wed Feb 03 2010 - 15:39:52 CST)
Joshua D. Moore
- Re: VMD on Mac OS X, converter problem (Mon Oct 08 2012 - 10:39:31 CDT)
- Re: Rendering "draw text" in Povray (Thu Oct 04 2012 - 15:49:15 CDT)
- Rendering "draw text" in Povray (Thu Oct 04 2012 - 12:12:32 CDT)
- Re: VMD in Linux, assigning a variable using awk (Thu Sep 20 2012 - 14:56:41 CDT)
- VMD in Linux, assigning a variable using awk (Thu Sep 20 2012 - 13:44:04 CDT)
- Re: problem showing lammps dump files (Fri Sep 14 2012 - 13:36:44 CDT)
- Re: unwrapping long trajectories (Thu Jun 14 2012 - 12:34:40 CDT)
- 7th Industrial Fluid Properties Simulation Challenge (Wed May 23 2012 - 11:22:23 CDT)
- Re: Re: CUDA driver for Mac OS X 10.7 on Late 2008 13 inch Macbook with NVIDA GeForce 9400M 256 MB ? (Wed Jan 11 2012 - 19:09:50 CST)
- CUDA driver for Mac OS X 10.7 on Late 2008 13 inch Macbook with NVIDA GeForce 9400M 256 MB ? (Fri Dec 30 2011 - 19:07:05 CST)
- Re: CUDA driver for Mac OS X 10.7 on Late 2008 13 inch Macbook with NVIDA GeForce 9400M 256 MB ? (Fri Dec 30 2011 - 19:30:45 CST)
- Re: Change Color Scale (Wed Dec 21 2011 - 15:49:50 CST)
- Change Color Scale (Wed Dec 21 2011 - 13:57:10 CST)
- Re: Assign velocities so I can color by velocity (Mon Dec 19 2011 - 20:54:02 CST)
- Re: Assign velocities so I can color by velocity (Mon Dec 19 2011 - 12:26:57 CST)
- Assign velocities so I can color by velocity (Mon Dec 19 2011 - 10:48:36 CST)
- Re: convert .coor to pdb (Mon Sep 26 2011 - 09:12:09 CDT)
- Re: VMD on MacOSX 10.6 Snow Leopard: fast (Mon Aug 31 2009 - 22:20:51 CDT)
- Re: tinkerxyz (Sat Aug 29 2009 - 02:26:29 CDT)
- Re: using VMD 1.8.7 on a Mac (Mon Aug 24 2009 - 21:49:10 CDT)
- HRTEM (Fri Aug 07 2009 - 02:20:45 CDT)
- Re: pbcunwrap, DL_POLY v 3 (Wed May 09 2007 - 11:27:29 CDT)
- pbcunwrap, DL_POLY v 3 (Wed May 09 2007 - 01:37:14 CDT)
- Anyone have catdcd-4.0 for BlueGene? (Mon Jan 08 2007 - 15:34:09 CST)
- 64 bit NAMD on AIX and CatDCD (Sat Jan 21 2006 - 13:22:11 CST)
- Re: Can VMD add other solvent except water in system? (Mon Sep 26 2005 - 06:21:38 CDT)
- Re: Draw Bonds (Mon Aug 08 2005 - 14:48:05 CDT)
- Re: White background (Mon Jul 25 2005 - 17:03:08 CDT)
- Re: Re: namd-l: catdcd and dcdunitcell (Mon Jul 25 2005 - 14:16:16 CDT)
- Re: namd-l: catdcd and dcdunitcell (Fri Jul 22 2005 - 16:04:00 CDT)
- SPC/E Water Model and RigidBonds (Fri Jul 08 2005 - 15:46:41 CDT)
Joshua Dempster
- No native HOOMD xml support for Windows? (Mon Apr 14 2014 - 11:10:51 CDT)
Joshua Engelman
- Representation Selections (Mon Jul 30 2012 - 14:47:57 CDT)
Joshua Moore
- Re: RE: VMD Text Mode (Thu Mar 07 2019 - 23:33:35 CST)
Joshua Skootsky
- Re: Unable to use VMD1.9.1 binary (no CUDA) on Mac OSX 10.9.3 (Thu May 15 2014 - 21:51:17 CDT)
- Re: Using bigdcd (Thu May 15 2014 - 19:55:26 CDT)
- Re: number of water molecules within 5 angstroms of the ligand (Wed May 07 2014 - 07:22:04 CDT)
- Re: number of water molecules within 5 angstroms of the ligand (Tue May 06 2014 - 13:38:46 CDT)
Joshua Speidel
- Summing volumetric data within a sub-volume of a simulation cell (Thu Mar 02 2006 - 17:41:23 CST)
- Charmm expanded coordinate file format? (Thu Dec 22 2005 - 19:30:51 CST)
- aligntool docs?... (Tue Jan 21 2003 - 15:03:36 CST)
Josiah Zayner
- VMD Crashes on Windows Vista when trying to load more than 5000 steps (Mon Jul 19 2010 - 09:37:51 CDT)
JosÃ© VillalaÃn
- CAFE plugin (Wed Oct 13 2021 - 06:27:18 CDT)
- VMD. PSF and lone pairs (Thu Feb 11 2021 - 08:23:50 CST)
jouko_at_berkeley.edu
- Re: Large dcd file (Tue Jan 06 2009 - 22:32:51 CST)
- Large dcd file (Tue Jan 06 2009 - 16:31:46 CST)
jouko_at_uchicago.edu
- DPPC (Thu Jul 08 2010 - 22:21:25 CDT)
Jovana Stelkic
- Re: BFEE plugin error: 'measure center: bad weight sum would cause divide by zero' (Thu Apr 22 2021 - 13:34:48 CDT)
- BFEE plugin error: 'measure center: bad weight sum would cause divide by zero' (Thu Apr 22 2021 - 01:25:22 CDT)
joy tehrani
- Diffusion Constant (Wed Mar 12 2008 - 17:44:52 CDT)
- RMSD trajectory Tool (Thu Mar 06 2008 - 06:45:35 CST)
Joyce Tan
- cropping the missing residues from other PDB file (Mon Jun 13 2011 - 09:37:14 CDT)
- Adding missing residues (Thu Jun 09 2011 - 01:50:05 CDT)
- saving dcd with less frames (Tue Jun 07 2011 - 04:39:35 CDT)
- Re: only one model is displayed (Fri Feb 11 2011 - 10:50:31 CST)
- only one model is displayed (Fri Feb 11 2011 - 09:56:39 CST)
- Plotting potential energy (Thu Dec 09 2010 - 03:36:19 CST)
- Adding cadmium into protein (Wed Oct 20 2010 - 01:55:36 CDT)
- Re: problem at convert single trajectory frame to pdb (Tue Oct 19 2010 - 22:41:27 CDT)
- Re: problem at convert single trajectory frame to pdb (Tue Oct 19 2010 - 21:58:16 CDT)
- Re: problem at convert single trajectory frame to pdb (Tue Oct 19 2010 - 12:38:24 CDT)
- Re: problem at convert single trajectory frame to pdb (Tue Oct 19 2010 - 11:58:00 CDT)
- Re: problem at convert single trajectory frame to pdb (Tue Oct 19 2010 - 11:04:36 CDT)
- problem at convert single trajectory frame to pdb (Tue Oct 19 2010 - 10:36:43 CDT)
- protein breaks into parts after converting trajectory file to pdb file (Mon Sep 27 2010 - 04:58:48 CDT)
- Re: superimpose residues across several protein structures (Wed Sep 22 2010 - 10:20:00 CDT)
- superimpose residues across several protein structures (Wed Sep 22 2010 - 08:02:18 CDT)
- adding a metal ion (Tue Sep 21 2010 - 20:39:43 CDT)
Joyce Yang
- NAMD energy on dihedrals (Tue Sep 09 2014 - 10:38:00 CDT)
JoÃ£o M. Damas
- Fwd: Research Position at Acellera, Barcelona (Thu Nov 03 2016 - 08:26:49 CDT)
JoÃ£o Ribeiro
- Research Programmer for VMD/NAMD at UIUC (Tue Mar 12 2019 - 13:20:10 CDT)
- Re: qwikmd can't load pdb file, locate "P:/" drive (Tue Mar 05 2019 - 09:21:08 CST)
- Re: QwikMD and CUDA10 (Fri Feb 01 2019 - 08:59:31 CST)
- Re: QwikMD and CUDA10 (Thu Jan 31 2019 - 09:04:40 CST)
- Re: Parsing error in TkConsole (Wed Jan 02 2019 - 14:46:56 CST)
- Re: implicit membrane in QwikMD? (Tue Nov 27 2018 - 11:27:28 CST)
- Re: PSFgen failure (Mon Nov 12 2018 - 10:27:28 CST)
- Re: psfgen patching protein-ligand (Mon Nov 12 2018 - 09:35:10 CST)
- Re: AutoPSF error with glycana (end of segment error) (Mon Oct 22 2018 - 16:22:32 CDT)
- Re: psfgen patching protein-ligand (Mon Oct 22 2018 - 12:53:34 CDT)
- Re: AutoPSF error with glycana (end of segment error) (Mon Oct 22 2018 - 11:46:39 CDT)
- Re: AutoPSF error with glycana (end of segment error) (Mon Oct 22 2018 - 10:05:01 CDT)
- Re: psfgen patching protein-ligand (Tue Oct 16 2018 - 10:56:05 CDT)
- Re: psfgen patching protein-ligand (Tue Oct 16 2018 - 10:21:24 CDT)
- First "Hands-On" Workshop on Structural DNA Nanotechnology (Mon Sep 24 2018 - 09:13:30 CDT)
- Re: Enhanced Sampling and Free-Energy Calculations Lectures (Wed Sep 12 2018 - 08:56:28 CDT)
- Enhanced Sampling and Free-Energy Calculations Lectures (Mon Sep 10 2018 - 12:02:42 CDT)
- Re: Atomselection with the position selected conditions inside the loop is not working properly (Thu Aug 16 2018 - 08:23:51 CDT)
- Research Programmers Positions Available (Fri Aug 10 2018 - 13:30:28 CDT)
- "Hands-on" Workshop on Enhanced Sampling and Free-Energy Calculation at Urbana, IL, September 10-14, 2018 (Mon Jul 30 2018 - 16:15:45 CDT)
- Re: Problem with QwikMD and glycans (Thu Jul 05 2018 - 13:28:00 CDT)
- Re: Membrane Protein Tutorial Bug (Thu Jul 05 2018 - 13:01:24 CDT)
- Re: namd-l: Strange Bond Behavior Question (Fri Jun 22 2018 - 16:08:07 CDT)
- Re: Solvation using Charmm36 TIP3P (Fri Jun 22 2018 - 09:07:03 CDT)
- Re: Atom Selections in QwikMD (Thu Jun 21 2018 - 10:03:44 CDT)
- Re: QwikMD Restraints Question (Wed Jun 20 2018 - 17:56:49 CDT)
- Re: Atom Selections in QwikMD (Wed Jun 20 2018 - 17:06:36 CDT)
- Re: Protein mutation issues (Wed Jun 13 2018 - 09:24:26 CDT)
- Re: How autoionzie plugin works? (Tue May 22 2018 - 14:18:21 CDT)
- Re: How autoionzie plugin works? (Tue May 22 2018 - 13:43:05 CDT)
- Re: How autoionzie plugin works? (Tue May 22 2018 - 13:25:25 CDT)
- Re: Re: FFTK Tutorial Charge Opt Question (Mon May 21 2018 - 13:47:15 CDT)
- Re: Re: FFTK Tutorial Charge Opt Question (Mon May 21 2018 - 09:45:36 CDT)
- Re: QwikMD Add Topo+Param Question (Mon May 21 2018 - 09:57:49 CDT)
- Re: QwikMD - psfgen: patch and autogenerate (Fri May 04 2018 - 17:09:55 CDT)
- Re: Unable to load molecule (Thu May 03 2018 - 08:28:48 CDT)
- Re: NAMD Developer Workshop at Urbana IL, June 11-12, 2018 (Wed May 02 2018 - 09:17:31 CDT)
- NAMD Developer Workshop at Urbana IL, June 11-12, 2018 (Tue Apr 24 2018 - 08:57:57 CDT)
- Re: problem with adding ions (Fri Apr 20 2018 - 12:57:04 CDT)
- TCBG Workshop lecture videos (Sat Apr 07 2018 - 10:45:12 CDT)
- "'Hands-on" Workshop on Computational Biophysics at Pittsburgh, PA, May 21-25, 2018 (Fri Mar 16 2018 - 15:47:15 CDT)
- Re: "Hands-On" Workshop on QM/MM Simulations at Urbana, IL, April 5-7, 2018 (Tue Feb 27 2018 - 08:08:16 CST)
- NAMD Developer Workshop at Urbana IL, June 11-12, 2018 (Wed Feb 07 2018 - 10:46:41 CST)
- "Hands-On" Workshop on QM/MM Simulations at Urbana, IL, April 5-7, 2018 (Wed Feb 07 2018 - 10:44:57 CST)
- "Hands-on" Workshop on Enhanced Sampling and Free-Energy Calculation at Urbana, IL, September 10-14, 2018 (Wed Feb 07 2018 - 10:46:51 CST)
- Re: VMD interface and TkConsole font (Fri Dec 08 2017 - 08:47:09 CST)
- Re: VMD installation (Mon Sep 18 2017 - 07:39:09 CDT)
- Re: Error while using Alanine Scanning Plugin (Fri Sep 01 2017 - 08:19:06 CDT)
- Re: Error while using Alanine Scanning Plugin (Thu Aug 31 2017 - 09:57:41 CDT)
- Re: Protein move out of the water box in a QwikMD setup MD simulation using explicit solvent condition (Thu Jul 27 2017 - 12:42:39 CDT)
- Re: mol pdbload failing (Wed Jul 26 2017 - 08:29:15 CDT)
- "Hands-on" Workshop on Enhanced Sampling and Free-Energy Calculation at Urbana, IL (Mon Jul 17 2017 - 14:45:43 CDT)
- "Hands-on" Workshop on Enhanced Sampling and Free-Energy Calculation at Urbana, IL (Tue Jun 27 2017 - 13:46:57 CDT)
- Re: Atoms moving too fast (Thu May 25 2017 - 08:37:59 CDT)
- NAMD developer workshop - Chicago, May 22-23, 2017 (Tue Apr 25 2017 - 07:45:59 CDT)
- NAMD developer workshop - Chicago, May 22-23, 2017 (Tue Apr 18 2017 - 07:45:04 CDT)
- TCBG Live Computational Biophysics Workshop Lectures (Mon Apr 17 2017 - 09:13:24 CDT)
- Re: Fwd: vmd-1 (Tue Apr 11 2017 - 07:50:39 CDT)
- TCBG Live Computational Biophysics Workshop Lectures (Mon Apr 10 2017 - 08:24:13 CDT)
- Re: Problems of generating the psf file with a protein that has a structural calcium (Thu Apr 06 2017 - 19:13:34 CDT)
- Re: namd-l: psfgen giving wrong structure in the autopdb file (Thu Apr 06 2017 - 19:06:36 CDT)
- Re: Problems of generating the psf file with a protein that has a structural calcium (Thu Apr 06 2017 - 18:44:37 CDT)
- NAMD Developer Workshop at Chicago IL, May 22-23, 2017 (Thu Apr 06 2017 - 08:18:23 CDT)
JoÃ£o Ribeiro KS
- Re: Volarea command line options (Wed Mar 22 2017 - 14:46:08 CDT)
- Hands-On Workshop on Computational Biophysics: May 30 - June 2 in Pittsburgh, PA (Wed Mar 22 2017 - 10:15:41 CDT)
- Re: Restart after press Finish in QwikMD simulation (Tue Mar 14 2017 - 07:35:06 CDT)
- Re: Restart after press Finish in QwikMD simulation (Tue Mar 14 2017 - 07:18:16 CDT)
- Re: Localhost port 3000 error (Thu Mar 09 2017 - 07:29:49 CST)
- Re: Localhost port 3000 error (Wed Mar 08 2017 - 15:32:02 CST)
- Re: Localhost port 3000 error (Tue Mar 07 2017 - 17:25:26 CST)
- Workshop on Computational Biophysics, Urbana, IL: Application Deadline March 10th (Sat Mar 04 2017 - 15:55:57 CST)
- Re: Error Running NAMD (Tue Feb 28 2017 - 07:56:40 CST)
- NAMD developer workshop at Chicago IL, May 22-23, 2017 (Fri Feb 24 2017 - 19:23:08 CST)
- Re: Hands-On Workshop on Computational Biophysics: April 17-21 in Urbana, IL (Fri Feb 24 2017 - 09:12:05 CST)
- Re: Error Running NAMD (Thu Feb 23 2017 - 11:52:13 CST)
- Hands-On Workshop on Computational Biophysics: April 17-21 in Urbana, IL (Fri Feb 17 2017 - 16:57:08 CST)
- Re: Binding affinity simulation of a mutation structure. (Sun Feb 12 2017 - 23:32:52 CST)
- Re: Error Running NAMD (Fri Feb 10 2017 - 13:42:33 CST)
- Re: Error Running NAMD (Fri Feb 10 2017 - 09:52:29 CST)
- Re: Error Running NAMD (Fri Feb 10 2017 - 07:23:23 CST)
- Re: Automate QwikMD? (Tue Dec 20 2016 - 17:19:22 CST)
- Re: qwikmd, some dropdown menus missing (Tue Nov 29 2016 - 08:24:48 CST)
- Re: qwikmd, some dropdown menus missing (Mon Nov 28 2016 - 07:40:33 CST)
- Re: What is the reasonable GPU usage when running simulation in VMD? (Thu Nov 17 2016 - 08:41:03 CST)
- Re: QwikMD and platform choice (Thu Sep 29 2016 - 10:44:23 CDT)
- Re: How to choose a ligand conformation to generate a CgenFF parameter (Fri Sep 02 2016 - 09:31:02 CDT)
- Re: QwikMD/IMD Error connecting to localhost on port 3000 (Tue Jun 28 2016 - 08:51:15 CDT)
- Re: DNA mutation (Mon Mar 21 2016 - 11:33:43 CDT)
João Ribeiro
- Re: Volarea (Fri Oct 18 2013 - 08:44:54 CDT)
- New Multi-platform Surface and volume Calculator (Mon Jul 04 2011 - 16:06:53 CDT)
jrhau lung
- Re: Re: Error with initiation of additional production simulation using Qwikmd (Thu Jul 30 2020 - 18:44:45 CDT)
- Re: Error with initiation of additional production simulation using Qwikmd (Thu Jul 30 2020 - 06:48:11 CDT)
- Error with initiation of additional production simulation using Qwikmd (Mon Jul 27 2020 - 04:19:54 CDT)
- QwikMD problem to continue new production simulation session (Mon Jul 06 2020 - 18:33:57 CDT)
- EPYC and GTX selection for VMD and NAMD (Fri Jul 03 2020 - 06:33:35 CDT)
- Re: QwikMD and CUDA10 (Fri Feb 01 2019 - 17:33:45 CST)
- Re: QwikMD and CUDA10 (Thu Jan 31 2019 - 17:58:24 CST)
- QwikMD and CUDA10 (Thu Jan 31 2019 - 05:43:53 CST)
- Re: Need FFTK Help from Someone w/ Gaussian (Mon May 21 2018 - 19:22:37 CDT)
- Re: PDB Question (Mon Apr 23 2018 - 06:56:53 CDT)
- Re: Nonbond energy between 3 part (Tue Dec 12 2017 - 21:04:04 CST)
- Re: Nonbond energy between 3 part (Tue Dec 12 2017 - 22:04:57 CST)
- Re: Nonbond energy between 3 part (Tue Dec 12 2017 - 01:13:10 CST)
- Nonbond energy between 3 part (Mon Dec 11 2017 - 20:52:21 CST)
- 780Ti and NAMD2 (Wed Aug 30 2017 - 06:14:54 CDT)
- Protein move out of the water box in a QwikMD setup MD simulation using explicit solvent condition (Wed Jul 26 2017 - 20:37:32 CDT)
- Re: Extract coordinates from a pdb file (Mon Jun 12 2017 - 05:07:14 CDT)
- Need help in NAMD Energy plugin (Tue Apr 11 2017 - 20:03:14 CDT)
- Restart after press Finish in QwikMD simulation (Tue Mar 14 2017 - 04:08:04 CDT)
- Simulation the binding affinity between DNA or RNA with non-natural nucleic acid acid (Thu Feb 16 2017 - 02:59:41 CST)
- Binding affinity simulation of a mutation structure. (Sun Feb 12 2017 - 19:14:28 CST)
- Re: VMD 1.9.3 released! (Thu Dec 01 2016 - 02:04:04 CST)
- Re: What is the reasonable GPU usage when running simulation in VMD? (Thu Nov 17 2016 - 06:47:43 CST)
- What is the reasonable GPU usage when running simulation in VMD? (Wed Nov 16 2016 - 23:58:37 CST)
- Re: Error connecting to localhost on port 3000 and IMD connection ended unexpectedly; connection terminated. (Thu Oct 27 2016 - 06:19:56 CDT)
- Error connecting to localhost on port 3000 and IMD connection ended unexpectedly; connection terminated. (Thu Oct 27 2016 - 05:05:38 CDT)
- Re: Save work in the middle of chirality correction (Wed Oct 05 2016 - 20:17:05 CDT)
- Re: Save work in the middle of chirality correction (Wed Oct 05 2016 - 08:09:47 CDT)
- Re: Save work in the middle of chirality correction (Mon Oct 03 2016 - 09:33:48 CDT)
- Re: Save work in the middle of chirality correction (Mon Oct 03 2016 - 09:17:18 CDT)
- Re: Save work in the middle of chirality correction (Fri Sep 30 2016 - 17:32:37 CDT)
- Save work in the middle of chirality correction (Fri Sep 30 2016 - 02:35:43 CDT)
- Re: How to choose a ligand conformation to generate a CgenFF parameter (Fri Sep 02 2016 - 09:17:59 CDT)
- How to choose a ligand conformation to generate a CgenFF parameter (Fri Sep 02 2016 - 00:12:03 CDT)
- Re: Problem when loading 1QRA in QwiKMD (Thu Sep 01 2016 - 21:48:37 CDT)
- Problem when loading 1QRA in QwiKMD (Mon Aug 29 2016 - 19:18:27 CDT)
jrui_at_ci.uc.pt
- Re: complete residues within (Thu Mar 06 2008 - 03:02:28 CST)
- Re: couldn't fork child process: not enough memory (Fri Feb 22 2008 - 08:41:54 CST)
- Re: couldn't fork child process: not enough memory (Fri Feb 22 2008 - 05:13:16 CST)
- couldn't fork child process: not enough memory (Thu Feb 21 2008 - 13:47:06 CST)
- Re: Re: the script do not update the frame number for secondary structure analysis (Mon Feb 11 2008 - 04:55:39 CST)
- Re: the script do not update the frame number for secondary structure analysis (Mon Feb 11 2008 - 03:10:25 CST)
- Re: Re: Re: output of the ssrecalc command (Sat Feb 09 2008 - 08:53:39 CST)
- Re: Re: output of the ssrecalc command (Sat Feb 09 2008 - 07:03:45 CST)
- Re: output of the ssrecalc command (Sat Feb 09 2008 - 04:50:46 CST)
- Re: problem with sidechian representation (Mon Jan 21 2008 - 04:28:00 CST)
- psfgen crashes VMD (Thu Jun 06 2002 - 19:55:28 CDT)
- Problem with instalation process (Thu Jun 06 2002 - 19:03:09 CDT)
jsu_at_its.caltech.edu
- support for multi-frame XYZ files? (Mon Aug 25 2003 - 23:59:50 CDT)
JT
- Re: Color by position behavior (Sun Nov 29 2009 - 08:23:06 CST)
- Color by position behavior (Sun Nov 29 2009 - 02:59:31 CST)
- Re: Mac and cmd line (Mon Aug 24 2009 - 17:27:44 CDT)
- VMD 1.8.7 Beta 5 -- Possible bug when typing in the VMD menu boxes. (Mon Jun 01 2009 - 17:29:07 CDT)
- Re: Spaceball and OSX (Tue Apr 21 2009 - 13:15:22 CDT)
- Re: Spaceball and OSX (Tue Apr 21 2009 - 12:53:31 CDT)
- Spaceball and OSX (Tue Apr 21 2009 - 12:30:04 CDT)
- Re: Rendering electrostatic surface potentials using Tachyon (Thu Apr 09 2009 - 15:14:41 CDT)
- Re: too many bonds (Sun Apr 05 2009 - 03:06:17 CDT)
- Re: Posting messages to VMD-L truncates the empty spaces in lines (Tue Mar 17 2009 - 22:05:43 CDT)
- Re: Posting messages to VMD-L truncates the empty spaces in lines (Mon Mar 16 2009 - 20:31:09 CDT)
- Posting messages to VMD-L truncates the empty spaces in lines (Sun Mar 15 2009 - 18:58:01 CDT)
- Re: how to find the sign of the dihedral angle (full message). (Sat Mar 14 2009 - 03:21:33 CDT)
- Re: get a PDB file from DCD file (Tue Jan 27 2009 - 11:01:41 CST)
- Re: Re: How to change title of display window? (Mon Jan 26 2009 - 12:26:30 CST)
- Re: How to change title of display window? (Sun Jan 25 2009 - 20:09:35 CST)
Juan Alfredo Freites
- Re: configure do nothing (Linux) (Wed Mar 31 2004 - 12:04:28 CST)
- veclength (Mon Feb 16 2004 - 21:54:55 CST)
- Re: tcl question (Sat Feb 07 2004 - 12:28:18 CST)
- Re: remote display (Thu Dec 11 2003 - 12:28:18 CST)
- remote display (Sat Dec 06 2003 - 23:16:38 CST)
- unit cell (Mon Nov 10 2003 - 14:43:42 CST)
Juan Antonio Raygoza Garay
- Aminoacid selection (Sun Mar 24 2013 - 16:51:02 CDT)
- Re: protein secondary structure (Thu Mar 21 2013 - 19:54:27 CDT)
- protein secondary structure (Thu Mar 21 2013 - 16:42:25 CDT)
- Batch image creation (Fri Nov 04 2011 - 16:59:57 CDT)
Juan de Dios Lopez Castro
- error Autoimd (Thu Jun 15 2006 - 04:04:02 CDT)
- error. Autoimd (Thu Jun 01 2006 - 05:21:51 CDT)
Juan Diaz
- Correlation Functions (Tue Dec 12 2006 - 14:39:52 CST)
- Correlation Functions (Tue Dec 12 2006 - 13:29:49 CST)
Juan Felipe Ortiz
- RE: secondary structure works on linux, it doesn't work on Mac in certain structures (Sun Jul 07 2013 - 18:26:14 CDT)
- secondary structure works on linux, it doesn't work on Mac in certain structures (Tue Jul 02 2013 - 11:24:06 CDT)
juan jesus sanchez sanchez
- how to put two identical proteins in a same water sphere? (Mon Aug 22 2011 - 13:06:12 CDT)
- problem merging two identical proteins (Wed May 18 2011 - 12:32:09 CDT)
Juan R. Perilla
- Two postdoctoral positions available at the computational core of the Pittsburgh Center for HIV Protein Interactions External (Thu Jun 08 2023 - 08:37:45 CDT)
- Permanent position Research Software HPC Engineer at the University of Delaware (Thu Jul 14 2022 - 09:19:01 CDT)
- Postdoctoral researcher position in computational virology. (Mon Aug 26 2019 - 10:32:44 CDT)
- Re: Problems with large solvation boxes (Thu Nov 21 2013 - 17:12:21 CST)
juan roman
- how to update the selection in NAMDEnergy (Tue Feb 08 2011 - 20:02:15 CST)
juan.velasquez
- Tachyon Render not working (Mon Apr 19 2021 - 04:58:18 CDT)
Jufang Shan
- Re: VMD crashes on displaying NewRibbons or New Cartoon (Wed Nov 12 2008 - 20:48:17 CST)
- VMD crashes on displaying NewRibbons or New Cartoon (Fri Oct 31 2008 - 10:13:32 CDT)
- membrane plugin | lipid structures (Fri Jul 25 2008 - 11:50:18 CDT)
- Re: measure sasa gives different results on different platforms (Thu May 08 2008 - 11:26:38 CDT)
- Re: measure sasa gives different results on different platforms (Wed May 07 2008 - 23:04:19 CDT)
- measure sasa gives different results on different platforms (Wed May 07 2008 - 15:52:47 CDT)
- Re: Re: monitor helicity change (Fri Feb 22 2008 - 11:37:55 CST)
- Re: monitor helicity change (Fri Feb 22 2008 - 11:40:52 CST)
- monitor helicity change (Thu Feb 21 2008 - 19:06:14 CST)
Julia Doh
- Re: TCL Callbacks (Wed Mar 30 2011 - 15:33:28 CDT)
- TCL Callbacks (Wed Mar 16 2011 - 13:45:31 CDT)
Julia Steckner
- Difficulty downloading databases for MultiSeq (Mon Jul 13 2020 - 11:34:50 CDT)
Julie Grouleff
- Extra bond in TIP3 water (Wed Mar 09 2011 - 04:56:53 CST)
- RE: VMD 1.9 beta 1 posted for download... (Thu Feb 17 2011 - 09:21:49 CST)
Julien Devemy
- VMD 2.0 Segmentation Fault on Ubuntu 24.04 and Containers (Tue Feb 25 2025 - 06:59:41 CST)
Julio Cantu
- Unable to access config file (Thu Dec 10 2015 - 17:36:05 CST)
Jumper, John
- Weighted RMS fit bug (Thu Feb 26 2009 - 12:21:15 CST)
jun
- about viewing charge density (Sun Apr 02 2006 - 14:00:58 CDT)
Jun Cheng
- Re: problem on making a movie (Wed Mar 16 2011 - 18:16:44 CDT)
- Re: problem on making a movie (Tue Mar 15 2011 - 08:42:09 CDT)
- Re: problem on making a movie (Fri Mar 11 2011 - 12:26:13 CST)
- Re: problem on making a movie (Fri Mar 11 2011 - 09:36:49 CST)
- problem on making a movie (Fri Mar 11 2011 - 04:42:34 CST)
- convert unformatted delphi phi to formatted (Wed Feb 10 2010 - 10:09:55 CST)
- cube file question (Fri Jan 09 2009 - 05:12:20 CST)
Jun Zhao
- the IR spetra calculation module - from MD trajectory (Sat Jan 01 2011 - 15:12:48 CST)
Jun-Chieh Wang
- format I should use if I have different total number of atoms for each timesteps (Thu Dec 11 2014 - 19:47:04 CST)
JunJun Liu
- where's the download link for one specific plugin? (Wed Jun 07 2006 - 12:26:41 CDT)
Jure Praznikar
- charmm binary ele. pot. (Sun Mar 08 2009 - 11:36:47 CDT)
Justin
- Running 64-bit Linux VMD in VMWare VM on Windows 8.1 64-bit Host Machine (Fri May 15 2015 - 04:16:16 CDT)
- Re: Unable to create OpenGL window for vmd starting (Mon Jun 20 2005 - 18:36:36 CDT)
- Re: Unable to create OpenGL window for vmd starting (Mon Jun 20 2005 - 11:52:52 CDT)
- Unable to create OpenGL window for vmd starting (Mon Jun 20 2005 - 10:57:55 CDT)
- Re: vmd version for solaris 8 (Mon Jun 20 2005 - 09:54:14 CDT)
- Fwd: Re: vmd version for solaris 8 (Sat Jun 18 2005 - 11:19:32 CDT)
- vmd version for solaris 8 (Fri Jun 17 2005 - 16:29:48 CDT)
Justin Gullingsrud
- Re: translations with fixed and unfixed molecules (Tue Apr 13 1999 - 13:37:00 CDT)
- Re: desmond plug-in error (Mon Nov 30 2009 - 16:35:13 CST)
- Re: ViewMaster and rendering (Thu Aug 02 2007 - 19:13:55 CDT)
- Re: question about measure contacts (Thu Aug 02 2007 - 15:16:01 CDT)
- Re: Python Module (Fri Jun 08 2007 - 09:43:50 CDT)
- Re: Writing pdb without chain identifier (Wed Dec 27 2006 - 20:57:25 CST)
- Re: Writing pdb without chain identifier (Wed Dec 27 2006 - 09:11:07 CST)
- Re: VMD using CygWin? (Wed Dec 20 2006 - 08:42:13 CST)
- Re: Ramachandran Map of 2 pdbs (Fri Sep 08 2006 - 14:50:35 CDT)
- Re: Matrix inverse (Tue Sep 05 2006 - 18:39:37 CDT)
- Re: some parameters for TIP3P (Fri Jul 21 2006 - 16:36:53 CDT)
- Re: python math library (Sun Apr 16 2006 - 21:32:48 CDT)
- Re: python math library (Wed Apr 12 2006 - 19:02:22 CDT)
- Re: How to efficiently update a surface (Tue Nov 29 2005 - 11:25:10 CST)
- Re: Uncharged terminal ends? (Mon Nov 21 2005 - 11:49:19 CST)
- Re: Uncharged terminal ends? (Sun Nov 20 2005 - 15:12:11 CST)
- Re: passing parameters to a tcl script (Sat Oct 01 2005 - 15:26:00 CDT)
- Re: Lipid Order Parameter (Fri Sep 23 2005 - 11:13:16 CDT)
- Re: Lipid Order Parameter (Wed Sep 21 2005 - 12:26:37 CDT)
- Re: Lipid Order Parameter (Wed Sep 21 2005 - 12:26:12 CDT)
- Re: setting different colors (Sun Aug 21 2005 - 15:55:04 CDT)
- Re: catdcd vs readdcd.h error checking (Fri Aug 19 2005 - 18:56:52 CDT)
- Re: Periodic boundary conditions (Thu Aug 18 2005 - 13:43:38 CDT)
- Re: display hexagonal periodic system (Wed Aug 10 2005 - 19:21:02 CDT)
- Re: Atom renumbering in DCD file (Tue Aug 09 2005 - 13:30:08 CDT)
- Re: Fitting trajectory frames to another molecule (Mon Jul 18 2005 - 20:22:51 CDT)
- Re: Python interface (was: Accessing TCL through Python interface) (Fri May 20 2005 - 14:30:06 CDT)
- Re: about tcl program and run tcl script in namd (Sat Apr 16 2005 - 16:42:52 CDT)
- Re: VMD and Interactive Essential Dynamics (IED) (Tue Mar 22 2005 - 11:40:52 CST)
- Re: GRD file format (Tue Mar 22 2005 - 11:44:16 CST)
- Re: GRD file format (Tue Mar 22 2005 - 13:24:26 CST)
- Re: # of waters limit (Tue Mar 22 2005 - 18:09:26 CST)
- Re: Display only side chains (Tue Mar 08 2005 - 10:33:32 CST)
- Re: [bigdcd.tcl] How to stream output to file (Thu Mar 03 2005 - 10:33:45 CST)
- Re: VMD, NAMD and Interactive Essential Dynamics (IED) (Tue Feb 22 2005 - 13:22:26 CST)
- Re: Calling Python hackers.... (Fri Feb 04 2005 - 17:50:58 CST)
- Re: prefferential adsorption analysis (Thu Feb 03 2005 - 12:41:25 CST)
- Re: prefferential adsorption analysis (Wed Feb 02 2005 - 11:41:19 CST)
- Re: Closing filehandles in vmd tcl script (Fri Jan 21 2005 - 01:28:42 CST)
- Re: Rotating and translating molecules .. (Wed Jan 19 2005 - 16:34:00 CST)
- Re: Rotating and translating molecules .. (Tue Jan 18 2005 - 20:56:22 CST)
- Re: Deleting atomselect selections for proper memory management (Wed Jan 12 2005 - 11:08:15 CST)
- Re: how to represent H-bonds between chain A and chain B using VMD (Wed Jan 05 2005 - 10:29:51 CST)
- Re: can I combine several dcd files into one dcd file? (Wed Jan 05 2005 - 10:30:56 CST)
- Re: Tube representation of alpha carbons (Wed Dec 08 2004 - 12:22:50 CST)
- Re: Re: namd-l: Writing pdb file.. easier way? (Tue Nov 23 2004 - 14:45:15 CST)
- Re: Solvate and VMD on OS X (Sat Nov 13 2004 - 12:25:45 CST)
- Re: VMD newbie question (Fri Nov 12 2004 - 00:28:22 CST)
- Re: writepdb and list problem (Thu Nov 11 2004 - 11:57:24 CST)
- Re: bridging_waters.tcl error and usage (Mon Nov 08 2004 - 13:04:00 CST)
- Re: bridging_waters.tcl error and usage (Mon Nov 08 2004 - 12:51:05 CST)
- Re: python2.3 and vmd (Fri Oct 29 2004 - 00:23:29 CDT)
- Re: Question about using psfgen on protein 4HVP (Tue Oct 26 2004 - 18:46:21 CDT)
- Re: python2.3 and vmd (Tue Oct 26 2004 - 18:38:05 CDT)
- Re: Changing the rotation and centering matrix of a molecule (Wed Oct 13 2004 - 13:29:24 CDT)
- Re: Align a PORTION of several structures (Thu Oct 14 2004 - 09:54:45 CDT)
- Re: Basic VMD questions... (Sun Oct 10 2004 - 10:19:17 CDT)
- Re: measure fit error?? (Sat Oct 09 2004 - 00:41:49 CDT)
- Re: CMAP and psfgen (Fri Oct 08 2004 - 14:57:48 CDT)
- Re: measure fit error?? (Fri Oct 08 2004 - 14:26:10 CDT)
- Re: Basic VMD questions... (Thu Oct 07 2004 - 22:02:22 CDT)
- Re: problems with vecdist in accepting variables (Tue Sep 21 2004 - 12:43:23 CDT)
- Re: Counting number of hydrogen bonds in the representation (Wed Sep 15 2004 - 07:30:39 CDT)
- Re: Protonated GLU/ASP in PSF generation (Sun Aug 29 2004 - 21:01:52 CDT)
- Re: analysis scripts: VMD text /batch mode (Tue Aug 10 2004 - 13:31:01 CDT)
- Re: How i can changue the charge of my protein (Mon Aug 02 2004 - 16:06:43 CDT)
- Re: "measure fit" inaccuracy? (Fri Jun 11 2004 - 10:07:54 CDT)
- Re: VMD: Potential Energy Calculation (Fri May 07 2004 - 12:49:37 CDT)
- Re: Selection problem on TkCon (Tue May 04 2004 - 15:07:44 CDT)
- Re: Selection problem on TkCon (Mon May 03 2004 - 10:46:33 CDT)
- Re: Selection problem on TkCon (Mon May 03 2004 - 03:35:50 CDT)
- Re: Memory leak using "moveby" command inside a loop (Thu Apr 15 2004 - 13:22:08 CDT)
- Re: How to save trajectory using Tcl commands? (Thu Apr 15 2004 - 14:05:59 CDT)
- Re: center selection problem (Sat Apr 10 2004 - 13:48:19 CDT)
- Re: TCL string operation (Sat Apr 03 2004 - 09:27:12 CST)
- Re: Adding Atoms in Colors Menu (Fri Apr 02 2004 - 10:18:01 CST)
- Re: draw command (Thu Apr 01 2004 - 11:17:30 CST)
- Re: VECSUB function (Tue Mar 30 2004 - 17:53:44 CST)
- Re: Atom typing (Tue Mar 30 2004 - 14:59:54 CST)
- Re: density profile (Tue Mar 16 2004 - 16:36:08 CST)
- Re: Sine Cosine (Sun Mar 14 2004 - 11:02:12 CST)
- Re: VMD as command line interface (Thu Mar 11 2004 - 09:25:32 CST)
- Re: Coloring based on POS (Thu Mar 11 2004 - 08:18:16 CST)
- Re: Coloring based on POS (Thu Mar 11 2004 - 08:23:31 CST)
- Re: numeric python (Mon Mar 08 2004 - 09:49:27 CST)
- Re: waters within hydrophobic pore of protein (Mon Mar 01 2004 - 03:35:20 CST)
- Re: veclength (Thu Feb 19 2004 - 12:45:52 CST)
- Re: adding bonds between segments (Thu Feb 19 2004 - 12:28:52 CST)
- Re: adding waters only in top of lipid (Thu Feb 19 2004 - 12:30:36 CST)
- Re: Apple VMD not showing gro file properly (Fri Feb 13 2004 - 09:50:21 CST)
- Re: Helical Tilt Angle (Wed Jan 28 2004 - 11:23:15 CST)
- Re: xplor vs. charmm PSF files / psfgen (Thu Dec 04 2003 - 01:17:52 CST)
- New version of CatDCD available (Thu Nov 20 2003 - 15:36:57 CST)
- Re: about resid (Thu Nov 20 2003 - 12:16:35 CST)
- Re: Naming in XmGrace (Wed Nov 19 2003 - 11:21:08 CST)
- Re: Naming in XmGrace (Tue Nov 18 2003 - 11:26:41 CST)
- Re: Reading in unit cell (Mon Nov 17 2003 - 22:15:14 CST)
- Re: secondary structure update (Fri Oct 31 2003 - 11:09:39 CST)
- Re: Running VTK from VMD's python (Thu Oct 30 2003 - 09:29:46 CST)
- Re: aminoacid mutation (Tue Oct 28 2003 - 10:55:42 CST)
- Re: opdating the selection during trajectory (Mon Oct 06 2003 - 09:24:48 CDT)
- Re: python support and pipes in vmd (Tue Sep 30 2003 - 16:48:47 CDT)
- Re: showing all vmd output (Thu Sep 18 2003 - 16:36:33 CDT)
- Re: simple question (Tue Sep 02 2003 - 19:35:05 CDT)
- Re: need urgent help (Sat Aug 30 2003 - 19:30:56 CDT)
- Re: need urgent help (Fri Aug 29 2003 - 23:04:00 CDT)
- Re: python question 2 (Mon Aug 25 2003 - 10:09:54 CDT)
- Re: python question (Sat Aug 23 2003 - 21:34:10 CDT)
- Re: python: cannot find library (Thu Aug 07 2003 - 09:40:55 CDT)
- Re: trajectory animation usign PBC (Wed Aug 06 2003 - 18:04:39 CDT)
- Re: python: cannot find library (Wed Aug 06 2003 - 11:18:20 CDT)
- Re: python: cannot find library (Wed Aug 06 2003 - 11:16:12 CDT)
- Re: Periodic images (Tue Jul 29 2003 - 11:38:15 CDT)
- Re: Reg: No. of Frames (Mon Jul 28 2003 - 13:40:12 CDT)
- Re: Re: maillist (Sun Jul 27 2003 - 23:58:21 CDT)
- Re: Some improvements for 1.8.2 (Sat Jul 26 2003 - 16:08:56 CDT)
- Re: Re: question on resname (Tue Jul 22 2003 - 21:13:50 CDT)
- Re: fitting (Thu Jul 10 2003 - 09:20:41 CDT)
- Re: Colouring (Wed Jun 18 2003 - 09:22:42 CDT)
- Re: Dihedral angle calculation! (Wed Jun 04 2003 - 12:29:43 CDT)
- Re: Dihedral angle calculation! (Wed Jun 04 2003 - 12:08:32 CDT)
- Re: Molecular dynamics order parameters (Tue May 20 2003 - 13:03:29 CDT)
- Re: Memory problems using the "move" command inside a loop! (Wed Apr 30 2003 - 17:56:32 CDT)
- Re: unit cell information (Mon Apr 28 2003 - 12:07:46 CDT)
- Re: Unit cell information in python and IMD interface code (Mon Mar 31 2003 - 12:12:22 CST)
- Re: Unit cell information in python and IMD interface code (Fri Mar 28 2003 - 12:03:31 CST)
- Re: drawing bonds (Tue Mar 25 2003 - 09:40:19 CST)
- Re: Memory problems with TCL scripts in VMD. (Fri Mar 21 2003 - 17:53:51 CST)
- Re: Color code (Thu Mar 20 2003 - 10:29:29 CST)
- Re: atomselect (Tue Mar 18 2003 - 16:52:12 CST)
- Re: atomselect (Tue Mar 18 2003 - 16:19:36 CST)
- Re: multiple cells representation (Mon Feb 24 2003 - 20:31:07 CST)
- Re: Quick question about 3-letter codes for positive residues (Wed Feb 19 2003 - 09:16:52 CST)
- Re: New user questions (Thu Feb 13 2003 - 12:29:00 CST)
- Re: remote_ctl.tcl: VMD's stdout -> socket ? (Wed Feb 12 2003 - 16:46:36 CST)
- Re: remote_ctl.tcl: VMD's stdout -> socket ? (Wed Feb 12 2003 - 16:43:19 CST)
- Re: Python callbacks (Mon Feb 10 2003 - 10:47:37 CST)
- Re: Compiling VMD-1.8 as a loadable python module (Thu Feb 06 2003 - 10:55:14 CST)
- Re: python: packages not found (Tue Feb 04 2003 - 10:50:35 CST)
- Re: [OT] pdb files with lots of residues (Thu Jan 30 2003 - 09:45:07 CST)
- Re: initial run by vmd on loading a trajectory (Wed Jan 29 2003 - 09:07:29 CST)
- Re: Cl ions (Thu Jan 16 2003 - 23:26:37 CST)
- Re: SHAKE/namd (Thu Jan 16 2003 - 23:23:33 CST)
- Re: VMD Representation (addition) (Sun Dec 29 2002 - 19:22:03 CST)
- Re: creating spherical water droplet (Fri Dec 27 2002 - 09:46:09 CST)
- Re: water model (Wed Dec 18 2002 - 21:59:12 CST)
- Re: smoothing from the command line (Sun Dec 15 2002 - 23:20:12 CST)
- Re: pdb format (Sun Dec 15 2002 - 23:07:05 CST)
- Re: interatomic distances (Mon Dec 09 2002 - 14:33:43 CST)
- Re: Fitting simple geometric objects to a molecule ? (Mon Dec 02 2002 - 09:19:55 CST)
- Re: hbonds during trajectorywith vmd 1.8beta (Mon Dec 02 2002 - 09:15:20 CST)
- Re: helices in coil (Wed Oct 30 2002 - 10:57:34 CST)
- Re: hydrogen bonding (Wed Oct 30 2002 - 10:54:13 CST)
- Re: Feature request for vmd 1.8 (Mon Oct 28 2002 - 09:53:56 CST)
- Re: Hydrophobicity (Sun Oct 06 2002 - 13:37:35 CDT)
- Re: VMD 1.8a28 bundle for MacOS X 10.2 available... (Fri Sep 27 2002 - 19:35:05 CDT)
- Re: Yes Another HPUX problem (Thu Sep 19 2002 - 10:37:08 CDT)
- Re: Drawing atom - atom bonds (Mon Sep 16 2002 - 09:44:49 CDT)
- Re: Getting history and file completion to work in vmd console ? (Fri Aug 30 2002 - 08:37:04 CDT)
- Re: Secondary structure (Fri Aug 23 2002 - 09:49:03 CDT)
- Re: Separate graphical objects? (Sat Aug 17 2002 - 12:01:07 CDT)
- Re: movie maker plugin doesn't load (Fri Aug 16 2002 - 11:07:18 CDT)
- Re: the same problem (Fri Aug 16 2002 - 08:56:28 CDT)
- Re: Separate graphical objects? (Thu Aug 15 2002 - 16:05:55 CDT)
- Re: selection question (Thu Aug 15 2002 - 08:51:05 CDT)
- Re: Question about dihedral angles in VMD. (Wed Aug 07 2002 - 15:29:38 CDT)
- Re: Adding labels, etc. (Sun Jul 14 2002 - 12:25:20 CDT)
- Re: residue rotation within single pdb file (Sun Jul 07 2002 - 11:21:13 CDT)
- Re: animation from files with different numbers of atoms (Sat Jun 22 2002 - 17:07:56 CDT)
- Re: TK script problem (Fri Jun 07 2002 - 09:32:02 CDT)
- Re: fiiting (Mon May 27 2002 - 12:25:44 CDT)
- Re: fiiting (Mon May 27 2002 - 10:24:14 CDT)
- Re: Write DCD (Tue May 14 2002 - 10:03:16 CDT)
- Re: pdb naming convention (Wed Apr 17 2002 - 10:26:39 CDT)
- Re: Linking with FLTK 1.1.0b12 (Tue Apr 09 2002 - 16:43:48 CDT)
- Re: Animation (Tue Apr 09 2002 - 14:36:36 CDT)
- Re: strange bond (Wed Apr 03 2002 - 10:46:09 CST)
- Re: python create graphics molecule (Tue Mar 26 2002 - 10:15:03 CST)
- Re: another trivial question regarding the key setting. (Mon Mar 25 2002 - 10:26:37 CST)
- Re: drawing bonds with vmd/python interface (Fri Mar 22 2002 - 11:55:45 CST)
- Re: create new colors (Fri Mar 08 2002 - 11:39:58 CST)
- Re: Access to Python libraries from Mandrake8.1 (Sun Mar 03 2002 - 03:16:34 CST)
- Re: Removing perspective projection at startup (Thu Feb 28 2002 - 11:19:35 CST)
- Re: AtomSel and Graphics (Sat Feb 23 2002 - 16:53:21 CST)
- Re: python script of atomsel expression (Tue Feb 19 2002 - 10:47:58 CST)
- Re: Python: radius always 1 for cylinder and cones (Wed Feb 06 2002 - 17:03:55 CST)
- Re: python disabled (Wed Jan 30 2002 - 14:51:03 CST)
- Re: bond length (Mon Jan 28 2002 - 11:32:36 CST)
- Re: up arrow for previous commands (with the command attached) (Sat Jan 19 2002 - 01:46:17 CST)
- Re: 2 questions (Wed Jan 09 2002 - 11:23:07 CST)
- OpenGL cards for workstations (Fri Jan 04 2002 - 17:05:36 CST)
- Re: rotating two superposed molecules (Sun Dec 16 2001 - 16:36:58 CST)
- Re: compiling problems (Mon Nov 26 2001 - 13:24:55 CST)
- Waiting for files to load in VMD (Fri Nov 09 2001 - 11:14:28 CST)
- Re: more animating trajectories (Thu Nov 08 2001 - 10:59:52 CST)
- Re: Making UIobjects (Thu Oct 25 2001 - 11:46:02 CDT)
- Re: memory problems (Sat Aug 25 2001 - 21:51:25 CDT)
- Re: problem with RMSD script (Sun Aug 19 2001 - 18:48:02 CDT)
- Re: 3 simple questions from a newbie (Mon Jul 23 2001 - 12:34:16 CDT)
- Re: Coloring Sections of Peptides (Wed May 16 2001 - 15:58:26 CDT)
- Re: 1.6.1 hotkey problem (Wed May 02 2001 - 15:18:40 CDT)
- Re: Sorry! Forgot to include the name of the molecule (Sun Apr 22 2001 - 15:44:57 CDT)
- Re: animation and reps (Wed Apr 04 2001 - 14:15:19 CDT)
- Re: python vmd interface (Thu Mar 29 2001 - 11:53:11 CST)
- Re: group selection (Fri Mar 23 2001 - 09:38:46 CST)
- Re: group selection (Thu Mar 22 2001 - 12:32:23 CST)
- Re: python loop (Fri Mar 16 2001 - 12:23:18 CST)
- Re: Molecule rotation (Thu Mar 08 2001 - 12:32:15 CST)
- Re: caculate the RMSD of 10 DNA (Wed Mar 07 2001 - 23:16:30 CST)
- Re: vmd, linux & dri (fwd) (Fri Jan 12 2001 - 20:57:12 CST)
- VMD Python binaries available for testing (Fri Dec 08 2000 - 14:08:55 CST)
- Re: Ca-dist script (Fri Oct 13 2000 - 13:29:23 CDT)
- Re: problem compiling on redhat 7.0 (Sat Oct 07 2000 - 11:03:30 CDT)
- Re: Using VMD to edit dynamics output (Mon Oct 02 2000 - 00:22:25 CDT)
- Re: removing unwanted residues (Thu Aug 31 2000 - 12:03:21 CDT)
- Re: hbond calculations (Tue Aug 29 2000 - 14:18:45 CDT)
- Re: incorrect tube, trace and ribbon drawings (Mon Aug 21 2000 - 13:32:52 CDT)
- Re: Bond information (Fri Aug 04 2000 - 12:11:21 CDT)
- Re: PDB file output (Tue Jul 25 2000 - 12:22:38 CDT)
- VMD runs on the T3E! (Sat Jun 24 2000 - 22:37:13 CDT)
- Re: Pretty Picture (Fri Jun 23 2000 - 12:18:47 CDT)
- Re: vmd/namd connection in linux (Thu Jun 15 2000 - 17:05:51 CDT)
- Re: GRASP files (Wed Jun 14 2000 - 14:37:01 CDT)
- Re: File patterns (Tue May 30 2000 - 14:00:15 CDT)
- Re: graphing a dihedral (Sun May 14 2000 - 17:07:30 CDT)
- Mouse behavior in VMD (Mon Apr 24 2000 - 10:16:12 CDT)
- Re: Setting colors (Fri Feb 18 2000 - 10:25:50 CST)
Justin JEONG
- where is the "move" procedure in the toturial (Sun Jan 27 2008 - 16:32:03 CST)
Justyna Jaroniec
- xyz file format (Wed Jun 09 2004 - 13:54:17 CDT)
juzer stationwala
- question regarding H-bond calculation (Sun May 01 2011 - 10:31:55 CDT)
jwc_at_itsa.ucsf.edu
- Re: Stereo VMD (Thu Dec 26 2002 - 11:32:16 CST)
- Stereo VMD (Tue Dec 24 2002 - 18:24:51 CST)
Jyh-Shyong Ho
- Joystick on Linux (Mon Mar 07 2005 - 23:26:25 CST)
jz7_at_duke.edu
- question about script for drawing dipole moment for helix (Tue Jan 03 2006 - 17:39:32 CST)
JÃ¡nos SzÃ¶vÃ©rfi
- Re: CG builder in script (Wed Jun 14 2017 - 07:16:03 CDT)
- Re: CG builder in script (Wed Jun 14 2017 - 05:50:24 CDT)
- Re: CG builder in script (Wed Jun 14 2017 - 05:45:44 CDT)
- Re: CG builder in script (Wed Jun 14 2017 - 04:58:06 CDT)
- CG builder in script (Wed Jun 14 2017 - 03:26:06 CDT)
- vmd script running from command line (Thu May 25 2017 - 02:38:44 CDT)
JÃ©rÃ´me Claverie
- Local isosurface (Sun Oct 06 2019 - 04:32:47 CDT)
- Local isosurface (Sat Jul 27 2019 - 13:02:14 CDT)
JÃ©rÃ´me HÃ©nin
- Re: Error on VMD2 startup: cannot source vmdinit.tcl (Wed Feb 26 2025 - 08:19:28 CST)
- Error on VMD2 startup: cannot source vmdinit.tcl (Wed Feb 26 2025 - 04:33:25 CST)
- Online Colvars Dashboard mini-workshop - January 17 (Sun Dec 15 2024 - 15:41:48 CST)
- Re: helix orientation angle (Mon Oct 31 2022 - 07:24:55 CDT)
- Re: Two Proteins Question (Thu Oct 20 2022 - 04:12:11 CDT)
- Re: Most relevant VMD install (Fri Sep 09 2022 - 09:54:04 CDT)
- Re: Avoid atom indices reassignment (Mon Dec 13 2021 - 09:42:33 CST)
- Re: basic procedure for ABF-PMF calculation (Mon Nov 29 2021 - 06:30:58 CST)
- Re: FFTK dihedral scan discontinuities (Fri Aug 27 2021 - 07:35:26 CDT)
- Re: Jarzynski analysis (Tue Jul 27 2021 - 07:25:25 CDT)
- Re: 1.9.4a50 - unable to open DCDs win64 (Fri Dec 18 2020 - 08:45:13 CST)
- Re: VMD 1.9.4a50 64-bit Windows test build posted (Tue Dec 15 2020 - 11:09:20 CST)
- Re: VMD 1.9.4a50 64-bit Windows test build posted (Tue Dec 15 2020 - 10:46:55 CST)
- Re: Running Hydrogen Bonding Analysis with Script (Sun Mar 22 2020 - 08:06:47 CDT)
- Re: atomselect moveby: non-numeric in vector (Tue Feb 18 2020 - 11:34:37 CST)
- Re: Keeping molecules intact when unwrapping (Tue Feb 18 2020 - 11:23:08 CST)
- Re: Tcl foreach/for loop error (Fri Sep 06 2019 - 08:20:21 CDT)
- Re: Tcl foreach/for loop error (Fri Sep 06 2019 - 04:34:26 CDT)
- Re: Atoms on top of each in wrapped trajectory (Thu Aug 15 2019 - 16:06:53 CDT)
- VMD alpha builds (Mon Jun 03 2019 - 09:01:03 CDT)
- Re: (Mon Apr 29 2019 - 11:15:44 CDT)
- Re: Query regarding qwrap (Wed Apr 17 2019 - 01:59:02 CDT)
- Re: Query regarding qwrap (Tue Apr 16 2019 - 02:57:13 CDT)
- Re: How to fix the position of the lipid bilayer in the trajectories (Thu Mar 14 2019 - 12:37:58 CDT)
- Re: How to fix the position of the lipid bilayer in the trajectories (Thu Mar 14 2019 - 12:20:05 CDT)
- Re: How to fix the position of the lipid bilayer in the trajectories (Thu Mar 14 2019 - 07:52:07 CDT)
- Re: RDF witth center of mass as selection (Tue Feb 26 2019 - 11:10:38 CST)
- Re: Difference in ParseFEP result with versions 1.9.2 and 2.1 (Tue Feb 19 2019 - 11:48:04 CST)
- Re: Difference in ParseFEP result with versions 1.9.2 and 2.1 (Mon Feb 18 2019 - 16:44:16 CST)
- Re: CUDA 10 (Thu Nov 22 2018 - 11:30:53 CST)
- CUDA 10 (Thu Nov 22 2018 - 06:47:27 CST)
- Re: Secondary structure representation stays static (Mon Aug 27 2018 - 04:05:58 CDT)
- Re: PMF Question (Mon Jun 04 2018 - 07:26:33 CDT)
- Re: ABF Calculations Question 1 (Fri May 25 2018 - 07:43:40 CDT)
- Re: namd-l: Proper use of psfgen "mutate"? (Tue Apr 10 2018 - 09:23:20 CDT)
- Re: GUI mod request (Sun Dec 10 2017 - 05:31:52 CST)
- Re: GUI mod request (Sat Dec 09 2017 - 10:57:55 CST)
- Faster vector computations in Tcl (Fri Dec 08 2017 - 12:41:33 CST)
- Re: Reordering atomselection before saving trajectory (Thu Jun 01 2017 - 14:45:52 CDT)
- Re: Unable to remove sudden RMSD jumps between two segments (Fri May 26 2017 - 10:55:22 CDT)
- Re: Selecting all residues based on z-axis coordinate in a protein (Fri May 19 2017 - 05:08:15 CDT)
- Re: Within X1 of Y but not within X2 of Y (Mon Apr 24 2017 - 09:12:33 CDT)
- Re: How to choose CVs along DNA axis? (Tue Feb 14 2017 - 08:36:11 CST)
- Re: Using variables inside Atomselect (Tue Feb 07 2017 - 08:03:21 CST)
- Re: colvars module (Mon Jan 30 2017 - 07:13:49 CST)
- Re: atom selection in cv module of VMD (Tue Jan 17 2017 - 07:17:02 CST)
- Re: Capture query data (Fri Dec 02 2016 - 06:52:20 CST)
- Re: Fast PBC wrapping in VMD (Fri Nov 25 2016 - 07:40:26 CST)
- Re: Fast PBC wrapping in VMD (Fri Nov 18 2016 - 18:46:56 CST)
- Re: Fast PBC wrapping in VMD (Thu Nov 17 2016 - 03:09:14 CST)
- Fast PBC wrapping in VMD (Wed Nov 16 2016 - 07:54:39 CST)
- Re: System requirement for MD 10ns (Tue Jun 28 2016 - 08:15:34 CDT)
- Re: Clonerep GUI issue with VMD CVS (Mon May 02 2016 - 11:26:13 CDT)
- Re: Clonerep GUI issue with VMD CVS (Mon May 02 2016 - 10:36:17 CDT)
- Re: how do I keep graphics/representations in their designated frames? (they all show up in all frames) (Sun Apr 24 2016 - 04:34:57 CDT)
- Re: colvars problem - different values in VMD and NAMD (Mon Apr 18 2016 - 08:40:03 CDT)
- Re: colvars problem - different values in VMD and NAMD (Mon Apr 18 2016 - 07:40:59 CDT)
- Re: colvars problem - different values in VMD and NAMD (Mon Apr 18 2016 - 07:20:25 CDT)
- Re: Need help in atoms selection (Mon Apr 18 2016 - 04:17:27 CDT)
- Re: colvars problem - different values in VMD and NAMD (Fri Apr 15 2016 - 11:50:32 CDT)
- Re: colvars problem - different values in VMD and NAMD (Fri Apr 15 2016 - 09:50:05 CDT)
- Clonerep GUI issue with VMD CVS (Fri Apr 08 2016 - 04:28:03 CDT)
- Re: Fast PBC wrapping (Wed Mar 09 2016 - 13:05:56 CST)
- Fast PBC wrapping (Tue Mar 08 2016 - 11:13:38 CST)
- Re: Minimum content/format of PSF file to specify bonds? (Mon Nov 23 2015 - 12:31:57 CST)
- Re: Minimum content/format of PSF file to specify bonds? (Mon Nov 23 2015 - 11:52:04 CST)
- Re: Attractive or repulsive with Namd Energy? (Mon Nov 23 2015 - 03:33:30 CST)
- Re: Valbond and NAMD (Thu Apr 16 2015 - 09:21:25 CDT)
- Re: namd-l: Aggregation related analysis scripts (Tue Feb 24 2015 - 09:39:01 CST)
- Re: To the developers: TCL implementation of autofit zoom (Fri Aug 08 2014 - 09:05:20 CDT)
- Re: To the developers: Get current zoom value (scale) (Fri Aug 08 2014 - 03:49:23 CDT)
- Re: Writing DCD from modified coordinates (Fri Mar 21 2014 - 13:04:58 CDT)
- AMD vs. nvidia support (Wed Dec 11 2013 - 11:31:12 CST)
- Re: writepsf method of atomselect objects generates bad atom types (Wed Oct 16 2013 - 14:34:23 CDT)
- Re: center of mass (Fri Jul 05 2013 - 12:17:28 CDT)
- Re: (Thu Apr 25 2013 - 06:43:38 CDT)
- Re: (Thu Apr 25 2013 - 04:29:27 CDT)
- Re: Qwrap Beta Issue (Mon Apr 08 2013 - 05:45:35 CDT)
- Re: Quick wrapping (Thu Apr 04 2013 - 08:31:49 CDT)
- Quick wrapping (Tue Apr 02 2013 - 10:05:11 CDT)
- Re: Calculating rdfs without the VMD gui (Wed Mar 13 2013 - 02:36:42 CDT)
- Re: Extracting Entropies and Enthalpies With The ParseFEP Plugin Using SOS or BAR (Sat Jan 26 2013 - 11:43:59 CST)
- Color scale data range for coloring by timestep (Mon Jan 21 2013 - 08:25:37 CST)
Jérôme Hénin
- Re: unwrapping long trajectories (Mon Jun 11 2012 - 09:54:00 CDT)
- Suggestion for measure cluster (Fri May 11 2012 - 04:32:39 CDT)
- Re: Suggestion for measure cluster (Fri May 11 2012 - 04:35:07 CDT)
- Save/restore display parameters (Fri May 04 2012 - 09:51:28 CDT)
- Re: Implicit Ligand Sampling-molecule rotation issue (Mon Jan 09 2012 - 05:11:19 CST)
- Re: bash scripts quits after few frames (Tue Nov 22 2011 - 06:32:43 CST)
- Re: Solvating hexagonal unit cell (Thu Oct 06 2011 - 06:15:48 CDT)
- Re: Count waters inside a specified box (Wed Sep 07 2011 - 06:18:06 CDT)
- Re: Re: namd-l: how to generate transparent figures? (Mon Jul 25 2011 - 07:19:40 CDT)
- Re: Salt brigde (Thu Jul 07 2011 - 15:32:27 CDT)
- Re: color trajectory using specific values rather than color scale (Mon Jun 27 2011 - 11:20:41 CDT)
- Re: Tracing distances among atoms in a MD simulation (Thu Jun 09 2011 - 02:25:23 CDT)
- Re: measure fit - wrong alignment (Thu May 26 2011 - 07:43:12 CDT)
- Re: Error starting second VMD (Mon Mar 28 2011 - 17:33:59 CDT)
- Re: Error starting second VMD (Fri Mar 25 2011 - 09:19:59 CDT)
- Re: Error starting second VMD (Fri Mar 25 2011 - 04:40:04 CDT)
- Error starting second VMD (Wed Mar 23 2011 - 09:40:20 CDT)
- Re: showing fixed number of frames as the animation (Sat Feb 26 2011 - 07:43:45 CST)
- Re: showing fixed number of frames as the animation (Sat Feb 26 2011 - 08:01:58 CST)
- Re: package psfgen: Failed to set coordinates for C3 (Fri Feb 25 2011 - 08:55:47 CST)
- Re: RMSF measurement (Thu Feb 24 2011 - 05:47:36 CST)
- Re: Re: VMD 1.9 beta 1 posted for download... (Wed Feb 23 2011 - 03:47:20 CST)
- Re: atoms selection (Mon Feb 21 2011 - 08:18:04 CST)
- Re: Dynamically updating water colors for each frame of a trajectory (Thu Feb 17 2011 - 04:10:04 CST)
- Re: Multiseq in text mode (Tue Feb 08 2011 - 03:43:39 CST)
- Re: water molecule count (Tue Feb 01 2011 - 11:19:15 CST)
- Re: water molecule count (Tue Feb 01 2011 - 10:12:47 CST)
- Re: a problem about multiplot (Thu Jan 27 2011 - 04:04:55 CST)
- Re: Truncated octahedron Box (Wed Jan 12 2011 - 10:59:34 CST)
- Re: rgyr calculation problem (Fri Nov 19 2010 - 15:08:10 CST)
- Re: tcl script problem using -dispdev text .. (Thu Nov 18 2010 - 08:07:24 CST)
- Re: dynamic atom selection (Tue Nov 09 2010 - 08:28:49 CST)
- Re: IED 2.02 and VMD 1.8.7 (Wed Nov 03 2010 - 05:44:06 CDT)
- Re: Asymmetric water molecule (Wed Nov 03 2010 - 05:03:40 CDT)
- Re: VMD text mode/unwrap (Mon Nov 01 2010 - 05:12:59 CDT)
- Re: vmd: Tcl script help (Sat Oct 30 2010 - 12:47:22 CDT)
- Re: IED 2.02 and VMD 1.8.7 (Wed Oct 13 2010 - 16:33:02 CDT)
- Re: about psfgen patch (Thu Sep 23 2010 - 11:58:38 CDT)
- Re: write pdbs of selected frames of a trajectory (Thu Sep 23 2010 - 03:55:43 CDT)
- Re: Faster secondary structure assignment (Tue Aug 31 2010 - 10:38:49 CDT)
- Faster secondary structure assignment (Mon Aug 30 2010 - 11:28:45 CDT)
- Re: Tcl-wrapped "lightweight plugin" in C++ (Thu Jun 03 2010 - 07:56:51 CDT)
- Re: Tcl-wrapped "lightweight plugin" in C++ (Sun May 30 2010 - 04:26:07 CDT)
- Tcl-wrapped "lightweight plugin" in C++ (Thu May 27 2010 - 07:27:00 CDT)
- Re: what is wrong with this script? (Wed Mar 22 2006 - 01:31:13 CST)
- Re: Convert an ascii matrix to an image (Mon Mar 13 2006 - 15:22:11 CST)
- Re: user field memory demand (Mon Mar 13 2006 - 11:02:36 CST)
- Re: Convert an ascii matrix to an image (Mon Mar 13 2006 - 07:33:11 CST)
- Re: Tachyon and text rendering (Thu Feb 23 2006 - 17:04:47 CST)
- Re: printing to a file from a procedure to get RMSD (Tue Jan 31 2006 - 12:57:09 CST)
- animate error handling (Fri Dec 09 2005 - 05:04:52 CST)
- Re: PBC and H-bond detection (Fri Dec 09 2005 - 02:23:36 CST)
- Re: PBC and H-bond detection (Thu Dec 08 2005 - 14:21:17 CST)
- PBC and H-bond detection (Thu Dec 08 2005 - 09:03:57 CST)
- Re: counting selected atoms---selection time series (Thu Sep 01 2005 - 02:05:32 CDT)
- Re: TCL for adding bonds? (Fri Jul 08 2005 - 02:58:31 CDT)
- Re: Intersurf plugin (Wed Mar 09 2005 - 08:21:45 CST)
- Re: Display only side chains (Mon Mar 07 2005 - 18:59:42 CST)
- Re: Intersurf plugin (Mon Mar 07 2005 - 12:02:11 CST)
- Re: RNA polymerase docking on DNA (Thu Feb 24 2005 - 02:04:50 CST)
- Volumeslice in arbitrary plane (Tue Feb 22 2005 - 10:13:28 CST)
- Re: Call to Stride program failed (Fri Feb 18 2005 - 10:05:37 CST)
- Call to Stride program failed (Fri Feb 18 2005 - 09:42:27 CST)
- Re: smoothed trajectory (Thu Feb 17 2005 - 13:59:19 CST)
- Re: Tachyon does not render surfaces colored by EP (Wed Feb 16 2005 - 09:53:02 CST)
- Re: problem Nvidia and vmd (Mon Dec 06 2004 - 15:49:35 CST)
- Re: namd-l: Writing pdb file.. easier way? (Thu Nov 18 2004 - 17:28:36 CST)
- Re: Where should I put script file? (Fri Nov 12 2004 - 17:10:07 CST)
- Re: "measure fit" inaccuracy? (Fri Jun 11 2004 - 09:34:45 CDT)
- "measure fit" inaccuracy? (Fri Jun 11 2004 - 02:48:49 CDT)
- Re: TCL string operation (Sat Apr 03 2004 - 10:10:56 CST)
- Re: configure do nothing in Linux(???) (Wed Mar 31 2004 - 11:20:51 CST)
- Re: Sine Cosine (Sun Mar 14 2004 - 04:32:26 CST)
- Re: Non-serious query (Wed Mar 03 2004 - 12:03:13 CST)
- Re: graphics card (Sun Nov 30 2003 - 11:18:29 CST)
- Re: Background colour (Sun Nov 30 2003 - 03:39:16 CST)
- secondary structure update (Fri Oct 31 2003 - 07:37:31 CST)
- Re: Radeon FireGL drivers crash VMD (Fri Oct 31 2003 - 04:38:39 CST)
- Re: getting ramachandran plots with VMD (Mon Oct 27 2003 - 15:47:06 CST)
- Re: vmd 1.8 Linux mesa on RedHat (Tue Oct 14 2003 - 17:23:03 CDT)
- Re: NVIDIA Quadro - CrystalEyes - Linux (Tue Sep 30 2003 - 09:39:35 CDT)
- Re: NVIDIA Quadro - CrystalEyes - Linux (Tue Sep 30 2003 - 09:13:20 CDT)
- NVIDIA Quadro - CrystalEyes - Linux (Tue Sep 30 2003 - 08:20:52 CDT)
- Systematic VMD crash above critical size (Mon Sep 15 2003 - 09:04:01 CDT)
K Jan
- (no subject) (Thu Jan 07 2021 - 18:18:59 CST)
K. Aurelia Ball
- VMD crashing on OS X El Capitan 64 bit (Wed Dec 14 2016 - 15:27:35 CST)
Kabir Biswas
- (no subject) (Mon Apr 05 2021 - 17:45:40 CDT)
Kaihsu Tai
- large output XYZ file > 2 Gio? (Re: [biosimgrid-team] Re: DCD to XYZ conversion) (Thu Oct 06 2005 - 05:43:14 CDT)
Kailee
- Re: script for atom collisions (Fri Jun 15 2007 - 12:21:13 CDT)
- Re: script for atom collisions (Tue Jun 12 2007 - 08:58:36 CDT)
- script for atom collisions (Mon Jun 11 2007 - 12:10:30 CDT)
- Re: help on trajectory density map (Tue May 29 2007 - 07:43:46 CDT)
- help on trajectory density map (Sun May 27 2007 - 12:54:12 CDT)
- help on writing a tcl script (Fri May 18 2007 - 10:57:58 CDT)
- question about making movies (Wed May 16 2007 - 11:49:50 CDT)
- Re: How to superimpose trajectories (Thu Mar 22 2007 - 10:04:44 CDT)
- How to superimpose trajectories (Wed Mar 21 2007 - 09:14:33 CDT)
Kalavera_at_gmx.net
- Re: Problem with autoionize ? (Thu Apr 02 2009 - 09:58:53 CDT)
- Problem with autoionize ? (Thu Apr 02 2009 - 08:50:49 CDT)
kalyan chaitanya
- Re: query regarding membrane building (Sat Sep 29 2007 - 22:58:45 CDT)
- query regarding membrane building (Sat Sep 29 2007 - 09:41:14 CDT)
Kalyan Madanapalli
- Cutting and replacing in VMD (Sat Jun 03 2017 - 16:26:45 CDT)
Kalyanashis Jana
- Alpha to beta conversion (Wed May 15 2019 - 04:17:08 CDT)
- DNA mutation (Sat Mar 19 2016 - 02:32:08 CDT)
Kamil Tamiola
- Problem with Dell Workstation (Tue Nov 15 2005 - 13:42:00 CST)
kamilt_at_ibmb.uni.wroc.pl
- Problems with Terminal and 1.8.4.a22 under OSX (Tiger 10.4.3) (Sun Nov 06 2005 - 16:08:34 CST)
Kamp, Marc vander
- RE: incompatibility between VMD & NAMD for reading Amber crd files (Tue Jun 22 2004 - 04:20:16 CDT)
- incompatibility between VMD & NAMD for reading Amber crd files (Mon Jun 21 2004 - 07:33:11 CDT)
Kamps, M.
- Within X1 of Y but not within X2 of Y (Mon Apr 24 2017 - 06:28:46 CDT)
kanchi subbarao rao
- Re: Hydrophobic mismatch script (Mon Apr 23 2012 - 06:11:24 CDT)
- hi (Fri Jul 15 2011 - 04:43:19 CDT)
- hi to all (Tue May 17 2011 - 11:34:04 CDT)
- hello (Fri Apr 29 2011 - 05:58:05 CDT)
- hello (Thu Apr 28 2011 - 01:38:36 CDT)
Kandarp Sojitra
- Incorrect visualization of system after catdcd (Sat Dec 12 2020 - 06:36:45 CST)
Kanishk Jain
- Re: Localhost port 3000 error (Wed Mar 08 2017 - 19:12:16 CST)
- Re: Localhost port 3000 error (Wed Mar 08 2017 - 14:48:18 CST)
- Localhost port 3000 error (Tue Mar 07 2017 - 17:08:09 CST)
Kannan Ridings
- Colouring atoms according to their q4 or q6 values (Tue Jun 23 2015 - 01:12:31 CDT)
Kapil Amarnath
- Re: Orienting a Protein (Sun Aug 14 2011 - 13:30:09 CDT)
- Orienting a Protein (Fri Aug 12 2011 - 11:19:31 CDT)
Kara Di Giorgio
- Re: Question about overlaying structures (Tue Mar 27 2007 - 12:30:06 CDT)
- Question about overlaying structures (Thu Mar 15 2007 - 21:16:26 CDT)
- Question about RMSD calculator (Tue Dec 12 2006 - 13:16:32 CST)
- Method to measure DNA perterbation (Tue Nov 15 2005 - 19:43:35 CST)
- How do I share trajectory visualizations with other systems? (Mon Nov 14 2005 - 21:15:19 CST)
- Generating an average structure from a trajectory (Fri Sep 16 2005 - 13:01:34 CDT)
- Re: Using VMD to overlay structures (Mon Aug 22 2005 - 14:11:22 CDT)
- Using VMD to overlay structures (Fri Aug 19 2005 - 16:26:32 CDT)
karan uppal
- coloring selected chains and residues (Mon Jul 30 2007 - 18:58:05 CDT)
- can't add packages (Sat Jul 28 2007 - 12:59:37 CDT)
- python and C++ extensions (Thu Jul 26 2007 - 11:19:06 CDT)
Karel Berka
- Re: Re: VMD and 3D visualization problems with Nvidia Quadro 4000 (Wed Jan 11 2012 - 10:43:13 CST)
- Re: VMD and 3D visualization problems with Nvidia Quadro 4000 (Sat Dec 10 2011 - 15:29:36 CST)
Karen Chan
- isosurfaces with non-orthorhombic unit cells using cube file (Thu Feb 27 2014 - 17:54:03 CST)
Kari Maher
- One Year written repl1ca w4tches warranty (Tue Apr 24 2007 - 15:10:17 CDT)
Karl Decker
- Re: memory sharing in VMD (Fri Feb 10 2017 - 15:51:02 CST)
- VolMap data format (Fri Feb 10 2017 - 14:32:22 CST)
- memory sharing in VMD (Tue Feb 07 2017 - 14:13:06 CST)
- Re: DNA .dcd file analysis (Thu Jan 05 2017 - 14:46:29 CST)
- Re: (Fri Dec 16 2016 - 11:27:49 CST)
- Re: (Fri Dec 16 2016 - 10:36:42 CST)
- (no subject) (Thu Dec 15 2016 - 11:13:26 CST)
Karl Lundquist
- Re: 1.9.4a43-Catalina-Rev6 TkConsole Up Arrow History (Mon Jul 13 2020 - 11:32:18 CDT)
- Re: file output issue (Mon May 19 2014 - 11:15:28 CDT)
- file output issue (Thu May 15 2014 - 14:13:58 CDT)
Karne, Sai Harish Babu
- Re: RMSD-gaps (Mon Apr 20 2009 - 21:04:53 CDT)
- RMSD-gaps (Mon Apr 20 2009 - 17:09:51 CDT)
- Multiseq error (Wed Apr 15 2009 - 13:48:18 CDT)
Karol KASZUBA
- RE: MDFF time line ccc score (Wed May 24 2017 - 15:47:20 CDT)
- RE: MDFF time line ccc score (Wed May 24 2017 - 12:10:40 CDT)
- RE: MDFF time line ccc score (Wed May 24 2017 - 10:51:52 CDT)
- RE: MDFF time line ccc score (Wed May 24 2017 - 10:22:24 CDT)
- RE: MDFF time line ccc score (Wed May 24 2017 - 10:09:08 CDT)
- RE: MDFF time line ccc score (Wed May 24 2017 - 09:42:34 CDT)
- MDFF time line ccc score (Wed May 24 2017 - 02:49:25 CDT)
- RE: convert .mrc map to .dx format (Sat Mar 04 2017 - 05:49:53 CST)
- convert .mrc map to .dx format (Fri Mar 03 2017 - 09:51:29 CST)
- Re: select atoms between molecules (Wed Jan 02 2008 - 15:47:34 CST)
- Re: select atoms between molecules (Wed Jan 02 2008 - 13:10:04 CST)
- QM_plugin_force_constants (Mon Dec 03 2007 - 06:41:24 CST)
- gaussinan_log_file_error_can't use empty string as operand of "/" (Tue Nov 27 2007 - 03:28:04 CST)
- PSF_and_PDB_file_of_LIGAND (Fri Jun 01 2007 - 05:29:53 CDT)
- ligand parametrization (Mon May 28 2007 - 10:57:05 CDT)
Karsten SUHRE
- Re: Stride (Tue Dec 19 2006 - 02:05:13 CST)
- Re: Making a Movie (Tue Jun 20 2006 - 12:46:06 CDT)
- Re: Video Card (Wed Nov 30 2005 - 02:02:33 CST)
- Re: How to build a crystal structure from a pdb file ? (Thu Sep 22 2005 - 02:07:16 CDT)
- Re: VMD crash on athlon64 with licorice representation (Thu May 12 2005 - 12:07:29 CDT)
- Re: Choice of a Linux machine for VMD and high-end computing (Fri Apr 08 2005 - 07:34:04 CDT)
- Choice of a Linux machine for VMD and high-end computing (Wed Apr 06 2005 - 11:09:58 CDT)
- Re: movie showing loop movement (Thu Jul 29 2004 - 01:43:24 CDT)
- autostereograms in VMD? (Fri Jul 02 2004 - 02:42:11 CDT)
- Re: Making movies (Wed Jun 23 2004 - 03:07:31 CDT)
- display of electron density maps (Thu Jun 03 2004 - 07:53:20 CDT)
- Re: Missing bonds (Thu May 06 2004 - 01:44:52 CDT)
- Re: experience using VMD with 3-D printers? (Tue Feb 10 2004 - 06:50:59 CST)
- experience using VMD with 3-D printers? (Mon Feb 09 2004 - 08:30:25 CST)
- saving bond-length information (Thu Sep 11 2003 - 04:51:47 CDT)
- problems with stereo display on NVIDIA Quadro4 750 XGL (Tue Jan 14 2003 - 02:12:49 CST)
- stereo display on NVIDIA Quadro4 750 XGL (Tue Jan 07 2003 - 05:32:22 CST)
Karteek K. Bejagam
- Re: REMOVE WATER MOLECULES WITH A SPECIFIC DISTANCE (Sun May 16 2021 - 14:15:17 CDT)
- Loading files (Wed Apr 07 2021 - 12:55:49 CDT)
- Re: TCL force script (Thu Oct 01 2020 - 03:02:18 CDT)
Karteek Kumar
- Re: BOND distance (Sat Mar 30 2019 - 22:14:27 CDT)
- Re: distance between two groups of atoms (Fri Dec 15 2017 - 15:23:39 CST)
- Re: polar hydrogens (Wed Sep 13 2017 - 12:39:35 CDT)
- Re: CG builder for martini force field (Thu May 25 2017 - 22:31:46 CDT)
- Re: Drawing hollow circles (Tue May 23 2017 - 21:01:19 CDT)
- Re: Drawing hollow circles (Tue May 23 2017 - 19:37:56 CDT)
- CG builder for martini force field (Fri May 12 2017 - 10:37:45 CDT)
- Writing velocities in lammps dump file (Thu Apr 27 2017 - 00:40:02 CDT)
- Delete the residue and reassign the residue numbers (Wed Dec 07 2016 - 01:23:53 CST)
- RE: VMD HBonds plugin (Tue Dec 06 2016 - 22:23:44 CST)
- Re: VMD HBonds plugin (Tue Dec 06 2016 - 22:07:46 CST)
- Re: mail about visualization state (Fri Apr 29 2016 - 03:43:00 CDT)
- Re: colvars problem - different values in VMD and NAMD (Fri Apr 15 2016 - 09:50:19 CDT)
- Re: RE: How to draw a box in VMD and plot the coordinates of the system (Mon Mar 28 2016 - 01:15:55 CDT)
- Guessbonds and retype bonds (Tue Dec 01 2015 - 23:12:30 CST)
- Re: Need help in selection (Mon Nov 02 2015 - 03:22:00 CST)
- Re: Hydrogen bond angle (Tue Aug 04 2015 - 01:59:26 CDT)
Kartheek
- Re: Radial distribution function (Sat Sep 03 2011 - 12:49:00 CDT)
- Radial distribution function (Sat Sep 03 2011 - 10:10:03 CDT)
- Radial distribution function (Sat Sep 03 2011 - 07:18:46 CDT)
- Radial distribution function (Sat Sep 03 2011 - 06:32:58 CDT)
- Radial distribution function (Sat Sep 03 2011 - 05:33:50 CDT)
- Hydration dynamics:Phrase selection problem in vmd (Mon Jul 18 2011 - 07:09:02 CDT)
karthigeyan karthigeyantp
- Re PSF file generation (Mon Jul 20 2009 - 07:34:51 CDT)
- how to find the sign of the dihedral angle (full message). (Sat Mar 14 2009 - 00:23:47 CDT)
- tcl fscript or Removeing protein flucutation (Wed Nov 26 2008 - 05:45:33 CST)
karthik kumar
- Re: problem with output format (Thu Jun 11 2015 - 06:46:51 CDT)
- Re: how to set the coordinates of carbon nanotube? (Fri May 08 2015 - 02:02:15 CDT)
- Re: Dumping the coordinates of single frame (Wed Apr 22 2015 - 05:02:58 CDT)
- Dumping the coordinates of single frame (Wed Apr 22 2015 - 05:01:04 CDT)
- Re: Running TCL scripts (textmode) on a Server (Wed Mar 25 2015 - 06:48:34 CDT)
- Re: How to get all bond angles and bond distances for all atoms in sheet (Tue Sep 02 2014 - 08:08:58 CDT)
- Topo Tools for triclinic system (Wed Jul 23 2014 - 03:16:25 CDT)
- Fwd: Visualizing the displacement vector (Fri Jul 04 2014 - 09:28:07 CDT)
Kartik Tulsian
- NAMDEnergy Plugin in VMD (Sat Jul 16 2022 - 05:11:00 CDT)
Karunesh Arora
- (no subject) (Thu Jul 29 2004 - 10:09:40 CDT)
- draw multiple frames (Fri Nov 28 2003 - 21:30:03 CST)
- vmd script library (Wed Sep 24 2003 - 14:08:35 CDT)
- drawing objects (Sat Aug 30 2003 - 08:37:22 CDT)
Kasra Fattah
- Re: vmd cause linux system freezes randomly (Fri Nov 16 2012 - 17:03:26 CST)
- Re: vmd cause linux system freezes randomly (Mon Nov 12 2012 - 18:44:02 CST)
- Re: vmd cause linux system freezes randomly (Fri Nov 09 2012 - 11:07:12 CST)
- Re: vmd cause linux system freezes randomly (Wed Nov 07 2012 - 23:03:50 CST)
- vmd cause linux system freezes randomly (Wed Nov 07 2012 - 19:18:01 CST)
Kassem Ghaddar
- New Cartoon representation problem (Tue Jan 05 2010 - 04:09:16 CST)
Kateryna Miroshnychenko
- Re: How to save the snapshot of my protein? (Fri Feb 09 2007 - 09:21:23 CST)
- Re: IndexError in ied (Tue Jul 12 2005 - 08:22:39 CDT)
- Re: IndexError in ied (Thu Jul 07 2005 - 02:23:06 CDT)
- IndexError in ied (Wed Jul 06 2005 - 11:27:11 CDT)
Katherine Parra
- write pdbs of selected frames of a trajectory (Wed Sep 22 2010 - 14:05:58 CDT)
- Mean atom position (Mon Mar 08 2010 - 13:04:47 CST)
- RBCG Model (Tue Oct 27 2009 - 09:19:55 CDT)
- catdcd (Mon Oct 12 2009 - 09:59:23 CDT)
- H_Bonds (Mon Sep 28 2009 - 12:53:21 CDT)
- water molecules around proteins (Fri Sep 18 2009 - 12:04:04 CDT)
- ligand names (Fri Apr 03 2009 - 10:35:54 CDT)
- Re: Test (Tue Feb 24 2009 - 10:01:41 CST)
- trajectory path script (Thu Feb 05 2009 - 11:00:12 CST)
- Projection of a vector on to another. (Fri Sep 19 2008 - 13:56:01 CDT)
- vecsub command (Tue Jul 22 2008 - 11:03:42 CDT)
- Re: Error message in VMD console when I try to switch to Python mode. (Tue Jul 22 2008 - 11:07:56 CDT)
- Re: Error message in VMD console when I try to switch to Python mode. (Thu Jul 17 2008 - 09:30:22 CDT)
- Re: Error message in VMD console when I try to switch to Python mode. (Thu Jul 17 2008 - 09:13:14 CDT)
- Re: Error message in VMD console when I try to switch to Python mode. (Wed Jul 16 2008 - 14:06:06 CDT)
- Error message in VMD console when I try to switch to Python mode. (Wed Jul 16 2008 - 13:16:28 CDT)
- trajectory to xyz file. (Mon Jul 07 2008 - 13:16:30 CDT)
- Solvation (Fri Jun 06 2008 - 08:56:31 CDT)
- Solvation of a molecule (Thu Jun 05 2008 - 08:15:41 CDT)
- psf file (Tue Jun 03 2008 - 11:47:43 CDT)
Kathleen Barron
- deposition simulation from lammps (Thu Jul 26 2007 - 11:04:33 CDT)
Katya Lyakhova
- Unable to run VMD in graphical mode/ ubuntu 8.10 / Open GL problem (Wed Jan 28 2009 - 09:19:35 CST)
Kaur, Tarandeep
- Query (Tue Jul 29 2008 - 07:55:49 CDT)
kaushik lakkaraju
- vmd draw command for text (Sun Jan 30 2011 - 12:32:01 CST)
kaustubh joshi
- problem in launching vmd (Tue Jun 21 2011 - 07:21:17 CDT)
Kazem Sepehrinia
- density profile install (Fri Dec 26 2014 - 10:14:19 CST)
kazimieras tamoliunas
- dipole watcher plugin (Thu Aug 05 2021 - 04:51:56 CDT)
Kei Sit
- RE: saving dcd file different if by script or by interactive mode (Tue Apr 10 2012 - 19:24:56 CDT)
- RE: Gromacs analysis tools for Namd output (Wed Feb 01 2012 - 17:33:01 CST)
- RE: redirecting to output (Thu Sep 22 2011 - 00:32:53 CDT)
- (no subject) (Thu Oct 07 2010 - 21:03:31 CDT)
Keister, Bradley
- Re: building VMD with Ubuntu 18.04 (Mon Aug 03 2020 - 12:46:15 CDT)
- Re: building VMD with Ubuntu 18.04 (Mon Aug 03 2020 - 10:26:34 CDT)
- LAMMPS output with VMD (Mon Aug 03 2020 - 09:12:26 CDT)
- building VMD with Ubuntu 18.04 (Mon Aug 03 2020 - 09:12:25 CDT)
Keith Battle
- antechamber for Windows (Fri May 20 2011 - 12:48:21 CDT)
- Re: Selecting by X-coordinate (Tue Oct 12 2010 - 18:00:35 CDT)
- Selecting by X-coordinate (Tue Oct 12 2010 - 17:31:02 CDT)
Keith Oxenrider
- Nothing happens with Window's install (Tue Feb 05 2002 - 11:25:23 CST)
- Main window off top of screen (Fri Feb 01 2002 - 10:57:58 CST)
Keith Refson
- 1.3b2 (Wed Mar 03 1999 - 11:51:13 CST)
- VMDTECH: CONECTing atoms (Mon Aug 24 1998 - 09:28:47 CDT)
- VMD only read 58 frames from XYZ file (Wed Nov 05 1997 - 13:56:40 CST)
- VMD only read 58 frames from XYZ file (Wed Nov 05 1997 - 06:42:17 CST)
- Re: GRD file format (Tue Mar 22 2005 - 12:30:46 CST)
- GRD file format (Tue Mar 22 2005 - 09:57:02 CST)
- Periodic display problem (Tue Aug 24 2004 - 05:34:31 CDT)
- Re: Matching electron density map and PDB (Tue Dec 02 2003 - 03:43:41 CST)
- Matching electron density map and PDB (Sat Nov 22 2003 - 11:16:30 CST)
- Re: POV failure 2nd try (Fri May 26 2000 - 13:09:04 CDT)
- POV render fails 2nd time (Fri May 26 2000 - 13:00:39 CDT)
- More than 99999 atoms? (Fri May 26 2000 - 06:24:38 CDT)
Kelly Leung
- AutoPSF deleting residues (Tue Jun 15 2010 - 10:35:38 CDT)
Kelvin Chu
- MacOSX VMD errors. (Wed Jun 18 2003 - 10:37:55 CDT)
Kelvin Luther
- dots per inch? (Wed Oct 19 2005 - 14:01:18 CDT)
Kemikal Kid Kolby
- membrane modeling (Sat Mar 25 2000 - 18:17:52 CST)
Ken Sale
- Vmd -dispdev text under OS X (Mon Aug 04 2003 - 20:04:25 CDT)
- Vmd console window colors in Irix 6.5 (Thu Oct 24 2002 - 13:47:03 CDT)
Kendra Baker
- Need help sleeping? Read this! (Thu Aug 16 2007 - 20:39:47 CDT)
Kenley Barrett
- Re: "cartoon" failing to show secondary structure--more info (Fri Dec 15 2006 - 12:39:54 CST)
- Re: "cartoon" failing to show secondary structure (Fri Dec 15 2006 - 11:27:30 CST)
- "cartoon" failing to show secondary structure (Thu Dec 14 2006 - 18:31:09 CST)
- VMD 1.8.4 support for AMBER binary trajectory files (Tue Oct 31 2006 - 17:47:05 CST)
- Re: VMD won't make mpg out of my trajectory (Wed Sep 20 2006 - 14:48:59 CDT)
- VMD won't make mpg out of my trajectory (Wed Sep 20 2006 - 13:38:19 CDT)
- scrolling up in vmd console (Sun May 21 2006 - 13:37:04 CDT)
- truncated octahedron from AMBER (Tue Apr 25 2006 - 13:05:06 CDT)
- distances (Tue Apr 11 2006 - 11:19:41 CDT)
Kenneth Ayers
- Phantom on Sgi? (Wed Aug 14 2002 - 08:41:13 CDT)
Kenneth Smith
- Updated Bonding Connectivity each frame (Tue Jul 13 2004 - 08:27:07 CDT)
Kenton Webster
- Delightful repl1ca w4tches at Prest1ge Repl1cas (Tue Aug 28 2007 - 09:33:17 CDT)
kerexen_at_gmail.com
- parameters for PE100 chain? (Wed Apr 10 2013 - 10:41:22 CDT)
Keshab Thapa
- SMD: constant velocity output analysis (Force and displacement plot from output file) (Sun Nov 12 2017 - 23:44:48 CST)
- How to plot LOAD vs DISPLACEMENT from SMD output result using VMD (Thu Nov 09 2017 - 00:38:24 CST)
Kevin C Chan
- MD movie making of fluent movements (Fri Nov 04 2016 - 05:26:21 CDT)
- Atom names aliased after psfgen (Thu Jul 07 2016 - 04:51:42 CDT)
- Re: GPU acceleration on tachyon rendering (Tue Jul 05 2016 - 00:30:29 CDT)
- Re: GPU acceleration on tachyon rendering (Thu Jun 30 2016 - 09:16:51 CDT)
- Re: GPU acceleration on tachyon rendering (Wed Jun 29 2016 - 22:26:58 CDT)
- Re: GPU acceleration on tachyon rendering (Wed Jun 29 2016 - 22:23:03 CDT)
- Re: GPU acceleration on tachyon rendering (Wed Jun 29 2016 - 09:14:01 CDT)
- Re: GPU acceleration on tachyon rendering (Tue Jun 28 2016 - 22:14:39 CDT)
- QwikMD/IMD Error connecting to localhost on port 3000 (Tue Jun 28 2016 - 08:24:19 CDT)
- GPU acceleration on tachyon rendering (Fri Jun 24 2016 - 05:05:16 CDT)
- Re: Wrap with PBCTools (Tue Mar 08 2016 - 21:49:34 CST)
- Wrap with PBCTools (Tue Mar 08 2016 - 03:20:46 CST)
- Autopsf problem (Tue Sep 15 2015 - 08:53:57 CDT)
- Re: Re: Problem with assignation of secondary structure in VMD (Thu Sep 10 2015 - 21:36:26 CDT)
- Re: Problem with assignation of secondary structure in VMD (Tue Sep 08 2015 - 23:18:47 CDT)
- About mdffi cc (Thu Aug 06 2015 - 01:12:27 CDT)
- Re: measure contact between com (Wed Jul 29 2015 - 23:05:58 CDT)
- PBC tool does not read center from a xsc (Thu Jun 25 2015 - 11:42:00 CDT)
- Re: PBC unwrap a membrane (Sun Jun 21 2015 - 03:55:15 CDT)
- PBC unwrap a membrane (Sun Jun 21 2015 - 02:56:21 CDT)
- Re: Re-numbering resID after psfgen (Wed May 27 2015 - 04:39:15 CDT)
- Re-numbering resID after psfgen (Wed May 27 2015 - 00:18:58 CDT)
- Re: Problem with assignation of secondary structure in VMD (Thu May 07 2015 - 22:50:35 CDT)
- Problem with assignation of secondary structure in VMD (Thu May 07 2015 - 21:53:44 CDT)
- Align a trajectory (Thu Mar 19 2015 - 07:35:06 CDT)
- Re: PBC Plugin (Thu Mar 12 2015 - 04:22:55 CDT)
- PBC Plugin (Wed Mar 11 2015 - 12:44:41 CDT)
- PBC Plugin (Wed Mar 11 2015 - 10:09:09 CDT)
- Re: MDFF plugin calculating ccc (Mon Feb 23 2015 - 03:59:03 CST)
- MDFF plugin calculating ccc (Tue Feb 17 2015 - 11:04:40 CST)
- MDFF plugin calculating ccc (Mon Feb 16 2015 - 21:19:19 CST)
- Cross-correlation coefficient calculated MDFF package (Mon Feb 09 2015 - 06:47:21 CST)
- A box of amino acids (Mon Nov 24 2014 - 10:08:52 CST)
- Re: Transparency rendering by Tachyon (Wed Oct 15 2014 - 08:39:39 CDT)
- Re: Transparency rendering by Tachyon (Mon Oct 13 2014 - 08:48:21 CDT)
- Transparency rendering by Tachyon (Sun Oct 12 2014 - 23:39:05 CDT)
- Re: Ssrestraints error (Sun Aug 17 2014 - 23:16:09 CDT)
- Ssrestraints error (Thu Aug 14 2014 - 06:21:21 CDT)
Kevin Chan
- Re: Autopsf problem (Tue Sep 15 2015 - 21:30:24 CDT)
- Re: Autopsf problem (Tue Sep 15 2015 - 21:24:16 CDT)
- Re: measure contact between com (Thu Jul 30 2015 - 20:47:09 CDT)
- measure contact between com (Mon Jul 27 2015 - 01:16:45 CDT)
Kevin DeMarco
- Re: vmd MacOSX using dispdev (Fri Jul 18 2008 - 13:33:09 CDT)
- Re: Mac OSX crash with bus error/segmentation fault upon loading pdb/dcd (Mon Jun 30 2008 - 18:50:24 CDT)
- Re: Long file paths in Mac OS 10.5.3 (Wed Jun 04 2008 - 18:30:19 CDT)
- Re: Long file paths in Mac OS 10.5.3 (Wed Jun 04 2008 - 16:43:32 CDT)
- Long file paths in Mac OS 10.5.3 (Wed Jun 04 2008 - 15:24:51 CDT)
Kevin Knoops
- size for render (Tue May 24 2011 - 06:01:15 CDT)
Kevin Lin
- SASA Cutoff Value for Residues on Protein Surface (Tue Nov 21 2023 - 18:08:58 CST)
- Creating Dummy Atoms in VMD Using TCL Script (Fri Oct 27 2023 - 15:16:45 CDT)
- VMD APBS Plugin Issues (Sun Oct 15 2023 - 19:15:01 CDT)
Kevin Sanbonmatsu
- rmsd crashes vmd (Thu Nov 04 1999 - 21:02:26 CST)
Kevin Smith
- Re: Export problem Licorice to STL (Mon Oct 03 2005 - 13:16:07 CDT)
- Export problem Licorice to STL (Mon Oct 03 2005 - 10:50:53 CDT)
- PDB to STL help needed (Wed Aug 03 2005 - 09:23:02 CDT)
Kevin Song
- Domain error in parseFEP (Tue Oct 23 2018 - 11:58:47 CDT)
Kevin Wittkowski
- Re: bonding across periodic walls (Fri Jun 14 2024 - 02:43:55 CDT)
- bonding across periodic walls (Thu Jun 13 2024 - 14:34:08 CDT)
Kevin Wu
- Multimodel PDB files with Different Models? (Wed Jun 24 2009 - 21:05:30 CDT)
Kevin Y. Sanbonmatsu
- $64k/yr hpc post-doc@lanl (Sun Feb 12 2006 - 19:05:34 CST)
- test - 0123456789abcdefghijklnmopqrstuvwxyz (Sun Feb 12 2006 - 16:17:28 CST)
Kevser Göçmen Topal
- atomselection (Wed Jun 20 2007 - 02:27:50 CDT)
Khaled Barakat
- Re: SASA and SESA (Sun Jan 24 2010 - 15:31:59 CST)
- SASA and SESA (Sun Jan 24 2010 - 14:44:45 CST)
- SASA and SESA (Fri Jan 22 2010 - 20:22:25 CST)
- Size of a protein (Wed Apr 29 2009 - 16:06:31 CDT)
- How to calculate the volume of a molecule using vmd? (Thu May 15 2008 - 22:17:36 CDT)
Khanal Rabi
- gofr with PBC (Thu Feb 28 2013 - 19:19:06 CST)
- gofr with periodic boundary condition in vasp trajectory (Sun Feb 24 2013 - 19:08:17 CST)
khannan krishna
- Re: create bonds with uniform pairwise cut off radius for XYZ trajectories. (Fri Sep 26 2014 - 06:14:22 CDT)
- Re: create bonds with uniform pairwise cut off radius for XYZ trajectories. (Fri Sep 26 2014 - 05:05:52 CDT)
- create bonds with uniform pairwise cut off radius for XYZ trajectories. (Fri Sep 26 2014 - 00:48:04 CDT)
- Re: Boron nitride preparation (Sat Jun 21 2014 - 08:50:17 CDT)
- Re: Boron nitride preparation (Sat Jun 21 2014 - 04:28:29 CDT)
- Boron nitride preparation (Sat Jun 21 2014 - 01:08:27 CDT)
- Preparation of Boron nitride using Carbon nanotube builder (Tue Jun 17 2014 - 22:56:24 CDT)
- Building Boron Nitride (Fri Jun 13 2014 - 00:23:03 CDT)
Khuong Truong Gia
- Re: Need help in atoms selection (Mon Apr 18 2016 - 06:34:57 CDT)
- Need help in atoms selection (Sun Apr 17 2016 - 04:32:53 CDT)
- Re: Problem by removing vmd 1.9.1 and installing 1.9.2. (Thu Feb 05 2015 - 05:56:15 CST)
Kiana Jahani
- Re: Error in tcl script (Mon Jan 24 2022 - 00:35:23 CST)
- Error in tcl script (Sun Jan 23 2022 - 05:13:46 CST)
- Re: Fatal error: Unable to find dihedral parameters (Thu Dec 09 2021 - 02:37:41 CST)
- Re: Fatal error: Unable to find dihedral parameters (Wed Dec 08 2021 - 00:32:49 CST)
- Re: Fatal error: Unable to find dihedral parameters (Tue Dec 07 2021 - 05:30:01 CST)
- Re: Fatal error: Unable to find dihedral parameters (Mon Dec 06 2021 - 02:19:29 CST)
- Fatal error: Unable to find dihedral parameters (Sun Dec 05 2021 - 06:26:46 CST)
- Changing residue name for a resid (Sat Sep 18 2021 - 06:08:41 CDT)
- Adding oxygen molecules (Thu Jul 15 2021 - 04:12:50 CDT)
Kibria Imtiaz Shabbir
- Re: CNT structure formation (Fri Nov 26 2021 - 21:48:21 CST)
- CNT structure formation (Thu Nov 25 2021 - 03:52:13 CST)
Kim Branson
- Re: VMD 1.6a4 core dumps. (Thu Nov 23 2000 - 21:45:20 CST)
- VMD 1.6a4 core dumps. (Thu Nov 23 2000 - 19:35:00 CST)
- nvidia woes. (Mon Sep 11 2000 - 21:10:28 CDT)
- Re: Announce: VMD 1.6a1 is available (Sun Aug 27 2000 - 23:13:24 CDT)
- vmd on redhat6.2 and elsa gladiac (Tue Aug 15 2000 - 21:32:06 CDT)
Kim Foster
- vmd/namd connection in linux (Thu Jun 15 2000 - 15:58:08 CDT)
Kim Gunnerson
- Units for Measure Dipole (Fri Feb 02 2007 - 16:51:16 CST)
- Re: breaking a big dcd file (Wed Jan 11 2006 - 13:41:49 CST)
Kim Taylor
- Trying to get Crystal Eyes to work on VMD with Twin View confirguation...Fixed myself (Wed Sep 07 2005 - 19:57:15 CDT)
- Trying to get Crystal Eyes to work on VMD with Twin View confirguation (Wed Sep 07 2005 - 19:35:24 CDT)
Kim Vilbour Andersen
- Re: Stereo on SGI Octane 250HMz R10000, IRIX 6.5 (Mon Feb 15 1999 - 05:21:17 CST)
- Stereo on SGI Octane 250HMz R10000, IRIX 6.5 (Fri Feb 12 1999 - 09:20:16 CST)
Kim, Kwiseon
- Stereo VMD on Mac G5 (Mon May 22 2006 - 12:05:23 CDT)
- RE: Stereo on MacG5 (single processor) for VMD, Chimera UCSF etc. (Wed Mar 29 2006 - 15:47:24 CST)
- Re: Classroom Stereo projection (Wed Oct 19 2005 - 12:30:12 CDT)
- Re: Classroom Stereo projection (Wed Oct 19 2005 - 11:03:19 CDT)
- RE: is VMD compatible with NVIDIA 3D stereo drivers ? (Fri Mar 12 2004 - 11:01:29 CST)
- RE: is VMD compatible with NVIDIA 3D stereo drivers ? (Fri Mar 12 2004 - 09:50:07 CST)
- RE: removing residues/fragments from the system (Sun Feb 15 2004 - 09:09:07 CST)
- RE: removing surrounding water molecules (Fri Feb 13 2004 - 16:51:33 CST)
kim, stephanie S.
- Re: Aligning a dcd file of a protein consisting two chains (Thu Aug 04 2016 - 09:02:38 CDT)
- Aligning a dcd file of a protein consisting two chains (Wed Aug 03 2016 - 11:31:37 CDT)
Kimberly Ann Foster
- using trackers (Tue May 23 2000 - 16:09:40 CDT)
Kin Leung CHU
- Problem with topotools for residue >10k (Tue Jun 23 2015 - 05:16:53 CDT)
- Questions with Solvation with TIP4P Water Model (Thu Apr 02 2015 - 01:58:01 CDT)
Kiniu Wong
- "Draw" different things in different frames (Sat Apr 16 2005 - 20:16:02 CDT)
Kinkini Jayasundara
- Fwd: Diffusion coefficient calculation (Sat Sep 29 2018 - 11:30:47 CDT)
kinshuk_at_chem.iitb.ac.in
- installation problem vmd 1.8.6 on fedora 3 (Fri Feb 08 2008 - 00:15:50 CST)
- Re: residue selection (water molecule within 5 ang. to protein in simulation) (Mon Oct 15 2007 - 23:54:21 CDT)
- residue selection (water molecule within 5 ang. to protein in simulation) (Sun Oct 14 2007 - 02:21:32 CDT)
Kipp Johnson
- Unwrapping a trajectory with H2O (Mon Mar 17 2014 - 18:08:45 CDT)
Kiraly Andras
- Re: VMD with Babel and chemical2vmd (Tue Apr 22 1997 - 13:58:15 CDT)
- VMD with Babel and chemical2vmd (Mon Apr 21 1997 - 18:35:26 CDT)
Kiran, Kotresh
- Can any of you help me out in building VMD pls (Fri Mar 08 2002 - 05:48:35 CST)
Kirby Vandivort
- Announce: VMD at Super Computing 99 (Thu Nov 11 1999 - 16:32:51 CST)
- Re: VMD with 3D TV (Thu Dec 18 2014 - 15:26:21 CST)
- Re: Dynamical Network Analysis (NetworkView): Changing contact cutoff values for edges (Tue Aug 26 2014 - 10:53:27 CDT)
- Re: Problem with RBCG tutorial! (Wed Aug 06 2014 - 10:06:00 CDT)
- Re: How do you construct a .cgc file that actually works? (Wed Feb 05 2014 - 17:19:26 CST)
- Re: STAMP Multiseq (Tue Aug 13 2013 - 12:03:49 CDT)
- Re: Coarse Graining Cholesterol with VMD's cg builder (Tue Jul 09 2013 - 13:14:18 CDT)
- Re: FW: Dynamical network analysis-NetworkView (Tue Jul 09 2013 - 11:29:29 CDT)
- Re: What is revbonds in cgtools.tcl? (Thu Jun 13 2013 - 09:24:54 CDT)
- Re: CGTools with pdb and top files (Tue Apr 02 2013 - 16:36:47 CDT)
- Re: Theory of backmapping of CGTools (Mon Mar 25 2013 - 15:37:55 CDT)
- Re: Use of coarse grain plugin (Tue Feb 28 2012 - 16:53:50 CST)
- Re: multiseq doesn't respond to ctrl key correctly (Fri Feb 10 2012 - 10:19:22 CST)
- Re: Clustering MD trajectories (Wed Sep 21 2011 - 14:52:54 CDT)
- Re: how to mark regions in Multiseq (Tue Mar 29 2011 - 10:13:48 CDT)
- Re: Multiseq in text mode (Tue Feb 08 2011 - 11:49:43 CST)
- Re: Installation problem with VMD, Multiseq, and BLAST (Tue Feb 01 2011 - 14:19:55 CST)
- Re: Installation problem with VMD, Multiseq, and BLAST (Tue Feb 01 2011 - 11:08:55 CST)
- Re: (Tue Dec 07 2010 - 11:15:01 CST)
- Re: Select non-redundant set using struture Qr not working (Tue Oct 19 2010 - 11:54:26 CDT)
- Re: multiseq/stamp alignment of coiled coil bundle and homo-dimer (Fri Jul 30 2010 - 14:30:05 CDT)
- Re: multiseq/stamp alignment of coiled coil bundle and homo-dimer (Thu Jul 29 2010 - 10:33:26 CDT)
- Re: multiseq/stamp alignment of coiled coil bundle and homo-dimer (Wed Jul 28 2010 - 16:36:10 CDT)
- Re: keyboard-mouse-controlled view for VMDMovie plugin (Tue Mar 09 2010 - 16:00:47 CST)
- Re: coarse-grained solvate usage (Fri Nov 20 2009 - 12:09:51 CST)
- Re: Installing Multiseq updates (Thu Sep 17 2009 - 11:54:44 CDT)
- Re: Installing Multiseq updates (Thu Sep 17 2009 - 10:44:07 CDT)
- Re: CGTools error: atom select: cannot parse selection text... (Tue Sep 15 2009 - 11:32:35 CDT)
- Re: CGTools error: atom select: cannot parse selection text... (Mon Sep 14 2009 - 14:16:24 CDT)
- Re: VMD, MultiSeq, STAMP (Mon Aug 31 2009 - 14:25:30 CDT)
- Re: (Thu Jul 10 2008 - 11:05:33 CDT)
kirtana S
- obtain a list of residue numbers (Mon Jul 07 2014 - 12:11:40 CDT)
- Use of topotools (Thu Sep 20 2012 - 00:13:47 CDT)
- Use of coarse grain plugin (Wed Feb 08 2012 - 17:35:26 CST)
- Re: topotools (Sat Nov 12 2011 - 02:01:26 CST)
- Re: topotools (Fri Nov 11 2011 - 09:51:48 CST)
- Re: topotools (Thu Nov 10 2011 - 23:49:47 CST)
- graphical representation (Tue Nov 01 2011 - 12:21:29 CDT)
- topotools (Wed Oct 12 2011 - 15:45:13 CDT)
- redirecting to output (Wed Sep 21 2011 - 13:31:52 CDT)
- extra characters (Tue Sep 20 2011 - 10:54:07 CDT)
- Re: select each element of array (Mon Sep 19 2011 - 20:29:25 CDT)
- Re: select each element of array (Mon Sep 19 2011 - 17:31:43 CDT)
- select each element of array (Mon Sep 19 2011 - 11:11:59 CDT)
- output values in my script (Thu Sep 08 2011 - 17:38:04 CDT)
- Re: VMD align to principal axis (Wed Sep 07 2011 - 13:47:51 CDT)
- VMD align to principal axis (Tue Sep 06 2011 - 22:06:04 CDT)
- plugin (Mon Sep 05 2011 - 13:38:47 CDT)
- script (Mon Aug 08 2011 - 16:09:45 CDT)
- script (Mon Jul 18 2011 - 13:20:52 CDT)
- script (Tue Jul 12 2011 - 11:12:41 CDT)
- Re: import selection in array for script (Fri Jul 08 2011 - 15:36:50 CDT)
- import selection in array for script (Fri Jul 08 2011 - 14:37:11 CDT)
- script (Wed Jul 06 2011 - 17:04:29 CDT)
- problem with dispdev (Wed May 27 2009 - 15:59:41 CDT)
- Angles in psf file (Tue May 26 2009 - 15:05:20 CDT)
- bonds in .psf file (Thu May 21 2009 - 12:32:35 CDT)
- angles and dihedrals in .psf file (Thu May 21 2009 - 10:45:51 CDT)
- Thiol on gold (Thu May 07 2009 - 23:57:48 CDT)
Kitzmiller, Nate
- fftk - MM/QM distances not converging (Sat Jul 22 2017 - 23:44:30 CDT)
KK R
- Re: Using BigDCD to wrap, unwrap and animate a long MD trajectory (Wed Jul 15 2015 - 11:30:02 CDT)
- Problem using BigDCD to wrap, unwrap and animate a long MD trajectory (Fri Jul 10 2015 - 14:51:23 CDT)
- Using BigDCD to wrap, unwrap and animate a long MD trajectory (Wed Jul 08 2015 - 12:52:47 CDT)
- Extracting complex of protein-ligand+water from every frame of DCD trajectory (Tue Feb 18 2014 - 13:30:19 CST)
KK Sahu
- VMD moviemaker (Tue Jun 07 2011 - 05:22:34 CDT)
Klaus Hoffmeier
- multiple alignment tool (Thu Feb 03 2005 - 10:59:10 CST)
- multiple alignment tool (Thu Feb 03 2005 - 10:30:52 CST)
- Multiple Sequence Alignment Extension (Tue Dec 14 2004 - 08:06:22 CST)
Klaus Kramer
- volume problems (Thu Mar 06 2003 - 12:56:57 CST)
Klimkowski, V
- Re: .str file generation of nitrile group containing ligands (Thu Sep 26 2024 - 21:04:11 CDT)
- Re: FFTK - Dihedral doesn't fit the QM target data (Thu Mar 14 2024 - 18:23:27 CDT)
- Re: Most relevant VMD install (Thu Sep 08 2022 - 10:29:47 CDT)
- Most relevant VMD install (Tue Sep 06 2022 - 20:52:51 CDT)
Klimkowski, Valentine
- VMD on Sequoia (Fri Feb 21 2025 - 09:51:54 CST)
Kliuchnikov, Evgenii
- RE: VMD segmentation fault (core dumped) (Mon Sep 16 2019 - 20:59:47 CDT)
- RE: VMD segmentation fault (core dumped) (Mon Sep 16 2019 - 17:51:16 CDT)
- VMD segmentation fault (core dumped) (Mon Sep 16 2019 - 12:53:42 CDT)
- Normal mode analysis (Thu Sep 12 2019 - 18:11:16 CDT)
klsale
- Re: multiple attempts before vmd starts up (Thu Oct 18 2007 - 13:35:36 CDT)
- Fitting trajectory frames to another molecule (Mon Jul 18 2005 - 18:49:15 CDT)
KM Tu
- A bug about "trans" command (Fri Sep 16 2011 - 10:33:49 CDT)
Knapp Bernhard
- Re: cartoon of alpha carbon trace (Fri Nov 14 2014 - 10:24:32 CST)
- Re: cartoon of alpha carbon trace (Thu Nov 13 2014 - 05:39:06 CST)
- cartoon of alpha carbon trace (Wed Nov 12 2014 - 08:00:27 CST)
knowlesc_at_msu.edu
- Color problem. (Wed May 13 2009 - 13:55:31 CDT)
Knut JÃ¸rgen Bjuland
- Re: RE : pbc tools in vmd for simulation (Sun Apr 18 2010 - 00:54:27 CDT)
Knut Jørgen Bjuland
- Re: compile vmd (Wed Sep 22 2010 - 11:15:13 CDT)
- Re: Hydrogen bonds (Wed Sep 22 2010 - 11:19:53 CDT)
- compile vmd (Wed Sep 15 2010 - 11:54:17 CDT)
- Re: PQR parser failure in pqr plugin 0.5 and pqr plugin in latest alpha (Wed Aug 18 2010 - 16:14:53 CDT)
- PQR parser failure in pqr plugin 0.5 and pqr plugin in latest alpha (Wed Aug 18 2010 - 09:11:21 CDT)
- Tachyon 0.9.10 and recommende version of cuda? (Mon May 24 2010 - 05:10:37 CDT)
- vmd does not read pqr file correct, vmd parse chain information incorrect. (Tue Apr 20 2010 - 09:58:35 CDT)
- vmd does not read pqr file correct, vmd parse chain information incorrect. (Tue Apr 20 2010 - 09:53:57 CDT)
- Re: Problem with vmd and pqr file (Sun Apr 18 2010 - 00:55:54 CDT)
- Problem with vmd and pqr file (Sat Apr 17 2010 - 13:51:13 CDT)
- question about vmd use (Fri Apr 09 2010 - 02:26:32 CDT)
- build dependency (Fri Apr 09 2010 - 02:28:48 CDT)
- Re: problem with ied and vmd,ImportError: liblapack.so.3: cannot open shared object file: No such file or directory (Thu Mar 25 2010 - 09:49:05 CDT)
- problem with ied and vmd,ImportError: liblapack.so.3: cannot open shared object file: No such file or directory (Thu Mar 25 2010 - 04:26:35 CDT)
Knut Teigen
- Is it possible to read a discover trajectory into VMD? (Sat May 10 2003 - 09:11:23 CDT)
Kochnev, Iurii K
- molfile plugin compilation for webassembly (Wed Dec 01 2021 - 12:49:27 CST)
Kodituwakku,Dimuthu Nirmani
- C atom projection calculation (Wed Nov 16 2022 - 22:23:23 CST)
kohsj_at_ihpc.a-star.edu.sg
- Re: Movie Maker in VMD (Wed Jul 05 2006 - 12:01:00 CDT)
konda003 .
- Delete water 5 Angstrom away of ligand (Fri Feb 17 2017 - 08:34:24 CST)
- Polymer helix wrapping on the outer surface of carbon nanotube (Fri Jan 13 2017 - 14:32:43 CST)
Kong, Ren
- about the wrap and unwrap by pbc plugin (Tue Aug 06 2013 - 11:06:41 CDT)
kong.winter
- vmd-1:how to merge two proteins (receptor & ligand) (Thu May 03 2007 - 16:06:20 CDT)
Konrad Hinsen
- Re: CCL:md rookie update (Thu Jan 08 1998 - 06:50:36 CST)
Koo Kee Kiat
- Errors compiling VMD on 1.8.3 on Solaris x86 (Fri Apr 01 2005 - 00:17:45 CST)
Kooser, Ara S
- LAMMPS reader (Tue Feb 22 2005 - 10:58:25 CST)
- RE: Conversion of trajectory files (Wed Nov 10 2004 - 10:11:32 CST)
- RE: xyz-file loading (Wed Sep 01 2004 - 15:32:50 CDT)
- RE: file type specification question (Fri Apr 16 2004 - 10:50:39 CDT)
- RE: file type specification question (Tue Apr 13 2004 - 16:08:35 CDT)
- RE: Viewing MD trajectories (Tue Apr 13 2004 - 15:46:35 CDT)
- RE: file type specification question (Tue Apr 13 2004 - 15:04:55 CDT)
- RE: xyz aluminium connectivity questions (Tue Apr 13 2004 - 10:14:28 CDT)
- RE: xyz aluminium connectivity questions (Tue Apr 13 2004 - 09:42:10 CDT)
- Re: file type specification question (Fri Apr 09 2004 - 10:37:32 CDT)
- Typing Au(111) surface (Wed Apr 07 2004 - 15:41:25 CDT)
- Atom typing (Tue Mar 30 2004 - 12:24:30 CST)
- xyz to psf (Wed Mar 24 2004 - 11:22:42 CST)
- To many bonds error. (Tue Mar 23 2004 - 13:45:15 CST)
Korey R
- Re: Clipping plane redering issues (Thu Mar 07 2019 - 18:53:54 CST)
- Clipping plane redering issues (Mon Mar 04 2019 - 10:46:00 CST)
Kos
- Re: dcd large files, charmm-VMD (Wed May 04 2005 - 11:14:22 CDT)
- Re: dcd large files, charmm-VMD (Tue Apr 26 2005 - 14:31:51 CDT)
- Re: dcd large files, charmm-VMD (Fri Apr 22 2005 - 11:00:38 CDT)
- Re: dcd large files, charmm-VMD (Fri Apr 22 2005 - 10:43:11 CDT)
- dcd large files, charmm-VMD (Thu Apr 21 2005 - 20:29:21 CDT)
- dihedral & g(r) (Tue Apr 12 2005 - 15:16:55 CDT)
Kotaro Tanaka
- Re: VMD TkConsole font size (Tue Jun 28 2016 - 08:45:28 CDT)
- VMD TkConsole font size (Tue Jun 28 2016 - 02:24:58 CDT)
koushik.k
- water molecules shooting during SMD + PDB WRITE ERROR (Tue Aug 03 2010 - 06:45:25 CDT)
kovzany_at_go.com
- Q:selection of atoms on the surface of a molecule (Tue Feb 28 2006 - 17:22:13 CST)
Kovács, Sándor Ádám
- Re: Loading Gaussian Log File into Paratool (Mon Mar 15 2010 - 16:54:39 CDT)
kr_at_isise.rl.ac.uk
- Re: vibration (Sat Jun 08 2002 - 02:56:39 CDT)
Kraemer, Tobias
- Displaying Colors (Mon Nov 10 2014 - 07:04:58 CST)
Kramer Campen
- Re: Questions on VMD (Thu May 17 2007 - 17:45:28 CDT)
Krigel, Igal
- running LAMMPS output via VMD (Mon Feb 01 2010 - 06:10:56 CST)
Kris Feher
- vmd does not start (Mon Jan 25 2016 - 11:41:09 CST)
Krishna Suresh
- VMD for Catalina (Wed Oct 30 2019 - 17:35:22 CDT)
Krishna Vkm
- Re: Glycoprotein simulation (Sun Nov 22 2020 - 05:55:05 CST)
- Re: Do different version of NAMD would give different results? (Mon Sep 07 2020 - 08:04:08 CDT)
- Re: Do different version of NAMD would give different results? (Mon Sep 07 2020 - 04:56:11 CDT)
- Re: Do different version of NAMD would give different results? (Mon Sep 07 2020 - 04:47:50 CDT)
- Do different version of NAMD would give different results? (Sun Sep 06 2020 - 14:38:26 CDT)
- Re: cgenff atom type issue (Fri May 22 2020 - 12:40:29 CDT)
Krishnan, Marimuthu
- RE: local packing density around a chemical group (say, a methyl group or a side chain) (Thu Apr 23 2009 - 12:11:07 CDT)
- local packing density around a chemical group (say, a methyl group or a side chain) (Thu Apr 23 2009 - 10:15:44 CDT)
- time correlation function (Tue Mar 25 2008 - 22:44:40 CDT)
Kristian Mueller
- need help - hardware stereo on a Windows PC (Thu Apr 12 2001 - 11:41:36 CDT)
Kristin Wunsch
- Electron density (Wed Jan 23 2008 - 09:03:12 CST)
Kristina Woods
- Help with running IED in VMD (Tue Aug 30 2005 - 19:38:30 CDT)
- a problem using python in vmd (Thu Aug 25 2005 - 10:56:15 CDT)
Kristine Manibog
- criteria for hydrogen bonds. (Tue Apr 23 2013 - 19:39:17 CDT)
- is there a way to measure the long axis of a protein or angle between domains in VMD (Wed Apr 10 2013 - 00:54:46 CDT)
Kristy L. Mardis
- attempting to source a script (Wed Feb 11 2004 - 15:51:17 CST)
Kshatresh Dutta Dubey
- Re: Need help in selection (Mon Nov 02 2015 - 03:37:42 CST)
- Need help in selection (Mon Nov 02 2015 - 03:12:13 CST)
- VMD movie error (Tue Aug 04 2015 - 17:00:51 CDT)
- Re: need help for tcl script (Sun Dec 14 2014 - 14:52:54 CST)
- need help for tcl script (Sun Dec 14 2014 - 10:02:14 CST)
- adding solvation box (Thu Dec 11 2014 - 09:53:24 CST)
- Re: A query about the deletion of Hydrogen and re-adding them by psfgen (Tue Dec 09 2014 - 17:23:07 CST)
- A query about the deletion of Hydrogen and re-adding them by psfgen (Tue Dec 09 2014 - 09:39:10 CST)
- query about the force field toolkit (Tue Dec 02 2014 - 02:56:45 CST)
- paratool/forcefield tool error (Mon Dec 01 2014 - 08:16:07 CST)
- Fixing the rotation of complex during trajectory visualization (Wed Nov 19 2014 - 06:09:27 CST)
- Query about the NAMD user forum (Wed Nov 12 2014 - 03:27:12 CST)
- VMD error (Thu Jul 31 2014 - 05:56:41 CDT)
- How to delete a residue (Tue Oct 26 2010 - 00:51:45 CDT)
kskeby
- Re: Fwd: Compiling VMD with python interpreter on MacOSX (Wed Nov 18 2015 - 10:43:22 CST)
- Fwd: Compiling VMD with python interpreter on MacOSX (Wed Nov 18 2015 - 08:29:45 CST)
Kuen Phon Wu
- caculate the RMSD of 10 DNA (Wed Mar 07 2001 - 22:50:24 CST)
Kuiper, Ben
- Exporting Average Structure to .pdb file (Mon Aug 03 2015 - 12:24:08 CDT)
Kukol, Andreas
- AutoPSF error (Wed Jul 30 2014 - 05:12:20 CDT)
- specden - IR spectral density calculator plugin (Thu Aug 04 2011 - 03:25:17 CDT)
kumar prashanth
- selection update (Fri Jun 26 2009 - 08:03:21 CDT)
- Memory allocation problem (Mon Jun 15 2009 - 04:06:49 CDT)
Kung, Ryan
- Re: Problems generating movies for vmd 1.9.4a53 (Sat Mar 02 2024 - 11:35:49 CST)
- Problems generating movies for vmd 1.9.4a53 (Thu Feb 29 2024 - 09:54:53 CST)
Kurt Smith
- data file extensions (Wed May 24 2006 - 11:41:21 CDT)
- Re: Sphere size (Thu Apr 21 2005 - 15:04:39 CDT)
- Sphere size (Wed Apr 20 2005 - 17:18:45 CDT)
- loading PDB+PSF (Tue Mar 16 2004 - 03:01:10 CST)
Ky Wildermuth
- Re: generating images without shading (Wed Aug 31 2016 - 15:37:42 CDT)
- Running a source script from a C shell (Wed Jun 01 2016 - 21:52:38 CDT)
- issue drawing a PBC box centered on a selection (Thu Mar 31 2016 - 19:14:48 CDT)
Kyle Billings
- Re: Atoms poorly guessed after applying a patch in Psfgen (Thu Mar 28 2024 - 15:15:23 CDT)
- Atoms poorly guessed after applying a patch in Psfgen (Mon Mar 25 2024 - 12:28:59 CDT)
Kyle Mills
- Volume slice rendering TachyonOptiX (Wed Apr 06 2016 - 06:36:21 CDT)
- Re: Depth of field with movie maker (Mon Apr 04 2016 - 16:37:55 CDT)
- Depth of field with movie maker (Thu Mar 31 2016 - 07:27:50 CDT)
- Re: Welcome to vmd-l (Fri Jul 10 2015 - 13:08:48 CDT)
Kyle Wildermuth
- Re: Running a source script from a C shell (Thu Jun 02 2016 - 13:38:04 CDT)
L. Michel Espinoza-Fonseca
- Re: Control of aminoacid ionization in VMD (Tue Nov 03 2009 - 05:24:46 CST)
- Re: using NAMD with SPC water (Mon Oct 26 2009 - 10:54:56 CDT)
- Re: using NAMD with SPC water (Mon Oct 26 2009 - 10:24:19 CDT)
- Re: using NAMD with SPC water (Mon Oct 26 2009 - 09:40:33 CDT)
- Re: Secondary Structure Depiction (Tue Apr 21 2009 - 10:33:50 CDT)
- Re: MM/PBSA in VMD (Fri Feb 27 2009 - 06:49:43 CST)
- Re: defintion of alpha helix in vmd? (Tue Dec 16 2008 - 04:41:47 CST)
- Re: entropy calculations (Fri Nov 21 2008 - 16:05:11 CST)
- Re: convert THR and SER to the phosphorylated forms (Wed Oct 22 2008 - 04:01:01 CDT)
- water residence time (Wed Sep 24 2008 - 15:56:53 CDT)
- Re: Movie maker problem in VMD (Wed Sep 24 2008 - 11:56:11 CDT)
- Re: psfgen problem (Thu Sep 18 2008 - 10:13:55 CDT)
- Re: How to ionize a Shape Based CG Model? (Mon Sep 15 2008 - 10:02:27 CDT)
- Re: TXT program editor (Fri Aug 29 2008 - 10:58:59 CDT)
- Re: problem with correct visualization of residues (Tue Jul 15 2008 - 13:53:54 CDT)
- Re: problem with correct visualization of residues (Tue Jul 15 2008 - 13:44:13 CDT)
- Re: problem with correct visualization of residues (Tue Jul 15 2008 - 13:08:55 CDT)
- problem with correct visualization of residues (Tue Jul 15 2008 - 12:50:58 CDT)
- Re: enantiomers (Fri Jun 20 2008 - 09:10:31 CDT)
- Re: preriodic box problem (Fri May 30 2008 - 05:20:24 CDT)
- change residue name and write a trajectory file (Thu Apr 10 2008 - 17:02:13 CDT)
- Re: old VMD post - RE: measuring distances in vmd tkon (Thu Mar 20 2008 - 13:35:33 CDT)
- Re: old VMD post - RE: measuring distances in vmd tkon (Thu Mar 20 2008 - 13:46:21 CDT)
- Re: running ca-dist.tcl (Thu Mar 20 2008 - 10:38:50 CDT)
- Re: closewater.tcl (Mon Mar 17 2008 - 15:41:14 CDT)
- Solvent accessible surface area calculation (Mon Mar 10 2008 - 14:41:08 CDT)
- Re: VMD languaje information (Tue Mar 04 2008 - 15:48:41 CST)
- Re: VMD languaje information (Tue Mar 04 2008 - 14:54:36 CST)
- Re: spacial distribution function (Tue Feb 19 2008 - 19:48:02 CST)
- Fwd: spacial distribution function (Tue Feb 19 2008 - 18:54:53 CST)
- spacial distribution function (Tue Feb 19 2008 - 18:52:15 CST)
- Re: variables from VMD to psfgen (Mon Feb 11 2008 - 18:22:49 CST)
- measure SASA (Sun Feb 10 2008 - 17:48:12 CST)
- Re: namd energy plugin (Sun Feb 10 2008 - 16:10:36 CST)
- namd energy plugin (Sun Feb 10 2008 - 15:44:04 CST)
- Re: proximity of residues (Wed Jan 23 2008 - 04:21:01 CST)
- Re: local urea concentration (Mon Jan 21 2008 - 12:05:32 CST)
- local urea concentration (Mon Jan 21 2008 - 11:17:14 CST)
- Re: SSE from the protein sequence (Mon Jan 21 2008 - 10:51:11 CST)
- Re: MSMS plugin for windows (Thu Jan 17 2008 - 09:26:26 CST)
- measure contacts script (Fri Jan 11 2008 - 05:57:10 CST)
- Re: Hydrogens in vmd (Thu Jan 03 2008 - 15:17:54 CST)
- Re: calculation of alpha helical content (Tue Dec 11 2007 - 11:18:14 CST)
- calculation of alpha helical content (Tue Dec 11 2007 - 10:29:24 CST)
- Re: drawing trajectory of a molecule (Fri Dec 07 2007 - 09:40:51 CST)
- Re: drawing trajectory of a molecule (Fri Dec 07 2007 - 09:29:56 CST)
- drawing trajectory of a molecule (Fri Dec 07 2007 - 08:30:04 CST)
- Re: Render Snapshot from the Tcl console (jpg gif format) (Sun Dec 02 2007 - 17:59:55 CST)
- Re: Render Snapshot from the Tcl console (jpg gif format) (Sun Dec 02 2007 - 17:58:31 CST)
- Re: Timeline viewer (Sat Dec 01 2007 - 08:05:39 CST)
- Re: solvate crashes (Thu Nov 22 2007 - 05:45:12 CST)
- Re: analysing big trajectories (fwd) (Tue Nov 20 2007 - 18:39:03 CST)
- Re: analysing big trajectories (fwd) (Tue Nov 20 2007 - 18:03:25 CST)
- Re: Small molecules (Fri Oct 12 2007 - 18:44:00 CDT)
- Re: query regarding membrane building (Sat Sep 29 2007 - 14:05:01 CDT)
- Re: topology file in /linux/src/vmd-1.8.6/plugins/noarch/tcl/readcharmmtop1.0/top_all27_prot_lipid_na.inp (Tue Sep 25 2007 - 19:33:46 CDT)
- Re: sidechain correlated motions (Fri Sep 21 2007 - 10:41:21 CDT)
- sidechain correlated motions (Wed Sep 19 2007 - 17:18:04 CDT)
- Re: changing the tile angle of a peptide embedded in a membrane (Mon Sep 10 2007 - 13:05:36 CDT)
- changing the tile angle of a peptide embedded in a membrane (Mon Sep 10 2007 - 12:57:13 CDT)
- changing the tilt angle of a peptide embedded in a membrane (Mon Sep 10 2007 - 13:08:38 CDT)
- Re: namd-l: STRIDE Algorithm (Mon Sep 10 2007 - 10:43:56 CDT)
- Re: peptide builder (Fri Sep 07 2007 - 11:26:41 CDT)
- Fwd: peptide builder (Fri Sep 07 2007 - 11:35:39 CDT)
- Re: Monte Carlo conformational search (Thu Aug 09 2007 - 07:58:19 CDT)
- Re: namd-l: How to calculate the C alpha RMSD from NAMD trajectory (Fri Aug 03 2007 - 02:59:02 CDT)
- adding urea to a protein-water system (Mon Jul 30 2007 - 05:05:46 CDT)
- Re: parallel capabilities (Tue Jun 26 2007 - 15:16:58 CDT)
- Re: Paratool Window (Mon Jun 11 2007 - 14:52:14 CDT)
- Re: AutoPSF (Thu Mar 15 2007 - 17:13:38 CDT)
- Re: AutoPSF (Thu Mar 15 2007 - 16:41:55 CDT)
- Re: AutoPSF (Thu Mar 15 2007 - 15:56:59 CDT)
- Re: BPS Meeting @ Baltimore (Thu Mar 08 2007 - 09:40:16 CST)
- Re: VMD open GL Display problem (Tue Feb 27 2007 - 10:06:26 CST)
- Re: rmsf calculations (Tue Feb 27 2007 - 05:51:47 CST)
- Re: problem with autopsf (Thu Feb 15 2007 - 08:16:06 CST)
- problem with autopsf (Thu Feb 15 2007 - 07:44:18 CST)
- Re: namd-l: Re: ionize (big, big, big system!) (Mon Feb 12 2007 - 17:49:25 CST)
- Re: ionize (big, big, big system!) (Mon Feb 12 2007 - 11:19:57 CST)
- ionize (big, big, big system!) (Mon Feb 12 2007 - 10:58:32 CST)
- Re: Saving work in VMD--this seems ridiculously difficult! (Thu Feb 08 2007 - 17:13:52 CST)
- Re: Delete frames in a script (Tue Jan 30 2007 - 11:02:41 CST)
- Re: Delete frames in a script (Tue Jan 30 2007 - 11:00:41 CST)
- Re: Delete frames in a script (Tue Jan 30 2007 - 10:38:22 CST)
- Re: Windows/Cannot generate .dx file! (Mon Jan 15 2007 - 11:24:43 CST)
- changing the representation of a vector (Fri Nov 17 2006 - 10:09:55 CST)
- Re: modelling phosphorylation (Mon Sep 18 2006 - 09:45:03 CDT)
- Re: DPPC Bilayer Size (Thu Sep 14 2006 - 18:11:28 CDT)
- saving charges in the B column (Fri Sep 08 2006 - 18:53:11 CDT)
- dipole moment (Fri Sep 08 2006 - 11:46:59 CDT)
- Re: autoionize behaviour on big systems (Mon Aug 28 2006 - 01:12:18 CDT)
- autoionize behaviour on big systems (Mon Aug 28 2006 - 00:44:24 CDT)
- Re: problems with autoionize (Thu Aug 24 2006 - 13:17:30 CDT)
- Re: problems with autoionize (Tue Aug 22 2006 - 21:18:06 CDT)
- Re: problems with autoionize (Tue Aug 22 2006 - 19:16:29 CDT)
- Re: problems with autoionize (Tue Aug 22 2006 - 17:55:02 CDT)
- problems with autoionize (Tue Aug 22 2006 - 17:36:39 CDT)
- corrigendum: error when solvating a system (Mon Aug 21 2006 - 20:51:54 CDT)
- error when solvating a system (Mon Aug 21 2006 - 20:49:27 CDT)
- changing the name of a residue (Mon Aug 21 2006 - 10:23:21 CDT)
- Re: segment name limit with solvate and psfgen (Sat Aug 19 2006 - 23:30:06 CDT)
- reading cmap wih vmd (Thu Aug 17 2006 - 19:17:26 CDT)
- Re: SASA calculation for a trajectory (Tue Aug 08 2006 - 21:31:51 CDT)
- Re: about maximum number of atoms (Wed Aug 02 2006 - 17:04:07 CDT)
- Re: about maximum number of atoms (Wed Aug 02 2006 - 16:41:16 CDT)
- about maximum number of atoms (Wed Aug 02 2006 - 15:25:41 CDT)
- Re: Small molecules alignment with VMD (Mon Jun 05 2006 - 10:52:23 CDT)
- vmd 1.8.5 (Fri Jun 02 2006 - 12:14:46 CDT)
- secondary structure assignment (Tue May 30 2006 - 16:53:51 CDT)
- contact between 2 residues (Tue May 30 2006 - 14:03:06 CDT)
- wraping two chains from a simulation (Fri May 12 2006 - 02:40:59 CDT)
- loading amber topology (Mon May 01 2006 - 13:43:12 CDT)
- Re: Secondary Structure along a trajectory (Thu Apr 27 2006 - 10:30:29 CDT)
- Re: polynucleotide builder (Mon Apr 24 2006 - 02:15:31 CDT)
- ied on vmd (Tue Apr 04 2006 - 16:11:30 CDT)
- extracting values from a dx file (Thu Mar 23 2006 - 07:45:35 CST)
- changing colours isosurface (Mon Mar 13 2006 - 10:44:23 CST)
- Re: selecting protein + water shell (Fri Mar 10 2006 - 10:02:32 CST)
- selecting protein + water shell (Fri Mar 10 2006 - 09:43:34 CST)
- radial distribution (Fri Mar 10 2006 - 08:10:56 CST)
- Re: namd-l: a display problem (Thu Mar 09 2006 - 10:53:08 CST)
- energy minimization of a trajectory with vmd+namd (Wed Mar 08 2006 - 08:41:37 CST)
- Re: pbc and vmd (Tue Mar 07 2006 - 10:28:34 CST)
- Re: pbc and vmd (Tue Mar 07 2006 - 10:01:14 CST)
- Re: pbc and vmd (Tue Mar 07 2006 - 07:11:21 CST)
- pbc and vmd (Sun Mar 05 2006 - 18:06:50 CST)
- Re: converting pdb to xtc (Mon Feb 27 2006 - 14:20:04 CST)
- converting pdb to xtc (Mon Feb 27 2006 - 10:17:42 CST)
- Re: PSF tools in windows and long paths (Tue Feb 14 2006 - 04:38:34 CST)
- number of waters around a protein (Mon Feb 13 2006 - 06:05:23 CST)
- using paratool (Fri Feb 10 2006 - 17:45:32 CST)
- Re: VMD 1.8.4 beta 11 test version available (Fri Feb 10 2006 - 17:43:07 CST)
- RMSD question (Wed Aug 17 2005 - 06:44:24 CDT)
L. Signorile
- aligning molecules with modes from ProDy (Thu Oct 13 2016 - 06:32:24 CDT)
l.spitzer_at_fr.fournierpharma.com
- Réf. : Re: VMD1.8.5 : multiseq db (Wed Aug 30 2006 - 03:06:55 CDT)
- Réf. : Re: Réf. : Re: vmd-l : VMD1.8.5 : multiseq db (Tue Aug 29 2006 - 11:18:08 CDT)
- Réf. : Re: vmd-l : VMD1.8.5 : multiseq db (Tue Aug 29 2006 - 09:48:11 CDT)
- vmd-l : VMD1.8.5 : multiseq db (Tue Aug 29 2006 - 03:29:44 CDT)
- Réf. : Re: calculate rmsd in a loop:feedback [sorry if you get it twice] (Fri Nov 18 2005 - 04:48:26 CST)
- Réf. : Re: Réf. : calculate rmsd in a loop:feedback [sorry if you get it twice] (Thu Nov 17 2005 - 04:50:45 CST)
- Réf. : calculate rmsd in a loop:feedback [sorry if you get it twice] (Thu Nov 17 2005 - 03:52:05 CST)
- Réf. : Re: Réf. : Re: visualization of DX map (Thu Oct 27 2005 - 03:22:04 CDT)
- Réf. : Re: visualization of DX map (Tue Oct 25 2005 - 02:28:43 CDT)
- visualization of DX map (Mon Oct 24 2005 - 10:38:40 CDT)
Lachele Foley
- scale angstroms to pixels (or mm, inches, etc.) (Mon Mar 06 2017 - 07:55:01 CST)
Lady L. Gutierrez
- RNA polymerase docking on DNA (Wed Feb 23 2005 - 18:54:11 CST)
ladyg30_at_eden.rutgers.edu
- Tcl startup error on 3X3 tiled display (Fri Nov 19 2004 - 13:00:32 CST)
Lai zaizhi
- Re: Re: convert prmtop to psf (Tue Jun 22 2010 - 11:54:56 CDT)
- Re: Re: convert prmtop to psf (Tue Jun 22 2010 - 12:22:16 CDT)
- Re: Re: convert prmtop to psf (Mon Jun 21 2010 - 17:33:07 CDT)
- Re: convert prmtop to psf (Mon Jun 21 2010 - 16:41:37 CDT)
- Fwd: convert prmtop to psf (Mon Jun 21 2010 - 16:42:10 CDT)
Lai, Jonathan
- RE: Problem while using multiseq (Thu Dec 22 2016 - 09:46:16 CST)
- RE: Re: Qres portion of MultiSeq for vmd 1.9.2 (Fri Apr 15 2016 - 15:47:58 CDT)
- RE: pdb was not generated (Thu Jan 14 2016 - 14:49:08 CST)
- Making high quality pictures: How to increase the number of samples? (Sun Nov 01 2015 - 16:34:45 CST)
- RE: Multiseq display settings (Fri Jul 10 2015 - 12:57:10 CDT)
- RE: Primary structure, (Fri Jul 10 2015 - 11:39:26 CDT)
- Is there currently support for loading large PDBx or PDBML files (e.g. 4YBB)? (Wed May 13 2015 - 11:55:36 CDT)
Lai, Massimo
- RE: problem downloading VMD 1.8.6 source code (Thu Sep 18 2008 - 04:21:38 CDT)
- problem downloading VMD 1.8.6 source code (Wed Sep 17 2008 - 09:59:40 CDT)
Laine Tereza
- video 360 vmd (Fri Feb 23 2018 - 14:37:09 CST)
Lakshmikanth Srinivasamurthy
- Charge Optimization error (Sun Feb 19 2017 - 03:13:35 CST)
Lalehan Ozalp
- Missing substituents in the converted pdb format (Mon Dec 11 2017 - 03:01:46 CST)
Lalit
- Re: topotools {.top} for Gromacs {.tpr} generation (Tue Jun 07 2011 - 15:12:29 CDT)
- topotools {.top} for Gromacs {.tpr} generation (Mon Jun 06 2011 - 18:19:21 CDT)
- Re: Adding two separate pdb files: Lipid Bilayer's with Protein's (Wed May 20 2009 - 13:36:56 CDT)
- Adding two separate pdb files: Lipid Bilayer's with Protein's (Mon May 18 2009 - 18:07:34 CDT)
lam nguyen
- Re: make movies with user-defined script (Tue Mar 13 2012 - 16:23:17 CDT)
- Re: make movies with user-defined script (Mon Mar 12 2012 - 20:37:19 CDT)
- Re: make movies with user-defined script (Sun Mar 11 2012 - 18:55:38 CDT)
- Re: make movies with user-defined script (Fri Mar 09 2012 - 19:57:53 CST)
- Re: make movies with user-defined script (Fri Mar 09 2012 - 18:34:18 CST)
- Re: make movies with user-defined script (Fri Mar 09 2012 - 17:31:35 CST)
- Re: make movies with user-defined script (Fri Mar 09 2012 - 12:10:05 CST)
- make movies with user-defined script (Mon Mar 05 2012 - 12:49:00 CST)
- Re: VMD slows down at multiple windows (Fri Nov 18 2011 - 13:42:12 CST)
- Re: VMD slows down at multiple windows (Fri Nov 18 2011 - 12:43:30 CST)
- Re: VMD slows down at multiple windows (Thu Nov 17 2011 - 14:20:41 CST)
- Re: VMD slows down at multiple windows (Thu Nov 17 2011 - 14:01:51 CST)
- Re: VMD slows down at multiple windows (Thu Nov 17 2011 - 14:05:18 CST)
- Re: VMD slows down at multiple windows (Thu Nov 17 2011 - 11:16:10 CST)
- Re: VMD slows down at multiple windows (Wed Nov 16 2011 - 22:20:54 CST)
- Re: VMD slows down at multiple windows (Wed Nov 16 2011 - 22:30:03 CST)
- VMD slows down at multiple windows (Mon Nov 14 2011 - 16:51:46 CST)
- Re: coloring bonds on the same segments differently from those between segments (Fri Oct 21 2011 - 17:06:35 CDT)
- coloring bonds on the same segments differently from those between segments (Thu Oct 20 2011 - 19:07:42 CDT)
Lambert van Eijck
- Re: traj not visualized but pdb is visualized (Thu Jun 07 2007 - 09:55:57 CDT)
- traj not visualized but pdb is visualized (Thu Jun 07 2007 - 04:44:49 CDT)
Lan He
- RE: how to display the periodic box in VMD (Thu Oct 08 2009 - 13:29:10 CDT)
- RE: how to display the periodic box in VMD (Thu Oct 08 2009 - 10:46:37 CDT)
- how to display the periodic box in VMD (Wed Oct 07 2009 - 17:51:41 CDT)
- how to make a mivie by VMD (Wed Mar 25 2009 - 17:33:41 CDT)
lan hoa Trinh
- Re: Cannot show the simulation box (Thu Aug 31 2017 - 17:51:12 CDT)
- Cannot show the simulation box (Thu Aug 31 2017 - 17:21:01 CDT)
Lan Hua
- why electrostatic interaction energy increases with the increase of cutoff using namdenergy (Wed Mar 17 2010 - 21:18:55 CDT)
- why huge positive vdw energy from namdenergy plugin (Mon Mar 15 2010 - 18:02:56 CDT)
- the exact definition of the keyword "radius" of the atom selection (Sat Dec 13 2008 - 14:10:40 CST)
- Re: why atomselection "protein" can not choose all the protein atoms with different alternate locations? (Tue Oct 14 2008 - 11:55:14 CDT)
- why atomselection "protein" can not choose all the protein atoms with different alternate locations? (Mon Oct 13 2008 - 16:49:07 CDT)
Lance Pickens
- Re: VMD slowdown on MacOS X 10.3.4 (Tue Jul 20 2004 - 14:20:24 CDT)
- VMD slowdown on MacOS X 10.3.4 (Mon Jul 19 2004 - 20:29:31 CDT)
Landon Beaver
- Exelent quality watch (Wed Oct 17 2007 - 17:56:35 CDT)
Lane Votapka
- graphics command displays shapes of unusual sizes (Wed Sep 17 2014 - 17:43:55 CDT)
- Re: move volume file (Wed May 25 2011 - 13:17:26 CDT)
- move volume file (Fri May 20 2011 - 17:11:49 CDT)
lanhua
- measure hbonds (Fri May 04 2007 - 20:57:35 CDT)
- nonbond interaction energy (Fri May 04 2007 - 12:14:55 CDT)
- (no subject) (Thu May 03 2007 - 16:30:24 CDT)
- vmd can't start up after being installed in linux (Tue Apr 17 2007 - 23:22:13 CDT)
- winvmd error during calculation (Fri Apr 13 2007 - 23:17:54 CDT)
- If I want to modify measure.C, what should I do? (Mon Apr 09 2007 - 15:59:18 CDT)
- question about gofr (Sat Mar 17 2007 - 14:30:31 CDT)
lara lara
- solvent_box_type (Sat Oct 01 2011 - 08:13:43 CDT)
- Re: methanol_solvent box (Sat Oct 01 2011 - 07:17:27 CDT)
- methanol_solvent box (Sat Oct 01 2011 - 05:45:32 CDT)
- membrane_problem (Wed Oct 06 2010 - 00:29:39 CDT)
- aligning- on top of the bilayer (Wed Oct 06 2010 - 00:11:00 CDT)
Lara rajam
- Re: sub : considering waters with in 5A of solute (Wed Jul 24 2019 - 11:16:03 CDT)
- sub : considering waters with in 5A of solute (Tue Jul 23 2019 - 10:10:42 CDT)
- Sub: making a trajectory with frames having different number of water molecules. (Mon Jul 01 2019 - 19:44:18 CDT)
- Re: patching residues (Thu Feb 09 2017 - 16:42:11 CST)
- patching residues (Thu Feb 09 2017 - 15:07:11 CST)
larac_at_berkeley.edu
- Re: VMD Volmap ILS Error & Orient Function (Mon Feb 21 2011 - 13:59:40 CST)
- Re: VMD Volmap ILS Error & Orient Function (Fri Feb 18 2011 - 12:10:06 CST)
- VMD Volmap ILS Error & Orient Function (Thu Feb 17 2011 - 12:13:40 CST)
- Volmap ILS: Orient function & Invalid VDW parameters Error (Tue Feb 15 2011 - 18:23:57 CST)
- Re: VMD Volmap ILS Error (Tue Feb 08 2011 - 15:15:48 CST)
- VMD Volmap ILS Error (Mon Feb 07 2011 - 18:23:21 CST)
Larry Guy
- Re: VMD can't display new PDB secondary structure properly (pyMol, jMol can) (Mon Nov 19 2012 - 18:52:52 CST)
- VMD can't display new PDB secondary structure properly (pyMol, jMol can) (Mon Nov 19 2012 - 16:00:29 CST)
Lars Bruno Hansen
- molfile plugin and the NetCDF file format (Thu May 26 2005 - 06:21:16 CDT)
- DynamicBonds representation (Thu Dec 16 2004 - 08:58:39 CST)
- Re: python2.3 and vmd (Fri Oct 29 2004 - 02:05:38 CDT)
- Re: python2.3 and vmd (Thu Oct 28 2004 - 05:04:06 CDT)
- Re: python2.3 and vmd (Fri Oct 22 2004 - 13:40:27 CDT)
- Re: python2.3 and vmd (Fri Oct 22 2004 - 03:05:16 CDT)
- python2.3 and vmd (Thu Oct 21 2004 - 08:41:42 CDT)
- Re: Running VTK from VMD's python (Tue Nov 25 2003 - 06:55:29 CST)
- Re: Running VTK from VMD's python (Thu Nov 13 2003 - 09:51:13 CST)
- Re: Running VTK from VMD's python (Mon Nov 10 2003 - 04:12:25 CST)
- Re: Running VTK from VMD's python (Thu Oct 30 2003 - 11:15:23 CST)
- Running VTK from VMD's python (Thu Oct 30 2003 - 08:21:43 CST)
- python: error importing packages (Wed Apr 02 2003 - 06:22:56 CST)
- Unit cell information in python and IMD interface code (Thu Mar 27 2003 - 09:26:57 CST)
- bond connectivity for different frames (Tue Mar 11 2003 - 10:16:38 CST)
- Python callbacks (Mon Feb 10 2003 - 04:03:58 CST)
- Compiling VMD-1.8 as a loadable python module (Thu Feb 06 2003 - 06:15:02 CST)
Lars Burgdorf
- Re: files (Fri Dec 08 2000 - 13:57:33 CST)
- incorrect tube, trace and ribbon drawings (Mon Aug 21 2000 - 08:15:42 CDT)
latha
- script to calculate molecular surface area (Wed Jul 28 2010 - 12:46:23 CDT)
laura
- about paratool (Wed Mar 05 2008 - 02:33:41 CST)
Laura De Luca
- installation problem (Tue Nov 04 2003 - 04:59:38 CST)
Laura Ernstsen
- Problem with pbctools join (Wed Aug 21 2024 - 03:41:33 CDT)
- Problem with pbctools join (Wed Aug 21 2024 - 01:54:04 CDT)
Laura Joana
- FFTK gaussian log (Thu Aug 03 2017 - 17:40:27 CDT)
- Inconsistent atom count (Tue Jul 05 2016 - 12:04:44 CDT)
- Re: write vel binary file from dcd (command line) (Tue May 24 2016 - 10:57:58 CDT)
- write vel binary file from dcd (command line) (Tue May 24 2016 - 10:41:05 CDT)
- Re: colvars problem - different values in VMD and NAMD (Wed Apr 20 2016 - 09:53:13 CDT)
- Re: colvars problem - different values in VMD and NAMD (Tue Apr 19 2016 - 04:17:09 CDT)
- Re: colvars problem - different values in VMD and NAMD (Mon Apr 18 2016 - 09:44:06 CDT)
- Re: colvars problem - different values in VMD and NAMD (Mon Apr 18 2016 - 09:05:44 CDT)
- Re: colvars problem - different values in VMD and NAMD (Mon Apr 18 2016 - 08:31:40 CDT)
- Re: colvars problem - different values in VMD and NAMD (Mon Apr 18 2016 - 08:24:25 CDT)
- Re: colvars problem - different values in VMD and NAMD (Mon Apr 18 2016 - 07:53:44 CDT)
- Re: colvars problem - different values in VMD and NAMD (Mon Apr 18 2016 - 07:52:01 CDT)
- Re: colvars problem - different values in VMD and NAMD (Mon Apr 18 2016 - 07:36:54 CDT)
- Re: colvars problem - different values in VMD and NAMD (Sat Apr 16 2016 - 07:34:20 CDT)
- Re: colvars problem - different values in VMD and NAMD (Sat Apr 16 2016 - 05:16:22 CDT)
- colvars problem - different values in VMD and NAMD (Fri Apr 15 2016 - 09:19:09 CDT)
- Re: rlwrap problem (Wed Mar 23 2016 - 12:16:57 CDT)
- Re: rlwrap problem (Mon Mar 21 2016 - 08:44:43 CDT)
- rlwrap problem (Fri Mar 18 2016 - 10:37:10 CDT)
Laura Lopez Munoz
- save waters around ligand trajectory updated (Fri May 31 2013 - 01:17:12 CDT)
Laura Lucan
- Re: VMD newbie question (Thu Nov 11 2004 - 22:04:01 CST)
- VMD newbie question (Thu Nov 11 2004 - 16:18:34 CST)
Laura X Sepulveda
- Working with trajectory and updating frames dependents on current frame (Thu Jul 18 2024 - 12:52:06 CDT)
Laurence F. Wood
- RE: transparency (Mon May 13 2002 - 13:09:19 CDT)
- RE: atom coloring (Tue Mar 12 2002 - 16:39:37 CST)
- RE: Plotting elect. pot. surface (Mon Feb 25 2002 - 17:20:34 CST)
- RE: hyperchem files (Thu May 10 2001 - 14:11:24 CDT)
- Building VMD under Windows 2000 (Sun Sep 17 2000 - 19:42:28 CDT)
Laurence Wood
- RE: VMD freezes KDE under Linux Redhat 7.1 (Wed Oct 24 2001 - 15:25:30 CDT)
Laurent Joly
- topo writelammpsdata: size limitation? (Sun Mar 23 2014 - 18:11:29 CDT)
Law, Yu Kay
- Re: CHARMM36 topology files, AutoPSF and DNA (Fri Aug 17 2012 - 23:32:24 CDT)
- CHARMM36 topology files, AutoPSF and DNA (Fri Aug 17 2012 - 10:20:26 CDT)
Lawrence Wickert
- (no subject) (Sat Nov 15 2008 - 20:19:35 CST)
- Installation problems on openSUSE 10.3 (Sat Nov 15 2008 - 20:22:44 CST)
Le Liu
- Re: Problem of compiling VMD with options (Wed Nov 09 2016 - 14:27:59 CST)
- Problem of compiling VMD with options (Wed Nov 09 2016 - 13:41:00 CST)
Leah Isseroff Bendavid
- Re: Unable to use VMD1.9.1 binary (no CUDA) on Mac OSX 10.9.3 (Fri May 16 2014 - 11:55:33 CDT)
- Unable to use VMD1.9.1 binary (no CUDA) on Mac OSX 10.9.3 (Thu May 15 2014 - 20:58:40 CDT)
Leandro Barros da Silva
- Solvating hexagonal unit cell (Wed Oct 05 2011 - 13:00:27 CDT)
Leandro Martínez
- (no subject) (Wed Aug 22 2012 - 11:04:55 CDT)
- Re: How to generate a monolayer in VMD (Tue Oct 06 2009 - 06:16:24 CDT)
- Re: How to generate a monolayer in VMD (Mon Oct 05 2009 - 19:24:44 CDT)
- Re: local packing density around a chemical group (say, a methyl group or a side chain) (Thu Apr 23 2009 - 12:22:38 CDT)
- Re: near clip (Fri Mar 20 2009 - 14:28:53 CDT)
- near clip (Fri Mar 20 2009 - 07:48:51 CDT)
- Re: dcd format (Wed Oct 22 2008 - 14:41:32 CDT)
- Re: dcd format (Wed Oct 22 2008 - 13:53:20 CDT)
- Re: Improving VMD performance on Linux? (Mon Oct 20 2008 - 07:22:08 CDT)
- Re: Creating a cuboid box to fit in atoms (Thu Sep 25 2008 - 14:51:00 CDT)
- Re: Atoms numbers in VMD (Thu Sep 25 2008 - 14:56:01 CDT)
- Re: viewing an embryo (Tue Sep 23 2008 - 14:48:30 CDT)
- Re: Solvation Box (Tue Sep 23 2008 - 13:20:52 CDT)
- Re: How to read specific DCD frames directly in Fortran? (Sun Apr 06 2008 - 02:25:45 CDT)
- Re: complete residues within (Thu Mar 06 2008 - 03:06:48 CST)
- complete residues within (Thu Mar 06 2008 - 02:20:59 CST)
- Re: creating nonstandard solvent (Wed Oct 03 2007 - 08:35:19 CDT)
- Re: questions about developing a plugin (Thu May 24 2007 - 10:02:01 CDT)
- Re: calculating b-factors from trajectories (Tue May 22 2007 - 20:57:01 CDT)
- Re: aligning molecules with different number of atoms (Mon Feb 12 2007 - 12:39:29 CST)
- Re: vmd on opteron (Fri May 26 2006 - 15:20:54 CDT)
- vmd on opteron (Fri May 26 2006 - 15:01:30 CDT)
- Re: OFF drawing method (Tue May 02 2006 - 10:10:45 CDT)
- OFF drawing method (Tue May 02 2006 - 09:53:19 CDT)
- Re: peptide builder (Sat Apr 22 2006 - 16:07:56 CDT)
- Re: peptide builder (Sat Apr 22 2006 - 12:21:04 CDT)
- Re: How to add some small peptides to a water box randomly ? (Sun Apr 02 2006 - 10:37:38 CDT)
- Re: user field memory demand (Mon Mar 13 2006 - 10:29:42 CST)
- user field memory demand (Mon Mar 13 2006 - 08:10:16 CST)
lecan
- PSF file generation (Wed Jun 03 2015 - 15:03:34 CDT)
- Meadionize (Sun Feb 12 2012 - 21:05:15 CST)
- change of font (Thu Feb 09 2012 - 20:01:17 CST)
Lechuga, Javier
- (no subject) (Fri May 25 2007 - 08:10:27 CDT)
- (no subject) (Thu May 17 2007 - 09:40:07 CDT)
- VMD for Windows 64bits (Mon Apr 16 2007 - 10:11:34 CDT)
- Using "membrane package" with different lipid molecules (Fri Feb 02 2007 - 09:18:06 CST)
- Error installing VMD 1.8.5. (Mon Oct 23 2006 - 02:29:06 CDT)
- Opening DCD file >2GB (Sun Sep 10 2006 - 13:35:52 CDT)
- Warning: poorly guessed coordinates using PsfGen (Tue Sep 05 2006 - 10:23:35 CDT)
- VMD runtime error (Wed Aug 30 2006 - 06:11:47 CDT)
- (no subject) (Tue Aug 22 2006 - 06:12:20 CDT)
Leddin, Emmett
- Re: [EXT] Re: Using VMD from a Chrome Web Browser (Sat May 07 2022 - 00:52:33 CDT)
Lee Amy
- Re: Help: Installation Problem (Sun Mar 01 2009 - 05:41:39 CST)
- Re: Help: Installation Problem (Sat Feb 28 2009 - 05:19:46 CST)
- Help: Installation Problem (Wed Feb 25 2009 - 09:45:12 CST)
- Test (Tue Feb 24 2009 - 07:48:25 CST)
Lee, Hwan Kyu (NIH/NHLBI) [E]
- RE: question about "measure dihed" with COM points (Wed Feb 25 2009 - 13:35:07 CST)
- RE: question about "measure dihed" with COM points (Wed Feb 25 2009 - 12:55:38 CST)
- question about "measure dihed" with COM points (Tue Feb 24 2009 - 19:09:27 CST)
Lee, Sa
- Define bond length (Mon Dec 16 2013 - 11:41:38 CST)
Lee, Sangbae
- SangbaeLee: question about pbc wrap (Thu Aug 29 2013 - 13:12:21 CDT)
Lee-Ping Wang
- Out of memory when loading 700 MB trajectory file (Fri Sep 11 2015 - 04:35:12 CDT)
- RE: Drawing circles and tooltips. (Tue Mar 11 2014 - 13:30:02 CDT)
- Re: Drawing circles and tooltips. (Tue Mar 04 2014 - 11:52:59 CST)
- Re: Drawing circles and tooltips. (Sat Mar 01 2014 - 17:38:38 CST)
- Re: Drawing circles and tooltips. (Fri Feb 28 2014 - 22:58:59 CST)
- Re: Drawing circles and tooltips. (Fri Feb 28 2014 - 23:03:01 CST)
- Drawing circles and tooltips. (Fri Feb 28 2014 - 08:58:35 CST)
leepersonpp
- Question about .vmdsensors configuration (Thu Aug 11 2005 - 05:47:19 CDT)
- Why vmd can't connect vrpn server in windows xp? (Wed Jul 27 2005 - 21:55:01 CDT)
- How to configure the joystick in VMD of linux version? (Tue Jul 26 2005 - 21:48:58 CDT)
- vmd-vrpn in windowsXP (Tue Jul 26 2005 - 05:25:24 CDT)
Lei Guo
- autoionize (Fri Dec 05 2003 - 17:36:26 CST)
Lei Qian
- question on increasing font size on VMD main menu (Sat Apr 30 2022 - 12:21:13 CDT)
Lei Shi
- vmd-xplor installation (Thu Dec 14 2006 - 18:16:38 CST)
lei wang
- Problem of Movie Maker Plugin (Sat Jun 28 2008 - 05:41:29 CDT)
Leif Halvorsen
- VMD 1.8.7 hangs on launch (Fri Mar 26 2010 - 14:37:03 CDT)
leila karami
- Problem in rendering CG bonds with VMD (Tue Nov 12 2019 - 15:18:08 CST)
- atomsel : setbonds: Need one bondlist for each selected atom (Wed Feb 01 2017 - 01:44:26 CST)
- How to save 2 gro file in 1 gro file? (Sun Jun 23 2013 - 09:34:10 CDT)
- How to save 2 gro file in 1 gro file? (Sun Jun 23 2013 - 08:08:12 CDT)
- visualization of HOMO&LUMO in vmd (Tue May 01 2012 - 04:26:06 CDT)
- box vectores in .trr (Sat Apr 09 2011 - 08:44:04 CDT)
- vectors box in .trr file (Wed Apr 06 2011 - 02:49:24 CDT)
- zero box vector (Sun Mar 13 2011 - 10:14:49 CDT)
- time line (Sat Mar 12 2011 - 03:19:52 CST)
- zero box vector (Sat Mar 12 2011 - 00:50:40 CST)
- zero box vector (Thu Mar 10 2011 - 11:27:59 CST)
- zero box vector (Thu Mar 10 2011 - 08:04:14 CST)
- Zero box vector (Thu Mar 10 2011 - 06:11:56 CST)
- psfgen or autopsf (Sun Dec 26 2010 - 08:11:34 CST)
- conversion of gromacs trajectory file (xtc) to amber trajectory file (mdcrd) (Sat Dec 25 2010 - 09:14:57 CST)
- selection of amino acids with certain distance each others (Sun Dec 19 2010 - 13:00:23 CST)
- automatic PSF builder (Mon Dec 13 2010 - 02:22:19 CST)
- automatic PSF builder (Sun Dec 12 2010 - 08:25:03 CST)
- top2psf - bridging_waters.tcl script (Tue Nov 30 2010 - 00:41:58 CST)
- top2psf - bridging_waters.tcl script (Sat Nov 27 2010 - 06:15:37 CST)
- contact map for protein-dna interaction (Wed Jul 07 2010 - 03:32:51 CDT)
- contact map (Mon Jul 05 2010 - 09:46:04 CDT)
- contact map (Mon Jul 05 2010 - 09:12:47 CDT)
- contact map (Mon Jul 05 2010 - 08:33:23 CDT)
- superimposed structure (Sun Dec 20 2009 - 08:46:03 CST)
- superimposed structure (Sun Dec 20 2009 - 08:07:16 CST)
- superimposed structure (Tue Dec 15 2009 - 00:21:04 CST)
Lela Vukovic
- Re: loading a several structures in the same time (Wed Nov 18 2015 - 19:08:35 CST)
- Second Announcement: â€˜Hands Onâ€™ Workshop on Computational Biophysics (Berkeley, CA, Aug 3-7, 2015) (Tue Jun 16 2015 - 12:04:27 CDT)
- Announcement: Workshop on Simulation Based Drug Discovery (San Diego, CA, Sept 21-25, 2015) (Fri Jun 12 2015 - 21:06:22 CDT)
- Announcement: â€˜Hands Onâ€™ Workshop on Computational Biophysics (Berkeley, CA, Aug 3-7, 2015) (Wed May 20 2015 - 00:06:46 CDT)
- Announcement: â€˜Hands Onâ€™ Workshop on Computational Biophysics (Odense, Denmark, Oct 12-16, 2015) (Wed May 06 2015 - 01:39:55 CDT)
- Announcement: â€˜Hands Onâ€™ Workshop on Computational Biophysics (Lake Tahoe, CA, Aug 3-7, 2015) (Tue Mar 24 2015 - 15:51:28 CDT)
- Announcement: â€˜Hands Onâ€™ Workshop on Computational Biophysics (Pittsburgh, PA, June 1-5, 2015) (Wed Mar 04 2015 - 13:08:28 CST)
Lena Simine
- how do I keep graphics/representations in their designated frames? (they all show up in all frames) (Sun Apr 24 2016 - 00:46:23 CDT)
- adding a representation for a selection which is varying from frame to frame in a trajectory (Thu Apr 21 2016 - 02:19:24 CDT)
Lenz Fiedler
- Re: VMD MPI error (Thu Apr 07 2022 - 02:33:53 CDT)
- Re: VMD MPI error (Wed Apr 06 2022 - 02:16:09 CDT)
- Re: VMD MPI error (Tue Apr 05 2022 - 01:29:09 CDT)
- Re: VMD MPI error (Mon Apr 04 2022 - 10:45:52 CDT)
- VMD MPI error (Mon Apr 04 2022 - 09:39:17 CDT)
Leonardo G. Trabuco
- Re: namd-l: the patching problem in psfgen (Wed Jun 14 2006 - 13:09:36 CDT)
- Re: namd-l: the patch between segments for multiple chains molecule. (Wed Jun 14 2006 - 12:57:42 CDT)
- Re: color protein based on an event during a trajectory (Wed Jun 07 2006 - 22:14:41 CDT)
- Re: Incomplete Display (Mon Jun 05 2006 - 16:14:27 CDT)
- Re: Incomplete Display (Fri Jun 02 2006 - 13:24:25 CDT)
- Re: psf generation (Fri Jun 02 2006 - 13:22:41 CDT)
- Re: namd-l: the patch between segments for multiple chains molecule. (Fri Jun 02 2006 - 13:09:23 CDT)
- Re: skip frames in dcd file=> no effect? (Mon May 15 2006 - 09:27:47 CDT)
- Re: skip frames in dcd file=> no effect? (Mon May 15 2006 - 07:50:50 CDT)
- Re: Launching Tk Console (Wed May 10 2006 - 11:58:53 CDT)
- Re: namd-l: a name quesiton (Sat Apr 08 2006 - 13:15:56 CDT)
- Re: warning from psfgen: poorly guessed coordinates... (Wed Apr 05 2006 - 22:08:02 CDT)
Leonardo Palmieri
- Different results in using GUI or script Timelime (Fri Jun 10 2022 - 11:15:34 CDT)
- Re: how to analyse a trajectory without loading it (Wed Apr 27 2022 - 11:38:26 CDT)
- Re: how to analyse a trajectory without loading it (Tue Apr 26 2022 - 14:41:29 CDT)
- Re: how to analyse a trajectory without loading it (Tue Apr 26 2022 - 14:35:41 CDT)
- how to analyse a trajectory without loading it (Tue Apr 26 2022 - 14:12:18 CDT)
- VMD in "Big DCD mode" (Fri May 21 2021 - 12:55:57 CDT)
Leonardo Sepulveda Durán
- Re: Problem with a tcl script: probable memory overload (Mon Jan 08 2007 - 10:22:25 CST)
- Problem with a tcl script: probable memory overload (Mon Jan 08 2007 - 09:05:01 CST)
- problem with vecsub, help with Tcl Script (Thu Aug 31 2006 - 12:25:29 CDT)
- Question About Tcl variables (Wed Aug 16 2006 - 16:41:46 CDT)
- problem generating a psf of a solvated system using VMD (Tue Nov 08 2005 - 18:54:18 CST)
- Re: Can VMD add other solvent except water in system? (Mon Sep 26 2005 - 10:59:58 CDT)
- Re: writing pdb (Tue Sep 13 2005 - 11:50:04 CDT)
- Making good trayectory movies (Sun Aug 28 2005 - 18:44:52 CDT)
- Problems with Psf using Charmm format, solvate and autoionize (Wed Jun 08 2005 - 12:55:21 CDT)
Leonardo Trabuco
- Re: autoionize adds too many ions (Wed Jul 20 2011 - 10:30:02 CDT)
- Re: autoionize adds too many ions (Wed Jul 20 2011 - 09:41:03 CDT)
- Re: VMD and MDFF: ssrestraints package error message under Windows (Fri Jul 08 2011 - 03:07:06 CDT)
- Re: running plugin from the command line (Thu Apr 28 2011 - 11:12:06 CDT)
- Re: Multiseq in text mode (Tue Feb 08 2011 - 08:18:44 CST)
- Re: dynamic atom selection (Tue Nov 09 2010 - 08:01:15 CST)
- Re: Running VMD from the terminal on MacBook Pro (Wed Nov 03 2010 - 08:37:44 CDT)
- Re: Text command for isosurface (Wed Nov 03 2010 - 02:13:15 CDT)
- Re: problem about dowser (Sat Sep 04 2010 - 04:36:45 CDT)
- Re: 2D rmsd matrix plot for C-alpha atoms (Wed Jul 28 2010 - 07:50:53 CDT)
- Re: 2D rmsd matrix plot for C-alpha atoms (Wed Jul 28 2010 - 07:59:08 CDT)
- Re: 2D rmsd matrix plot for C-alpha atoms (Wed Jul 28 2010 - 06:24:53 CDT)
- Re: 2D rmsd plot for C-alpha atoms (Tue Jul 27 2010 - 11:07:03 CDT)
- Re: possible chain select bug on RCSB ".ent" files (Mon Jul 05 2010 - 09:46:18 CDT)
- Re: Grid spacing in mdff (Tue Jun 15 2010 - 02:54:08 CDT)
- Re: Number of Hydrogen Bonds among Water an Protein (Sun Jan 24 2010 - 16:42:01 CST)
- Re: Number of Hydrogen Bonds among Water an Protein (Sun Jan 24 2010 - 13:22:31 CST)
- Re: MDFF sim Problem (Tue Jan 12 2010 - 17:00:00 CST)
- Re: conflict between VMD and Netbeans IDE on MacOSX (Thu Jan 07 2010 - 08:02:37 CST)
- Re: retrieving atom indexes from measure contacts (Tue Jan 05 2010 - 20:16:54 CST)
- Re: IDs of representations (Tue Dec 15 2009 - 11:30:26 CST)
- Re: radius of gyration units (Tue Nov 03 2009 - 15:13:19 CST)
- Re: MDFF sim Problem (Sat Oct 17 2009 - 15:26:03 CDT)
- Re: colour residues (Mon Oct 12 2009 - 18:56:31 CDT)
- Re: Disable the set output (Sat Jul 25 2009 - 10:54:53 CDT)
- Re: Save State Fails (Wed Jul 22 2009 - 00:52:57 CDT)
- Re: insert a protein into a membrane (Tue Jul 21 2009 - 21:17:29 CDT)
- Re: HETATM records are written as ATOM (Wed Jul 15 2009 - 17:32:07 CDT)
- Re: memory allocation issue (Wed May 06 2009 - 13:48:12 CDT)
- Re: selection syntax (Mon Mar 30 2009 - 09:10:29 CDT)
- Re: problem with Dowser (Tue Mar 10 2009 - 22:41:52 CDT)
- Re: problem with Dowser (Sat Mar 07 2009 - 20:07:47 CST)
- Re: rmsd computation in text mode with a reference pdb (Mon Mar 02 2009 - 01:42:38 CST)
- Tcl script (Thu Jan 22 2009 - 00:01:39 CST)
- Re: Problem finding center of mass for all the frames (Wed Dec 10 2008 - 04:34:27 CST)
- Re: atom selection (Wed Dec 03 2008 - 11:10:53 CST)
- Re: Average position of atom set (Tue Nov 04 2008 - 20:11:01 CST)
- Re: reading multiples molecules. (Wed Oct 29 2008 - 10:29:36 CDT)
- Re: A question about the plugin of salt bridge plugin (Wed Oct 22 2008 - 11:24:09 CDT)
- Re: QR factorization for structural alignment (Fri Jul 11 2008 - 01:51:51 CDT)
- Re: Electrostatic - PMEpot (Fri Jun 13 2008 - 13:13:00 CDT)
- Re: Create atom selection from list of integers (Mon Jun 02 2008 - 11:15:58 CDT)
- Re: Create atom selection from list of integers (Mon Jun 02 2008 - 11:51:09 CDT)
- Re: Rendering Labels with Tachyon (Thu Apr 24 2008 - 18:13:06 CDT)
- Re: saltbr plugging problem: too many open files (Fri Dec 21 2007 - 14:35:16 CST)
- Re: program finishes before bigdcd is executed completely (Tue Sep 11 2007 - 14:51:11 CDT)
- Re: program finishes before bigdcd is ececuted completely (Tue Sep 11 2007 - 08:22:11 CDT)
- Re: program finishes before bigdcd is ececuted completely (Mon Sep 10 2007 - 16:50:39 CDT)
- Re: atomselection in order (Tue Aug 28 2007 - 10:12:10 CDT)
- Re: changing the order of atom selections / alignment issue (Mon Aug 27 2007 - 11:07:47 CDT)
- Re: changing the order of atom selections / alignment issue (Sat Aug 25 2007 - 01:31:45 CDT)
- Re: atomselection in order (Thu Aug 23 2007 - 23:24:09 CDT)
- Re: saltbr# vs. frames (Mon Jul 23 2007 - 10:32:46 CDT)
- Re: saltbr# vs. frames (Mon Jul 23 2007 - 10:28:01 CDT)
- Re: namd-l: Parameter (Fri Jul 20 2007 - 13:21:40 CDT)
- Re: what's the unit for color scale data range? (Thu Jul 19 2007 - 15:35:27 CDT)
- Re: RMSD of different molecules (Fri Jul 06 2007 - 10:10:10 CDT)
- Re: RMSF calculation question: (Sat Jun 30 2007 - 20:14:56 CDT)
- Re: Using regular expressions on tcl atomselection (Thu May 31 2007 - 18:01:55 CDT)
- Re: Need help about hbond and saltbridge (Sat May 19 2007 - 17:14:18 CDT)
- Re: DOWSER: child process exited abnormally (Thu Apr 26 2007 - 11:27:53 CDT)
- Re: how to solvate a molecule with cubic periodic boundary box? (Mon Apr 16 2007 - 16:56:15 CDT)
- Re: Problem with Reading Binary ccp4 File Generated by CHARMM (Thu Apr 05 2007 - 14:55:07 CDT)
- Re: multiple dx frames (Wed Feb 28 2007 - 14:51:16 CST)
- Re: multiple dx frames (Wed Feb 28 2007 - 14:16:32 CST)
- Re: Re: bug report in VMD 1.8.5 (Wed Feb 28 2007 - 14:15:11 CST)
- Re: Same pdb file, different image (Thu Feb 22 2007 - 23:44:37 CST)
- Re: aligning molecules with different number of atoms (Mon Feb 12 2007 - 12:05:28 CST)
- Re: atomselection: number of residues (Sun Feb 11 2007 - 11:59:23 CST)
- Re: Skip frames in writing shorter trajectory (Mon Jan 29 2007 - 14:26:09 CST)
- Re: How to align two peptide molecules (Fri Nov 03 2006 - 14:17:55 CST)
- Re: saving charges in the B column (Sat Sep 09 2006 - 18:09:38 CDT)
- Re: qsub (torque/maui) and vmd (Mon Sep 04 2006 - 22:47:19 CDT)
- Re: A error of " transforming dcd into pdb " (Tue Aug 29 2006 - 10:48:36 CDT)
- Re: A error of " transforming dcd into pdb " (Tue Aug 29 2006 - 02:02:52 CDT)
- Re: segment name limit with solvate and psfgen (Sat Aug 19 2006 - 23:03:40 CDT)
- Re: small query... (Fri Aug 18 2006 - 15:25:34 CDT)
- Re: NAMD minimization error (Sat Aug 12 2006 - 18:52:49 CDT)
- Re: please, give me a tip (Tue Jul 11 2006 - 11:05:57 CDT)
- Re: updating display of atoms in contact (Mon Jul 10 2006 - 16:55:02 CDT)
Leonhard Henkes
- adding new colors (Thu Mar 13 2014 - 09:21:57 CDT)
- Interactive MD and Tcl (Thu Nov 07 2013 - 15:37:50 CST)
- (no subject) (Mon Mar 09 2009 - 07:08:32 CDT)
- How to delete anwanted waters in a special area ? (Wed Jun 25 2008 - 07:31:10 CDT)
- Question: Too many arguments (Mon Jun 16 2008 - 08:24:15 CDT)
Leonid Paramonov
- Elliptic molecules (Thu Jul 15 2004 - 07:10:01 CDT)
Leonor Cruzeiro
- Re: Units for Measure Dipole (Mon Feb 05 2007 - 14:04:09 CST)
- dynamic coloring (Mon Apr 04 2005 - 11:22:02 CDT)
Leontyev Igor
- problem with "measure fit " (Tue Feb 03 2009 - 15:51:02 CST)
Lepore, Bryan
- Re: plugin : membrane builder : "integer value too large to represent" (Wed Aug 18 2010 - 17:40:37 CDT)
- plugin : membrane builder : "integer value too large to represent" (Wed Aug 18 2010 - 10:21:07 CDT)
Leticia Larkin
- Why get an original watch? (Wed Apr 30 2008 - 20:14:01 CDT)
Levi Pierce
- OptiXRenderer) ERROR: Launch failed (Thu Aug 11 2016 - 14:08:23 CDT)
Levin, Andrew Michael
- viewpoint (Thu Feb 08 2007 - 09:17:48 CST)
- viewpoint (Thu Feb 08 2007 - 09:19:16 CST)
- viewpoint (Thu Feb 08 2007 - 09:18:01 CST)
Lewis, Kimberly A
- RBCG Builder (Mon Sep 24 2018 - 13:27:06 CDT)
LEWYN LI
- Re: namd-l: script (Tue Sep 06 2005 - 11:12:35 CDT)
Leyla Celik
- Correlated motion (Wed Jun 28 2006 - 11:19:27 CDT)
- rmsf (Wed May 24 2006 - 06:07:55 CDT)
- Re: Problem with "bigdcd" (Thu Apr 28 2005 - 12:12:36 CDT)
- Problem with "bigdcd" (Thu Apr 28 2005 - 09:53:18 CDT)
- Re: psfgen failure (Mon Mar 14 2005 - 04:13:13 CST)
- psfgen failure (Mon Mar 14 2005 - 02:17:17 CST)
- Re: Is it possible to write CHARMM crd file from VMD? (Tue Mar 01 2005 - 04:35:27 CST)
- Is it possible to write CHARMM crd file from VMD? (Thu Feb 24 2005 - 13:31:03 CST)
- Distance calculation in TkConsole (Thu Feb 10 2005 - 04:33:43 CST)
Lhee, SangMoon
- installation of APBS plug-in in VMD 1.8.6 (Thu Oct 25 2007 - 21:14:47 CDT)
- MultiSeq on the windows vista OS (Mon Sep 24 2007 - 13:30:25 CDT)
li
- molecular orientation (Fri Jan 28 2005 - 21:10:26 CST)
- How to compute the angles (Sun Jan 23 2005 - 23:08:08 CST)
- Hbonds counting script (Tue Jan 18 2005 - 01:06:58 CST)
- Re: putting Lipid layers around a protein (Mon Nov 15 2004 - 00:42:15 CST)
- analysis of energy with water excluded from dcd file (Mon May 17 2004 - 01:28:40 CDT)
- move molecule using tcl (Thu Apr 15 2004 - 01:46:00 CDT)
- how to save coordinates after moving molecule in VMD? (Wed Mar 31 2004 - 21:42:44 CST)
- re :psfgen question (Fri Mar 26 2004 - 01:00:28 CST)
- psfgen question (Thu Mar 25 2004 - 03:48:27 CST)
- again about average strutcure (Tue Mar 18 2008 - 17:31:26 CDT)
- get average structure from dcd file? (Mon Mar 17 2008 - 16:24:47 CDT)
Li Anbang
- problem in using "Automatic PSF Builder" (Tue Dec 27 2005 - 06:51:50 CST)
- default directory (Mon Dec 26 2005 - 09:49:39 CST)
Li Qiang
- about command readpdb? (Mon Nov 24 2003 - 09:12:11 CST)
Li, Haiqing
- NAMDGUI (Tue Aug 06 2013 - 13:29:54 CDT)
Li, Liwei
- conflict between VMD and Cygwin (Mon Feb 14 2011 - 18:02:00 CST)
Li, Yanfei
- problem loading LAMMPS trajectory using VMD (Wed Sep 12 2012 - 22:50:20 CDT)
Li, Zhen
- Two questions regarding VMD 1.9.3 Windows NetCDF plugin (Fri Dec 13 2019 - 16:17:30 CST)
li19104
- Re: hingefind (Tue Jan 23 2007 - 10:27:33 CST)
Liang, Linus H.
- movie rendering (Mon Nov 02 2009 - 07:08:35 CST)
- Periodic Bonding (Wed Aug 12 2009 - 08:44:19 CDT)
- Turn off the autobond feature in VMD (Wed Aug 12 2009 - 08:27:55 CDT)
Liel Sapir
- Re: Avoid atom indices reassignment (Wed Dec 15 2021 - 03:04:01 CST)
- Avoid atom indices reassignment (Mon Dec 13 2021 - 08:46:42 CST)
Life Sciences Inc
- Re: Problem with Autopsf tool of vmd (Thu Oct 20 2016 - 08:55:53 CDT)
- Re: Problem with Autopsf tool of vmd (Wed Oct 19 2016 - 17:47:53 CDT)
- Re: Re: Problem with Autopsf tool of vmd (Wed Oct 19 2016 - 17:48:27 CDT)
- Re: Problem with Autopsf tool of vmd (Wed Oct 19 2016 - 11:33:32 CDT)
- Problem with Autopsf tool of vmd (Wed Oct 19 2016 - 11:13:07 CDT)
- Re: write psf is generating an error (Tue Jul 14 2015 - 10:27:48 CDT)
- write psf is generating an error (Wed Jul 08 2015 - 11:59:30 CDT)
- VMD MEMBPLUGIN : MEMBRANE THICKNESS (Mon Jun 29 2015 - 04:47:36 CDT)
LIGESH B
- Re: Problem While Visualising the Trajectory File from LAMMPS Simulation (Sun Jun 02 2019 - 23:36:37 CDT)
- Problem While Visualising the Trajectory File from LAMMPS Simulation (Sat Jun 01 2019 - 06:38:18 CDT)
- Problem in loading netcdf file from LAMMPS output in VMD (Tue Jan 01 2019 - 00:05:34 CST)
- Error in Loading atom_style hybrid LAMMPS data file in VMD (Mon Dec 17 2018 - 08:27:34 CST)
Lili Peng
- Re: Cannot load file for SASA analysis (Mon Jun 08 2009 - 20:39:16 CDT)
- Re: Timer in VMD (Tue Apr 15 2008 - 21:52:22 CDT)
- Timer in VMD (Tue Apr 15 2008 - 16:59:28 CDT)
- How to calculate end-to-end distance in VMD? (Mon Jan 14 2008 - 16:37:33 CST)
- Re: Making movies in VMD (Wed Dec 05 2007 - 19:59:48 CST)
- Re: Making movies in VMD (Wed Dec 05 2007 - 19:27:32 CST)
- Making movies in VMD (Wed Dec 05 2007 - 18:32:44 CST)
Lilian Esmeralda Araujo Arcos
- Clustering by RMSD (Wed May 12 2021 - 12:16:56 CDT)
Liliana Dawson
- Prest1ge Repl1cas ravishing repl1ca w4tches for you (Sat Aug 25 2007 - 12:24:44 CDT)
lillestolen
- Rendering problem (Thu Sep 11 2008 - 14:16:29 CDT)
Lillie Lyons
- Take a look at the latest replica watches (Sat Apr 19 2008 - 07:00:53 CDT)
lily jin
- TMD in NAMD: cannot reach target (Thu Nov 01 2007 - 13:13:23 CDT)
- NAMDEnergy (Tue Oct 30 2007 - 12:00:57 CDT)
- Re: namd-l: NAMDEnergy (Tue Oct 30 2007 - 12:34:43 CDT)
- how to calculate hydrogen bond? (Fri Jun 29 2007 - 12:21:54 CDT)
- get charge (Thu Jun 28 2007 - 12:56:46 CDT)
- Fw: namd-l-outgoing2@halifax.ks.uiuc.edu (Wed Jun 20 2007 - 15:25:56 CDT)
- superposition (Tue Jun 12 2007 - 12:05:20 CDT)
- Re: release memory in TCL (Thu Jun 07 2007 - 11:46:11 CDT)
- release memory in TCL (Wed Jun 06 2007 - 14:44:13 CDT)
- list in TCL (Mon Jun 04 2007 - 18:47:16 CDT)
- Re: loop in loop - found it (Thu May 03 2007 - 18:49:47 CDT)
- loop in loop (Thu May 03 2007 - 18:41:04 CDT)
- measure Hbond (Thu May 03 2007 - 14:06:19 CDT)
- Re: AutoPSF (Thu Mar 15 2007 - 17:35:56 CDT)
- Re: AutoPSF (Thu Mar 15 2007 - 17:02:37 CDT)
- Re: AutoPSF (Thu Mar 15 2007 - 16:33:48 CDT)
- AutoPSF (Thu Mar 15 2007 - 15:23:32 CDT)
- DCD for windows (Tue Mar 06 2007 - 15:25:40 CST)
- puts format (Wed Sep 13 2006 - 15:22:27 CDT)
- How to make a disulphide bond (Tue May 16 2006 - 13:02:51 CDT)
- a name quesiton (Fri Apr 07 2006 - 11:19:41 CDT)
- parameter files (Tue Mar 28 2006 - 14:13:39 CST)
- input file for PO3 (Tue Mar 28 2006 - 11:02:34 CST)
- energy calculation in VMD (Wed Mar 22 2006 - 16:41:45 CST)
- what is wrong with this script? (Tue Mar 21 2006 - 16:25:12 CST)
- distance tween two atoms (Tue Mar 21 2006 - 15:42:18 CST)
- VMD script (Fri Mar 10 2006 - 13:41:03 CST)
- is possible to remove the waterbox before running VMD (Thu Mar 09 2006 - 10:34:02 CST)
- a display problem (Thu Mar 09 2006 - 10:22:57 CST)
- restart simulation with NAMD (Wed Feb 22 2006 - 14:01:30 CST)
- catdcd.LINUX (Thu Feb 16 2006 - 13:24:16 CST)
- How can i use the catdcd plugin with the VMD windows version? (Thu Feb 16 2006 - 13:19:50 CST)
- moving an atom in VMD (Tue Feb 14 2006 - 11:15:13 CST)
- water box (Fri Feb 10 2006 - 17:07:13 CST)
- how to use APBS (Wed Dec 21 2005 - 12:14:47 CST)
Lin
- Generating PSF for 1JNO.pdb chain A (Fri Apr 14 2006 - 10:29:07 CDT)
- Re: Generating PSF for 1JNO.pdb chain A (Fri Mar 24 2006 - 08:29:01 CST)
- Re: Problem with differentiating atoms from different frames for dcd file (Fri Mar 24 2006 - 05:29:55 CST)
- Problem with differentiating atoms from different frames for dcd file (Wed Mar 22 2006 - 10:16:44 CST)
- Problem with biotin autopsf (Thu Jan 19 2006 - 22:17:02 CST)
- General query on MD (Wed Jan 18 2006 - 23:31:06 CST)
- trouble with autopsf (Tue Jan 17 2006 - 09:54:05 CST)
Lin, Kan-Ju
- showing fixed number of frames as the animation (Fri Feb 25 2011 - 13:27:26 CST)
lina
- How to understand the occupancy? (Thu Nov 03 2011 - 09:06:06 CDT)
Linchen Gong
- question about atomselect and periodic condition (Fri Jul 24 2009 - 05:44:41 CDT)
Linda
- clipplane (Wed Oct 12 2005 - 19:10:35 CDT)
Linda Ravazzano
- Errors using 'replicateCrystal.tcl' tutorial script (Tue Apr 26 2022 - 09:10:39 CDT)
Linda Sheila Medondjio
- RDF from a trajectory generated by SIESTA (Tue May 19 2020 - 14:10:32 CDT)
Lindsey Prignano
- Re: Issues with multiseq (Fri Sep 10 2021 - 16:34:30 CDT)
- Re: Changing Tk console background (Wed Aug 25 2021 - 18:38:01 CDT)
Ling Wu
- Re: extrabonds (Wed Aug 24 2011 - 10:08:41 CDT)
- extrabonds (Tue Aug 23 2011 - 16:13:53 CDT)
Linghao Zhong
- large DCD file "appears to contain no timesteps" (Mon Jan 23 2006 - 13:15:47 CST)
Lisa Brown
- how to convert X_PLOR to CHARMM? (Fri Mar 25 2011 - 11:01:26 CDT)
- CHARMM parameters for Mn 2+ ion (Fri Mar 25 2011 - 10:43:45 CDT)
- question from a tutorial (Thu Jan 20 2011 - 14:17:29 CST)
- paratool questions (Tue Mar 31 2009 - 15:25:00 CDT)
- paratool tutorial/ complete user guide (Mon Mar 16 2009 - 14:43:49 CDT)
Lisa Perez
- Re: rmsd with 2 different structures using serial numbers (Wed Dec 22 2010 - 11:43:28 CST)
- Re: rmsd with 2 different structures using serial numbers (Tue Dec 21 2010 - 14:38:48 CST)
- rmsd with 2 different structures using serial numbers (Tue Dec 21 2010 - 13:30:33 CST)
Lisa Solomon
- Free Webinar: Vendor Neutral Intro to Data Mining for Absolute Beginners, January 26, 2007 (Mon Jan 15 2007 - 22:55:13 CST)
- Biometric Case Study Presentations Available (no charge), data mining and predictive modeling (Mon Jul 10 2006 - 12:22:37 CDT)
Liu
- about ".cpmd" format (Thu Jun 03 2010 - 22:31:58 CDT)
Liu Shiyong
- compile error (Tue May 18 2010 - 04:40:12 CDT)
Liu, Zhanwu
- RE: Surfaces/Cavities (Wed Jan 22 2003 - 15:37:35 CST)
- Cylindrical water box (Fri Jan 03 2003 - 08:49:53 CST)
- H-bond plotting (Wed Oct 02 2002 - 09:54:38 CDT)
- vmd and catdcd (Fri Sep 06 2002 - 12:43:22 CDT)
- Linux/Intel configuration for processing large trajectory file (Fri Jul 19 2002 - 17:18:10 CDT)
- RE: Help on script (Mon Mar 25 2002 - 11:09:49 CST)
- RE: Help on script (Fri Mar 22 2002 - 14:16:53 CST)
liushiyong
- Re: Dynamical Network Analysis (Thu Dec 20 2018 - 04:36:04 CST)
Liviu Zarbo
- Re: vmd install on ubuntu 15.04 -- no display (Thu May 26 2016 - 07:15:52 CDT)
- vmd install on ubuntu 15.04 -- no display (Mon May 23 2016 - 03:03:52 CDT)
Lixia Jin Day
- IMD in VMD (Tue Dec 29 2009 - 17:42:57 CST)
- insert a protein into a membrane (Tue Jul 21 2009 - 13:41:21 CDT)
- Can I build a structure by VMD? (Wed Jul 15 2009 - 14:29:01 CDT)
- VMD crasch (Thu Jul 31 2008 - 15:58:28 CDT)
- tachyon rendering on black background figure (Fri Jul 11 2008 - 13:06:30 CDT)
- Re: how to render higher resolution figures for publication? (Fri Apr 25 2008 - 17:09:34 CDT)
- Re: how to render higher resolution figures for publication? (Fri Apr 25 2008 - 14:18:24 CDT)
- Re: how to render higher resolution figures for publication? (Fri Apr 04 2008 - 17:42:08 CDT)
- how to render higher resolution figures for publication? (Fri Apr 04 2008 - 16:27:04 CDT)
- NAMDEnergy problem (Tue Jan 08 2008 - 14:30:29 CST)
- Re: add Mg2+ (Fri Dec 21 2007 - 10:52:42 CST)
- Re: add Mg2+ (Wed Dec 19 2007 - 15:27:04 CST)
- add Mg2+ (Thu Dec 13 2007 - 11:19:06 CST)
Liyu Jin (Leo)
- Re: use volmap tool for probability density map (Sun Dec 02 2012 - 16:36:12 CST)
- Re: use volmap tool for probability density map (Sun Dec 02 2012 - 06:31:40 CST)
- Re: use volmap tool for probability density map (Sun Dec 02 2012 - 06:26:48 CST)
- use volmap tool for probability density map (Sat Dec 01 2012 - 07:56:30 CST)
Lizelle Lubbe
- Re: Occupancy volume quantitation (Mon Mar 19 2018 - 07:15:09 CDT)
- Re: Occupancy volume quantitation (Mon Mar 19 2018 - 07:06:41 CDT)
- Re: Occupancy volume quantitation (Mon Mar 19 2018 - 02:47:27 CDT)
- Occupancy volume quantitation (Fri Mar 16 2018 - 09:31:37 CDT)
- Re: Timeline SASA (Thu Nov 23 2017 - 06:21:07 CST)
- Timeline SASA (Thu Nov 23 2017 - 04:48:39 CST)
- Gas migration pathway (Wed Nov 08 2017 - 12:43:15 CST)
lloyd riggs
- Re: rgyr from big DCD (Mon Jan 07 2013 - 15:27:37 CST)
- Re: Re: compiling VMD with gcc 4.7 (Thu Oct 04 2012 - 10:49:33 CDT)
- Fwd: RE:psfgen and CG (Mon Oct 01 2012 - 12:10:05 CDT)
- RE:psfgen and CG (Mon Oct 01 2012 - 11:39:43 CDT)
- Re:concantenating psf files (Sun Sep 30 2012 - 13:08:40 CDT)
- RE:psfgen (Fri Sep 28 2012 - 08:49:12 CDT)
lmfok_at_acae.cuhk.edu.hk
- Formation of a gold layer (Mon Mar 08 2004 - 20:41:33 CST)
lnubiofox
- Re: namd-l: how to use measure hbonds to calculate occupancy of all hbonds in simulation? (Wed May 16 2007 - 09:57:51 CDT)
- how to use measure hbonds to calculate occupancy of all hbonds in simulation? (Tue May 15 2007 - 09:21:33 CDT)
- how to caculate the hydrogen bonds occupancy? (Sun May 13 2007 - 09:38:37 CDT)
loc duong ding
- How to color atom by charge (Thu May 14 2009 - 00:46:38 CDT)
locuswendy
- Re: VMD in OS X Yosemite version 10.1.1.5 (Sun May 06 2018 - 07:26:51 CDT)
- VMD in OS X Yosemite version 10.1.1.5 (Sat May 05 2018 - 23:04:19 CDT)
Lohry, David Patrick
- Re: MD Videos and fixing the view into a certain perspective (Thu Apr 18 2024 - 12:14:52 CDT)
- MD Videos and fixing the view into a certain perspective (Thu Apr 18 2024 - 10:53:24 CDT)
- Re: VMD 1.9.4a53 on Windows 11 crashing frequently (Wed Apr 17 2024 - 07:48:45 CDT)
- VMD 1.9.4a53 on Windows 11 crashing frequently (Tue Apr 16 2024 - 17:45:45 CDT)
LOISON CLAIRE
- RE: FFTK dihedrals and problematic intermolecular H-bonds (Tue May 24 2016 - 06:24:43 CDT)
- FFTK dihedrals and problematic intermolecular H-bonds (Fri May 20 2016 - 04:29:14 CDT)
- tcl script problem with "atomselect' combined with "measure fit ...order" (Tue Jul 29 2008 - 09:16:36 CDT)
- no main window with ATI openGL (Wed Oct 04 2006 - 05:15:04 CDT)
Lokendra Poudel
- Re: charge opt not converged (Thu Nov 19 2020 - 10:27:30 CST)
- charge opt not converged (Wed Nov 18 2020 - 10:12:40 CST)
- charge optimization (Tue Oct 13 2020 - 17:55:20 CDT)
- Re: error in reading Gaussian log file (Tue Oct 13 2020 - 15:04:44 CDT)
- error in reading Gaussian log file (Tue Oct 13 2020 - 14:15:39 CDT)
LOKI LOKI
- replacing an existig residue with a novel residue (Fri Jan 24 2020 - 00:24:36 CST)
Lora Burgos
- 15% off on two watches (Mon Apr 14 2008 - 00:35:59 CDT)
Lorena Shipley
- Impressive Glashutte timepieces! (Wed Apr 30 2008 - 08:35:35 CDT)
Lorenzo Casalino
- Failed to create Optix rendering context ERROR: Invalid value (OptiXRenderer.C:1214 (Mon May 25 2020 - 15:28:53 CDT)
- Flipping a molecule around its geometrical center (Mon Jun 04 2018 - 21:38:37 CDT)
Lorenzo Gontrani
- Re: Visualize a SMILES string (Tue Apr 29 2014 - 11:15:35 CDT)
- isto variable in gofr (Thu Oct 24 2013 - 12:35:13 CDT)
- (no subject) (Wed Apr 24 2013 - 16:51:59 CDT)
Lorenzo Isella
- Re: Installation and running on VMD on Debian Testing System (Wed Oct 03 2007 - 17:50:04 CDT)
- Installation and running on VMD on Debian Testing System (Wed Oct 03 2007 - 07:48:08 CDT)
Lothar Esser
- Ambient occlusion / Electrostatic surfaces (Fri Nov 20 2020 - 12:30:57 CST)
- membrane plugin (IRIX version) (Wed Jun 07 2006 - 14:26:28 CDT)
- Re: Fullerene coordinates (Fri Aug 27 2004 - 08:21:41 CDT)
- Re: povray images allways perspective? (Thu Dec 14 2000 - 11:57:57 CST)
- Re: VMD and GRASP Qu.II (Thu Jun 15 2000 - 10:33:42 CDT)
- Re: VMD and GRASP Qu.II (Thu Jun 15 2000 - 09:09:52 CDT)
Louis Smith
- issue with ppmtompeg movie making (Thu Nov 14 2013 - 11:41:07 CST)
Low Soo Mei
- Re: "no CUDA accelerator devices available", Nvidia GeForce 9600 GT card (Thu Jun 25 2009 - 00:41:15 CDT)
- "no CUDA accelerator devices available", Nvidia GeForce 9600 GT card (Wed Jun 24 2009 - 21:44:35 CDT)
- Re: VMD 1.8.7 beta 1 posted for download... (Wed Apr 29 2009 - 22:35:05 CDT)
- Re: psfgen 999 waters resname X column (Mon Apr 07 2008 - 21:02:37 CDT)
- psfgen 999 waters resname X column (Mon Apr 07 2008 - 05:31:52 CDT)
Low, John
- How do I use the plugin to read the DLPOLY HISTORY file? (Fri Jan 28 2005 - 15:38:03 CST)
ltrabuco_at_ks.uiuc.edu
- of diet pills, like a racing heart or queasy stomach (Tue Jul 21 2009 - 09:47:48 CDT)
- Natural WeightL0SS Solution (Wed Jul 15 2009 - 17:35:35 CDT)
- Be someone whom you have never been before with DrMaxMan (Mon Jul 13 2009 - 10:30:41 CDT)
Lu Lin
- SSE from the protein sequence (Mon Jan 21 2008 - 09:11:49 CST)
- Re: MSMS plugin for windows (Fri Jan 18 2008 - 03:09:13 CST)
- Re: MSMS plugin for windows (Thu Jan 17 2008 - 11:47:52 CST)
- MSMS plugin for windows (Thu Jan 17 2008 - 08:35:55 CST)
Lu Yang
- Exceeded maximum number of bonds (8) (Sun Mar 31 2002 - 13:19:55 CST)
Luba Simhaev
- Question about fftk (Tue Oct 10 2017 - 15:52:41 CDT)
- Re: MDFF simulations (Wed Aug 13 2014 - 00:41:04 CDT)
- Re: MDFF simulations (Tue Aug 12 2014 - 01:44:02 CDT)
- MDFF simulations (Mon Aug 11 2014 - 04:22:31 CDT)
Lubos Vrbka
- Re: surface area (Thu Feb 08 2007 - 06:16:59 CST)
- Re: Atomselect in loops (Fri Nov 24 2006 - 07:46:14 CST)
- Re: large mdcrd files (Sun Aug 20 2006 - 11:27:19 CDT)
- PBC atom selection and contacts (Thu Feb 10 2005 - 03:13:44 CST)
- Re: prefferential adsorption analysis (Thu Feb 10 2005 - 02:46:53 CST)
- Re: prefferential adsorption analysis (Tue Feb 08 2005 - 05:28:58 CST)
- Re: prefferential adsorption analysis (Thu Feb 03 2005 - 07:52:00 CST)
- prefferential adsorption analysis (Wed Feb 02 2005 - 06:51:46 CST)
- Re: distribution analysis (Tue Dec 07 2004 - 02:23:05 CST)
- Re: distribution analysis (Wed Dec 01 2004 - 10:29:25 CST)
- distribution analysis (Wed Dec 01 2004 - 09:25:53 CST)
- Re: VMD on NetBSD (Wed Sep 01 2004 - 10:56:36 CDT)
- Re: VMD on NetBSD (Wed Sep 01 2004 - 02:18:16 CDT)
- Re: VMD on NetBSD (Mon Aug 30 2004 - 05:53:10 CDT)
- VMD on NetBSD (Thu Aug 26 2004 - 04:28:53 CDT)
- Re: xyz plugin (Tue Apr 20 2004 - 04:19:14 CDT)
- Re: vmd linux binary / native build on netbsd (Mon Apr 19 2004 - 10:52:07 CDT)
- xyz plugin (Mon Apr 19 2004 - 09:16:46 CDT)
- vmd linux binary / native build on netbsd (Fri Apr 16 2004 - 11:58:44 CDT)
- Re: xyz aluminium connectivity questions (Tue Apr 13 2004 - 10:29:07 CDT)
- Re: xyz aluminium connectivity questions (Tue Apr 13 2004 - 09:59:52 CDT)
- xyz aluminium connectivity questions (Tue Apr 13 2004 - 09:01:56 CDT)
- Re: file type specification question (Fri Apr 09 2004 - 09:35:19 CDT)
- file type specification question (Wed Apr 07 2004 - 11:12:56 CDT)
- showing all vmd output (Thu Sep 18 2003 - 13:09:57 CDT)
- Re: periodic woes (Thu Sep 11 2003 - 16:34:59 CDT)
- linux mesa binaries no longer available? (Tue Aug 26 2003 - 12:20:31 CDT)
- Re: problem with labels (Tue Apr 29 2003 - 16:09:38 CDT)
- problem with labels (Tue Apr 29 2003 - 08:36:05 CDT)
- Re: centering seection on screen (Thu Apr 17 2003 - 10:38:25 CDT)
- centering seection on screen (Thu Apr 17 2003 - 05:28:46 CDT)
- drawing bonds (Tue Mar 25 2003 - 09:27:05 CST)
- Re: msms question... (Fri Mar 07 2003 - 11:04:44 CST)
- msms question... (Fri Mar 07 2003 - 07:48:17 CST)
- Re: problems with the Surf... (Thu Mar 06 2003 - 10:36:08 CST)
- problems with the Surf... (Thu Mar 06 2003 - 10:00:38 CST)
- Re: VMD 1.8 problems with AMBER parm and crd file (Wed Feb 05 2003 - 09:19:41 CST)
- Re: VMD 1.8 problems with AMBER parm and crd file (Wed Feb 05 2003 - 02:21:25 CST)
- compiling vmd... (Tue Jan 28 2003 - 04:54:00 CST)
Luc Boisvert
- RE: exporting 3D model of a volume-based colored mesh (Wed Sep 18 2019 - 17:36:22 CDT)
- OBJ rendering with multiple colors and transparency (Wed Apr 17 2019 - 17:41:52 CDT)
Luc Moulinier
- colors (Thu Mar 22 2007 - 03:55:26 CDT)
- colorid (Wed Dec 07 2005 - 07:27:35 CST)
luc Renambot
- Re: File to benchmark a new GPU system (Sun Jul 26 2009 - 18:52:30 CDT)
- File to benchmark a new GPU system (Sun Jul 26 2009 - 16:20:28 CDT)
Luca Bellarosa
- Re: Changing colors during a dynamics (Tue Apr 22 2014 - 10:43:46 CDT)
- Changing colors during a dynamics (Wed Apr 09 2014 - 09:29:21 CDT)
Luca Bellucci
- Re: pbc wrap center on protein (Sat Dec 19 2009 - 16:06:12 CST)
- fortran/tcl (Fri May 25 2007 - 03:13:54 CDT)
Luca Gelisio
- Re: ERROR) Error reading bond information. (Fri Sep 25 2009 - 11:55:11 CDT)
- Re: ERROR) Error reading bond information. (Fri Sep 25 2009 - 09:25:55 CDT)
- Re: ERROR) Error reading bond information. (Fri Sep 25 2009 - 09:10:23 CDT)
- Re: ERROR) Error reading bond information. (Fri Sep 25 2009 - 09:03:41 CDT)
- ERROR) Error reading bond information. (Fri Sep 25 2009 - 05:40:17 CDT)
- segid WT100 is longer than 4 characters allowed by psf format (Wed Sep 16 2009 - 03:34:16 CDT)
Luca Mollica
- Re: Need a few testers for Linux version of VMD 1.8.3... (Fri Jun 11 2004 - 12:08:15 CDT)
- Re: loading MD trajectories (Mon Nov 03 2003 - 10:33:22 CST)
- VMD and doubleprecision trajectories (Tue Jul 15 2003 - 07:30:44 CDT)
Luca UvA
- plug-in for multiple frame xyz files (Mon Feb 10 2003 - 04:17:08 CST)
- different colors (Thu Feb 06 2003 - 05:04:21 CST)
- different colors (Tue Feb 04 2003 - 04:50:40 CST)
- About drawing bonds. (Wed Apr 24 2002 - 08:07:32 CDT)
luca.dallaglio2_at_studio.unibo.it
- TkCon problem (Mon Jul 16 2007 - 02:15:29 CDT)
- Problem with namdstats.tcl in TkCon (Fri Jul 13 2007 - 03:12:03 CDT)
- Solvate 1.2 problem option -ion (Thu Jun 14 2007 - 07:02:39 CDT)
- PSFGEN:buiding an uncharged protein (Tue Jun 12 2007 - 02:55:14 CDT)
Lucas Fernandez Seivane
- Apologies (Tue Feb 03 2009 - 17:34:58 CST)
Lucas FernÃ¡ndez Seivane via LinkedIn
- Invitation to connect on LinkedIn (Fri Jun 03 2011 - 02:30:33 CDT)
Lucas Fernández Seivane
- Re: Question about autopsf (Tue Jan 22 2008 - 16:07:50 CST)
- Question about autopsf (Tue Jan 22 2008 - 13:39:06 CST)
Lucas Watkins
- Radeon FireGL drivers crash VMD (Thu Oct 30 2003 - 06:53:47 CST)
Luciano
- reading structure *.xyz (Tue Jul 20 2004 - 13:57:30 CDT)
Luciano Abriata
- RE: exporting 3D model of a volume-based colored mesh (Thu Sep 19 2019 - 02:37:07 CDT)
- RE: obj/mtl and isosurface as wireframe, possibly a small bug (Mon May 13 2019 - 12:13:27 CDT)
- obj/mtl and isosurface as wireframe, possibly a small bug (Fri Apr 26 2019 - 02:54:40 CDT)
Luciano Costa
- converting trajectory files with catdcd in command line (Fri Feb 20 2009 - 06:31:00 CST)
Luciano Pinho
- rendering (Thu Sep 26 2013 - 07:01:49 CDT)
lucie delemotte
- Re: vmd 1.8.7 - problems loading vmd state file (Fri Jun 12 2009 - 11:17:35 CDT)
- Re: vmd 1.8.7 - problems loading vmd state file (Wed Jun 03 2009 - 02:36:51 CDT)
- Re: vmd 1.8.7 - problems loading vmd state file (Tue Jun 02 2009 - 11:42:38 CDT)
- vmd 1.8.7 - problems loading vmd state file (Tue Jun 02 2009 - 10:31:26 CDT)
- Re: vmd 1.8.7 - problems loading vmd state file (Tue Jun 02 2009 - 10:48:19 CDT)
Lucie Huynh
- merge pdb (Wed Feb 06 2008 - 10:29:58 CST)
- delatom "no segment..." (Tue Jan 22 2008 - 05:10:00 CST)
- replace molecule? (Wed Jan 16 2008 - 03:09:39 CST)
- POPS topology file (Mon Nov 12 2007 - 03:55:04 CST)
- creating nonstandard solvent (Wed Oct 03 2007 - 07:53:21 CDT)
- Re: problem creating psf (Thu Mar 29 2007 - 03:24:01 CDT)
- Re: problem creating psf (Wed Mar 28 2007 - 03:59:47 CDT)
- problem creating psf (Tue Mar 27 2007 - 09:54:08 CDT)
Lucilla Angeli
- Seventh European Workshop in Drug Design - Siena (Thu Mar 05 2009 - 06:42:36 CST)
Ludovic
- Re: error: too many open files (Tue Jun 18 2013 - 09:31:14 CDT)
- error: too many open files (Wed Jun 12 2013 - 19:14:35 CDT)
Ludovic Pétain
- Problem with gopython (Fri Mar 17 2006 - 07:19:11 CST)
lug2002_at_med.cornell.edu
- Re: Cluster Analysis given a dcd trajectory (Fri Jan 07 2005 - 23:41:14 CST)
- RE: Basic VMD questions... (Sat Oct 09 2004 - 00:51:07 CDT)
- Re: rmsd calculation and alignment (Tue Sep 28 2004 - 11:27:10 CDT)
Luis Agullo
- Re: Half of a dimer out of the box in a simulation (Fri Sep 12 2014 - 12:29:04 CDT)
- Half of a dimer out of the box in a simulation (Wed Sep 10 2014 - 14:49:13 CDT)
Luis Agullo (LAB)
- Re: VMD autopsfgen and Mg2+ (Mon Nov 09 2009 - 02:46:52 CST)
- Re: VMD autopsfgen and Mg2+ (Fri Nov 06 2009 - 03:58:19 CST)
- Re: Control of aminoacid ionization in VMD (Thu Nov 05 2009 - 02:24:26 CST)
- Re: VMD autopsfgen and Mg2+ (Thu Nov 05 2009 - 02:18:43 CST)
- Control of aminoacid ionization in VMD (Tue Nov 03 2009 - 04:50:55 CST)
- VMD autopsfgen and Mg2+ (Tue Nov 03 2009 - 04:17:59 CST)
Luis Claudio Pessoa Dias
- Re: No NetCDF file type for Mac Catalina (Sun Aug 23 2020 - 10:29:04 CDT)
- No NetCDF file type for Mac Catalina (Wed Aug 19 2020 - 09:10:39 CDT)
Luis Gracia
- rmsdtt, itrajcomp and other plugins open sourced in github (Mon Jun 16 2014 - 09:13:22 CDT)
- Clustering plugin updated to v2.0 (Thu May 10 2012 - 12:54:20 CDT)
- Re: RMSD with protein ligand (Thu Jan 17 2008 - 14:45:04 CST)
- Re: RMSD with protein ligand (Thu Jan 17 2008 - 10:26:44 CST)
- Re: Cluster analysis (Mon Jan 07 2008 - 11:22:03 CST)
- Re: Plugin Issue (Wed Mar 28 2007 - 13:14:40 CDT)
- Re: Any way to output contact map data (Wed Mar 21 2007 - 11:12:32 CDT)
- Re: rmsd fitting (Tue Sep 12 2006 - 02:03:30 CDT)
- Re: spikes in trajectory, problem with the alignment of frames (Thu Aug 24 2006 - 14:08:48 CDT)
- Re: RMSD Calculator (Thu Jun 08 2006 - 12:56:02 CDT)
- Re: Global Command to load 200 pdb files, without using script files (Fri Jun 02 2006 - 11:35:53 CDT)
- Re: measure avpos (Mon May 15 2006 - 17:53:28 CDT)
- Re: plotting x y z data (Thu May 04 2006 - 08:14:27 CDT)
- Re: selecting frames from trajectory (Wed May 03 2006 - 19:17:09 CDT)
- Re: namd-l: Aligning structures (Fri Mar 10 2006 - 08:45:18 CST)
- Re: calculate rmsd in a loop:feedback [sorry if you get it twice] (Thu Nov 17 2005 - 12:11:20 CST)
- Re: RMSD of dihedrals (Fri Sep 30 2005 - 15:07:22 CDT)
- Re: Generating an average structure from a trajectory (Fri Sep 16 2005 - 16:24:51 CDT)
- Re: namd-l: script (Tue Sep 06 2005 - 13:21:40 CDT)
- Re: RMSD question (Tue Aug 16 2005 - 20:20:00 CDT)
- Re: VMD on Debian Linux Urgent (Mon Jun 13 2005 - 16:18:00 CDT)
- Re: contact map (Wed Jun 01 2005 - 18:13:39 CDT)
- Re: Any way for comparing two structures?? (Tue May 31 2005 - 14:07:45 CDT)
- Re: RMSD calculation (Mon Apr 25 2005 - 19:29:21 CDT)
- Re: loading two dcd files in VMD (Mon Apr 18 2005 - 13:47:19 CDT)
- Re: CA-CA distances in a trayectory (Thu Apr 14 2005 - 15:44:45 CDT)
- Re: CA-CA distances in a trayectory (Thu Apr 14 2005 - 12:18:00 CDT)
- pairwise rmsds in rmsdtt cvs1.9 (Wed Apr 06 2005 - 16:15:48 CDT)
- Re: rmsd (Wed Apr 06 2005 - 16:02:58 CDT)
- Re: VMD and Cyclotides... (Tue Apr 05 2005 - 12:56:59 CDT)
- Re: VMD and Cyclotides... (Mon Apr 04 2005 - 22:08:24 CDT)
- Re: superimpose RNA backbones (Fri Apr 01 2005 - 14:11:32 CST)
- Re: rmsdtt (Fri Apr 01 2005 - 13:42:48 CST)
- Re: rmsdtt (Fri Apr 01 2005 - 12:53:45 CST)
- Re: protein peptide alignment. (Tue Feb 22 2005 - 00:20:10 CST)
- Re: Align protein with different number of aminoacid (Thu Feb 10 2005 - 22:35:16 CST)
- Updates in rmsdtt (Excel) and cluster (Xcluster) plugins (Fri Jan 21 2005 - 00:22:42 CST)
- Re: angle between two vectors (Wed Jan 12 2005 - 12:31:58 CST)
- vmd exit tcl callback (Mon Jan 10 2005 - 11:43:43 CST)
- Re: measure fit alignment problems (Fri Nov 19 2004 - 15:03:37 CST)
- Re: VMD newbie question (Thu Nov 11 2004 - 19:24:46 CST)
- Re: "same as" failing? (Mon Oct 25 2004 - 14:45:54 CDT)
- "same as" failing? (Mon Oct 25 2004 - 13:42:37 CDT)
- Re: problem (Fri Oct 08 2004 - 12:53:03 CDT)
- Feature request: modify several representations at the same time (Wed Sep 29 2004 - 15:37:06 CDT)
- Re: Defining graphics colors (Wed Sep 29 2004 - 15:11:24 CDT)
- Re: superimposing frames (Wed Sep 22 2004 - 14:23:04 CDT)
- RMSDTT plugin (Tue Aug 24 2004 - 17:21:35 CDT)
- Re: tcl: wait for exec (Fri Jul 30 2004 - 14:26:52 CDT)
- tcl: wait for exec (Thu Jul 29 2004 - 19:09:04 CDT)
- dcd with fixed atoms (Wed Mar 17 2004 - 00:39:28 CST)
- Re: color problem with Ati Fire GL E1 (Fri Mar 05 2004 - 19:46:32 CST)
- Re: color problem with Ati Fire GL E1 (Fri Mar 05 2004 - 19:50:20 CST)
- color problem with Ati Fire GL E1 (Wed Mar 03 2004 - 16:45:19 CST)
- graphics display works sometimes (Tue Dec 16 2003 - 21:42:44 CST)
- File patterns (Tue May 30 2000 - 09:58:38 CDT)
Luis Guillermo Cota Preciado
- RGB values... (Thu Jul 01 2010 - 18:10:10 CDT)
- Re: Problems with Linux install... (Wed Jun 09 2010 - 18:35:18 CDT)
- Re: Problems with Linux install... (Mon Jun 07 2010 - 00:17:58 CDT)
- Re: Problems with Linux install... (Fri Jun 04 2010 - 13:30:30 CDT)
- Re: Problems with Linux install... (Fri Jun 04 2010 - 10:19:01 CDT)
- Problems with Linux install... (Fri Jun 04 2010 - 02:32:23 CDT)
- Re: cavity/pocket representation (Thu May 04 2006 - 12:48:53 CDT)
- vmd crashes after startup... (Wed Dec 03 2003 - 15:51:57 CST)
Luis M. Sánchez
- Anaglyph stereo with other colors (Fri May 04 2012 - 09:45:34 CDT)
- Re: Anaglyph stereo with other colors (Sat Apr 21 2012 - 16:56:32 CDT)
- Anaglyph stereo with other colors (Fri Apr 20 2012 - 08:09:19 CDT)
Luis Omar Alvarez Mures
- Using VMD in Java application (Tue Jun 07 2016 - 07:40:30 CDT)
Luis Rosales
- Re: atomselection (Wed Jun 20 2007 - 10:14:56 CDT)
- AutoIMD on vmd 1.8.6 IRIX.... (Fri May 11 2007 - 19:48:16 CDT)
- Re: GLSL rendering in VMD 1.8.6 (Mon Apr 16 2007 - 17:40:35 CDT)
- GLSL rendering in VMD 1.8.6 (Fri Apr 13 2007 - 20:18:23 CDT)
- Re: Joystick, VMD and vrpn on Linux (Fri Oct 21 2005 - 18:46:37 CDT)
- Joystick, VMD and vrpn on Linux (Wed Oct 19 2005 - 20:50:46 CDT)
- RE: What's wrong with my VMD (Fri Oct 14 2005 - 00:42:19 CDT)
- Re: Grasp plugin... (Wed Jul 06 2005 - 19:19:25 CDT)
- Grasp plugin... (Tue Jul 05 2005 - 20:17:12 CDT)
- Re: sball.h not found (Sat Jun 25 2005 - 21:31:01 CDT)
- Re: vmd installation with Mesa installed in a non-standard location (Thu Jun 02 2005 - 18:56:19 CDT)
- Re: Compiling VMD: Trouble with DispCmds.C (Tue May 24 2005 - 17:36:32 CDT)
- Compiling VMD: Trouble with DispCmds.C (Fri May 20 2005 - 22:28:18 CDT)
- Plugins... (Fri May 06 2005 - 19:31:11 CDT)
- Re: namd-l: Re: Interactive Simulations, ligand size limits.... (Wed Apr 27 2005 - 21:29:51 CDT)
- RE: Solvate plugin (Wed Apr 27 2005 - 04:12:08 CDT)
- Re: namd-l: Re: Interactive Simulations, ligand size limits.... (Wed Apr 20 2005 - 22:22:10 CDT)
- Re: Interactive Simulations, ligand size limits.... (Wed Apr 20 2005 - 18:19:58 CDT)
- Interactive Simulations, ligand size limits.... (Tue Apr 19 2005 - 22:51:52 CDT)
- Re: UHBD-grids (Fri Apr 15 2005 - 17:40:27 CDT)
- RE: rmsd and angle between the two domains (Tue Apr 12 2005 - 23:51:55 CDT)
- vmdcavemem.... (Mon Apr 11 2005 - 21:19:03 CDT)
- RE: VMD and Cyclotides... (Tue Apr 05 2005 - 17:01:21 CDT)
- RE: VMD and Cyclotides... (Tue Apr 05 2005 - 02:47:11 CDT)
- VMD and Cyclotides... (Mon Apr 04 2005 - 20:05:33 CDT)
- Re: Maximum numbers of atoms (Mon Apr 04 2005 - 16:22:28 CDT)
- RE: Problem with the Graphics Command (Mon Mar 28 2005 - 21:23:07 CST)
- IMD, basic questions... (Tue Mar 15 2005 - 19:01:29 CST)
- Re: Display only side chains (Mon Mar 07 2005 - 17:36:29 CST)
- AutoIMD on VMD 1.8.3 (Wed Mar 02 2005 - 20:24:46 CST)
- Re: RNA polymerase docking on DNA (Wed Feb 23 2005 - 22:55:20 CST)
- RE: Tracking system configuration (Fri Feb 18 2005 - 20:21:43 CST)
- Re: Unprotonating GLU, ASP (Tue Feb 15 2005 - 20:29:32 CST)
- Re: Unprotonating GLU, ASP (Tue Feb 15 2005 - 18:16:00 CST)
- Re: slowing the movie animation (Mon Feb 14 2005 - 23:08:44 CST)
- Tracking system configuration??? (Mon Feb 14 2005 - 21:36:03 CST)
- Micelles... (Wed Feb 09 2005 - 23:06:16 CST)
- AutoIMD and fixedatoms (Mon Jan 31 2005 - 21:47:12 CST)
- Re: Display on a Graphic Cluster (Fri Jan 28 2005 - 17:54:15 CST)
- Display on a Graphic Cluster (Fri Jan 28 2005 - 15:23:51 CST)
- Auto IMD (Mon Jan 24 2005 - 14:12:45 CST)
- RE: MSMS variable (and VMDMSMSUSEFILE) (Tue Nov 30 2004 - 19:10:11 CST)
- RE: MSMS variable (Mon Nov 29 2004 - 18:38:55 CST)
- RE: MSMS variable (Wed Nov 24 2004 - 16:52:59 CST)
- RE: Povray & color gradients (Wed Nov 24 2004 - 16:35:55 CST)
- RE: MSMS variable (Wed Nov 24 2004 - 16:13:44 CST)
- MSMS variable (Tue Nov 23 2004 - 18:52:35 CST)
- Updating selections.... (Thu Nov 18 2004 - 18:41:21 CST)
- RE: VMD newbie question (Fri Nov 12 2004 - 00:44:56 CST)
- RE: Problems with povray (Tue Oct 26 2004 - 15:11:53 CDT)
- RE: Problems with povray (Mon Oct 25 2004 - 13:47:59 CDT)
- RE: VMD on Linux Fedora Core 2 (Wed Oct 13 2004 - 17:10:31 CDT)
- RE: Basic VMD questions... (Fri Oct 08 2004 - 21:05:30 CDT)
- Basic VMD questions... (Thu Oct 07 2004 - 19:10:52 CDT)
- AutoIMD (Wed Oct 06 2004 - 02:50:02 CDT)
luiz beline
- Start in VMD (Wed Oct 04 2017 - 13:31:43 CDT)
Luká¹ Pravda
- Creating custom molecule in VMD scripting (Tue Oct 29 2013 - 04:40:29 CDT)
Lula Miner
- Prest1ge Repl1cas your source for high-quality w4tches (Thu Aug 16 2007 - 19:21:55 CDT)
luoyuan Q
- problem showing lammps dump files (Thu Sep 13 2012 - 21:18:29 CDT)
Luthaf
- Re: Register some cell information in XYZ files (Mon Apr 06 2020 - 09:37:45 CDT)
- Re: amber generated netcdf trajectories (Thu Dec 19 2019 - 07:09:50 CST)
Lutz Maibaum
- Re: Couldn't load the trajectory on to vmd (Tue May 12 2015 - 13:40:07 CDT)
- Assigning colors to atom names (Mon Apr 13 2015 - 19:09:18 CDT)
- Re: volmap commands (Wed Jun 20 2007 - 23:19:01 CDT)
- volmap commands (Wed Jun 20 2007 - 20:35:15 CDT)
- Re: Reading additional atom properties (Tue May 15 2007 - 20:46:25 CDT)
- Reading additional atom properties (Thu May 03 2007 - 20:07:12 CDT)
- Re: Possible bug in LAMMPS plugin (Thu Oct 05 2006 - 19:11:56 CDT)
- Re: Possible bug in LAMMPS plugin (Thu Oct 05 2006 - 12:44:30 CDT)
- Re: Possible bug in LAMMPS plugin (Tue Oct 03 2006 - 11:49:23 CDT)
- Possible bug in LAMMPS plugin (Mon Oct 02 2006 - 15:10:43 CDT)
LW
- Re: salt bridge cutoff distance (Wed Sep 02 2015 - 17:27:07 CDT)
- salt bridge cutoff distance (Fri Aug 28 2015 - 04:30:00 CDT)
- Re: dock (Tue Apr 23 2013 - 03:40:47 CDT)
- Re: Computing the transformation_matrix for best fit alignment of structures (Thu Apr 18 2013 - 02:22:48 CDT)
- Computing the transformation_matrix for best fit alignment of structures (Wed Apr 17 2013 - 22:54:18 CDT)
Lyman K Monroe
- Multiple proteins in MDFF? (Tue Mar 25 2014 - 20:59:49 CDT)
- multiple proteins (Tue Mar 25 2014 - 20:58:41 CDT)
M K
- Re: Measre dihedral angle of a certain type (Tue Apr 09 2019 - 19:46:23 CDT)
- Re: Measre dihedral angle of a certain type (Tue Apr 09 2019 - 19:19:18 CDT)
- Measre dihedral angle of a certain type (Mon Mar 25 2019 - 00:42:37 CDT)
- How to calculate density profile (Sun Dec 10 2017 - 23:21:39 CST)
- Re: XYZ (Thu Dec 01 2016 - 17:33:23 CST)
- The new molecule file browser (Fri Oct 28 2016 - 20:51:59 CDT)
- topotools: write a particular selection into a lammps data file (Sun Jul 24 2016 - 23:08:25 CDT)
- Re: Define the percentage of zoom (Mon Feb 22 2016 - 17:54:14 CST)
- Define the percentage of zoom (Mon Feb 22 2016 - 05:21:36 CST)
- Regarding pbc tool: pbc join fragment -bondlist + topo tool (Sat Feb 06 2016 - 07:23:08 CST)
- Re: select atoms within a sphere - atomselect (Mon Jan 25 2016 - 04:39:01 CST)
- Re: select atoms within a sphere - atomselect (Mon Jan 25 2016 - 03:35:42 CST)
- Re: Manipulating the pdb file (Wed Jan 20 2016 - 20:13:02 CST)
- Re: measure contacts not working as expected (Sat Dec 12 2015 - 03:04:10 CST)
- Re: Error while opening dump file (Tue Nov 17 2015 - 20:18:05 CST)
- Re: Need help in selection (Mon Nov 02 2015 - 04:11:35 CST)
- Re: Tcl script for hydration shell of backbone carbonyl oxygen for whole trajectory. (Thu Oct 22 2015 - 04:10:36 CDT)
- Re: Plot waters vs time in a trajectory (Tue Oct 20 2015 - 20:08:49 CDT)
- Re: Plot waters vs time in a trajectory (Tue Oct 20 2015 - 20:04:27 CDT)
- Re: How to remove the simulation box (Wed Oct 14 2015 - 21:12:05 CDT)
- Re: How to remove the simulation box (Wed Oct 14 2015 - 20:44:14 CDT)
- How to remove the simulation box (Thu Sep 17 2015 - 22:22:52 CDT)
- Re: Calculating residence time (Fri Apr 03 2015 - 02:49:45 CDT)
- Calculating residence time (Wed Apr 01 2015 - 23:08:33 CDT)
- about the diffusion & msd plugin (Mon Mar 30 2015 - 01:57:12 CDT)
- Re: Protein went out of the Box (Mon Mar 02 2015 - 02:06:24 CST)
- Re: (Wed Feb 25 2015 - 21:43:06 CST)
- Why NAMD??? a general question (Sun Feb 15 2015 - 05:49:19 CST)
- Re: Select Residues (Mon Feb 09 2015 - 02:30:44 CST)
- Re: Unit Cell PDB of Copper (Mon Feb 02 2015 - 20:29:56 CST)
- Re: Does topo readlammpsdata automatically detect bonds? (Thu Jan 29 2015 - 19:16:23 CST)
- making self-adjustable high resolution images (Wed Jan 28 2015 - 04:47:26 CST)
- Re: Problem in fink install netpbm for Movie Making (Mon Dec 22 2014 - 21:19:58 CST)
- Re: Fwd: How find water mediated hydrogen bond (Tue Dec 16 2014 - 01:26:40 CST)
- Re: H-Bonds not shown when loading by topo readlammpsdata (Sun Dec 07 2014 - 22:34:02 CST)
- H-Bonds not shown when loading by topo readlammpsdata (Sun Dec 07 2014 - 21:51:37 CST)
- Re: making psf files (Wed Dec 03 2014 - 02:31:53 CST)
- Re: How to calculate MSD on VMD (Wed Nov 12 2014 - 17:54:44 CST)
- Re: Protein went out of the Box (Tue Nov 11 2014 - 22:46:57 CST)
- Re: Protein went out of the Box (Tue Nov 11 2014 - 18:12:50 CST)
- Re: Selecting atoms based on the charges (Mon Nov 10 2014 - 18:55:41 CST)
- Problem in fink install netpbm for Movie Making (Fri Nov 07 2014 - 22:55:07 CST)
M Karim
- making psf files (Wed Oct 01 2014 - 07:53:14 CDT)
- Re: Labels for part of a trajectory (Thu Sep 25 2014 - 18:38:45 CDT)
- Selecting atoms based on the charges (Mon Sep 22 2014 - 21:25:44 CDT)
M kutty
- Residue highlighting in MD Traj (Wed Sep 19 2007 - 03:15:09 CDT)
m r
- Problem in buried surface area calculation (Tue Aug 27 2013 - 08:35:55 CDT)
M SH
- a question about get the coordinates in vector form (Fri Apr 15 2005 - 13:31:45 CDT)
- how to creat a file containing only one potassium ion (Mon Apr 11 2005 - 14:50:27 CDT)
M Suma
- Can't connect to BioCORE (Tue Mar 26 2024 - 02:03:14 CDT)
M. Arent
- Sorry! Forgot to include the name of the molecule (Sun Apr 22 2001 - 15:32:22 CDT)
M. Emal Alekozai
- Re: skip frames in dcd file=> no effect? (Thu May 18 2006 - 06:34:08 CDT)
- skip frames in dcd file=> no effect? (Mon May 15 2006 - 06:58:09 CDT)
M.H. Taheri
- geometry optimization with SQM (Thu Dec 08 2016 - 10:43:29 CST)
m.raviprasad_at_ndsu.edu
- Re: Problem Material Studio/VMD (Wed Aug 11 2010 - 12:55:52 CDT)
M.S.Vijayabaskar
- SURF -rendering problem (Wed Apr 05 2006 - 04:44:55 CDT)
Ma Ming via LinkedIn
- Invitation to connect on LinkedIn (Sun Mar 27 2011 - 23:26:07 CDT)
- Ma Ming wants to stay in touch on LinkedIn (Sun Mar 27 2011 - 23:21:55 CDT)
Ma.Busch
- X server is not capable of displaying double RGB images with a Z buffer (Tue Oct 20 2009 - 04:09:40 CDT)
Mackay Steffensen
- Display bond between fragment and protein residue (Mon Jul 02 2007 - 12:24:47 CDT)
Madaras ErzsÃ©bet
- Re: VMD and Spacenavigator in OSX (Tue Dec 06 2016 - 04:12:40 CST)
- Re: VMD problems on Linux Cinnamon Mint (Sarah) (Fri Nov 25 2016 - 02:12:59 CST)
- Re: VMD problems on Linux Cinnamon Mint (Sarah) (Thu Nov 24 2016 - 10:07:13 CST)
- Re: VMD problems on Linux Cinnamon Mint (Sarah) (Thu Nov 24 2016 - 06:42:09 CST)
- VMD problems on Linux Cinnamon Mint (Sarah) (Wed Nov 23 2016 - 16:00:00 CST)
Madhavan Narayanan
- Installing VMD store using tkconsole in VMD in Windows 10 (Sat Oct 08 2022 - 11:31:32 CDT)
Madhavan Poyyapakkam
- Measuring cluster size (Wed Nov 22 2000 - 20:46:59 CST)
madhumita das
- Adding water in protein (Mon Sep 19 2011 - 06:01:15 CDT)
- Fwd: Pdb file generation,bad water removal and coordinates of psf. (Wed Sep 07 2011 - 20:24:47 CDT)
Madhur Aggarwal
- Re: lammps data file simulation box center and VMD origin (Wed Oct 02 2019 - 16:11:13 CDT)
- Re: lammps data file simulation box center and VMD origin (Wed Oct 02 2019 - 13:02:23 CDT)
- Re: lammps data file simulation box center and VMD origin (Wed Oct 02 2019 - 12:51:54 CDT)
- lammps data file simulation box center and VMD origin (Wed Oct 02 2019 - 09:53:05 CDT)
Madhuri Agashe
- rmsd from VMD (Sun Nov 23 2003 - 13:34:32 CST)
- getting ramachandran plots with VMD (Mon Oct 27 2003 - 12:26:36 CST)
- loading crd files into VMD (Wed Oct 15 2003 - 14:21:21 CDT)
Mads Norregaard-Madsen
- RE: Issue with wildcat 3 cards (Mon Jul 01 2002 - 18:37:15 CDT)
Mads Nørregaard-Madsen
- RE: 3D/stereo hardware recommendations wanted!!! (Fri Jan 14 2005 - 05:09:54 CST)
- Sharp 3D stereo monitors (Mon Sep 20 2004 - 06:11:02 CDT)
- Re: Re: hardware stereo with nVidia card (Thu Sep 04 2003 - 02:26:56 CDT)
- RE: cursor size/shape in pick mode (Fri May 02 2003 - 12:04:45 CDT)
- cursor size/shape in pick mode (Thu May 01 2003 - 03:43:32 CDT)
- RE: High-Res and Eye 3D glasses and SynthaGram Monitors (Wed Sep 11 2002 - 16:21:37 CDT)
- RE: stereo on linux: DTI monitors? (Tue Aug 27 2002 - 03:38:14 CDT)
madura_at_duq.edu
- Overlaying 2 structures (Fri Sep 25 2009 - 15:55:05 CDT)
- Macbook and VMD Tk windows (Fri May 29 2009 - 06:49:08 CDT)
Maggie Pruitt
- Problem building POPE membrane with plugin using CHARMM36 (Mon Sep 19 2011 - 12:19:41 CDT)
Maghsoud, Yazdan
- Correlation matrix illustration via heating map (Sun Aug 28 2022 - 11:08:11 CDT)
Magnus Andersson
- Re: setting coloring and drawing methods (Fri Jan 29 2021 - 09:20:48 CST)
- setting coloring and drawing methods (Fri Jan 29 2021 - 08:05:24 CST)
- psfgen error with charmm36 parameters? (Wed Apr 05 2017 - 04:48:25 CDT)
- residency times continued (Fri Feb 15 2013 - 07:12:04 CST)
- align electron density map onto simulated structure (with different center) (Sun Apr 15 2012 - 18:42:21 CDT)
- problem generating NAD (Fri Dec 23 2011 - 13:37:19 CST)
- Re: Couldn't locate ppmtompeg (Thu Nov 10 2011 - 16:03:41 CST)
- Re: visualizing unrealistic bonds (Mon Aug 15 2011 - 14:26:08 CDT)
- Re: water is forming bonds between hydrogens (Wed Jun 15 2011 - 10:01:55 CDT)
- color sidechains differently (Tue Jun 14 2011 - 21:30:10 CDT)
- xy diagonal (Wed Jun 08 2011 - 12:29:30 CDT)
Magnus Kreth
- Re: stereo display on NVIDIA Quadro4 750 XGL (Mon Jan 13 2003 - 09:32:28 CST)
Mahad Gatti
- Calculate torsional angle with big_dcd adding a boolean control for pyrimidines and purines selection (Wed Aug 26 2015 - 05:41:09 CDT)
Mahdi Moosaei
- Showing wall potential (Thu Feb 25 2016 - 09:43:27 CST)
Mahdieh Hadi
- RE: RE: Suitable VMD version for OS X EI Capitan, Version 10.11.3 (Wed Feb 24 2016 - 02:33:17 CST)
- RE: Suitable VMD version for OS X EI Capitan, Version 10.11.3 (Tue Feb 23 2016 - 03:35:01 CST)
- Suitable VMD version for OS X EI Capitan, Version 10.11.3 (Mon Feb 22 2016 - 17:04:44 CST)
Mahendra B Thapa
- Fwd: adding calcium atom to the nmr structure (Fri Aug 09 2013 - 18:38:33 CDT)
- Re: FW: difficulty in viewing AMBER mdcrd files (Tue Jul 24 2012 - 12:38:00 CDT)
- difficulty in viewing AMBER mdcrd files (Mon Jul 02 2012 - 11:56:43 CDT)
Mahesh Chandrasekhar Gandikota
- (no subject) (Wed May 14 2014 - 09:59:40 CDT)
mahesh gudem
- Re: control the spacing between the dashes in the hydrogen bonding between two atoms (Tue Oct 30 2012 - 07:48:21 CDT)
mahesh naalla
- Density distribution plots (Fri Oct 10 2008 - 15:39:30 CDT)
- Density distribution plots (Thu Oct 09 2008 - 13:28:31 CDT)
- Visualizing History file from DL_POLY (Mon Jul 14 2008 - 11:43:43 CDT)
- Re: Print and save DLPOLY HISTORY plots (Thu Jun 19 2008 - 14:08:17 CDT)
- Print and save DLPOLY HISTORY plots (Thu Jun 19 2008 - 12:15:50 CDT)
Mahmood Naderan
- Re: Running vmd (Tue Mar 06 2018 - 11:55:43 CST)
- Re: Running vmd (Mon Mar 05 2018 - 09:14:11 CST)
- Re: Running vmd (Mon Mar 05 2018 - 06:30:24 CST)
- Re: Running vmd (Mon Mar 05 2018 - 04:26:16 CST)
- Running vmd (Sun Mar 04 2018 - 09:20:14 CST)
- Re: netcdf for plugins (Sun Mar 04 2018 - 07:45:51 CST)
- netcdf for plugins (Sun Mar 04 2018 - 07:11:08 CST)
- vmd error related to tcl.h (Sat Mar 03 2018 - 13:47:07 CST)
mahmoud
- VMD with charmm program (Sun Apr 30 2006 - 04:59:52 CDT)
Mahsa
- VMD Movie Plugin for MacOS (Sat Oct 16 2021 - 13:27:50 CDT)
- Problem in opening VMD on macOS Catalina (Wed Mar 24 2021 - 07:02:09 CDT)
Mai Aamer
- calculating RMSD for a trajectory file (Mon Dec 21 2015 - 04:44:53 CST)
- creating psf file (Tue Jul 07 2015 - 16:10:29 CDT)
Maik Götte
- Problems with RMSD (Mon Mar 08 2004 - 09:20:56 CST)
mail gromacs
- how to convert Desmond trajectories into PDB in text mode? (Thu Nov 24 2011 - 13:09:40 CST)
- POPE CHARMM36 generations error. (Thu Nov 24 2011 - 13:13:02 CST)
Majid Shahbabaei
- Making a Skewed graphene sheet via VMD (Mon Apr 04 2016 - 05:10:25 CDT)
- Changing the color of some atoms (Thu Nov 19 2015 - 22:54:49 CST)
- Re: How can I trace an oxygen atom in VMD? (Wed Oct 28 2015 - 22:03:38 CDT)
- Re: How can I trace an oxygen atom in VMD? (Mon Oct 19 2015 - 02:08:37 CDT)
- How can I trace an oxygen atom in VMD? (Mon Oct 19 2015 - 00:52:11 CDT)
- Re: Fwd: To delete some atoms via VMD (Tue Feb 10 2015 - 21:51:56 CST)
- Fwd: To delete some atoms via VMD (Tue Feb 10 2015 - 05:28:31 CST)
- To delete some atoms via VMD (Tue Feb 10 2015 - 03:26:48 CST)
- Re: Problem by removing vmd 1.9.1 and installing 1.9.2. (Fri Feb 06 2015 - 21:31:06 CST)
- Re: Problem by removing vmd 1.9.1 and installing 1.9.2. (Fri Feb 06 2015 - 05:28:48 CST)
- Re: Problem by removing vmd 1.9.1 and installing 1.9.2. (Fri Feb 06 2015 - 01:19:13 CST)
- Re: Problem by removing vmd 1.9.1 and installing 1.9.2. (Thu Feb 05 2015 - 19:55:18 CST)
- Problem by removing vmd 1.9.1 and installing 1.9.2. (Thu Feb 05 2015 - 05:32:16 CST)
- Fwd: To delete some angles via VMD (Wed Jan 28 2015 - 23:09:54 CST)
makkuva Ram vivek
- Depletion of few atoms (Mon Aug 29 2011 - 22:16:16 CDT)
Malvika K
- Color scale bar (Thu Feb 08 2018 - 11:15:46 CST)
maming10002000
- How to add ions for RBCG (Sun Mar 27 2011 - 09:56:02 CDT)
- How to add iond for RBCG model (Sun Mar 27 2011 - 10:23:27 CDT)
Mamoru Yamanishi
- Re: APBS plugin (Wed Dec 07 2005 - 21:48:56 CST)
- Re: APBS plugin (Wed Dec 07 2005 - 14:18:48 CST)
- Two questions: MacOS X and Raster3D output (Wed Dec 07 2005 - 12:28:32 CST)
Mamta Mohan
- Re: Fw: VMD 1.8.6 for UBUNTU 8.04LTS (Thu Oct 09 2008 - 10:55:29 CDT)
- Fw: VMD 1.8.6 for UBUNTU 8.04LTS (Wed Oct 08 2008 - 20:21:11 CDT)
- VMD 1.8.6 for UBUNTU 8.04LTS (Fri Oct 03 2008 - 14:03:28 CDT)
- running simulation on dual core processor (Fri Sep 19 2008 - 10:44:27 CDT)
- Fw: warning during psfgen file (Thu Sep 18 2008 - 13:08:29 CDT)
- warning during psfgen file (Thu Sep 18 2008 - 10:11:33 CDT)
- solvation (Wed Sep 17 2008 - 13:28:55 CDT)
- simulation image question (Wed Sep 17 2008 - 12:42:34 CDT)
Manali Joshi
- Customized radii (Tue May 22 2007 - 13:04:27 CDT)
- Atomselection problem (Fri Feb 24 2006 - 16:54:12 CST)
Manali Mehendale
- SASA calculation (protein + small molecules) (Thu Feb 07 2008 - 14:45:37 CST)
- Re: Finding the length of multiple small molecules (Sat Dec 08 2007 - 15:09:47 CST)
- Finding the length of multiple small molecules (Fri Dec 07 2007 - 13:15:59 CST)
- Help with Tcl script (Fri Jun 08 2007 - 11:09:56 CDT)
manali_at_bioinfo.net.in
- Re: Question about measure cluster (Mon Jan 20 2014 - 10:17:39 CST)
- Question about measure cluster (Mon Jan 20 2014 - 05:43:39 CST)
- Question about measure cluster (Mon Jan 20 2014 - 05:43:39 CST)
- trajectory conversion: dcd to trr to xtc (Tue Feb 26 2013 - 03:59:34 CST)
Manas Kohli
- Extracellular Salt Bridges (Tue Jul 13 2021 - 12:02:52 CDT)
- Re: Calculation of residue pair energy values (Mon Feb 15 2021 - 13:02:25 CST)
- Re: Calculation of residue pair energy values (Mon Feb 15 2021 - 08:51:54 CST)
- Calculation of residue pair energy values (Sun Feb 14 2021 - 07:54:51 CST)
- Re: Glycoprotein simulation (Sun Nov 22 2020 - 09:12:01 CST)
- Glycoprotein simulation (Fri Nov 20 2020 - 14:25:18 CST)
- Re: Problem with Residue Based Coarse Grain tutorial (Tue Jul 28 2020 - 19:21:30 CDT)
- Re: Problem with Residue Based Coarse Grain tutorial (Tue Jul 28 2020 - 09:11:29 CDT)
- Problem with Residue Based Coarse Grain tutorial (Mon Jul 27 2020 - 04:57:59 CDT)
Manasa Yadavalli
- Changing Tk console background (Wed Aug 25 2021 - 15:46:57 CDT)
- Tk console not responding to keystrokes (Wed Aug 25 2021 - 15:46:18 CDT)
Mandar Kulkarni
- Re: MSMS in VMD (Fri Feb 28 2020 - 10:02:45 CST)
- MSMS in VMD (Fri Feb 28 2020 - 07:59:54 CST)
Mandayam Bharathi, Harsha
- Redundant entries in force field parameters generated by paratool plugin in VMD (Wed Mar 03 2021 - 12:03:25 CST)
Maness, Peter
- Hessian Error (Tue Jan 28 2025 - 13:58:40 CST)
Mani Kandan
- Re: Solvate Plugin Error - Reg (Mon Aug 27 2018 - 10:56:31 CDT)
- Solvate Plugin Error - Reg (Mon Aug 27 2018 - 04:31:18 CDT)
- Re: Solvate plugin Error - reg (Tue Jul 31 2018 - 12:08:20 CDT)
- Solvate plugin Error - reg (Tue Jul 31 2018 - 06:24:53 CDT)
- Gamma Silicon Nitrite Crystal - Reg (Mon Jul 09 2018 - 12:48:32 CDT)
- Re: Possible to run VMD in parallel - Reg (Thu Jul 05 2018 - 21:03:55 CDT)
- Re: Possible to run VMD in parallel - Reg (Thu Jul 05 2018 - 09:50:31 CDT)
- Possible to run VMD in parallel - Reg (Tue Jul 03 2018 - 13:42:21 CDT)
- Re: Inorganic builder in no display mode - Reg (Tue Jul 03 2018 - 13:17:22 CDT)
- Inorganic builder in no display mode - Reg (Wed Jun 27 2018 - 10:32:00 CDT)
- How to apply uniform surface charge ? (Mon Jun 11 2018 - 22:37:08 CDT)
- Re: SPC/E Water models (Wed May 23 2018 - 11:36:20 CDT)
- SPC/E Water models (Wed May 23 2018 - 04:36:36 CDT)
- Re: How autoionzie plugin works? (Tue May 22 2018 - 14:58:21 CDT)
- Re: How autoionzie plugin works? (Tue May 22 2018 - 13:46:29 CDT)
- How autoionzie plugin works? (Tue May 22 2018 - 12:44:47 CDT)
manikanthan bhavaraju
- Generating .top and .crd using VMD (Mon Jun 17 2013 - 10:18:25 CDT)
Manish
- RE: Error running IED (Tue Oct 18 2011 - 14:33:15 CDT)
- Error running IED (Tue Oct 18 2011 - 13:39:09 CDT)
- Error running IED with VMD (Fri Oct 14 2011 - 08:47:17 CDT)
- RE: Count waters inside a specified box (Wed Sep 07 2011 - 09:19:55 CDT)
- Count waters inside a specified box (Tue Sep 06 2011 - 11:11:40 CDT)
Manish Agarwal
- Re: Patch DISU fails for MARTINIZED protein segments (Tue Dec 04 2018 - 12:55:30 CST)
- Re: Patch DISU fails for MARTINIZED protein segments (Tue Dec 04 2018 - 10:54:14 CST)
- Patch DISU fails for MARTINIZED protein segments (Tue Dec 04 2018 - 01:45:08 CST)
- Re: Secondary Structure of alkane polymers (Mon Jan 24 2011 - 17:48:07 CST)
- Secondary Structure of alkane polymers (Mon Jan 24 2011 - 15:43:47 CST)
Manish Gupta
- Re: Visualize temperature (Fri Aug 18 2017 - 15:02:36 CDT)
- Re: Visualize temperature (Fri Aug 18 2017 - 14:57:29 CDT)
- Visualize temperature (Fri Aug 18 2017 - 12:04:54 CDT)
Manishi Pandey
- Problem in finding the HBonds (Wed Apr 15 2009 - 02:50:29 CDT)
MannyEful E
- Re: Residence Time Script (v2.) (Sat Apr 02 2016 - 12:28:06 CDT)
- Residence Time Script (v2.) (Wed Mar 30 2016 - 19:51:48 CDT)
- Steinhardt order parameter and clustering algorithms (Sat Dec 12 2015 - 13:04:18 CST)
- VMD killed despite using $sel delete and unset sel (Thu Jan 22 2015 - 23:18:10 CST)
- Re: Fixing the rotation of complex during trajectory visualization (Wed Nov 19 2014 - 08:18:25 CST)
- Re: (Tue Nov 18 2014 - 15:08:14 CST)
- Re: (Tue Nov 18 2014 - 12:16:41 CST)
- Re: (Tue Nov 18 2014 - 10:54:06 CST)
- Re: (Tue Nov 18 2014 - 10:15:51 CST)
- Re: (Tue Nov 18 2014 - 09:14:12 CST)
- (no subject) (Tue Nov 18 2014 - 07:40:29 CST)
Manoj Dhiman
- Re: SPC/E Water models (Wed May 23 2018 - 11:49:44 CDT)
- Re: Atom type information is not incremented after merging two molecules. (Fri Feb 23 2018 - 09:22:18 CST)
- Atom type information is not incremented after merging two molecules. (Fri Feb 23 2018 - 03:34:16 CST)
Manoj Yadav
- Re: how to make default background color to white (Tue Mar 08 2011 - 10:13:31 CST)
Mantzalis, Dimitrios
- Xrequest in VMD (Wed May 12 2010 - 06:03:28 CDT)
Manuel Melle-Franco
- Problems with graphics.color function under VMD's python interpreter (Tue Jan 20 2004 - 10:20:55 CST)
- Different number of atoms trajectory frames (Thu Dec 11 2003 - 05:14:04 CST)
manuel mourato
- Re: Launching VMD Gui from WSL Centos compiled from source (Sat May 21 2022 - 13:26:21 CDT)
- Launching VMD Gui from WSL Centos compiled from source (Sat May 21 2022 - 07:58:43 CDT)
- Re: Using VMD from a Chrome Web Browser (Fri May 06 2022 - 18:00:59 CDT)
- Re: Using VMD from a Chrome Web Browser (Fri May 06 2022 - 11:49:41 CDT)
- Using VMD from a Chrome Web Browser (Fri May 06 2022 - 06:23:59 CDT)
Manuel Perez Escribano
- PBC wrap (close to the boundaries) (Mon Oct 07 2024 - 12:55:43 CDT)
Manuel Rueda
- Phosphate mass (Tue Sep 28 2004 - 08:43:52 CDT)
- Phosphate mass (Tue Sep 28 2004 - 07:55:44 CDT)
Mao Mao
- reading .vel files and .veldcd files (Wed May 18 2011 - 10:50:46 CDT)
- velocity profile (Mon May 16 2011 - 10:45:55 CDT)
- question about the inorganic builder (Tue Mar 01 2011 - 11:30:53 CST)
Marawan Hussien
- Postdoctoral fellowship Computational Drug Discovery (Fri Oct 01 2021 - 12:50:10 CDT)
- PhD Position In Computational Structural Biology Of Membrane Proteins (Mon Jul 06 2020 - 22:07:44 CDT)
- Immediate postdoc opening in Bio-molecular simulation, University of Alberta, Canada (Wed Jun 19 2019 - 19:16:26 CDT)
- Later protein diffusion through membrane--PBC tools problem (Wed Jun 24 2015 - 15:51:57 CDT)
- Immediate PhD Opening Computational Structural Biology Of Membrane Proteins (Thu Apr 09 2015 - 19:18:53 CDT)
- Immediate Postdoctoral Position Opening (Thu Apr 09 2015 - 18:10:32 CDT)
Marc Baaden
- Two open positions related to molecular visualization developments (Tue Oct 25 2016 - 11:19:23 CDT)
- Announcement about Faraday Discussion on Molecular Simulation and Visualization - call for abstracts deadline 22 July 2013 (Tue Jul 02 2013 - 15:00:02 CDT)
- Largest published IMD (interactive simulation) examples? (Tue Sep 04 2012 - 12:02:10 CDT)
- Re: Haptic devices for IMD (Wed Jan 18 2012 - 12:27:55 CST)
- out-of-core visualization of large trajectories (Tue Jan 17 2012 - 12:08:31 CST)
- Re: haptic devices VMD/NAMD/IMD (Mon Oct 31 2011 - 17:56:30 CDT)
- VMD, Tachyon and depth of field (Sat Feb 06 2010 - 10:07:07 CST)
- Syntax and capabilities of writetrr (Fri Jan 22 2010 - 02:43:27 CST)
- Re: Compiled version for MacOSX with non-standard options (Fri Apr 18 2008 - 14:21:30 CDT)
- Re: Compiled version for MacOSX with non-standard options (Fri Apr 18 2008 - 08:36:25 CDT)
- Mac OSX TK console issues (Fri Jun 15 2007 - 09:21:51 CDT)
- volmap command and masks (Fri May 18 2007 - 17:01:20 CDT)
- Re: Compiling VMD with full OpenGL (Thu Aug 10 2006 - 16:35:36 CDT)
- Compiling VMD with full OpenGL (Thu Aug 10 2006 - 07:21:10 CDT)
- Re: No stereo display support in Windows Vista... (Tue Aug 08 2006 - 02:11:28 CDT)
- Solutions for stereo - is CRT technology dead? (Mon May 22 2006 - 04:33:17 CDT)
- Gamepads and VMD (and MacOSX and ForceFeedback) (Fri May 12 2006 - 10:13:46 CDT)
- Re: Stereo on MacG5 (single processor) for VMD, Chimera UCSF etc. (Wed Mar 29 2006 - 14:15:19 CST)
- IMD with linux VMD client and IBM namd server (Mon Mar 13 2006 - 07:29:36 CST)
- Re: vmd-1.8.4b10/Linux amd64 only libstdc++.so.6 dependancy (Tue Feb 14 2006 - 01:27:51 CST)
- Moving molecules with Spaceball or with a Tool (Fri Feb 03 2006 - 11:50:15 CST)
- Re: namd-l: Turning off forces in VMD (Mon Jan 09 2006 - 01:01:03 CST)
- FYI: vmd & vrpn v7.0b5 (Wed Dec 21 2005 - 05:25:11 CST)
- VMD input devices for USB-only Macs ? (Tue Nov 22 2005 - 13:17:54 CST)
- Re: namd-l: Re: Interactive Simulations, ligand size limits.... (Fri Apr 29 2005 - 04:01:27 CDT)
- Bio-Image summer school in Paris this year (Wed Mar 16 2005 - 05:45:47 CST)
- Periodic box display feature suggestion (Sat Jan 08 2005 - 12:41:13 CST)
- Re: VMD-VRPN-PHANTOM problem ? (Thu Sep 02 2004 - 09:59:58 CDT)
- Re: VMD-VRPN-PHANTOM problem ? (Thu Sep 02 2004 - 05:00:44 CDT)
- Re: VRML2 export and viewpoints (Tue Aug 31 2004 - 16:36:05 CDT)
- VRML2 export and viewpoints (Sun Aug 29 2004 - 05:37:28 CDT)
- displaying tube/ribbon with varying diameter ? (Tue May 18 2004 - 05:26:26 CDT)
- Re: Surface - upper limit for number of coordinates? (Tue May 11 2004 - 16:10:22 CDT)
- Re: error with top2psf (Thu Apr 22 2004 - 02:52:23 CDT)
- Stereo projection ? (Mon Mar 29 2004 - 15:56:37 CST)
- Molecular ruler ? (Mon Mar 29 2004 - 14:44:03 CST)
- Re: Re: your mail (Tue Dec 09 2003 - 10:54:28 CST)
- Re: Highlighting nearest atom ? (wrt to a tool) (Thu Nov 13 2003 - 10:11:44 CST)
- Highlighting nearest atom ? (wrt to a tool) (Tue Nov 11 2003 - 16:09:17 CST)
- stereo problem and VMD 1.8.2beta5 (Tue Nov 11 2003 - 14:13:49 CST)
- Re: NAMD IMD large protein model (Fri Jun 13 2003 - 05:35:45 CDT)
- Re: NAMD IMD large protein model (Thu Jun 12 2003 - 10:23:38 CDT)
- Re: IMD interface code and endianness (Fri May 30 2003 - 08:39:14 CDT)
- Re: IMD interface code and endianness (Wed May 28 2003 - 14:21:19 CDT)
- IMD interface code and endianness (Wed May 28 2003 - 13:36:18 CDT)
- Re: Some comments about stereo with nvidia cards & shutter glasses (Wed Apr 30 2003 - 02:43:58 CDT)
- Some comments about stereo with nvidia cards & shutter glasses (Tue Apr 15 2003 - 03:03:31 CDT)
- Fitting simple geometric objects to a molecule ? (Mon Dec 02 2002 - 04:59:11 CST)
- Re: can VMD display a box? (Thu Nov 28 2002 - 07:26:05 CST)
- Re: Raytracing with tachyon/povray because of pb with raster3d (Tue Nov 26 2002 - 12:02:51 CST)
- Raytracing with tachyon/povray because of pb with raster3d (Tue Nov 26 2002 - 10:47:22 CST)
- Maintaining original coordinates from PDB ? (Sun Nov 17 2002 - 14:52:15 CST)
- No stereo mode in vmd -dispdev none ?? (Wed Nov 06 2002 - 07:15:03 CST)
- Re: VMD 1.8 alpha 29 available for testing! (Mon Nov 04 2002 - 10:41:30 CST)
- Re: positioning a protein with trans etc. (Wed Oct 30 2002 - 11:52:09 CST)
- Re: positioning a protein with trans etc. (Wed Oct 30 2002 - 05:33:26 CST)
- Re: positioning a protein with trans etc. (Tue Oct 29 2002 - 16:02:55 CST)
- Gromacs file formats gro, xtc and trr (Tue Oct 29 2002 - 15:59:38 CST)
- positioning a protein with trans etc. (Tue Oct 29 2002 - 12:59:56 CST)
- Antialiasing ? (Wed Oct 23 2002 - 08:45:22 CDT)
- All that I never took the time to ask about VMD ... (Sat Aug 31 2002 - 07:14:29 CDT)
- Re: Getting history and file completion to work in vmd console ? (Fri Aug 30 2002 - 09:48:28 CDT)
- Re: from points to a surface ? (Fri Aug 30 2002 - 04:37:22 CDT)
- Getting history and file completion to work in vmd console ? (Fri Aug 30 2002 - 04:02:47 CDT)
- Re: from points to a surface ? (Wed Aug 28 2002 - 16:35:10 CDT)
- from points to a surface ? (Wed Aug 28 2002 - 03:03:48 CDT)
- Re: SPACEBALLS .. in Europe ? (Thu Aug 22 2002 - 03:23:49 CDT)
- VMD and rendering packages (Wed Aug 14 2002 - 11:01:13 CDT)
- Gromacs XTC reader broken in 1.8beta version (Thu Aug 08 2002 - 10:34:56 CDT)
- orthographic views and size (Wed Apr 03 2002 - 03:43:28 CST)
- Loading trajectory frames - bug ? Tcl-equivalent ? (Fri Mar 15 2002 - 06:27:54 CST)
Marc Charendoff
- (no subject) (Thu May 31 2012 - 12:09:44 CDT)
- Molefacture - VMD agreement (Wed Aug 10 2011 - 23:10:27 CDT)
- One more psfgen question (Thu Feb 10 2011 - 15:40:14 CST)
- psfgen script for VMD 1.8.7 (Tue Feb 08 2011 - 12:26:25 CST)
- Retrieving an atom and its coordinates (Sat Feb 13 2010 - 16:19:50 CST)
- Text Editor Got Me. . . (Thu Aug 24 2006 - 19:48:11 CDT)
- Unexpected End-of-file? (Wed Aug 23 2006 - 20:23:52 CDT)
- PRODRG generated .gro file (Tue Aug 22 2006 - 21:03:41 CDT)
Marc Gordon
- Re: Determining the Size of my Molecule. . (Sun Sep 16 2012 - 05:21:29 CDT)
- Determining the Size of my Molecule (Sat Sep 15 2012 - 07:15:28 CDT)
Marc Hömberger
- VMD for rectifying oxygen atoms ? (Wed Jun 13 2012 - 09:53:31 CDT)
Marc Petitmermet
- Compile of OpenGL shader vmdsphere failed (Tue May 02 2006 - 05:45:03 CDT)
- Re: vmd 1.8.4 on Fedora Core 5 (Tue Apr 18 2006 - 11:21:39 CDT)
- vmd 1.8.4 on Fedora Core 5 (Tue Apr 18 2006 - 06:13:18 CDT)
Marc Q. Ma
- Re: skip frames in dcd file=> no effect? (Mon May 15 2006 - 09:19:14 CDT)
- Re: How to pick up the lost periodic information? (Tue May 09 2006 - 08:21:44 CDT)
- Re: How to pick up the lost periodic information? (Mon May 08 2006 - 14:05:31 CDT)
- Re: PBC and H-bond detection (Thu Dec 08 2005 - 15:43:28 CST)
- Re: How do I share trajectory visualizations with other systems? (Tue Nov 15 2005 - 06:50:29 CST)
- scripts for binding free energy calculation using SMD and Jarzynski's equality (Wed Aug 17 2005 - 09:45:12 CDT)
- Re: dcd large files, charmm-VMD (Fri Apr 22 2005 - 10:44:25 CDT)
- Re: dcd large files, charmm-VMD (Fri Apr 22 2005 - 09:15:17 CDT)
- Re: mpg image speed (Mon Apr 11 2005 - 08:41:56 CDT)
- Re: Can vmd select residues in radius of 3.5 to a specific residue? (Fri Mar 18 2005 - 07:59:59 CST)
- Re: question of PBC (Wed Feb 23 2005 - 11:45:36 CST)
- vmdmovie plugin (Fri Feb 18 2005 - 10:31:09 CST)
- Re: SMD (Mon Feb 07 2005 - 12:24:04 CST)
- using gimp for converting jpg, tga ... images to high quality eps files (Fri Feb 04 2005 - 14:58:58 CST)
- Re: Tube representation of alpha carbons (Wed Dec 08 2004 - 07:44:55 CST)
- Re: psfgen and xplor topology (Tue Oct 26 2004 - 11:25:56 CDT)
- Re: psfgen and xplor topology (Tue Oct 26 2004 - 08:17:25 CDT)
- psfgen and xplor topology (Mon Oct 25 2004 - 15:08:03 CDT)
- save states with relative directory structure (Wed Oct 20 2004 - 08:00:23 CDT)
Marc van der Kamp
- Re: Loading new molecule without changing view? (Tue Aug 06 2013 - 06:24:24 CDT)
- Loading new molecule without changing view? (Tue Aug 06 2013 - 04:49:07 CDT)
Marc Zimmer
- implicit ligand sampling (Sat Sep 25 2010 - 06:26:24 CDT)
- Superimpose protein - plot water position - visualize water pathway (Sat Aug 07 2010 - 19:51:26 CDT)
Marcel UJI (IMAP)
- FPR monitor+glasses (Fri Feb 22 2013 - 07:13:42 CST)
Marcela Madrid
- saving velocities with VMD (Sun Jan 21 2018 - 14:55:30 CST)
- writing velocities from VMD (Thu Apr 03 2014 - 19:31:10 CDT)
- script to visualize NMR constrains? (Fri Mar 23 2007 - 13:45:46 CDT)
- visualizing NMR constrains (Thu Mar 22 2007 - 17:14:37 CDT)
- psfgen (Thu Jun 22 2006 - 15:28:23 CDT)
- superposition of molecules (Tue Nov 29 2005 - 16:15:26 CST)
- translating a molecule (Sat Aug 07 2004 - 15:00:31 CDT)
- Re: rendering from VMD (Tue Dec 17 2002 - 15:53:41 CST)
- rendering from VMD (Tue Dec 17 2002 - 13:58:57 CST)
- saving a tiff file (Mon Dec 16 2002 - 15:01:30 CST)
- alignment and rmsd fit (Fri Nov 08 2002 - 16:16:38 CST)
- bonds in graphical representation (Sat Jul 20 2002 - 15:20:08 CDT)
- rotating two superposed molecules (Sun Dec 16 2001 - 14:44:44 CST)
Marcelo A. Carignano
- an arrow for a dipole (Wed Jan 28 2004 - 13:30:41 CST)
Marcelo C. R. Melo
- Re: Tachyon download is offline (Mon Nov 18 2024 - 12:19:45 CST)
- Tachyon download is offline (Sun Nov 17 2024 - 19:26:30 CST)
- Partial black screen with Tachyon RTX RTRT (Mon Oct 28 2024 - 17:00:45 CDT)
- Re: visualisation of molecular orbitals in VMD (Fri Nov 04 2022 - 10:28:52 CDT)
- Re: [EXTERNAL]Re: h-bond plugin with QMMM (Thu Dec 03 2020 - 15:52:18 CST)
- FFTK bonded parameter optimization with ORCA (Mon Aug 03 2020 - 17:26:11 CDT)
Marcelo Carignano
- long bonds (Wed Sep 10 2008 - 07:35:36 CDT)
Marcelo Puiatti
- Visualization and reading problems (Fri Apr 27 2007 - 18:12:44 CDT)
- Memory problems with Multiseq (Thu Mar 08 2007 - 17:21:27 CST)
Marcin Krol
- Customizing vdw radius (Tue Feb 17 2004 - 03:57:21 CST)
Marcin Wojciechowski
- Solvate with LES (Locally Enhanced Sampling) pdb does not work (Thu Jun 09 2005 - 04:52:29 CDT)
marco di gennaro
- set non-zero box sizes for GAMESS output (Tue Mar 16 2021 - 04:42:35 CDT)
- set non-zero box sizes for GAMESS output (Tue Mar 16 2021 - 03:06:35 CDT)
Marco Di Gennaro (TME)
- RE: read setting from text file (Wed Mar 02 2022 - 03:48:17 CST)
- read setting from text file (Tue Mar 01 2022 - 07:59:38 CST)
- color by molecule number (Mon Dec 06 2021 - 04:50:41 CST)
Marco Gerolin
- Subtract structure to a trajectory (Thu Jul 10 2014 - 09:06:29 CDT)
Marco Kalweit
- Re: Possible bug in LAMMPS plugin (Thu Oct 05 2006 - 16:48:28 CDT)
- Re: Possible bug in LAMMPS plugin (Thu Oct 05 2006 - 10:06:25 CDT)
- read_next_timestep(...) (Tue Feb 21 2006 - 07:08:40 CST)
Marco Neves
- distances on a isosurface plot (Wed Jan 25 2006 - 12:28:09 CST)
Marcos Ackel
- Re: VRPN driver for Novint Falcon haptic device available - Looking for Testers (Wed Oct 17 2012 - 20:58:31 CDT)
- Re: Using Tools (grab, tug, etc) (Sun Oct 14 2012 - 12:42:38 CDT)
- VRPN driver for Novint Falcon haptic device available - Looking for Testers (Sun Oct 14 2012 - 12:31:59 CDT)
- Fw: VMD compile on windows (where is windows.h?) (Wed Oct 03 2012 - 13:48:45 CDT)
- Re: VMD compile on windows (where is windows.h?) (Tue Oct 02 2012 - 16:38:18 CDT)
- VMD compile on windows (where is windows.h?) (Tue Oct 02 2012 - 15:17:48 CDT)
- Re: Using Tools (grab, tug, etc) (Wed Sep 26 2012 - 15:43:19 CDT)
- Re: Using Tools (grab, tug, etc) (Mon Sep 24 2012 - 18:40:35 CDT)
- Re: Using Tools (grab, tug, etc) (Thu Sep 20 2012 - 22:23:02 CDT)
- Re: Using Tools (grab, tug, etc) (Wed Sep 19 2012 - 20:14:01 CDT)
- Re: Using Tools (grab, tug, etc) (Tue Sep 18 2012 - 15:17:01 CDT)
- Using Tools (grab, tug, etc) (Mon Sep 17 2012 - 13:53:51 CDT)
- How to use the Grab (or Tug) Tool (Wed Sep 05 2012 - 14:10:09 CDT)
Marcos Sotomayor
- Membrane Proteins Tutorial (Fri Feb 13 2009 - 16:25:15 CST)
- Re: overlay (Thu May 31 2007 - 01:29:50 CDT)
- Re: How to save the snapshot of my protein? (Fri Feb 09 2007 - 12:24:49 CST)
- Re: Problem with a tcl script: probable memory overload (Mon Jan 08 2007 - 09:53:34 CST)
- Re: Writing pdb without chain identifier (Tue Dec 26 2006 - 15:03:23 CST)
- Re: Details of .psf format (Fri Dec 08 2006 - 14:56:45 CST)
- Re: Where did I put those angles? (Thu Aug 31 2006 - 18:02:11 CDT)
- Re: removing structures from a psf&pdb (Mon Aug 28 2006 - 10:55:50 CDT)
- Re: question about psfgen (Thu Apr 06 2006 - 13:28:47 CDT)
- Re: question about psfgen (Thu Apr 06 2006 - 00:02:47 CDT)
- RE: rmsd-fullthrottle.tcl problem (Wed Mar 29 2006 - 20:43:18 CST)
- Re: rmsd-fullthrottle.tcl problem (Wed Mar 29 2006 - 19:49:32 CST)
- Re: error in psfgen file (Thu Mar 23 2006 - 22:13:15 CST)
- Re: Aligning structures (Fri Mar 10 2006 - 10:19:43 CST)
- Re: selecting protein + water shell (Fri Mar 10 2006 - 10:00:13 CST)
- Re: Tcl script and plugin (Sat Jun 25 2005 - 17:37:37 CDT)
- Re: measuring h-bonds (Sun Sep 19 2004 - 14:08:04 CDT)
Marcos Verissimo Alves
- (no subject) (Mon Apr 06 2020 - 12:04:07 CDT)
Marek Maly
- Re: Mean value of el. potential ? (Thu May 26 2011 - 06:51:44 CDT)
- Re: Mean value of el. potential ? (Thu May 26 2011 - 04:29:12 CDT)
- Mean value of el. potential ? (Wed May 25 2011 - 17:59:42 CDT)
- Re: Conversion of DCD trajectories to AMBER ones ? (Mon Jul 05 2010 - 09:07:14 CDT)
- Conversion of DCD trajectories to AMBER ones ? (Mon Jul 05 2010 - 05:06:40 CDT)
- Resonable visualisation of the molecules inside the periodic box ? (Fri Apr 16 2010 - 09:59:50 CDT)
- Re: VMD 1.8.7 hangs on launch (Fri Mar 26 2010 - 18:07:55 CDT)
- Re: Visualisation of VTF trajectories using VMD under Windows ? (Wed Mar 24 2010 - 19:35:39 CDT)
- Re: Visualisation of VTF trajectories using VMD under Windows ? (Wed Mar 24 2010 - 17:24:56 CDT)
- Visualisation of VTF trajectories using VMD under Windows ? (Wed Mar 24 2010 - 05:31:36 CDT)
Margaret Cheung
- Re: Pls help me to render files with only traces of proteins! (Thu Feb 06 2003 - 11:12:19 CST)
- Re: Pls help me to render files with only traces of proteins! (Wed Feb 05 2003 - 23:41:50 CST)
- Re: Pls help me to render files with only traces of proteins! (Wed Feb 05 2003 - 19:48:33 CST)
- Pls help me to render files with only traces of proteins! (Wed Feb 05 2003 - 19:06:41 CST)
- Re: core dump when launching vmd1.8a21 (Thu Oct 24 2002 - 21:05:30 CDT)
- Re: core dump when launching vmd1.8a21 (Thu Oct 24 2002 - 20:31:28 CDT)
- core dump when launching vmd1.8a21 (Thu Oct 24 2002 - 19:49:42 CDT)
- Re: carnal output trajectory (Thu Oct 24 2002 - 15:57:50 CDT)
- Re: load molecule made by amber7. (Tue Oct 15 2002 - 16:14:57 CDT)
- load molecule made by amber7. (Fri Oct 11 2002 - 20:10:35 CDT)
- another trivial question regarding the key setting. (Mon Mar 25 2002 - 06:28:09 CST)
- Re: Test release of VMD movie maker (Mon Mar 25 2002 - 03:46:35 CST)
- Re: Test release of VMD movie maker (Fri Mar 22 2002 - 02:32:22 CST)
- Re: Test release of VMD movie maker (Fri Mar 22 2002 - 01:50:55 CST)
- Re: Test release of VMD movie maker (Fri Mar 22 2002 - 00:17:58 CST)
- Re: Test release of VMD movie maker (Thu Mar 21 2002 - 22:34:58 CST)
- how to color one residue with two or three different colors? (Sat Mar 02 2002 - 20:03:45 CST)
- Re: display panel only showed 1/4 of its area on the screen. (Mon Jan 21 2002 - 01:40:58 CST)
- display panel only showed 1/4 of its area on the screen. (Sun Jan 20 2002 - 12:45:26 CST)
Margaret S. Cheung
- Re: question about sscache (Sun Sep 28 2008 - 21:04:56 CDT)
- question about using namdenergy.tcl with vmd -dispdev text -e *.tcl (Fri Jul 25 2008 - 08:38:20 CDT)
- atomsel: writepdb failed for vmd 1.8.6 (Tue Jun 19 2007 - 16:16:24 CDT)
- how to solvate a molecule with cubic periodic boundary box? (Mon Apr 16 2007 - 15:46:48 CDT)
- Re: VMD 1.8.5 installed. The graphics flashed and disappeared after installation. (Sat Dec 23 2006 - 11:00:18 CST)
- Re: VMD 1.8.5 installed. The graphics flashed and disappeared after installation. (Fri Dec 22 2006 - 12:15:25 CST)
- Re: VMD 1.8.5 installed. The graphics flashed and disappeared after installation. (Thu Dec 21 2006 - 08:04:38 CST)
- VMD 1.8.5 installed. The graphics flashed and disappeared after installation. (Wed Dec 20 2006 - 12:00:11 CST)
- Re: how to show biological unit coordiates from PDB using VMD? (Sun Sep 17 2006 - 09:22:53 CDT)
- Re: how to build an atomistic protein from a low resolution data. (Fri Sep 15 2006 - 20:08:41 CDT)
Margaret Shun Cheung
- Re: how to show biological unit coordiates from PDB using VMD? (Sat Sep 16 2006 - 11:06:13 CDT)
- how to build an atomistic protein from a low resolution data. (Fri Sep 15 2006 - 11:38:56 CDT)
- Re: some parameters for TIP3P (Fri Jul 21 2006 - 16:42:29 CDT)
- some parameters for TIP3P (Fri Jul 21 2006 - 14:48:33 CDT)
- to create simply a box of water molecules. (Sat Jun 24 2006 - 19:46:11 CDT)
- Re: error message occurred in RMSD Trajectory Tool (Thu Jun 22 2006 - 14:56:36 CDT)
- error message occurred in RMSD Trajectory Tool (Thu Jun 22 2006 - 11:28:10 CDT)
- Re: align and superimpose crd structures. (Wed Jun 21 2006 - 17:16:41 CDT)
- Re: align and superimpose crd structures. (Wed Jun 21 2006 - 17:02:10 CDT)
- Re: align and superimpose crd structures. (Wed Jun 21 2006 - 13:47:56 CDT)
- align and superimpose crd structures. (Wed Jun 21 2006 - 09:12:37 CDT)
- Re: VMD-L: how to select water molecules between two residues in a trajectory. (Mon Apr 17 2006 - 11:16:18 CDT)
- Re: VMD-L: how to select water molecules between two residues in a trajectory. (Mon Apr 17 2006 - 09:38:54 CDT)
- Re: VMD-L: how to select water molecules between two residues in a trajectory. (Sat Apr 15 2006 - 19:15:26 CDT)
- VMD-L: how to select water molecules between two residues in a trajectory. (Sat Apr 15 2006 - 16:54:25 CDT)
- Re: VMD-L: how to rotate the molecule so the long axis will be aligned to Z (Wed Apr 12 2006 - 13:30:05 CDT)
- Re: VMD-L: how to rotate the molecule so the long axis will be aligned to Z (Wed Apr 12 2006 - 11:48:45 CDT)
- VMD-L: how to rotate the molecule so the long axis will be aligned to Z (Tue Apr 11 2006 - 20:13:21 CDT)
- Re: namd-l; question about psfgen (param for CT1?) (Thu Apr 06 2006 - 15:53:20 CDT)
- Re: question about psfgen (Thu Apr 06 2006 - 14:50:58 CDT)
- Re: question about psfgen (Thu Apr 06 2006 - 14:11:54 CDT)
- Re: question about psfgen (Thu Apr 06 2006 - 13:45:26 CDT)
- Re: question about psfgen (Thu Apr 06 2006 - 13:18:34 CDT)
- Re: warning from psfgen: poorly guessed coordinates... (Wed Apr 05 2006 - 20:49:30 CDT)
- warning from psfgen: poorly guessed coordinates... (Tue Apr 04 2006 - 17:17:17 CDT)
- question about psfgen (Tue Apr 04 2006 - 16:23:25 CDT)
- Re: how to show biological unit coordiates from PDB using VMD? (Tue Apr 04 2006 - 16:04:00 CDT)
- Re: how to show biological unit coordiates from PDB using VMD? (Fri Mar 31 2006 - 16:19:20 CST)
- how to show biological unit coordiates from PDB using VMD? (Fri Mar 31 2006 - 14:33:51 CST)
- Re: molecules drifted away from the focus.... (Mon Sep 19 2005 - 15:08:15 CDT)
- molecules drifted away from the focus.... (Sun Sep 18 2005 - 15:11:45 CDT)
- question of PBC (Wed Feb 23 2005 - 09:42:45 CST)
- Re: how to make a snapshot that... (Fri Sep 24 2004 - 10:48:09 CDT)
- Re: how to make a snapshot that... (Mon Sep 20 2004 - 16:29:50 CDT)
- Re: how to make a snapshot that... (Mon Sep 20 2004 - 14:46:29 CDT)
- how to make a snapshot that... (Mon Sep 20 2004 - 11:09:59 CDT)
Margaret.Cheung_at_mail.uh.edu
- Re: question about using namdenergy.tcl with vmd -dispdev text -e *.tcl (Fri Jul 25 2008 - 18:41:40 CDT)
Maria Antonieta Sanchez Farran
- RE: Getting trajectories from DCD files? (Sun Sep 23 2012 - 15:04:58 CDT)
Maria Bagonis
- Re: problem with protein RMSD calculation due to incomplete wrapping of both peptide chains (Mon Nov 05 2007 - 18:23:08 CST)
- problem with protein RMSD calculation due to incomplete wrapping of both peptide chains (Thu Nov 01 2007 - 16:11:04 CDT)
Maria Dimitrova
- Re: OpenGL window not rendering over ssh but works when connecting from other computers and works fine locally (Sun Jan 24 2021 - 03:20:17 CST)
- Re: OpenGL window not rendering over ssh but works when connecting from other computers and works fine locally (Fri Jan 22 2021 - 02:21:56 CST)
- Re: OpenGL window not rendering over ssh but works when connecting from other computers and works fine locally (Thu Jan 21 2021 - 06:32:59 CST)
- OpenGL window not rendering over ssh but works when connecting from other computers and works fine locally (Thu Jan 21 2021 - 05:22:57 CST)
maria goranovic
- Re: VMD not displaying represenations by line (Thu Jan 03 2013 - 04:24:09 CST)
- Re: VMD not displaying represenations by line (Fri Dec 21 2012 - 03:19:26 CST)
- Re: VMD not displaying represenations by line (Thu Dec 20 2012 - 09:53:05 CST)
- VMD not displaying represenations by line (Thu Dec 20 2012 - 04:48:03 CST)
- Yet another python question: how to run a python script from the vmd console ? (Fri Jan 13 2012 - 05:04:16 CST)
- precompiled python libraries still work for vmd 1.9 (Fri Jan 13 2012 - 04:50:12 CST)
- using fit_angle.py over a trajectory (Fri Jan 13 2012 - 03:36:26 CST)
- Re: movie out of principal component analysis (Wed Nov 23 2011 - 04:25:08 CST)
- Re: movie out of principal component analysis (Tue Nov 22 2011 - 06:04:46 CST)
- movie out of principal component analysis (Mon Nov 21 2011 - 04:35:44 CST)
- changing label format with some arithmetic (Wed Aug 17 2011 - 04:05:19 CDT)
- how to rename a representation in vmd (Wed Aug 17 2011 - 04:18:42 CDT)
- Re: shades of licorice representation (Wed Jul 20 2011 - 05:28:48 CDT)
- Re: shades of licorice representation (Tue Jul 19 2011 - 08:52:19 CDT)
- shades of licorice representation (Tue Jul 19 2011 - 07:53:52 CDT)
- angle between two domains connected at a hinge (Fri Jul 15 2011 - 08:35:52 CDT)
- Re: how to draw different set of points for different frames in a trajectory my script does not work (Wed Jul 13 2011 - 08:29:18 CDT)
- Re: how to draw different set of points for different frames in a trajectory my script does not work (Tue Jul 12 2011 - 14:19:51 CDT)
- Re: qpt_conv command of Hole is interactive, how to automate it for multiple frames? (Tue Jul 12 2011 - 14:22:35 CDT)
- Re: how to draw different set of points for different frames in a trajectory my script does not work (Mon Jul 11 2011 - 04:12:11 CDT)
- Re: how to draw different set of points for different frames in a trajectory my script does not work (Fri Jul 08 2011 - 09:56:14 CDT)
- how to draw different set of points for different frames in a trajectory my script does not work (Fri Jul 08 2011 - 07:59:10 CDT)
- Re: qpt_conv command of Hole is interactive, how to automate it for multiple frames? (Thu Jul 07 2011 - 05:21:00 CDT)
- average radius of cavity over many frames from hole (Wed Jul 06 2011 - 02:28:49 CDT)
- qpt_conv command of Hole is interactive, how to automate it for multiple frames? (Tue Jul 05 2011 - 10:05:55 CDT)
- Re: VMD does not exit after running closest.tcl script in combination with bigdcd (Fri Jun 10 2011 - 04:26:48 CDT)
- Re: VMD does not exit after running closest.tcl script in combination with bigdcd (Fri Jun 10 2011 - 04:36:02 CDT)
- Re: VMD does not exit after running closest.tcl script in combination with bigdcd (Wed Jun 08 2011 - 03:33:23 CDT)
- VMD does not exit after running closest.tcl script in combination with bigdcd (Tue Jun 07 2011 - 04:01:34 CDT)
- Re: trying to combine closewater.tcl with bigdcd.tcl error frame 3 out of range for molecule 0 (Mon Jun 06 2011 - 07:36:35 CDT)
- Re: trying to combine closewater.tcl with bigdcd.tcl error frame 3 out of range for molecule 0 (Wed May 25 2011 - 06:05:44 CDT)
- Re: trying to combine closewater.tcl with bigdcd.tcl error frame 3 out of range for molecule 0 (Wed May 25 2011 - 04:51:02 CDT)
- Re: trying to combine closewater.tcl with bigdcd.tcl error frame 3 out of range for molecule 0 (Tue May 24 2011 - 11:19:26 CDT)
- trying to combine closewater.tcl with bigdcd.tcl error frame 3 out of range for molecule 0 (Tue May 24 2011 - 08:39:08 CDT)
- Re: vmd calculating wrong number of frames in xtc file using molinfo numframes ? (Tue May 24 2011 - 04:45:55 CDT)
- vmd calculating wrong number of frames in xtc file using molinfo numframes ? (Mon May 23 2011 - 10:13:08 CDT)
- Re: trajectory of water within 5 A of protein (Thu May 12 2011 - 02:31:16 CDT)
- trajectory of water within 5 A of protein (Tue May 10 2011 - 02:27:58 CDT)
- Re: Rending to png format using tachyon or otherwise ? (Wed Jun 09 2010 - 11:18:13 CDT)
- Rending to png format using tachyon or otherwise ? (Wed Jun 09 2010 - 09:33:25 CDT)
- Re: drawing a length scale on the vmd display (Tue May 04 2010 - 03:56:00 CDT)
- drawing a length scale on the vmd display (Tue May 04 2010 - 03:01:07 CDT)
- vmd 1.8.7 getting the terminal free (Fri Jan 08 2010 - 05:20:46 CST)
- Re: VMD hangs up with a file size ~ 1.2 GB ? (Thu Jan 07 2010 - 04:36:42 CST)
- Re: VMD hangs up with a file size ~ 1.2 GB ? (Wed Jan 06 2010 - 15:58:02 CST)
- Re: VMD hangs up with a file size ~ 1.2 GB ? (Wed Jan 06 2010 - 08:58:50 CST)
- Re: VMD hangs up with a file size ~ 1.2 GB ? (Wed Jan 06 2010 - 08:26:00 CST)
- VMD hangs up with a file size ~ 1.2 GB ? (Wed Jan 06 2010 - 04:32:30 CST)
- aligning trajectories (Tue Nov 24 2009 - 04:22:54 CST)
- Re: text timer in vmd animations (Mon Sep 28 2009 - 10:53:04 CDT)
- Re: text timer in vmd animations (Mon Sep 28 2009 - 09:55:02 CDT)
- Re: text timer in vmd animations (Mon Sep 28 2009 - 10:19:41 CDT)
- text timer in vmd animations (Mon Sep 28 2009 - 04:57:16 CDT)
- How to make a selection in atomselect using an element in a list? (Wed Jul 08 2009 - 10:39:39 CDT)
- using atomselect to write a set of atoms and not some residue whose residue numbers are in a list (Mon Jun 15 2009 - 10:31:26 CDT)
- how to load a state from the command line (Wed May 20 2009 - 09:21:13 CDT)
- Re: passing arguments to a vmd script which is executed using play or source (Mon Feb 23 2009 - 09:19:24 CST)
- deleting specific residues or atoms (Tue Feb 03 2009 - 09:57:54 CST)
- Re: VMD Installation problem on Ubuntu 8.10 (Tue Jan 20 2009 - 09:10:58 CST)
- VMD Installation problem on Ubuntu 8.10 (Tue Jan 20 2009 - 08:27:12 CST)
- how to get temperature fluctuations (Thu Nov 20 2008 - 08:36:06 CST)
- alignment problem. trying to align new lipid to bilayer, but lipid always has wrong direction? (Tue Apr 22 2008 - 07:02:42 CDT)
- how to make smooth movies ? (Fri Mar 07 2008 - 07:13:53 CST)
- gromacs trajectory files (Thu Feb 21 2008 - 04:18:17 CST)
- Re: aligning protein based on one helix of protein (Wed Oct 31 2007 - 13:14:12 CDT)
- aligning protein based on one helix of protein (Wed Oct 31 2007 - 08:48:29 CDT)
- change the representation of certain atoms which pass a geometric criterion during a movie (Tue Sep 18 2007 - 08:21:45 CDT)
- Re: is it possible to skip frame when using bigdcd (Mon Sep 10 2007 - 04:17:44 CDT)
- is it possible to skip frame when using bigdcd (Fri Sep 07 2007 - 03:47:05 CDT)
- Rebuilding lipid from headgroup coordinates only using psfgen, some atoms put on origin (Wed Sep 05 2007 - 11:05:12 CDT)
- Very peculiar problem with bigdcd if not running interactively (post moved over from namd forum) (Wed Aug 15 2007 - 04:09:32 CDT)
- Re: Re: namd-l: bilayer thickness in simulation of POPC membranes (Mon Aug 13 2007 - 09:16:09 CDT)
- Re: namd-l: bilayer thickness in simulation of POPC membranes (Mon Aug 13 2007 - 07:55:48 CDT)
Maria Ivanova
- Coloring of basins (Tue Mar 24 2015 - 19:48:10 CDT)
MARIA JOSE ALIAGA GOSALVEZ
- QMtool gaussian 09 (Sat Feb 18 2017 - 14:34:23 CST)
- (no subject) (Tue Feb 14 2017 - 14:02:28 CST)
maria khan
- working on VMD for Analysis.. (Sat Jan 14 2017 - 13:55:01 CST)
- working with VMD (Sat Jan 14 2017 - 07:50:04 CST)
- working with VMD (Sat Jan 14 2017 - 07:43:43 CST)
- results analysis by VMD. (Sat Jan 14 2017 - 05:11:04 CST)
- Re: Analyzing results of simulation done by gromacs (Sat Jan 14 2017 - 04:32:11 CST)
- Analyzing results of simulation done by gromacs (Fri Jan 13 2017 - 15:44:31 CST)
Maria Konstantakaki
- question (Thu Apr 20 2006 - 10:38:20 CDT)
MARIA MILANESI
- FFTK water molecules overlapped and charge optimisation error (Mon Jul 15 2024 - 04:06:27 CDT)
Maria Pikoula
- Movie Smoothing error (Sun Apr 06 2014 - 08:36:15 CDT)
- Re: Velocity storing in VMD (Sun Mar 09 2014 - 11:59:20 CDT)
- Re: Velocity storing in VMD (Sun Mar 09 2014 - 11:36:48 CDT)
- Re: Velocity storing in VMD (Sun Mar 09 2014 - 08:28:42 CDT)
- Re: Velocity storing in VMD (Sat Mar 08 2014 - 18:52:56 CST)
- Re: Velocity storing in VMD (Sat Mar 08 2014 - 18:52:56 CST)
- Velocity storing in VMD (Sat Mar 08 2014 - 05:51:44 CST)
Maria Sanchez
- RMSF (Wed May 20 2009 - 23:14:17 CDT)
- RMSD error "Matrix: Warning: no convergence" (Thu Nov 06 2008 - 09:16:20 CST)
Maria Sanchez Farran
- real coordinates (Thu Jul 17 2008 - 21:40:46 CDT)
- Cannot perform RMSD analysis (Wed Apr 02 2008 - 07:49:55 CDT)
Maria Sander
- "color by mass" - change default colors (Wed Mar 25 2015 - 15:09:56 CDT)
mariagoranovic_at_gmail.com
- passing arguments to a vmd script which is executed using play or source (Mon Feb 23 2009 - 04:24:14 CST)
Marian Clifton
- The safest and most secure Online casino in the world....... (Wed Apr 09 2008 - 18:55:11 CDT)
Mariano Smoler
- Defining space coordinates for multiple structures (Tue Dec 08 2015 - 13:08:15 CST)
Mariano Spivak
- Reminder: Hands-On Workshop On Computational Biophysics in Auburn, AL (Fri May 19 2023 - 12:31:05 CDT)
- Re: Question about using fftk with files from QM calculations from Gaussian 16 (Mon May 15 2023 - 13:22:50 CDT)
- Re: Issue with Timeline Plugin related to "geometry manager pack" (Tue Jan 18 2022 - 10:07:09 CST)
- Re: Question about error while using QwikMD files (Fri Dec 24 2021 - 17:11:54 CST)
- Re: FFTK - ORCA (Thu Sep 30 2021 - 11:17:33 CDT)
- Re: FFTK - ORCA (Tue Sep 28 2021 - 14:43:29 CDT)
- Re: FFTK - ORCA (Sun Sep 19 2021 - 13:20:05 CDT)
- Re: VMD H-bond Plugin error (Tue Jun 29 2021 - 11:00:12 CDT)
- Re: Question about error while using QwikMD files (Mon May 10 2021 - 10:48:21 CDT)
- Re: change color sequence used in label graphs? (Mon Mar 29 2021 - 16:52:11 CDT)
- Re: Fwd: Problem with QwikMD analysis (Mon Mar 01 2021 - 15:25:19 CST)
- Re: novel residue creation and parameterization (Thu Jan 28 2021 - 11:40:10 CST)
- Re: Error "vecscale: parameters must have data" in water interaction step of FFTK (Mon Nov 23 2020 - 17:24:53 CST)
- Re: Potential bugs in ffTK dihedral optimization (Thu Nov 05 2020 - 14:53:51 CST)
- Re: Errors in FFTK during bond opt using VMD 1.9.4a37 (Tue Sep 17 2019 - 11:01:25 CDT)
- Re: Errors in FFTK during bond opt using VMD 1.9.4a37 (Tue Sep 10 2019 - 16:05:34 CDT)
- Re: Errors in FFTK during bond opt using VMD 1.9.4a37 (Mon Sep 09 2019 - 13:34:33 CDT)
- Re: failure of charge optimization by fftk (Tue Jul 09 2019 - 17:56:47 CDT)
- Re: failure of charge optimization by fftk (Sun Jun 30 2019 - 11:01:20 CDT)
- Re: FFTK Water Interaction (Fri Mar 29 2019 - 09:17:25 CDT)
- Re: FFTK Water Interaction (Thu Mar 28 2019 - 09:25:13 CDT)
Marie Erard
- error message MultiSeq - sequence alignement (Tue Jan 05 2016 - 15:52:06 CST)
Marin Paolo Virgile Vatin
- Problem with make_trajectory_movie_files script for lammps trajectory with -dispdev text (Fri Feb 17 2023 - 04:46:15 CST)
Marinus Veldhuizen
- Re: Re: FFTK partial charge assignment weak acid ONOH (HNO2) - Water Shift settings (Mon Oct 07 2024 - 09:30:35 CDT)
- Re: FFTK partial charge assignment weak acid ONOH (HNO2) - Water Shift settings (Thu Oct 03 2024 - 07:44:33 CDT)
- FFTK partial charge assignment weak acid ONOH (HNO2) - Water Shift settings (Wed Oct 02 2024 - 03:15:05 CDT)
Mario Saavedra
- Re: Symmetry Tool Error (Draw): invalid command name "getargs" and expected integer but got "" (Thu Apr 29 2010 - 13:47:24 CDT)
- Re: Symmetry Tool Error (Draw): invalid command name "getargs" and expected integer but got "" (Thu Apr 29 2010 - 08:23:42 CDT)
- Symmetry Tool Error (Draw): invalid command name "getargs" and expected integer but got "" (Fri Apr 23 2010 - 16:41:06 CDT)
Mario Schubert
- Simple format for animation (Fri Jun 28 2002 - 07:19:31 CDT)
Mario Valle
- Re: pictures with frame (corrected) (Tue Feb 03 2009 - 02:58:39 CST)
- Re: pictures with frame (Tue Feb 03 2009 - 02:56:50 CST)
- Re: speed of movie (Thu Jun 05 2008 - 07:01:28 CDT)
- Re: VMD access using XWIN32 or X-Deep (Fri Oct 12 2007 - 22:50:54 CDT)
- Re: Problem loading pdb file on VMD (Wed May 09 2007 - 03:52:33 CDT)
- Re: GLSL rendering problems (??) (Tue Apr 24 2007 - 22:44:29 CDT)
- Re: Small annoyance with tachion (Tue Feb 27 2007 - 03:30:35 CST)
- Re: Small annoyance with tachion (Mon Feb 26 2007 - 22:19:28 CST)
- Re: Strange MOL2 export (Mon Feb 19 2007 - 09:12:33 CST)
- Strange MOL2 export (Sat Feb 17 2007 - 12:21:42 CST)
- Small annoyance with tachion (Sat Feb 17 2007 - 11:34:46 CST)
- Re: Error on DNA (Wed Oct 04 2006 - 00:31:50 CDT)
- Error on DNA (Mon Oct 02 2006 - 02:59:08 CDT)
- Re: water numbering (Mon Aug 28 2006 - 11:24:30 CDT)
- Problem with vmdsphere.frag shader (Mon Aug 28 2006 - 09:00:52 CDT)
- Strange GLSL rendering (Tue Mar 14 2006 - 06:07:53 CST)
- Re: VMD script (Sun Mar 12 2006 - 00:43:26 CST)
- Re: Tcl scripting (Mon Feb 06 2006 - 22:46:08 CST)
- Re: How to efficiently update a surface (Wed Nov 30 2005 - 04:01:49 CST)
- How to efficiently update a surface (Tue Nov 29 2005 - 10:08:21 CST)
Marius Retegan
- Re: vmd 1.8.7 - problems loading vmd state file (Fri Jun 12 2009 - 08:47:39 CDT)
- Re: vmd 1.8.7 - problems loading vmd state file (Tue Jun 09 2009 - 11:30:43 CDT)
- Re: selection by residue (Thu Mar 05 2009 - 08:29:28 CST)
- selection by residue (Thu Mar 05 2009 - 06:47:53 CST)
Mark A. Hallman
- creating scripts (Fri Jun 03 2005 - 16:00:54 CDT)
Mark Abraham
- Re: namd-l: Nanopore simulation (Tue Feb 20 2007 - 22:14:46 CST)
Mark Cunningham
- RE: dynamic cross correlation map (Wed May 15 2013 - 10:58:17 CDT)
- RE: Fwd: VMD Stereo does not work Quadbufferd (Fri May 11 2012 - 09:54:45 CDT)
- RE: Meadionize (Mon Feb 13 2012 - 09:15:18 CST)
- RE: Displaying residues on chain A within X of chain B (Fri Sep 09 2011 - 20:40:36 CDT)
- RE: define water cavity using atom selection in graphical representations window (Tue Sep 06 2011 - 07:35:23 CDT)
- RE: shades of licorice representation (Tue Jul 19 2011 - 15:19:53 CDT)
- RE: shades of licorice representation (Tue Jul 19 2011 - 11:53:54 CDT)
- RE: Re: Problem with for loop. (Thu Jul 07 2011 - 09:22:27 CDT)
- RE: Re: Problem with for loop. (Wed Jul 06 2011 - 12:34:36 CDT)
- RE: Distance between atoms in frame (Tue Jul 05 2011 - 21:09:24 CDT)
- RE: changing the color of Sn atom (Wed May 11 2011 - 09:34:41 CDT)
- RE: script for projection of c-alpha atom cordinates on xy plane (Tue Mar 22 2011 - 07:56:34 CDT)
- RE: script for projection of c-alpha atom cordinates on xy plane (Mon Mar 21 2011 - 13:56:12 CDT)
- RE: capping or patching protein ends (Thu Mar 03 2011 - 14:32:08 CST)
- RE: psfgen script for VMD 1.8.7 (Tue Feb 08 2011 - 20:48:50 CST)
- IMD with Phantom Omni (Sun Mar 14 2010 - 14:45:21 CDT)
- FW: VMD 1.8.7 build with VRPN 7.23 (Mon Dec 07 2009 - 14:09:59 CST)
- RE: VMD on laptop with ATI Radeon 3650 (Tue Jul 21 2009 - 10:00:33 CDT)
- VRPN & PHANToM Omni (Wed Apr 15 2009 - 13:40:03 CDT)
Mark Formaneck
- Re: Secondary Structure Color Definitions (Mon Aug 22 2005 - 12:55:06 CDT)
- RE: small figures (Sun Aug 21 2005 - 20:11:50 CDT)
- Secondary Structure Color Definitions (Sun Aug 21 2005 - 19:17:11 CDT)
Mark Harder
- RE: vmd-l digest V1 #579 (Wed Jul 19 2006 - 21:09:08 CDT)
Mark Hilge
- Centre of gravity for movies (Fri Sep 13 2002 - 12:21:14 CDT)
- Secondary structure (Fri Aug 23 2002 - 09:18:52 CDT)
mark knapp
- Erro compiling vmd and or fltk (Sun Jul 16 2000 - 13:37:04 CDT)
Mark Lorch
- movies on a mac (Mon Jul 03 2006 - 10:13:49 CDT)
Mark M Huntress
- RE: recenter (Mon Apr 04 2011 - 15:04:17 CDT)
- recenter (Sun Apr 03 2011 - 16:34:17 CDT)
- script problem (Thu Mar 31 2011 - 15:32:33 CDT)
- superimposing proteins with non-similar coordinates (Wed Aug 26 2009 - 16:17:41 CDT)
- tinkerxyz (Tue Aug 25 2009 - 19:21:48 CDT)
- selecting waters (Mon May 11 2009 - 12:35:10 CDT)
- running a script (Thu Nov 20 2008 - 10:03:10 CST)
MARK PLUMMER
- Workshop for Computational Chemistry and Physics (Wed Jun 20 2012 - 15:20:40 CDT)
- Workshop - Computational Molecular Physics of Non-Bonded Bio-Molecular Interactions (Mon Jun 11 2012 - 17:16:47 CDT)
- Workshop In Aspen Colorado - (Mon Jun 04 2012 - 15:15:32 CDT)
- Aspen Center for Physics 2013 Workshop (Tue May 22 2012 - 14:58:42 CDT)
- Source Command (Thu Feb 09 2012 - 09:53:36 CST)
- Source Command (Thu Feb 09 2012 - 10:06:42 CST)
Mark Suhovecky
- TCL and Plugins (Tue Aug 09 2011 - 12:43:22 CDT)
- TCL and Plugins (Tue Aug 09 2011 - 12:23:41 CDT)
Mark Wistey
- Re: VMD 1.9.2a39_64 segmentation fault MacOS (Tue Jul 08 2014 - 19:05:07 CDT)
- VMD 1.9.2a39_64 segmentation fault MacOS (Tue Jul 08 2014 - 18:28:09 CDT)
Mark Zottola
- Re: Unusual coordinates in PDB files exracted from dcd file (Fri Sep 25 2020 - 18:51:17 CDT)
- Re: Unusual coordinates in PDB files exracted from dcd file (Sun Sep 20 2020 - 20:17:39 CDT)
- Unusual coordinates in PDB files exracted from dcd file (Sun Sep 20 2020 - 02:01:08 CDT)
- Selection within VMD (Wed Aug 22 2007 - 14:28:53 CDT)
- Reading in a MOL2 file (Tue May 29 2007 - 11:31:44 CDT)
- Questions on VMD (Thu May 17 2007 - 16:44:10 CDT)
Mark Zottola - Contractor
- Re: CRD problems and CRD to DCD conversion (Wed Nov 13 2002 - 16:04:39 CST)
- CRD problems and CRD to DCD conversion (Wed Nov 13 2002 - 14:59:33 CST)
Marko Sever
- Selecting all residues based on z-axis coordinate in a protein (Fri May 19 2017 - 03:12:23 CDT)
markt_at_mskcc.org
- RE: viewing an embryo (Tue Sep 23 2008 - 14:54:19 CDT)
- viewing an embryo (Tue Sep 23 2008 - 14:04:41 CDT)
Markus Dahlgren
- problems wrapping waters using PBC tools (Mon Jul 29 2013 - 10:02:46 CDT)
Markus K. Dahlgren
- RE: centering problem in trajectory tool (Mon Oct 17 2011 - 18:46:35 CDT)
- RE: centering problem in trajectory tool (Mon Oct 17 2011 - 17:46:26 CDT)
- RE: centering problem in trajectory tool (Mon Oct 10 2011 - 15:09:35 CDT)
- alignment problem (Mon Oct 10 2011 - 10:29:40 CDT)
- centering problem in trajectory tool (Mon Oct 10 2011 - 08:59:11 CDT)
- Re: HOW TO PARAMETRIZE A LIGAND (Thu Apr 28 2011 - 08:24:52 CDT)
- Re: patch CT3 and ACE problems in PSFGEN (Fri Oct 08 2010 - 11:32:02 CDT)
- patch CT3 and ACE problems in PSFGEN (Thu Oct 07 2010 - 15:11:52 CDT)
Markus Laub
- hydrophobic surface area calculation (Mon Mar 08 2004 - 05:01:59 CST)
- Calculating angles between subunits (Wed Oct 22 2003 - 07:37:44 CDT)
- (no subject) (Mon Mar 31 2003 - 06:31:44 CST)
- Hydrophobicity (Sat Oct 05 2002 - 17:42:20 CDT)
- Surface calculation (Thu Sep 12 2002 - 11:05:54 CDT)
- Surface calculation (Thu Sep 12 2002 - 11:05:54 CDT)
- van der Waals volume (Mon Feb 04 2002 - 12:49:02 CST)
markus mooslechner
- newbie issues (Tue Sep 02 2008 - 13:39:19 CDT)
markus.mooslechner_at_chello.at
- volumetric maps (Thu Oct 02 2008 - 07:08:11 CDT)
- volumetric maps (Thu Oct 02 2008 - 07:18:38 CDT)
markus.mooslechner_at_orf.at
- AW: volumetric maps (Fri Oct 03 2008 - 05:11:50 CDT)
Marta Murcia
- rmsd option in timeline (Thu Jun 10 2004 - 12:19:54 CDT)
Marta Wisniewska
- how to save coordinates from others molecule files (Thu Jan 28 2016 - 11:08:19 CST)
- alignment of two the same structures (Fri Dec 04 2015 - 11:45:39 CST)
- loading a several structures in the same time (Wed Nov 18 2015 - 16:46:01 CST)
Martijn Kragtwijk
- Re: VMD for Win32 API based PC CAVE (Mon Apr 02 2007 - 10:56:26 CDT)
- Grab tool: picking problems (Tue Jan 09 2007 - 09:55:52 CST)
Martin Aumüller
- [patch] potential CUDA acceleration - load-balancing on different CUDA devices (Wed Jan 28 2009 - 06:35:19 CST)
Martin Grana
- Re: VMD1.8.5 : multiseq db (Thu Aug 31 2006 - 03:21:36 CDT)
- vmd-1.83's crash upon pdb load (Tue Nov 29 2005 - 06:25:57 CST)
Martin Held
- Phantom Omni Haptic Device (Sun Jan 06 2008 - 15:00:47 CST)
Martin Jones
- MDFF difficulties with mdff sim command (Wed May 29 2013 - 09:24:44 CDT)
- RE: MDFF difficulties with mdff sim command (Fri May 24 2013 - 15:28:46 CDT)
- RE: MDFF difficulties with mdff sim command (Fri May 24 2013 - 14:57:25 CDT)
- RE: MDFF difficulties with mdff sim command (Fri May 24 2013 - 14:02:50 CDT)
- MDFF difficulties with mdff sim command (Fri May 24 2013 - 12:55:05 CDT)
Martin K. Jones
- RE: Problems with Stride (Fri Oct 02 2009 - 17:00:12 CDT)
- RE: Problems with Stride (Fri Oct 02 2009 - 13:16:54 CDT)
- Problems with Stride (Fri Oct 02 2009 - 12:18:41 CDT)
martin klvana
- Re: Radial distribution function: "y" axis (Mon May 17 2010 - 17:05:03 CDT)
- Radial distribution function: "y" axis (Sun May 16 2010 - 12:39:54 CDT)
- VMD script: save coordinates problem (Mon Feb 01 2010 - 20:25:49 CST)
Martin Lepsik
- Re: "Lines" representation does not show (Fri Sep 25 2009 - 09:06:46 CDT)
- Re: "Lines" representation does not show:remote (Fri Sep 25 2009 - 09:07:41 CDT)
- Re: "Lines" representation does not show (Thu Sep 24 2009 - 05:16:09 CDT)
Martin Lep¹ík
- "Lines" representation does not show (Wed Sep 23 2009 - 10:49:33 CDT)
Martin, Erik W
- Re: Script to impose coordinates from separate file onto equivalent selection of atoms (Thu Mar 26 2015 - 12:53:29 CDT)
- Re: (Mon Feb 23 2015 - 17:38:36 CST)
- printf in tcl script (Fri Apr 18 2014 - 17:05:09 CDT)
- automate pdb processing (Thu Apr 17 2014 - 16:32:13 CDT)
- Re: Extracting complex of protein-ligand+water from every frame of DCD trajectory. . (Tue Feb 18 2014 - 14:50:23 CST)
- merging multiple structures (Wed Jan 15 2014 - 12:49:32 CST)
- data analysis script help (Mon Sep 16 2013 - 11:51:15 CDT)
- RE: Increasing number of digits (Fri Sep 06 2013 - 19:32:42 CDT)
- measure gofr for finding hydration shells (Mon Aug 19 2013 - 16:54:13 CDT)
- gofr CUDA in script (Fri Aug 09 2013 - 17:12:07 CDT)
- Compare "measure rgyr" to SAXS (Tue Jun 04 2013 - 14:37:28 CDT)
- "transparent" material not working (Fri Apr 26 2013 - 15:57:12 CDT)
- command line rep creation (Wed Apr 17 2013 - 11:14:26 CDT)
- clear altloc field (Mon Mar 11 2013 - 16:49:47 CDT)
- Stride update in every frame of a trajectory? (Sat Jan 05 2013 - 10:57:17 CST)
- Re: tcl script for vmd troubleshooting. . (Fri Jan 04 2013 - 14:05:14 CST)
- tcl script for vmd troubleshooting (Fri Jan 04 2013 - 11:17:30 CST)
- GPU acceleration (Thu Jan 03 2013 - 08:20:27 CST)
- RE: How to calculate the Hydrogen bond strengh. . (Wed Nov 21 2012 - 08:58:11 CST)
- RE: VMD can't display new PDB secondary structure properly ( pyMol, jMol can). . (Mon Nov 19 2012 - 20:37:26 CST)
- RE: VMD can't display new PDB secondary structure properly ( pyMol, jMol can). . (Mon Nov 19 2012 - 20:03:29 CST)
- RE: VMD QMTool (Mon Nov 19 2012 - 19:19:23 CST)
- VMD QMTool (Mon Nov 19 2012 - 11:42:19 CST)
- Re: calculate HBOND (Tue Nov 13 2012 - 14:21:26 CST)
- RE: calculate HBOND (Mon Nov 12 2012 - 22:04:11 CST)
- RE: RE: Getting trajectories from DCD files?. . (Sun Sep 23 2012 - 18:18:10 CDT)
- changing name of N and C term residues (Fri Sep 21 2012 - 10:23:12 CDT)
- RE: Determining the Size of my Molecule. . (Sat Sep 15 2012 - 10:29:06 CDT)
- APBS automation with VMD (Fri Sep 07 2012 - 09:41:54 CDT)
Martina Devi
- file.dat and file.out from AMBER (Sat Jul 15 2017 - 01:13:10 CDT)
Martinek Tamas
- Installation of VMD-1.8.4b11 binary + IED-2.02 on RH9 (Tue Feb 14 2006 - 08:58:15 CST)
Marvin Allen
- Luxurious costume repl1ca w4tches at lowest prices (Sun Aug 19 2007 - 08:30:41 CDT)
marvin.hoffmann_at_stud.uni-heidelberg.de
- IR Spectrum Units (Wed Sep 07 2016 - 08:46:59 CDT)
Marx Gomes Van der Linden
- Drawing a line between two atoms (Mon Jun 16 2008 - 17:10:12 CDT)
Mary Karpen
- FieldLines (Tue Feb 12 2008 - 07:34:42 CST)
Mary Lowe
- psfgen error with "auto angles dihe patch" (Thu Jun 29 2017 - 13:41:08 CDT)
- Re: can't read pdb file (Sun Mar 25 2007 - 08:26:31 CDT)
- can't read pdb file (Fri Mar 23 2007 - 21:40:18 CDT)
Mary Rudd
- Your Pharm4cy 0rder #2299650 (Mon Apr 23 2007 - 17:50:29 CDT)
Mary Varughese
- hbonds (Tue Jul 15 2014 - 04:51:50 CDT)
Maryam
- Re: Protein-ligand interactions (Mon Jan 31 2022 - 13:17:01 CST)
- Protein-ligand interactions (Mon Jan 31 2022 - 10:39:44 CST)
maryam atabay
- question about CUDA-enabled (Mon Nov 24 2014 - 03:08:43 CST)
- question about hbonds in vmd tutorial Version 1.9.2beta1 (Mon Sep 15 2014 - 01:45:26 CDT)
- question about hbonds in vmd tutorial Version 1.9.2beta1 (Mon Sep 15 2014 - 01:37:59 CDT)
- question about hbonds in vmd tutorial Version 1.9.2beta1 (Mon Sep 15 2014 - 00:46:31 CDT)
Maryam Kowsar
- movie making (Sat Feb 28 2015 - 12:04:00 CST)
Maryam X
- Re: Periodic boundary conditions for multimeric systems (Tue Jul 23 2019 - 10:34:18 CDT)
- Periodic boundary conditions for multimeric systems (Mon Jul 22 2019 - 07:38:47 CDT)
Marylou Kunkle
- Re: Compiling from source on Mac OS X 10.5 (Fri Jun 27 2008 - 13:29:37 CDT)
- Compiling from source on Mac OS X 10.5 (Fri Jun 27 2008 - 11:12:37 CDT)
Marzieh Alishahi
- Re: Atom serial numbers in array format (Thu Feb 21 2013 - 05:30:58 CST)
- Atom serial numbers in array format (Thu Feb 21 2013 - 03:26:33 CST)
- Re: about inorganic builder and define variable (Fri Jan 18 2013 - 00:51:15 CST)
- Re: about atomselect command (Mon Dec 24 2012 - 11:32:49 CST)
- about atomselect command (Mon Dec 24 2012 - 09:13:08 CST)
- creating SiO2 device with Inorganic Builder (Sat Nov 17 2012 - 02:36:22 CST)
Marzieh Dehghan
- remove vmd package in centos (Sun Feb 08 2015 - 08:07:59 CST)
- merge structure of two pdb files (Sun Jul 20 2014 - 15:31:26 CDT)
- ramachandran plot (Wed Nov 06 2013 - 09:31:15 CST)
- VMD script (Wed Sep 25 2013 - 07:30:05 CDT)
- psf file (Sat Aug 31 2013 - 07:42:26 CDT)
- VMD script (Sat Aug 24 2013 - 00:54:37 CDT)
- nonbond and covalent bond (Sun Aug 11 2013 - 06:53:38 CDT)
Masaki UNNO
- Question about "orient" script (Thu Jun 16 2011 - 04:33:51 CDT)
masci002_at_umn.edu
- Re: VMD on Intel core i3 + Ubuntu (Wed Jun 08 2011 - 18:34:55 CDT)
- VMD on Intel core i3 + Ubuntu (Tue Jun 07 2011 - 19:03:26 CDT)
mashaojie163
- gamess plungin for PC Gamess (Tue Nov 07 2006 - 01:00:58 CST)
- Re: gamess plugin error of vmd 1.8.4a22 on windows (Sat Oct 15 2005 - 01:20:40 CDT)
- gamess plugin error of vmd 1.8.4a22 on windows (Mon Oct 17 2005 - 06:53:53 CDT)
- Can vmd do symmetry operation? (Tue Oct 11 2005 - 21:49:00 CDT)
- about new vmd on windows (Tue Oct 11 2005 - 04:11:24 CDT)
- how can I combine several selection into one selection by TCL (Fri Oct 07 2005 - 22:09:24 CDT)
- Re: How can I compile win32-vmd (Wed Oct 05 2005 - 22:26:27 CDT)
- how can I combine several selection into one selection by TCL (Wed Oct 05 2005 - 21:55:49 CDT)
- Re: How can I compile win32-vmd (Mon Oct 03 2005 - 20:16:15 CDT)
- How can I compile win32-vmd (Sun Oct 02 2005 - 00:18:11 CDT)
- about gamess plugin (Thu Jun 02 2005 - 20:50:59 CDT)
- can I combine several dcd files into one dcd file? (Wed Jan 05 2005 - 08:55:14 CST)
- dcd file appears to contain no timesteps (Tue Jan 04 2005 - 02:58:38 CST)
- Re: namd-l: counterion software (Mon Oct 11 2004 - 01:30:48 CDT)
- measure fit error?? (Fri Oct 08 2004 - 07:28:20 CDT)
- Re: how can I get hole program (Wed Sep 29 2004 - 20:06:05 CDT)
- Re: how can I get hole program (Tue Sep 28 2004 - 20:01:30 CDT)
- Re: rmsd calculation and alignment (Tue Sep 28 2004 - 10:46:15 CDT)
- measure fit error?? (Mon Sep 27 2004 - 23:12:22 CDT)
- how can I get hole program (Sat Sep 25 2004 - 19:34:17 CDT)
mashaojienuaa
- the error of the plugin QMTool in read gaussian output file (Fri May 18 2007 - 01:08:09 CDT)
- Re: (ç‘žæ˜Ÿæç¤º-æ¤é‚®ä»¶å¯èƒ½æ˜¯åžƒåœ¾é‚®ä»¶)Re: gamess plugin error when using symmetry operations (Fri May 26 2006 - 20:49:03 CDT)
- Fw: (ÈðÐÇÌáÊ¾-´ËÓÊ¼þ¿ÉÄÜÊÇÀ¬»øÓÊ¼þ)Re: gamess plugin error when using symmetry operations (Thu May 25 2006 - 01:56:08 CDT)
- gamess plugin error when using symmetry operations (Tue May 23 2006 - 10:02:36 CDT)
- gamess plugin error when using symmetry operations (Sun May 21 2006 - 21:12:20 CDT)
- Re: (ÈðÐÇÌáÊ¾-´ËÓÊ¼þ¿ÉÄÜÊÇÀ¬»øÓÊ¼þ)Re: namd-l: error in membrane producing (Sun Mar 19 2006 - 20:19:40 CST)
- about gamess plugin (Thu Sep 29 2005 - 01:40:50 CDT)
mason H
- set tcl/tk variable from "get resname" command (Fri Oct 10 2014 - 12:58:47 CDT)
- NetworkView -- Averaging SEPARATE contact.dat files? (Tue Sep 30 2014 - 20:22:31 CDT)
- NetworkView - Path lengths (Tue Sep 30 2014 - 19:39:53 CDT)
- Re: Network View -- how to Load Network from command line (Tue Sep 02 2014 - 08:14:15 CDT)
- Dynamical Network Analysis (Network View) -- Please help (Mon Sep 01 2014 - 13:27:25 CDT)
- Network View -- how to Load Network from command line (Sat Aug 30 2014 - 20:03:09 CDT)
- Dynamical Network Analysis -- Question on Nodes and Restrictions (Wed Aug 27 2014 - 21:38:53 CDT)
masoud kazemi
- problem on rmsdtt (Sun Apr 03 2011 - 08:52:22 CDT)
masoud Kazemi via LinkedIn
- Invitation to connect on LinkedIn (Wed Jun 01 2011 - 07:55:20 CDT)
masoumeh ozmaeian
- Re: psf format (Sun Oct 31 2010 - 13:37:18 CDT)
- psf format (Sun Oct 17 2010 - 02:26:04 CDT)
- test (Sat Oct 16 2010 - 14:26:58 CDT)
Massimiliano Porrini
- Re: cant find output file from tachyon render. (Thu Mar 27 2014 - 11:51:33 CDT)
- Re: charges optimisation of a cationic molecule with ffTK (Mon Mar 03 2014 - 03:45:21 CST)
- charges optimisation of a cationic molecule with ffTK (Fri Feb 28 2014 - 05:18:51 CST)
- issue(s) with ffTK of vmd-1.9.2a35 (Tue Feb 25 2014 - 16:18:25 CST)
Massimiliano Stengel
- Re: VMD and 3Dfx Glide (Tue Aug 31 1999 - 08:44:05 CDT)
- Re: VMD and 3Dfx Glide (Tue Aug 31 1999 - 06:47:27 CDT)
- VMD and 3Dfx Glide (Mon Aug 30 1999 - 06:31:33 CDT)
massimo camarda
- missing basic tutorials for VMD scripting? (Sat Mar 01 2008 - 03:02:49 CST)
- specify the bonds between the atoms (Mon Feb 25 2008 - 01:48:52 CST)
- movie generation without runtime frame show (Fri Feb 22 2008 - 04:15:58 CST)
- change axes name (Mon Feb 18 2008 - 11:57:35 CST)
- animation of an atom diffusion inside a bulk crystal (Fri Feb 01 2008 - 02:27:59 CST)
Massimo Lai
- Re: Diffusion Constant (Wed Mar 19 2008 - 06:09:44 CDT)
master mendez
- Updating COLOURS for atoms (Sat Jun 25 2005 - 02:24:08 CDT)
Matic Kisovec
- Re: VMD window turning black with Nvidia 3d vision on ASUS monitor (Thu Jul 14 2016 - 01:53:27 CDT)
- Re: Installing VMD-1.9.2 in Ubuntu 16.04-32bit (Mon Jul 04 2016 - 06:09:12 CDT)
- Re: Running 64-bit Linux VMD in VMWare VM on Windows 8.1 64-bit Host Machine (Fri May 15 2015 - 10:53:33 CDT)
- Re: AW: Problem with assignation of secondary structure in VMD (Thu May 07 2015 - 07:48:28 CDT)
- Re: AW: Problem with assignation of secondary structure in VMD (Thu May 07 2015 - 00:41:07 CDT)
- Problem with assignation of secondary structure in VMD (Wed May 06 2015 - 06:29:20 CDT)
- VMD 1.9.3 alpha (Fri Mar 27 2015 - 07:58:47 CDT)
- Re: VMD Segmentation fault (core dumped) (Thu Jan 29 2015 - 05:51:02 CST)
- VMD Segmentation fault (core dumped) (Wed Jan 28 2015 - 09:53:11 CST)
Matt Albertolle
- Re: Fwd: Problem with Loading Bond Angle Optimization Gaussian .log file into the fftk (Thu Nov 02 2017 - 09:27:35 CDT)
- Re: Fwd: Problem with Loading Bond Angle Optimization Gaussian .log file into the fftk (Mon Oct 23 2017 - 18:40:54 CDT)
- Fwd: Problem with Loading Bond Angle Optimization Gaussian .log file into the fftk (Thu Oct 12 2017 - 11:30:04 CDT)
Matt Elder
- Perspective Ratio Problems (Wed Jan 28 2004 - 12:41:54 CST)
Matt Fioravante
- Compiling vmd 1.9 plugins (Wed Oct 26 2011 - 12:55:22 CDT)
Matt Veter
- Issues with Tcl script for MD Prep (Tue May 07 2019 - 13:28:49 CDT)
Matt Watkins
- Re: GPU rendering of molecular orbitals (Tue Nov 22 2016 - 16:31:28 CST)
- GPU rendering of molecular orbitals (Tue Nov 22 2016 - 15:03:38 CST)
- Re: box vectores in .trr (Sat Apr 09 2011 - 17:47:06 CDT)
- Re: missing operator at _@_in expression "$i _@_$n" (Wed Nov 17 2010 - 12:31:51 CST)
- Re: xyz file and VASP CHGCAR file do not overlap (Fri Feb 12 2010 - 19:54:08 CST)
- Re: writing gromacs .trr format with nonorthorhomic cells (Tue Oct 13 2009 - 11:48:27 CDT)
- writing gromacs .trr format with nonorthorhomic cells (Tue Oct 13 2009 - 07:05:27 CDT)
- Re: problem with pbc (Wed Mar 26 2008 - 17:07:58 CDT)
- problem with pbc (Wed Mar 26 2008 - 16:20:55 CDT)
matt wessel
- Re: topotools readlammpsdata redefining xyz coordinates? (Wed Jan 04 2017 - 18:05:20 CST)
- topotools readlammpsdata redefining xyz coordinates? (Wed Jan 04 2017 - 16:32:11 CST)
Matt Whorton
- two molecules (Thu Mar 06 2003 - 12:20:32 CST)
matt_at_clarkeconsulting.com
- stereo mode problems with vmd on IRIX 6.2 (Thu Nov 20 1997 - 18:14:21 CST)
matteo
- VolumeSlice (Tue Aug 10 2004 - 16:29:47 CDT)
Matteo Dal Peraro
- Problem with VMD 1.8.4 on Mac OS X 10.4.6 PPC (Tue Apr 25 2006 - 10:22:54 CDT)
Matteo Guglielmi
- Re: Rotate a box with pcb (Thu Oct 18 2007 - 14:07:16 CDT)
- Rotate a box with pcb (Tue Oct 09 2007 - 07:02:34 CDT)
Matteo Lambrughi
- Question about using fftk with files from QM calculations from Gaussian 16 (Thu May 11 2023 - 02:52:31 CDT)
matteo.pennestri_at_virgilio.it
- phi and psi information (Thu Jun 23 2005 - 00:55:54 CDT)
- Re: bad resolution and too slow on mandrake 10.0 (Sun May 29 2005 - 12:37:42 CDT)
- bad resolution and too slow on mandrake 10.0 (Wed May 25 2005 - 02:00:01 CDT)
- only vmd console (Sun Apr 10 2005 - 08:43:26 CDT)
- (no subject) (Thu Feb 24 2005 - 09:11:19 CST)
- potential surface (Wed Feb 23 2005 - 16:35:00 CST)
- (no subject) (Wed Feb 23 2005 - 04:44:47 CST)
- protein peptide alignment. (Sat Feb 12 2005 - 12:30:51 CST)
- Align protein with different number of aminoacid (Thu Feb 10 2005 - 16:42:50 CST)
matteus.lindgren_at_chem.umu.se
- vmd on core 2 duo (Mon Mar 12 2007 - 03:26:30 CDT)
Matthew Barlow
- Installation error with rlwrap (Tue Nov 13 2012 - 13:41:55 CST)
Matthew Bick
- Re: Issue with NAMD/VMD tutorial (Mon May 30 2011 - 14:03:30 CDT)
- Issue with NAMD/VMD tutorial (Mon May 30 2011 - 12:32:29 CDT)
Matthew C. Lee
- updating cartoon representation in trajectory (Sun Sep 14 2003 - 00:27:52 CDT)
- How to measure cross angles between helices (Fri Sep 05 2003 - 13:57:42 CDT)
Matthew Geballe
- Re: Tube representation of alpha carbons (Wed Dec 08 2004 - 13:57:09 CST)
- Tube representation of alpha carbons (Tue Dec 07 2004 - 14:29:43 CST)
Matthew J. Comstock
- Re: CUDA errors for graphics card in Linux (Wed May 28 2014 - 16:07:29 CDT)
- CUDA errors for graphics card in Linux (Wed May 28 2014 - 14:06:23 CDT)
Matthew Kenney
- Alascan, psfgen errors (Thu Aug 02 2018 - 17:19:16 CDT)
- Re: Fully Visual Docker Container for VMD (Mon Jul 16 2018 - 15:49:49 CDT)
- Re: Fully Visual Docker Container for VMD (Mon Jul 16 2018 - 15:37:32 CDT)
- Fully Visual Docker Container for VMD (Mon Jul 16 2018 - 10:00:16 CDT)
- Reopening the Discussion on visual VMD container: GLX now enabled (Tue Jul 10 2018 - 16:47:00 CDT)
- Re: Issue with NVIDIA GPU Cloud VMD Container (Fri Jul 06 2018 - 17:13:59 CDT)
- Re: Issue with NVIDIA GPU Cloud VMD Container (Fri Jul 06 2018 - 16:20:05 CDT)
- Issue with NVIDIA GPU Cloud VMD Container (Fri Jul 06 2018 - 15:50:59 CDT)
Matthew Stewart
- RE: Generating PSF for several proteins in one shot (Fri Jul 24 2015 - 01:25:58 CDT)
- RE: writing PDB (Thu Oct 24 2013 - 18:30:51 CDT)
Matthew Thomas Geballe
- Re: Tube representation of alpha carbons (Tue Dec 07 2004 - 20:43:11 CST)
Matthew Wilce
- Buried Surface Area (Fri May 13 2005 - 09:33:36 CDT)
- cns files (Sun May 21 2000 - 05:28:05 CDT)
Matthias Ernst
- Re: Show additional data (Thu Jan 14 2016 - 10:38:28 CST)
- Show additional data (Fri Jan 08 2016 - 12:55:49 CST)
Matthias Negri
- Re: Problems with AMBER trajectories (MOVIE!) and crd-files (Tue Aug 30 2005 - 06:53:28 CDT)
- Problems with AMBER trajectories (MOVIE!) and crd-files (Mon Aug 29 2005 - 04:19:19 CDT)
Matthieu
- Re: voltool mask usage (Sun Feb 09 2020 - 18:43:15 CST)
- voltool mask usage (Fri Feb 07 2020 - 19:11:03 CST)
Matthieu Benoit
- Changing isosurface wireframe thickness when rendering with Tachyon (Wed Feb 27 2019 - 23:44:27 CST)
- RE: Move volumetric data with their associated PDB (Tue Feb 19 2019 - 19:23:39 CST)
- Re: Move volumetric data with their associated PDB (Tue Feb 19 2019 - 13:04:38 CST)
- Move volumetric data with their associated PDB (Tue Feb 19 2019 - 12:21:37 CST)
Matthieu Chavent
- slow visualization using molecular representations with VMD 1.8.7 on mac (Tue Jan 05 2010 - 03:47:17 CST)
- extract centers et radii of beads model (Mon Sep 15 2008 - 13:25:13 CDT)
- Re: preriodic box problem (Fri May 30 2008 - 10:40:00 CDT)
- preriodic box problem (Fri May 30 2008 - 04:12:31 CDT)
Matthieu.Chavent_at_edam.uhp-nancy.fr
- electrostatic map render problem (Wed Oct 18 2006 - 09:36:14 CDT)
matziast_at_med.uth.gr
- Re: selection (Mon Oct 31 2011 - 16:15:54 CDT)
- Re: selection (Mon Oct 31 2011 - 16:23:38 CDT)
- Re: selection (Mon Oct 31 2011 - 15:57:03 CDT)
- Re: selection (Mon Oct 31 2011 - 15:50:58 CDT)
- selection (Mon Oct 31 2011 - 13:39:43 CDT)
- selection (Mon Oct 31 2011 - 12:45:50 CDT)
- convert .coor to pdb (Mon Sep 26 2011 - 06:08:24 CDT)
- Maria Tziastoudi (Sat Aug 13 2011 - 05:29:29 CDT)
- Maria Tziastoudi (Fri Aug 12 2011 - 04:29:38 CDT)
- measure dihedral and improper angles (Tue Aug 09 2011 - 11:02:57 CDT)
- how to measure some constants (Tue Dec 14 2010 - 03:26:17 CST)
- order of atoms in an improper dihedral (Thu Dec 02 2010 - 04:10:41 CST)
- order of atoms in an improper dihedral (Thu Dec 02 2010 - 03:31:35 CST)
- parameter file for CHARMM (Tue May 25 2010 - 16:03:33 CDT)
- about command measure dipole (Wed Feb 24 2010 - 12:37:49 CST)
Maud Jusot
- Re: bug when starting VMD on MACOS ARM (Thu Feb 22 2024 - 11:12:16 CST)
- Re: bug when starting VMD on MACOS ARM (Thu Feb 22 2024 - 04:50:26 CST)
- Re: bug when starting VMD on MACOS ARM (Thu Feb 22 2024 - 04:32:55 CST)
- bug when starting VMD on MACOS ARM (Wed Feb 21 2024 - 08:24:02 CST)
Maurice O'Connell
- couldn't open "c:/multiseq-406080740227.start.domain": invalid argument (Thu Feb 21 2008 - 12:30:26 CST)
Mauricio C. Tripp
- RE: PBC (Tue Jan 06 2004 - 13:32:31 CST)
- PBC (Tue Jan 06 2004 - 10:25:51 CST)
- RE: dcd reading error (Fri Jan 02 2004 - 13:48:06 CST)
- RE: dcd reading error (Fri Jan 02 2004 - 13:58:44 CST)
- RE: dcd reading error (Fri Jan 02 2004 - 14:27:06 CST)
- dcd reading error (Fri Jan 02 2004 - 11:23:08 CST)
Mauricio Carrillo Tripp
- Re: fancy representations for lipids? (Mon Oct 03 2005 - 14:23:04 CDT)
- Re: Import gromos output file into VMD without format conversion? (Wed Sep 21 2005 - 12:51:04 CDT)
- Re: mpg image speed (Thu Apr 07 2005 - 08:39:14 CDT)
- Re: Displaying simulations and rotations (Wed Apr 06 2005 - 15:00:54 CDT)
- Re: Pls help me to render files with only traces of proteins! (Thu Feb 06 2003 - 08:06:38 CST)
- Re: VMD 1.8a28 bundle for MacOS X 10.2 available... (Fri Sep 27 2002 - 19:22:30 CDT)
- Re: new user animation question (Tue Oct 09 2001 - 20:01:20 CDT)
- hyperchem files (Thu May 10 2001 - 10:22:44 CDT)
- bond length definition (Tue Apr 24 2001 - 13:40:17 CDT)
- loading molecule from command line (Fri Jul 28 2000 - 14:42:56 CDT)
Mauricio Carrillo-Tripp
- fixing a molecule (Mon Jul 30 2001 - 17:08:39 CDT)
Maurizio Olla
- Mutate nucleotides (Tue Jan 29 2008 - 23:51:05 CST)
Mauro Boero
- Re: VMD installation on Mac OSx 11 Bug Sur (Wed Sep 08 2021 - 06:44:35 CDT)
- VMD installation on Mac OSx 11 Bug Sur (Mon Sep 06 2021 - 02:08:46 CDT)
MaurÃcio Menegatti Rigo
- Re: Tcl scripting - Coloring residues by frame along trajectory (Tue Aug 12 2014 - 08:31:12 CDT)
- Tcl scripting - Coloring residues by frame along trajectory (Fri Aug 08 2014 - 13:12:31 CDT)
Max
- Re: Select atoms using coordinates (Thu Apr 23 2009 - 03:15:15 CDT)
- Select atoms using coordinates (Wed Apr 22 2009 - 06:09:16 CDT)
- Mol representation using coordinates (Tue Apr 21 2009 - 08:50:05 CDT)
- OpenGL Window (Wed Mar 04 2009 - 05:16:54 CST)
- Dobule and triple bonds (Tue Jan 13 2009 - 04:32:04 CST)
- Functional Groups (Fri Jan 09 2009 - 04:51:39 CST)
Max Win
- Extracting Voxel-based or STL from QuickSurf Representation (Wed Oct 05 2022 - 15:13:51 CDT)
- GPU-accelerated MSD calculation (Thu Jun 09 2022 - 12:20:20 CDT)
- GPU-accelerated RDF Calculation (Thu Mar 31 2022 - 16:52:56 CDT)
max_at_liaad.up.pt
- OpenGL Display (Tue Nov 11 2008 - 04:03:12 CST)
- Visualizing multiple molecules (Fri Oct 31 2008 - 07:26:00 CDT)
- Merge psf and pdb (Tue Sep 02 2008 - 04:28:53 CDT)
- Inorganic Builder Plugin (Wed Aug 20 2008 - 04:57:09 CDT)
- VMD files to SDF (Thu Aug 07 2008 - 05:20:59 CDT)
Maxim Belkin
- Re: write vel binary file from dcd (command line) (Tue May 24 2016 - 10:55:28 CDT)
- Re: Unable to view protein as cartoon or trace or tube (Mon May 02 2016 - 12:25:44 CDT)
- Re: Animate Molekul (Tue Apr 05 2016 - 10:24:47 CDT)
- Re: Changing molecule number (Mon Feb 08 2016 - 11:24:47 CST)
- Re: Changing molecule number (Mon Feb 08 2016 - 10:57:24 CST)
- Re: Changing molecule number (Mon Feb 08 2016 - 10:28:24 CST)
- Re: Changing molecule number (Mon Feb 08 2016 - 10:05:36 CST)
- Re: Changing molecule number (Mon Feb 08 2016 - 09:34:27 CST)
- Re: building a solvent/gas filled simulation box, no protein inside (Fri Feb 05 2016 - 14:20:04 CST)
- Re: building a solvent/gas filled simulation box, no protein inside (Fri Jan 29 2016 - 14:18:57 CST)
- Re: building a solvent/gas filled simulation box, no protein inside (Fri Jan 29 2016 - 13:26:21 CST)
- Re: Unable to access config file (Fri Dec 11 2015 - 11:36:14 CST)
- Re: Loading .vel files into vmd (Wed Dec 02 2015 - 12:24:05 CST)
- Re: Re: Attractive or repulsive with Namd Energy? (Mon Nov 30 2015 - 10:49:43 CST)
- Re: Attractive or repulsive with Namd Energy? (Tue Nov 24 2015 - 09:48:38 CST)
- Re: Attractive or repulsive with Namd Energy? (Mon Nov 23 2015 - 13:11:33 CST)
- Re: Fwd: Compiling VMD with python interpreter on MacOSX (Wed Nov 18 2015 - 10:52:52 CST)
- Re: Consistent size (Thu Oct 15 2015 - 09:44:09 CDT)
- Re: How can I swap specific atoms for all frames of xyz file? (Wed May 13 2015 - 20:43:46 CDT)
- Re: How can I swap specific atoms for all frames of xyz file? (Wed May 13 2015 - 13:50:36 CDT)
- Re: How can I swap specific atoms for all frames of xyz file? (Wed May 13 2015 - 13:07:04 CDT)
- Re: Limit to total number of atoms in PSF? (Wed May 13 2015 - 09:52:28 CDT)
- Re: how to set the coordinates of carbon nanotube? (Fri May 08 2015 - 01:59:49 CDT)
- Re: Residues within a specified distance across all trajectories time steps (Mon Apr 06 2015 - 15:49:59 CDT)
- Re: ??startup.command?? can??t be opened because CoreServicesUIAgent is not allowed to open documents in Terminal. (Mon Apr 06 2015 - 13:29:18 CDT)
- Re: (Fri Mar 27 2015 - 13:26:01 CDT)
- Re: (Fri Mar 27 2015 - 11:55:05 CDT)
- Re: Atom order in VMD (Sat Mar 14 2015 - 19:21:08 CDT)
- Re: (Fri Mar 06 2015 - 14:47:05 CST)
- Re: Moving making with short trajectories (Sat Feb 28 2015 - 14:43:46 CST)
- Re: Moving making with short trajectories (Sat Feb 28 2015 - 09:23:31 CST)
- Re: Moving making with short trajectories (Fri Feb 27 2015 - 14:42:10 CST)
- Re: script for displaying multiple frames (Thu Feb 19 2015 - 15:10:19 CST)
- Re: Extracting coordinates from DCD file to a single PDB file (Mon Feb 16 2015 - 04:43:59 CST)
- Re: Extracting coordinates from DCD file to a single PDB file (Sun Feb 15 2015 - 23:51:48 CST)
- Re: Extracting coordinates from DCD file to a single PDB file (Fri Feb 13 2015 - 05:33:27 CST)
- Re: Handful of rendering issues (Wed Feb 11 2015 - 15:16:16 CST)
- Re: Handful of rendering issues (Wed Feb 11 2015 - 09:52:15 CST)
- Re: BUG: vmd-1.9.2 final Representations GUI (Mon Feb 02 2015 - 05:39:53 CST)
- Re: Hbond per residue (Mon Jan 26 2015 - 07:30:47 CST)
- Re: Hbond per residue (Sun Jan 25 2015 - 06:24:13 CST)
- Re: within command (Fri Jan 23 2015 - 16:38:45 CST)
- Re: within command (Fri Jan 23 2015 - 14:44:27 CST)
- Re: get the coordinate of the mouse arrow (Wed Dec 17 2014 - 01:30:56 CST)
- Re: Any interest in VMD supporting mirror reflections w/ ray tracing? (Thu Nov 27 2014 - 21:27:45 CST)
- Re: Re: Need testers: VMD 1.9.2 w/ interactive GPU ray tracing w/ AO, depth of field, etc. (Thu Nov 27 2014 - 12:27:54 CST)
- Re: Problem with merging structures!( psfgen) Warning: failed to set coordinate for atom AU0 AU:1 A) (Wed Nov 26 2014 - 18:00:19 CST)
- Re: (Tue Nov 18 2014 - 13:23:51 CST)
- Re: (Tue Nov 18 2014 - 12:09:34 CST)
- Re: (Tue Nov 18 2014 - 10:05:44 CST)
- Re: Selecting atoms based on the charges (Tue Nov 11 2014 - 01:34:04 CST)
- Re: Tachyon-Optix failure when SSH X11 (Tue Oct 28 2014 - 09:11:08 CDT)
- Re: Tachyon-Optix failure when SSH X11 (Fri Oct 24 2014 - 06:41:00 CDT)
- Re: vmd-l incoming mails become Spam (Fri Oct 24 2014 - 06:56:54 CDT)
- Re: Tachyon-Optix failure when SSH X11 (Thu Oct 23 2014 - 13:10:28 CDT)
- Re: Tachyon-Optix failure when SSH X11 (Thu Oct 23 2014 - 11:15:25 CDT)
- Re: Tachyon-Optix failure when SSH X11 (Thu Oct 23 2014 - 10:34:22 CDT)
- Re: Syntax of the "within [distance] of" command (Wed Oct 22 2014 - 15:26:05 CDT)
- Re: set tcl/tk variable from "get resname" command (Fri Oct 10 2014 - 13:12:45 CDT)
- Re: Tk script (Tue Sep 30 2014 - 13:39:15 CDT)
- Re: Tk script (Tue Sep 30 2014 - 10:11:23 CDT)
- Re: select a group of atoms/distance measurement (Fri Sep 26 2014 - 11:30:58 CDT)
- Re: merging several pdbs in one file (Fri Sep 26 2014 - 09:33:45 CDT)
- Re: Selecting atoms based on the charges (Tue Sep 23 2014 - 09:38:09 CDT)
- Re: merging several pdbs in one file (Tue Sep 23 2014 - 06:23:31 CDT)
- Re: merging several pdbs in one file (Mon Sep 22 2014 - 13:04:37 CDT)
- Re: vmd without OpenGL window (Wed Aug 20 2014 - 13:46:58 CDT)
- Re: Parameter and Topology File UPDATE. (Sat Aug 16 2014 - 04:29:29 CDT)
- Re: Labeling atoms by index (Sat Aug 16 2014 - 03:49:18 CDT)
- Re: Parameter and Topology File UPDATE. (Sat Aug 16 2014 - 03:33:34 CDT)
- Re: Labeling atoms by index (Sat Aug 16 2014 - 03:36:23 CDT)
- Re: Labeling atoms by index (Sat Aug 16 2014 - 02:48:51 CDT)
- Re: Parameter and Topology File UPDATE. (Sat Aug 16 2014 - 02:13:03 CDT)
- Re: Units used by Volmap Tool (Fri Aug 15 2014 - 16:27:11 CDT)
- Re: Autoi::sod2pot problem in "Modeling Nanopores for Sequencing DNA" tutorial (Fri Aug 15 2014 - 13:54:08 CDT)
- Re: mol new [from memory] (Mon Aug 11 2014 - 12:34:51 CDT)
- Re: How to adjust different atom size separately (Fri Jul 18 2014 - 11:32:26 CDT)
- Re: pdb animation (Thu Jul 10 2014 - 08:53:21 CDT)
- Re: VMD 1.9.2a39_64 segmentation fault MacOS (Tue Jul 08 2014 - 18:48:09 CDT)
- Re: obtain a list of residue numbers (Mon Jul 07 2014 - 12:19:59 CDT)
- Re: select all residues in a molecule (Sat Jun 28 2014 - 23:58:27 CDT)
- Re: Select the residue which comprises the atom with index (Fri Jun 27 2014 - 12:27:07 CDT)
- Re: Select the residue which comprises the atom with index (Fri Jun 27 2014 - 11:29:36 CDT)
- Re: sscache with bigdcd (Thu Jun 26 2014 - 09:43:23 CDT)
- Re: Trouble with visual representations while loading a dcd. (Thu Jun 05 2014 - 11:55:56 CDT)
- Re: Unable to use VMD1.9.1 binary (no CUDA) on Mac OSX 10.9.3 (Fri May 16 2014 - 10:56:34 CDT)
- Re: number of water molecules within 5 angstroms of the ligand (Mon May 05 2014 - 13:41:34 CDT)
- Re: Changing the Font size of the XYZ Logo (Fri Apr 11 2014 - 11:05:35 CDT)
- Re: Movie Smoothing error (Mon Apr 07 2014 - 10:50:58 CDT)
- Re: ffTk user feature request (Fri Apr 04 2014 - 11:05:19 CDT)
- Re: set view along an chosen axis (Mon Mar 31 2014 - 15:55:49 CDT)
- Re: Velocity storing in VMD (Sun Mar 09 2014 - 12:52:16 CDT)
- Re: Velocity storing in VMD (Sun Mar 09 2014 - 11:47:45 CDT)
- Re: Velocity storing in VMD (Sun Mar 09 2014 - 11:05:43 CDT)
- Re: Velocity storing in VMD (Sun Mar 09 2014 - 03:21:22 CDT)
- Re: Velocity storing in VMD (Sat Mar 08 2014 - 10:50:07 CST)
- Re: How to delete atoms in graphene sheet (Thu Mar 06 2014 - 08:15:10 CST)
- Re: How to delete atoms in graphene sheet (Wed Mar 05 2014 - 11:30:29 CST)
- Re: How to delete atoms in graphene sheet (Wed Mar 05 2014 - 10:53:29 CST)
- Re: Issues using VMD 1.91. with CUDA on Mac OSX 10.9.1 (Tue Mar 04 2014 - 11:16:12 CST)
- Re: Issues using VMD 1.91. with CUDA on Mac OSX 10.9.1 (Tue Mar 04 2014 - 10:55:22 CST)
- Re: Writing new coordinates to file. (Mon Mar 03 2014 - 15:37:36 CST)
- Re: Writing new coordinates to file. (Mon Mar 03 2014 - 15:49:00 CST)
- Re: Issues using VMD 1.91. with CUDA on Mac OSX 10.9.1 (Sun Mar 02 2014 - 17:54:44 CST)
- Re: Nanostructure Plugin from TCL Script (Tue Feb 25 2014 - 12:15:49 CST)
- Re: Bounced VMD-L postings... (Tue Feb 18 2014 - 13:26:22 CST)
- Re: VMD can't read 1OXY (Tue Feb 11 2014 - 09:31:47 CST)
- Re: measure dihedral angle for all the loaded pdb files (Fri Feb 07 2014 - 10:23:00 CST)
- Re: Atomic trajectory to COM trajectory, (Wed Feb 05 2014 - 14:30:37 CST)
- Re: Atomic trajectory to COM trajectory, (Wed Feb 05 2014 - 10:53:15 CST)
- Re: Atomic trajectory to COM trajectory, (Tue Feb 04 2014 - 16:00:03 CST)
- Re: Adding a keyword to mol addfile (Thu Jan 30 2014 - 09:58:25 CST)
- Re: background color (Mon Jan 27 2014 - 11:41:11 CST)
- Re: Creating a Regular Structure (Wed Jan 22 2014 - 18:06:39 CST)
- Re: Creating a Regular Structure (Wed Jan 22 2014 - 17:48:18 CST)
- Re: VMD text mode commands (Wed Jan 22 2014 - 15:00:53 CST)
- Re: VMD text mode commands (Wed Jan 22 2014 - 14:55:16 CST)
- Re: VMD text mode commands (Wed Jan 22 2014 - 14:02:35 CST)
- Re: 'percent' symbol syntax in .conf file? (Sat Dec 21 2013 - 18:10:36 CST)
Maxim Kholin
- Free Trial of New Toxicity Prediction Software (LD50, MRDD, side effects) is now available (Tue Oct 28 2008 - 09:00:25 CDT)
Maxim Paliy
- annoying bug in 1.9.2 (Mon Jun 15 2015 - 07:43:35 CDT)
- "Sorry, this version VMD was compiled with Python support disabled" (Wed Feb 04 2009 - 09:19:49 CST)
- accessing bonds angles dihedrals etc lists after PSF file is read into VMD (Wed Jan 21 2009 - 15:29:54 CST)
- tcl scripts in parallel in VMD? (Tue Jan 06 2009 - 08:14:41 CST)
- list of all the file type keywords for "mol load"? (Mon Jan 05 2009 - 10:00:20 CST)
- advanced selections (or explicit pair list) for measure gofr ? (Fri Oct 24 2008 - 07:48:40 CDT)
- a VMD script similar to "Rahmachandran plot' applicable to nucleic acids ? (Fri Sep 12 2008 - 19:14:04 CDT)
- measure gofr - how is g(r) normalised? (Mon Aug 25 2008 - 05:07:37 CDT)
- How to circumvent: FATAL ERROR: Periodic cell has become too small for original patch grid! (Mon Apr 07 2008 - 12:36:24 CDT)
- Selection "within x of something" is not updated throughout DCD trajectory? (Thu Mar 27 2008 - 13:59:25 CDT)
Maxim Paliy.
- Re: animation with variable number/names of atoms (Mon May 03 2010 - 19:05:44 CDT)
- animation with variable number/names of atoms (Mon May 03 2010 - 09:10:58 CDT)
- adding bonds with the mouse and writing psf (Thu May 14 2009 - 20:01:40 CDT)
- a small bug in solvate 1.3 (Thu May 14 2009 - 19:06:32 CDT)
maxim todoru
- Re: How to shortening bonds length in a molecule ? (Thu Aug 31 2023 - 04:16:04 CDT)
- How to shortening bonds length in a molecule ? (Thu Aug 31 2023 - 01:28:26 CDT)
- Re: How to increase bond length maximum ? (Tue Mar 29 2022 - 20:04:45 CDT)
- How to increase bond length maximum ? (Tue Mar 29 2022 - 06:00:37 CDT)
- Re: Color Transition in VMD (Sat Nov 13 2021 - 03:30:11 CST)
- Re: Color Transition in VMD (Fri Nov 12 2021 - 22:20:18 CST)
- Re: Color Transition in VMD (Fri Nov 12 2021 - 20:43:41 CST)
- Re: Color Transition in VMD (Sat Nov 13 2021 - 15:09:15 CST)
- Re: Color Transition in VMD (Fri Nov 12 2021 - 15:23:26 CST)
- Re: Color Transition in VMD (Sat Nov 06 2021 - 11:49:34 CDT)
- Color Transition in VMD (Sat Nov 06 2021 - 09:46:26 CDT)
Maximilian Ebert
- Re: Trajectory smoothing (Mon Jul 13 2020 - 22:08:50 CDT)
- Trajectory smoothing (Mon Jul 13 2020 - 20:53:09 CDT)
- Re: ABF tutorial: Methane-Hydration water going -> Water in gas phase? (Sat May 04 2013 - 08:32:23 CDT)
- ABF tutorial: Methane-Hydration water going -> Water in gas phase? (Fri May 03 2013 - 21:13:38 CDT)
- ABF tutorial: Methane-Hydration water going -> Water in gas phase? (Fri May 03 2013 - 20:49:33 CDT)
- Re: Can I calculate B-factor using VMD (Wed Feb 27 2013 - 15:54:51 CST)
- Re: Load a molecule in a function without output and slow Tcl gui console (Wed Feb 27 2013 - 15:59:32 CST)
- Re: Load a molecule in a function without output and slow Tcl gui console (Tue Feb 26 2013 - 16:35:54 CST)
- Load a molecule in a function without output and slow Tcl gui console (Tue Feb 26 2013 - 15:52:38 CST)
Mayank
- What does pbc get -now do (Sun Oct 07 2018 - 09:36:41 CDT)
Mayne, Christopher G
- Re: FFTK Water Interaction (Fri Apr 05 2019 - 17:32:33 CDT)
- Re: Re: FFTK Possible Bug (Sun Mar 03 2019 - 22:03:55 CST)
- Re: fftk problem in opt. bonded step (Sun Dec 16 2018 - 12:53:17 CST)
- Re: NAMD and FFTK on a Mac (Tue Jun 05 2018 - 22:39:41 CDT)
- Re: VMD ffTK plugin: Error termination occurred at Gaussian input files generated for water interaction (Sat Jan 20 2018 - 20:05:43 CST)
- Re: FFTK plugin: domain error: argument not in valid range (Sat Dec 09 2017 - 12:56:18 CST)
- Re: Improper angle-ffTK, regarding (Thu Oct 05 2017 - 01:21:10 CDT)
- Re: a question about force field toolkit (Wed Oct 04 2017 - 01:33:51 CDT)
- Re: FFTk, dihedral optimization (Sat Jul 29 2017 - 09:43:05 CDT)
- Re: FFTk, dihedral optimization (Sat Jul 29 2017 - 10:10:51 CDT)
- Re: ffTK: neutral pyruvate group and charged pyruvate group at beta-D-mannose (Thu Jul 27 2017 - 22:52:49 CDT)
- Re: fftk - MM/QM distances not converging (Mon Jul 24 2017 - 22:28:54 CDT)
- Re: dihedral angles of nonpolar hydrogen in FFTK (Tue Jun 20 2017 - 09:12:15 CDT)
- Re: dihedral angles of nonpolar hydrogen in FFTK (Mon Jun 19 2017 - 10:19:54 CDT)
- Re: FFTK charge optimisation does not converge (Thu May 18 2017 - 21:46:03 CDT)
- Re: Optimization of torsion angles with fftk, large force constant (Tue May 16 2017 - 14:07:20 CDT)
- Re: FFTK charge optimisation does not converge (Tue May 16 2017 - 13:59:52 CDT)
- Re: Charge Optimization error (Mon Feb 20 2017 - 14:23:09 CST)
- Re: Optimization of torsion angles with fftk, large force constant (Wed Feb 01 2017 - 14:29:33 CST)
- Re: FFTK measure bond error (Tue Nov 01 2016 - 10:45:28 CDT)
- Re: Error when loading log files into ffTK Torsion Explorer (Thu Oct 20 2016 - 11:54:10 CDT)
- Re: OptiX AO rendering (Thu Oct 20 2016 - 10:51:00 CDT)
- Re: OptiX AO rendering (Wed Oct 19 2016 - 14:39:51 CDT)
- Re: Error when loading log files into ffTK Torsion Explorer (Tue Oct 11 2016 - 08:51:45 CDT)
- Re: Dihedral fitting -FFTK-shift in minima (Wed Sep 28 2016 - 09:35:46 CDT)
- Re: FFTK dihedrals and problematic intermolecular H-bonds (Fri May 20 2016 - 10:11:46 CDT)
- Re: ffTK fitting dihedrals (Tue May 17 2016 - 15:45:02 CDT)
- Re: Force field tool kit - calculation of enthalpy of vaporization (Mon May 16 2016 - 10:26:03 CDT)
- Re: Re: FFTK dihedral fitting (Mon Apr 04 2016 - 10:09:06 CDT)
- Re: FFTK dihedral fitting (Thu Mar 31 2016 - 10:05:02 CDT)
- Re: Gaussian *.log/out visualize (Fri Mar 18 2016 - 09:35:59 CDT)
- Re: FFTK: Obj value in bond optimization (Mon Mar 07 2016 - 12:24:58 CST)
- Re: FFTK - bond parameters (Mon Mar 07 2016 - 12:30:26 CST)
- Re: Bond Optimization FFTK error (Fri Feb 26 2016 - 11:58:10 CST)
- Re: FFTK and the divide and conquer strategy (Thu Feb 04 2016 - 10:10:25 CST)
- Re: FFTK Diherdal Scan error (Tue Feb 02 2016 - 09:23:36 CST)
- Re: FFTK Diherdal Scan error (Mon Feb 01 2016 - 19:58:37 CST)
- Re: FFTK Diherdal Scan error (Mon Feb 01 2016 - 12:34:42 CST)
- Re: FFTK dihedral scan (Sat Nov 21 2015 - 10:44:49 CST)
- Re: FFTK dihedral scan (Sat Nov 21 2015 - 09:35:26 CST)
- Re: FFTK dihedral scan (Thu Nov 19 2015 - 15:23:27 CST)
- Re: FFTK dihedral scan (Wed Nov 18 2015 - 14:08:51 CST)
- Re: Charge optimization in ffTK (Wed Nov 04 2015 - 13:51:00 CST)
- Re: fftk using Terachem? (Thu Oct 29 2015 - 07:59:31 CDT)
- Re: FFTK abort charge calculation. (Tue Oct 27 2015 - 17:10:11 CDT)
- Re: CHARMM parameters for iodide and bromide (Mon Oct 26 2015 - 19:29:41 CDT)
- Re: Topology for drugs to do MD after docking (Thu Oct 22 2015 - 09:39:02 CDT)
- Re: Topology for drugs to do MD after docking (Wed Oct 21 2015 - 14:44:18 CDT)
- Re: Ideal charge optimization strategy for atoms with existing ff parameters (Mon Oct 19 2015 - 09:50:09 CDT)
- Re: fftk: prepare from CGENFF and improper (Fri Oct 16 2015 - 09:58:51 CDT)
- Re: Ideal charge optimization strategy for atoms with existing ff parameters (Fri Oct 16 2015 - 02:50:39 CDT)
- Re: multiple parameterized ligands (Mon Sep 28 2015 - 21:26:00 CDT)
- Re: FFTK Bond optimization (Fri Sep 25 2015 - 16:18:52 CDT)
- Re: FFTK Bond optimization (Fri Sep 25 2015 - 16:14:33 CDT)
- Re: fftk and impropers (Thu Sep 24 2015 - 08:53:36 CDT)
- Re: FFTK Bond optimization (Wed Sep 23 2015 - 09:56:01 CDT)
- Re: ffTK: Charge optimization (Wed Sep 23 2015 - 09:36:08 CDT)
- Re: ffTK: Charge optimization (Thu Sep 17 2015 - 16:21:12 CDT)
- Re: fftk Bond guassian input for hessian calculation (Tue Sep 15 2015 - 08:07:10 CDT)
- Re: FFTK Bond optimization (Mon Sep 14 2015 - 08:34:39 CDT)
- Re: FFTK water interaction (Thu Sep 10 2015 - 13:41:26 CDT)
- Re: fftk charge validation (Wed Sep 09 2015 - 09:42:24 CDT)
- Re: FFTK water interaction (Wed Sep 09 2015 - 09:12:58 CDT)
- Re: FFTK water interaction (Tue Sep 08 2015 - 15:10:03 CDT)
- Re: FFTK water interaction (Tue Sep 08 2015 - 12:48:50 CDT)
- Re: FFTK initial par file is empty (Thu Sep 03 2015 - 20:07:03 CDT)
- Re: FFTK initial par file is empty (Thu Sep 03 2015 - 11:20:42 CDT)
- Re: FFTK initial par file is empty (Wed Sep 02 2015 - 15:29:28 CDT)
- Re: FFTK initial par file is empty (Wed Sep 02 2015 - 13:37:26 CDT)
- Re: paratool (Tue Aug 25 2015 - 19:30:52 CDT)
- Re: paratool (Tue Aug 25 2015 - 09:48:08 CDT)
- Re: ffTK and geometry optimization level (Mon Aug 24 2015 - 10:49:46 CDT)
- Re: ffTK and geometry optimization level (Thu Aug 20 2015 - 13:09:10 CDT)
- Re: ffTK and geometry optimization level (Thu Aug 20 2015 - 12:23:09 CDT)
- Re: paratool (Tue Aug 18 2015 - 15:58:35 CDT)
- Re: Fwd: ffTK problems with Gaussian OPT (Mon Aug 17 2015 - 14:31:52 CDT)
- Re: Questions about the optimization of a molecule with fftk (Fri Jul 24 2015 - 09:34:38 CDT)
- Re: fftk autoDetect indices and (Tue Jul 14 2015 - 09:25:07 CDT)
- Re: FFTK charge optimization - COLP (Fri Jun 26 2015 - 10:51:22 CDT)
- Re: Forcing FFTK to treat aminos as planar (Thu Jun 18 2015 - 14:37:31 CDT)
- Re: namd-l: FFTK - error (Mon Jun 15 2015 - 10:17:01 CDT)
- Re: namd-l: FFTK - error (Fri Jun 12 2015 - 11:52:09 CDT)
- Re: Forcing FFTK to treat aminos as planar (Fri Jun 12 2015 - 10:18:00 CDT)
- Re: FFTK-optimization error (Fri May 22 2015 - 10:21:44 CDT)
- Re: Questions regarding fftk and Gaussian (Tue May 19 2015 - 15:07:21 CDT)
- Re: I can not see "Edit Entry" window. (Wed May 06 2015 - 08:57:22 CDT)
- Re: FFTk: donor water escape during optimization (Tue May 05 2015 - 09:41:16 CDT)
- Re: Error on fftk while optimizing bonded parameters (Mon May 04 2015 - 12:48:25 CDT)
- Re: FFTk: donor water escape during optimization (Mon May 04 2015 - 11:38:43 CDT)
- Re: Error on fftk while optimizing bonded parameters (Mon May 04 2015 - 11:27:06 CDT)
- Re: Error on fftk while optimizing bonded parameters (Mon May 04 2015 - 09:07:09 CDT)
- Re: fftk bonded parameter optimization (Wed Apr 01 2015 - 16:34:32 CDT)
- Re: namdenergy pluding error (Mon Mar 30 2015 - 13:30:36 CDT)
- Re: namdenergy pluding error (Mon Mar 30 2015 - 09:26:26 CDT)
- Re: about the diffusion & msd plugin (Mon Mar 30 2015 - 09:30:13 CDT)
- Re: FFTK: Running optimizations in batch? (Wed Mar 25 2015 - 23:38:03 CDT)
- Re: fftk bonded and dihedral optimization question (Fri Mar 20 2015 - 13:19:51 CDT)
- Re: fftk bonded and dihedral optimization question (Fri Mar 20 2015 - 12:53:22 CDT)
- Re: fftk bonded and dihedral optimization question (Fri Mar 20 2015 - 12:41:00 CDT)
- Re: fftk bonded and dihedral optimization question (Fri Mar 20 2015 - 12:04:04 CDT)
- Re: fftk bonded and dihedral optimization question (Fri Mar 20 2015 - 11:21:42 CDT)
- Re: FFTK scan torsions question (Tue Feb 17 2015 - 09:14:49 CST)
- Re: Re: FFTK charge optimization of one charge group (Tue Feb 10 2015 - 15:27:35 CST)
- Re: Problem with FFTK in VMD 1.9.2 (Thu Jan 22 2015 - 09:32:41 CST)
- Re: Large angle force constants with FFTK (Wed Jan 07 2015 - 09:52:14 CST)
- Re: fftk problem - opt_bonded (Mon Dec 08 2014 - 08:28:13 CST)
- Re: How can I get the path of the TOP molecule in the tcl console? (Fri Dec 05 2014 - 09:05:46 CST)
- Re: FFTK-Opt.Bonded-empty string error_VMD1.9.2Beta (Thu Dec 04 2014 - 16:53:13 CST)
- Re: getting extra number of input file at the charge optimization phase/ ffTK (Wed Dec 03 2014 - 15:58:46 CST)
- Re: paratool/forcefield tool error (Tue Dec 02 2014 - 14:24:51 CST)
- Re: FFTK-Opt.Bonded-empty string error_VMD1.9.2Beta (Wed Nov 26 2014 - 02:44:58 CST)
- Re: FFTK-Opt.Bonded-empty string error_VMD1.9.2Beta (Mon Nov 17 2014 - 13:43:48 CST)
- Re: FFTK-Opt.Bonded-empty string error_VMD1.9.2Beta (Wed Nov 12 2014 - 08:04:11 CST)
- Re: Charge Optimization error: error deleting "base-wat.pdb": permission denied (Sat Nov 08 2014 - 11:29:31 CST)
- Re: ffTK: COLP (Charge Optimization Log Plotter) (Sat Nov 08 2014 - 11:14:15 CST)
- Re: Charge Optimization error: error deleting "base-wat.pdb": permission denied (Sat Nov 08 2014 - 10:11:49 CST)
- Re: ffTK problem: OPT.Charges (Fri Nov 07 2014 - 10:51:57 CST)
- Re: Gaussian run for ffTK: Solvation needed? (Wed Oct 22 2014 - 09:14:49 CDT)
- Re: namd-l: Re: ffTK problem: initial parameter file is void of atoms! (Mon Oct 20 2014 - 14:19:29 CDT)
- Re: namd-l: Re: ffTK problem: initial parameter file is void of atoms! (Mon Oct 20 2014 - 13:05:04 CDT)
- Re: making psf files (Mon Oct 13 2014 - 09:11:08 CDT)
- Re: making psf files (Thu Oct 02 2014 - 11:03:28 CDT)
- Re: making psf files (Wed Oct 01 2014 - 09:51:19 CDT)
- Re: Stray PME grid (Tue Sep 30 2014 - 12:26:28 CDT)
- Re: "OpenGL Display" and "VMD Main" windows; size and location on launch (Mon Sep 29 2014 - 09:12:59 CDT)
- Re: FFTK: Opt Bonded error (Thu Sep 11 2014 - 11:17:17 CDT)
- Re: Reading PSF files with longer than 4-letter atom types (Wed Aug 13 2014 - 14:36:47 CDT)
- Re: Reading PSF files with longer than 4-letter atom types (Wed Aug 13 2014 - 12:57:38 CDT)
- Re: To the developers: Get current zoom value (scale) (Fri Aug 08 2014 - 10:10:43 CDT)
- Re: To the developers: Get current zoom value (scale) (Fri Aug 08 2014 - 09:15:50 CDT)
- Re: drop off in IO speed for bigdcd analysis (Thu Jul 31 2014 - 10:26:00 CDT)
- drop off in IO speed for bigdcd analysis (Wed Jul 30 2014 - 21:20:53 CDT)
- Re: VMD Quantum Chemistry Visualization (Mon Jul 21 2014 - 10:48:57 CDT)
- Re: VMD Quantum Chemistry Visualization (Mon Jul 21 2014 - 10:32:34 CDT)
- Re: Rapid and accurate parameterization of new molecules in CHARMM (Wed May 28 2014 - 08:17:56 CDT)
- Re: Visualize a SMILES string (Wed Apr 30 2014 - 13:32:39 CDT)
- Re: Visualize a SMILES string (Wed Apr 30 2014 - 08:05:19 CDT)
- Re: Visualize a SMILES string (Tue Apr 29 2014 - 09:57:05 CDT)
- Re: printf in tcl script (Fri Apr 18 2014 - 18:42:33 CDT)
- Re: FFTK: bond and angle parameters (Wed Apr 16 2014 - 09:44:19 CDT)
- Re: ffTK generated Gaussian file puts "atoms too close" and Gaussian fails to run (Mon Apr 07 2014 - 12:55:08 CDT)
- Re: ffTK generated Gaussian file puts "atoms too close" and Gaussian fails to run (Fri Apr 04 2014 - 11:08:13 CDT)
- Re: ffTk user feature request (Fri Apr 04 2014 - 10:40:13 CDT)
- Re: Gaussian Log File problem (Thu Apr 03 2014 - 22:15:04 CDT)
- Re: issue(s) with ffTK of vmd-1.9.2a35 (Wed Feb 26 2014 - 12:57:44 CST)
- Re: issue(s) with ffTK of vmd-1.9.2a35 (Tue Feb 25 2014 - 17:08:14 CST)
- Re: triple bond parametrization (Tue Feb 11 2014 - 14:06:30 CST)
- Re: triple bond parametrization (Fri Feb 07 2014 - 17:33:11 CST)
- Re: FFTK: Error when optimizing charges (Thu Feb 06 2014 - 11:51:34 CST)
- Re: FFTK: Error when optimizing charges (Thu Feb 06 2014 - 09:29:04 CST)
- Re: triple bond parametrization (Sat Feb 01 2014 - 22:44:14 CST)
- Re: triple bond parametrization (Sat Feb 01 2014 - 20:00:03 CST)
- Re: triple bond parametrization (Sat Feb 01 2014 - 19:02:18 CST)
- Re: Re: FFTK scan torsions aromatics (Fri Dec 06 2013 - 14:27:18 CST)
- Re: fftk optimization of bonded parameters + Error: missing close-bracket (Wed Oct 30 2013 - 07:42:33 CDT)
- Re: Problem with using FFKT to optimize bonded parameters (Mon Oct 28 2013 - 08:05:37 CDT)
- Re: Problem with using FFKT to optimize bonded parameters (Wed Oct 23 2013 - 16:51:31 CDT)
- Re: Problem with using FFKT to optimize bonded parameters (Wed Oct 23 2013 - 12:38:41 CDT)
- Re: fftk-charges (Tue Oct 22 2013 - 08:00:11 CDT)
- Re: fftk-charges (Mon Oct 21 2013 - 18:20:04 CDT)
- Re: ffTK dihedral fitting question and cmap derivation (Wed Oct 02 2013 - 08:04:29 CDT)
- Re: water interaction - force field kit vmd - (Mon Sep 23 2013 - 07:35:25 CDT)
- Re: force field tool kit - error in the step of tutorial charges optimization 2-using vmd1.9.1 (Thu Sep 19 2013 - 08:14:38 CDT)
- Re: reg FFTK (Tue Sep 10 2013 - 16:23:10 CDT)
- Re: reg FFTK BOND opt (Wed Sep 04 2013 - 08:32:32 CDT)
- Re: reg FFTK BOND opt (Tue Sep 03 2013 - 11:57:54 CDT)
- Re: reg FFTK BOND opt (Tue Sep 03 2013 - 09:35:50 CDT)
- Re: cmd line FFK (Fri Aug 09 2013 - 11:26:52 CDT)
- Re: Loading new molecule without changing view? (Tue Aug 06 2013 - 06:41:49 CDT)
- Re: Regarding FFTK option (Mon Aug 05 2013 - 15:41:40 CDT)
- Re: bypassing MolFrac step (Wed Jul 31 2013 - 11:53:04 CDT)
- Re: bypassing MolFrac step (Wed Jul 31 2013 - 09:35:13 CDT)
- Re: FFTK question regarding dihedral fitting (Fri Jul 26 2013 - 02:56:21 CDT)
- Re: FFTK scan torsions MP2 vs RHF (Wed Jul 24 2013 - 04:22:18 CDT)
- Re: Fwd: FFTK scan torsions aromatics (Wed Jul 24 2013 - 04:36:38 CDT)
- Re: charge re-optimization (Fri Jul 19 2013 - 10:08:36 CDT)
- Re: FFTK and CGenFF (Wed Jul 17 2013 - 15:27:27 CDT)
- Re: FFTK and CGenFF (Wed Jul 17 2013 - 14:54:00 CDT)
- Re: Error during Water interaction data generation using gaussian following ffTK screencast (Wed Jul 10 2013 - 14:19:40 CDT)
- Re: reg interaction energy (Mon Jul 08 2013 - 15:00:28 CDT)
- Re: dihedrals in ffTK (Thu Jul 04 2013 - 13:17:54 CDT)
- Re: fftk Opt. Charges (Wed Jun 19 2013 - 10:53:43 CDT)
- Re: molfracture force field (Fri Jun 14 2013 - 11:50:10 CDT)
- Re: namd-l: Re: Suggestions on parameterizing a ligand to simulate in NAMD (Thu Jun 13 2013 - 15:55:52 CDT)
- Re: regarding FFTK (Wed Jun 12 2013 - 16:34:11 CDT)
- Re: regarding FFTK (Tue Jun 11 2013 - 15:32:40 CDT)
- Re: regarding FFTK (Tue Jun 11 2013 - 08:42:01 CDT)
- Re: regarding FFTK (Mon Jun 10 2013 - 17:32:22 CDT)
- Re: regarding FFTK (Mon Jun 10 2013 - 16:11:19 CDT)
- Re: charge exceed the range between Low bound and High bound in ffTK charge optimization (Fri Jun 07 2013 - 09:29:16 CDT)
- Re: molfracture force field (Tue Jun 04 2013 - 09:12:59 CDT)
- Re: regarding FFTK (Thu May 30 2013 - 15:46:28 CDT)
- Re: regarding FFTK (Thu May 30 2013 - 13:56:35 CDT)
- Re: regarding FFTK (Thu May 30 2013 - 13:34:35 CDT)
- Re: regarding FFTK (Thu May 30 2013 - 10:17:42 CDT)
- Re: regarding FFTK (Tue May 28 2013 - 12:13:33 CDT)
- Re: namd-l: Re: Suggestions on parameterizing a ligand to simulate in NAMD (Tue May 21 2013 - 16:55:01 CDT)
- Re: namd-l: Re: Suggestions on parameterizing a ligand to simulate in NAMD (Tue May 21 2013 - 15:46:07 CDT)
- Re: namd-l: Re: Suggestions on parameterizing a ligand to simulate in NAMD (Tue May 21 2013 - 13:05:04 CDT)
- Re: namd-l: Re: Suggestions on parameterizing a ligand to simulate in NAMD (Tue May 21 2013 - 07:59:25 CDT)
- Re: Suggestions on parameterizing a ligand to simulate in NAMD (Mon May 20 2013 - 14:32:42 CDT)
- Re: paratool and g09 (Thu May 16 2013 - 09:21:57 CDT)
- Re: hide/display VMD graphics primitives (Fri May 10 2013 - 14:39:14 CDT)
- Re: molinfo top get filename, dialogue vs. "mol new" (Thu May 09 2013 - 09:52:08 CDT)
- Re: Step 6 ffTK ligand calculation. (Mon May 06 2013 - 07:57:36 CDT)
- Re: Question about FFTK charge optimization procedure to CGENFF modeling (Sat May 04 2013 - 09:37:11 CDT)
- Re: Step 6 ffTK ligand calculation. (Sat May 04 2013 - 08:16:36 CDT)
- Re: Step 6 ffTK ligand calculation. (Fri May 03 2013 - 09:04:09 CDT)
- Re: Step 6 ffTK ligand calculation. (Thu May 02 2013 - 13:51:37 CDT)
- Re: FFTK - Step -3 missing log file. (Sun Apr 28 2013 - 11:47:16 CDT)
- Re: How to get improper dihedral list (Sat Apr 27 2013 - 20:34:13 CDT)
- Re: (Wed Apr 24 2013 - 18:02:10 CDT)
- Re: FATAL ERROR: UNKNOWN PARAMETER IN CHARMM PARAMETER FILE toppar_water_ions.str LINE=*set nat ?NATC* (Wed Apr 17 2013 - 22:18:05 CDT)
- Re: FATAL ERROR: UNKNOWN PARAMETER IN CHARMM PARAMETER FILE toppar_water_ions.str LINE=*set nat ?NATC* (Wed Apr 17 2013 - 14:11:45 CDT)
- Re: Is it necessary to set up more than 1 hydrogen bonding for one Acceptor in Water Int. in ffTK (Wed Apr 17 2013 - 13:14:08 CDT)
- Re: Is it necessary to set up more than 1 hydrogen bonding for one Acceptor in Water Int. in ffTK (Wed Apr 17 2013 - 12:51:05 CDT)
- Re: Is it necessary to set up more than 1 hydrogen bonding for one Acceptor in Water Int. in ffTK (Wed Apr 17 2013 - 12:26:35 CDT)
- Re: Is it necessary to set up more than 1 hydrogen bonding for one Acceptor in Water Int. in ffTK (Wed Apr 17 2013 - 09:52:43 CDT)
- Re: Is it necessary to set up more than 1 hydrogen bonding for one Acceptor in Water Int. in ffTK (Wed Apr 17 2013 - 08:00:26 CDT)
- Re: fftk - Opt-charges (Mon Apr 15 2013 - 11:54:54 CDT)
- Re: fftk source code (Wed Apr 10 2013 - 13:14:50 CDT)
- Re: parameters for PE100 chain? (Wed Apr 10 2013 - 12:36:23 CDT)
- Re: Issue in Cal. Bonded and Scan Torsion in fftk (Tue Apr 09 2013 - 13:21:36 CDT)
- Re: FFTK... and now gaussian version or QMtool problem (Thu Mar 28 2013 - 20:52:28 CDT)
- Re: FFTK... and now gaussian version or QMtool problem (Thu Mar 28 2013 - 11:13:33 CDT)
- Re: FFTK Update Parameter File with Optimized Parameters - fails? (Thu Mar 28 2013 - 08:03:11 CDT)
- Re: FFTK Atom types (Wed Mar 27 2013 - 08:24:31 CDT)
- Re: FFTK Atom types (Wed Mar 27 2013 - 08:06:05 CDT)
- Re: Fwd: FFTK plugin, Water Inter issue (Tue Mar 26 2013 - 14:29:29 CDT)
- Re: vmd1.9.2 alpha on windows/Mac (Mon Mar 18 2013 - 09:21:58 CDT)
- Re: vmd1.9.2 alpha on windows/Mac (Fri Mar 15 2013 - 07:46:49 CDT)
- Re: Displaying Flat Cross-Sections Using Surface Representation (Tue Feb 26 2013 - 12:58:11 CST)
- Re: Question regarding dihedral fitting using fftk (Fri Nov 30 2012 - 09:15:08 CST)
- Re: VMD can't display new PDB secondary structure properly (pyMol, jMol can) (Mon Nov 19 2012 - 18:46:09 CST)
- Re: VMD QMTool (Mon Nov 19 2012 - 13:20:06 CST)
- Re: Application Error message during dihedral optimization using FFTK (Fri Oct 19 2012 - 07:34:49 CDT)
- Re: secondary structure calculations (Thu Oct 11 2012 - 19:37:59 CDT)
- Re: Error message -" cannot find NAMD binary files" during parameterization using FFTK plugin. (Thu Oct 11 2012 - 14:55:38 CDT)
- Re: Error message -" cannot find NAMD binary files" during parameterization using FFTK plugin. (Thu Oct 11 2012 - 13:09:21 CDT)
- Re: Script for reading Gaussian 09 MD file? (Wed Oct 10 2012 - 15:57:55 CDT)
- Re: High Bound charge values missing during charge optimization in FFTK (Thu Sep 27 2012 - 11:15:31 CDT)
- Re: Duplicate option in fftk (Thu Sep 13 2012 - 19:58:48 CDT)
- Re: Regarding the latest VMD 1.9.2.alpha builds from BioCoRE (Fri Aug 24 2012 - 08:52:15 CDT)
- Re: Charmm FF parameter file for 2-hydroxypyridine (Tue Jul 24 2012 - 13:52:23 CDT)
- Re: fftk: domain error: argument not in valid range (Tue Jul 10 2012 - 08:57:56 CDT)
- Re: Getting the internal coordinates table (Mon Jun 18 2012 - 22:07:28 CDT)
- Re: namd-l: Re: FFTK VMD plugin issue (arising from VECSCALE TCL issues of either NAMD or VMD ?) (Tue Jun 05 2012 - 13:27:13 CDT)
- Re: Re: FFTK OptCharges (Mon Jun 04 2012 - 13:45:14 CDT)
- Re: FFTK OptCharges (Mon Jun 04 2012 - 09:41:59 CDT)
- Re: FFTK plugin: in which order should the components be run? (Tue May 22 2012 - 11:00:41 CDT)
- Re: Force Field ToolKit - Angles (Mon Apr 30 2012 - 20:15:21 CDT)
- RE: Force Field ToolKit - Angles (Sun Apr 29 2012 - 16:28:16 CDT)
- Re: Force Field Toolkit: scaling, weight etc (Sun Apr 29 2012 - 16:13:30 CDT)
- Re: openGL x,y position (Sun Apr 22 2012 - 22:20:56 CDT)
- Re: openGL x,y position (Sun Apr 22 2012 - 22:08:59 CDT)
- openGL x,y position (Sat Apr 21 2012 - 14:01:51 CDT)
- Re: Force field toolkit (ffTK) - problem of reading Gaussian log file (Sat Mar 10 2012 - 15:44:06 CST)
- Re: About FFTP with transition metal complexes (Sat Feb 18 2012 - 15:39:58 CST)
Mayra Underwood
- The only med1cation for we1ght l0ss that does work (Wed Aug 22 2007 - 13:03:07 CDT)
mbb
- dummy atom ? (Wed Feb 02 2005 - 09:50:21 CST)
- trajectory file with xyz (Wed Oct 20 2004 - 15:56:26 CDT)
mbcx7sa3_at_zedat.fu-berlin.de
- Re: starting tkcon (Wed Mar 21 2012 - 17:34:10 CDT)
- starting tkcon (Wed Mar 21 2012 - 10:17:30 CDT)
mbelkin_at_ks.uiuc.edu
- Re: atoms selection/special characters (Sat Dec 21 2013 - 02:06:47 CST)
- Re: atoms selection/special characters (Sat Dec 21 2013 - 02:06:18 CST)
- Re: atoms selection/special characters (Sat Dec 21 2013 - 02:03:29 CST)
- Re: atoms selection/special characters (Sat Dec 21 2013 - 02:04:07 CST)
mbyr8097_at_mail.usyd.edu.au
- (no subject) (Mon Jan 28 2008 - 19:02:49 CST)
McCullough, Scott
- fftk - MM/QM distances not converging (Sat Jul 22 2017 - 15:36:35 CDT)
- RE: (Sat Jul 22 2017 - 12:14:26 CDT)
Mcguire, Kelly
- VMD ORCA 6 Update (Fri Sep 06 2024 - 17:09:29 CDT)
- Re: FFTK Opt. Torsions End of File Issue (Thu Sep 05 2024 - 11:13:34 CDT)
- Re: FFTK Opt. Torsions End of File Issue (Wed Sep 04 2024 - 10:13:53 CDT)
- FFTK Opt. Torsions End of File Issue (Wed Sep 04 2024 - 00:54:05 CDT)
- FFTK Opt. Torsions End of File Issue (Wed Sep 04 2024 - 00:29:13 CDT)
- FFTK Calc. Bonded ORCA Issue (Sat Aug 31 2024 - 17:54:33 CDT)
- NMWiz Arrow Colors (Thu Mar 21 2024 - 17:50:01 CDT)
- Coarse Grain Setup (Mon Feb 05 2024 - 00:01:55 CST)
- Re: QMMM Update (Sun Oct 23 2022 - 11:53:16 CDT)
- Re: QMMM Update (Fri Oct 21 2022 - 14:45:18 CDT)
- Re: QMMM Update (Fri Oct 21 2022 - 14:42:37 CDT)
- Re: QMMM Update (Fri Oct 21 2022 - 14:42:53 CDT)
- QMMM Update (Fri Oct 21 2022 - 11:36:06 CDT)
- QMMM Update (Fri Oct 21 2022 - 11:41:42 CDT)
- QMMM Update (Thu Oct 20 2022 - 20:29:15 CDT)
- Two Proteins Question (Wed Oct 19 2022 - 16:23:37 CDT)
- Mopac VMD (Sun Oct 09 2022 - 15:13:35 CDT)
- Re: PSF Script (Mon Mar 07 2022 - 13:15:35 CST)
- Re: PSF Script (Mon Mar 07 2022 - 12:23:46 CST)
- PSF Script (Sat Mar 05 2022 - 11:50:08 CST)
- MMPBSA Question (Mon Feb 21 2022 - 15:44:57 CST)
- Re: autopsf question (Sat Feb 05 2022 - 19:22:13 CST)
- autopsf question (Sat Feb 05 2022 - 16:33:09 CST)
- Voltool Averaging Maps (Fri Aug 13 2021 - 19:23:36 CDT)
- Protein Alignment Question (Wed Aug 11 2021 - 01:09:13 CDT)
- Re: Tcl Scripting Question (Tue May 04 2021 - 15:53:02 CDT)
- Tcl Scripting Question (Tue May 04 2021 - 12:45:55 CDT)
- Visual Help (Sun Apr 11 2021 - 20:38:48 CDT)
- PBC Shift Center (Sun Mar 07 2021 - 14:31:30 CST)
- Reduce Waterbox Dimensions Post Simulation (Mon Mar 01 2021 - 18:13:04 CST)
- PDB Format (Thu Dec 17 2020 - 18:52:37 CST)
- Re: PBC Wrapping (Sun Oct 25 2020 - 20:34:15 CDT)
- Re: PBC Wrapping (Fri Oct 23 2020 - 03:33:17 CDT)
- Ospray vs Optix (Fri Oct 23 2020 - 03:27:11 CDT)
- PBC Wrapping (Thu Oct 22 2020 - 16:06:22 CDT)
- Re: How to add ions to a system with non-water solvents (Thu May 09 2019 - 23:44:19 CDT)
- Re: Bugs and Questions (Thu Apr 25 2019 - 14:10:36 CDT)
- Re: Bugs and Questions (Thu Apr 25 2019 - 14:15:36 CDT)
- Re: Bugs and Questions (Thu Apr 25 2019 - 14:25:02 CDT)
- Questions and Bugs (Thu Apr 25 2019 - 10:22:33 CDT)
- Bugs and Questions (Thu Apr 25 2019 - 10:14:02 CDT)
- Re: File Format (Wed Apr 10 2019 - 17:25:55 CDT)
- Re: File Format (Wed Apr 10 2019 - 16:41:34 CDT)
- Re: File Format (Wed Apr 10 2019 - 16:21:43 CDT)
- File Format (Wed Apr 10 2019 - 15:15:17 CDT)
- Re: Re: VMD OrcaPlugin Bug (Sat Mar 30 2019 - 01:50:26 CDT)
- Re: FFTK Water Interaction (Fri Mar 29 2019 - 00:48:51 CDT)
- Re: FFTK Water Interaction (Thu Mar 28 2019 - 15:30:56 CDT)
- FFTK Water Interaction (Wed Mar 27 2019 - 23:57:34 CDT)
- Re: Visualization Question (Tue Mar 26 2019 - 10:15:25 CDT)
- Visualization Question (Mon Mar 25 2019 - 19:05:45 CDT)
- ORCA Plugin (Sat Mar 23 2019 - 23:03:50 CDT)
- Re: VMD OrcaPlugin Bug (Thu Mar 21 2019 - 17:34:38 CDT)
- Re: VMD OrcaPlugin Bug (Thu Mar 21 2019 - 14:09:08 CDT)
- VMD OrcaPlugin Bug (Thu Mar 21 2019 - 13:49:29 CDT)
- Re: ORCA Orbital Bug (Tue Mar 19 2019 - 12:43:30 CDT)
- Re: ORCA Orbital Bug (Tue Mar 19 2019 - 12:31:43 CDT)
- Re: ORCA Orbital Bug (Tue Mar 19 2019 - 12:40:34 CDT)
- Re: ORCA Orbital Bug (Sun Mar 17 2019 - 19:58:46 CDT)
- Re: ORCA Orbital Bug (Sat Mar 16 2019 - 18:34:51 CDT)
- ORCA Orbital Bug (Fri Mar 15 2019 - 11:02:30 CDT)
- VMD Multiprocessing (Sun Mar 10 2019 - 17:55:43 CDT)
- Re: RE: VMD Text Mode (Thu Mar 07 2019 - 23:38:20 CST)
- Re: Re: VMD Text Mode (Thu Mar 07 2019 - 21:13:36 CST)
- Re: VMD Text Mode (Thu Mar 07 2019 - 19:12:34 CST)
- VMD Text Mode (Thu Mar 07 2019 - 18:02:28 CST)
- Re: Re: FFTK Possible Bug (Sun Mar 03 2019 - 01:29:37 CST)
- Re: FFTK Possible Bug (Sat Mar 02 2019 - 20:55:31 CST)
- Re: FFTK Possible Bug (Sat Mar 02 2019 - 22:00:33 CST)
- FFTK Possible Bug (Sat Mar 02 2019 - 20:28:38 CST)
- Re: TCL For Loop Problem (Sun Feb 24 2019 - 22:25:03 CST)
- TCL For Loop Problem (Sun Feb 24 2019 - 21:47:16 CST)
- Re: Possible Bug (Sat Feb 23 2019 - 23:19:28 CST)
- Possible Bug (Sat Feb 23 2019 - 00:32:30 CST)
- Re: Concatenate Outputs (Sat Nov 10 2018 - 14:52:45 CST)
- Concatenate Outputs (Fri Nov 09 2018 - 14:12:21 CST)
- Question (Sun Nov 04 2018 - 17:16:27 CST)
- Re: Dynamic Bonds Question (Wed Oct 31 2018 - 14:52:09 CDT)
- Re: Dynamic Bonds Question (Wed Oct 31 2018 - 13:46:04 CDT)
- Dynamic Bonds Question (Wed Oct 31 2018 - 12:58:01 CDT)
- Measure Center Question (Sat Oct 20 2018 - 18:20:57 CDT)
- Re: VMD Tk Console Columns (Thu Oct 11 2018 - 14:05:56 CDT)
- Re: VMD Tk Console Columns (Wed Oct 10 2018 - 19:14:04 CDT)
- VMD Tk Console Columns (Wed Oct 10 2018 - 14:26:18 CDT)
- Updates (Sun Aug 05 2018 - 14:06:26 CDT)
- Re: VR (Tue Jul 31 2018 - 21:00:49 CDT)
- Re: VR (Tue Jul 31 2018 - 15:40:27 CDT)
- Re: VR (Tue Jul 31 2018 - 14:06:36 CDT)
- VR (Mon Jul 30 2018 - 19:38:07 CDT)
- Re: New Cartoon and Simulation Question (Wed Jul 18 2018 - 20:22:06 CDT)
- Re: New Cartoon and Simulation Question (Wed Jul 18 2018 - 20:23:03 CDT)
- New Cartoon and Simulation Question (Wed Jul 18 2018 - 19:18:34 CDT)
- Dowser Availability (Mon Jul 16 2018 - 14:54:05 CDT)
- Merge Structures Bug (Fri Jul 06 2018 - 16:34:43 CDT)
- Membrane Protein Tutorial Bug (Thu Jul 05 2018 - 10:24:41 CDT)
- Re: Re: namd-l: Strange Bond Behavior Question (Fri Jun 22 2018 - 21:27:04 CDT)
- Re: namd-l: Strange Bond Behavior Question (Fri Jun 22 2018 - 16:52:49 CDT)
- Re: namd-l: Strange Bond Behavior Question (Fri Jun 22 2018 - 16:17:28 CDT)
- Strange Bond Behavior Question (Fri Jun 22 2018 - 15:42:20 CDT)
- Re: QwikMD Restraints Question (Wed Jun 20 2018 - 18:07:50 CDT)
- QwikMD Restraints Question (Wed Jun 20 2018 - 17:37:28 CDT)
- Re: VMD Update Questions (Mon Jun 11 2018 - 15:07:12 CDT)
- Re: VMD Update Questions (Mon Jun 11 2018 - 14:48:55 CDT)
- Re: VMD Update Questions (Mon Jun 11 2018 - 12:05:08 CDT)
- VMD Update Questions (Tue Jun 05 2018 - 12:11:42 CDT)
- Re: PMF Question (Mon Jun 04 2018 - 09:35:28 CDT)
- PMF Question (Thu May 31 2018 - 13:39:07 CDT)
- ABF lowerboundary upperboundary (Tue May 29 2018 - 13:54:39 CDT)
- ABF Question (Sat May 26 2018 - 13:44:20 CDT)
- Re: ABF Calculations Question 1 (Fri May 25 2018 - 19:22:03 CDT)
- Re: ABF Calculations Question 1 (Fri May 25 2018 - 10:30:48 CDT)
- ABF Calculations Question 1 (Thu May 24 2018 - 12:10:34 CDT)
- Re: Scan Torsions (Wed May 23 2018 - 21:19:54 CDT)
- Scan Torsions (Wed May 23 2018 - 13:28:01 CDT)
- Re: Re: FFTK Tutorial Charge Opt Question (Mon May 21 2018 - 12:44:05 CDT)
- Re: Re: FFTK Tutorial Charge Opt Question (Mon May 21 2018 - 11:11:40 CDT)
- Re: FFTK Tutorial Charge Opt Question (Sat May 19 2018 - 21:31:37 CDT)
- Re: FFTK Tutorial Charge Opt Question (Sat May 19 2018 - 14:21:07 CDT)
- FFTK Tutorial Charge Opt Question (Fri May 18 2018 - 23:59:48 CDT)
- Re: FFTK Charge Optimization (Fri May 18 2018 - 13:36:22 CDT)
- FFTK Charge Optimization (Fri May 18 2018 - 11:58:14 CDT)
- QwikMD Add Topo+Param Question (Thu May 17 2018 - 12:40:08 CDT)
- Re: Coloring Scheme Spectrum (Mon May 07 2018 - 11:57:26 CDT)
- Re: Coloring Scheme Spectrum (Mon May 07 2018 - 09:47:44 CDT)
- Re: Coloring Scheme Spectrum (Sun May 06 2018 - 23:34:32 CDT)
- Coloring Scheme Spectrum (Sat May 05 2018 - 09:49:09 CDT)
- RMSD Question (Fri May 04 2018 - 17:47:31 CDT)
- Re: CellPack (Fri May 04 2018 - 11:06:12 CDT)
- Re: CellPack (Thu May 03 2018 - 20:41:58 CDT)
- Re: CellPack (Thu May 03 2018 - 20:11:39 CDT)
- Re: CellPack (Thu May 03 2018 - 18:53:18 CDT)
- Re: CellPack (Thu May 03 2018 - 11:20:26 CDT)
- CellPack (Wed May 02 2018 - 23:03:31 CDT)
- Re: DCD Question (Sun Apr 29 2018 - 20:31:18 CDT)
- DCD Question (Sun Apr 29 2018 - 16:45:35 CDT)
- Waters per residue in ion channel (Sat Apr 28 2018 - 18:26:48 CDT)
- Re: Measure Distance Script Question (Fri Apr 27 2018 - 09:08:41 CDT)
- Measure Distance Script Question (Thu Apr 26 2018 - 23:27:47 CDT)
- MOPAC Orbitals (Tue Apr 24 2018 - 12:13:29 CDT)
- Re: PDB Question (Mon Apr 23 2018 - 12:05:44 CDT)
- PDB Question (Sun Apr 22 2018 - 18:40:00 CDT)
- Re: VMD Install Question (Fri Apr 20 2018 - 14:06:13 CDT)
- VMD Install Question (Fri Apr 20 2018 - 13:24:08 CDT)
- VMD 1.9.4 Linux (Fri Apr 20 2018 - 10:57:29 CDT)
- Re: Smoothing (Thu Apr 19 2018 - 17:48:05 CDT)
- Smoothing (Thu Apr 19 2018 - 16:12:01 CDT)
- NAMD Color By Velocity (Tue Apr 17 2018 - 13:28:19 CDT)
Mckellan S Gonzales
- FEP simulation analysis error (Thu Aug 20 2020 - 11:49:03 CDT)
McNutt, Nick
- VMD with Cuda 6.5, Mac OS X 10.10 (Mon Oct 27 2014 - 17:14:25 CDT)
MD Simulation
- Fragment search method (Wed Feb 19 2025 - 05:49:03 CST)
- Re: Dynamic bonds across PBC (Sat Nov 27 2021 - 07:46:25 CST)
- Dynamic bonds across PBC (Sat Nov 27 2021 - 07:01:37 CST)
- Re: topotools lammps style sphere - write molecules (Mon Jun 14 2021 - 10:57:10 CDT)
- Re: topotools lammps style sphere - write molecules (Mon Jun 14 2021 - 10:54:16 CDT)
- topotools lammps style sphere - write molecules (Mon Jun 14 2021 - 10:05:35 CDT)
- pbwithin a defined coordinate (Tue Mar 30 2021 - 08:48:51 CDT)
- Re: Visualizing Vibrational Modes (Tue Jun 09 2020 - 17:47:15 CDT)
- Visualizing Vibrational Modes (Tue Jun 09 2020 - 16:43:38 CDT)
- measure gofr non-orthogonal (Wed May 27 2020 - 19:40:26 CDT)
- Get atoms in each ring (Mon May 25 2020 - 11:31:12 CDT)
- volmap to find free volume (Fri Nov 08 2019 - 14:57:35 CST)
- Get number of fragments (Mon May 27 2019 - 05:57:25 CDT)
- Source code for ringsize? (Fri Mar 15 2019 - 14:30:07 CDT)
- mol representation Isosurface - Parameters? (Fri Nov 30 2018 - 06:36:17 CST)
- Exocyclic dihedral (Mon Nov 20 2017 - 12:13:22 CST)
- Atoms in rings (Fri Oct 27 2017 - 09:31:41 CDT)
- Re: Get empirical formula of fragment (Mon Jul 03 2017 - 14:27:23 CDT)
- Get empirical formula of fragment (Sat Jul 01 2017 - 20:12:31 CDT)
- Fragment determination (Sat Jul 01 2017 - 11:19:01 CDT)
- dynamic bond making/breaking formats (Fri Jun 30 2017 - 17:11:24 CDT)
mdcooper
- RE: measure fit error?? (Fri Oct 08 2004 - 17:35:37 CDT)
- PSFGEN problem (Fri Oct 08 2004 - 15:54:58 CDT)
- quitting VMD (Thu Sep 23 2004 - 12:55:09 CDT)
- (no subject) (Mon Sep 20 2004 - 13:14:02 CDT)
Meander Myself
- Using "orient" - Vectors reversing direction? (Thu Nov 20 2014 - 09:26:27 CST)
- Syntax of the "within [distance] of" command (Wed Oct 22 2014 - 13:01:55 CDT)
- Selecting one half of a residue based CG lipid bilayer (Thu Oct 16 2014 - 21:01:58 CDT)
Mehdi Bagherpour
- creating the center of mass pdb file (Tue Feb 28 2017 - 13:22:23 CST)
- How to choose CVs along DNA axis? (Mon Feb 13 2017 - 11:32:53 CST)
- Finding RMSD of atoms (Fri Jul 10 2015 - 12:41:25 CDT)
- Finding RMSD of atoms (Fri Jul 10 2015 - 11:49:16 CDT)
- minimum value of index numbers (Tue Jun 16 2015 - 11:01:18 CDT)
- problem with output format (Thu Jun 11 2015 - 05:56:18 CDT)
- finding distance of atoms (Wed Jun 10 2015 - 12:12:36 CDT)
- Fwd: How find water mediated hydrogen bond (Wed Dec 10 2014 - 16:33:25 CST)
- How find water mediated hydrogen bond (Wed Dec 10 2014 - 09:40:58 CST)
Mehdi Bakhshi
- Re: segmentation fault error when trying to add bonds to Si3N4 crystal in vmd (Mon Nov 18 2013 - 15:00:54 CST)
- segmentation fault error when trying to add bonds to Si3N4 crystal in vmd (Sat Nov 16 2013 - 23:37:46 CST)
Mehdi Eftekhari
- Re: Changing the Font size of the XYZ Logo (Fri Apr 11 2014 - 12:00:25 CDT)
- Changing the Font size of the XYZ Logo (Fri Apr 11 2014 - 10:48:37 CDT)
- hiding or disabling some of the atom types (Wed Apr 09 2014 - 15:45:31 CDT)
Mehta, Rushita
- RDFs Calculation incorporating PBC (Mon Jan 23 2017 - 05:58:53 CST)
Meij, Henk
- FW: VMD & OpenGL GLX Extension (Mon Oct 22 2007 - 14:55:42 CDT)
meisam valizadeh kiamahalleh
- Re: how to calculate water density in the 'hole'? (Thu Jun 28 2012 - 05:38:45 CDT)
- Free software for building peptide (Wed May 02 2012 - 01:34:20 CDT)
- Uniform Distribution of drug molecules in water (Wed Oct 12 2011 - 09:35:03 CDT)
- Showing and Calculating the amount of water molecules inside carbon nanotube (Tue Sep 13 2011 - 22:23:13 CDT)
- Showing and Calculating the amount of water molecules inside carbon nanotube (Mon Sep 12 2011 - 22:18:48 CDT)
MeiShan Lin
- missing terminal residues while generating side chain atoms by psfgen (Wed Aug 01 2012 - 13:36:51 CDT)
Mel Weston
- Join tens of thousands of LUCKY winners today........ (Thu Apr 10 2008 - 05:48:03 CDT)
Melanie Mcmahon
- Get one of these awesome replicas (Fri May 02 2008 - 01:05:03 CDT)
melika_ bm85
- Re: calculate g(r) (Sun Oct 15 2017 - 09:29:56 CDT)
- Re: calculate g(r) (Sun Oct 15 2017 - 07:36:10 CDT)
- calculate g(r) (Sun Oct 15 2017 - 05:49:12 CDT)
melis.yildirim_at_boun.edu.tr
- unusual bond warning during psf building (Mon Jul 22 2013 - 09:19:51 CDT)
- simulating proteins with missing resdiues (Fri Jul 19 2013 - 11:01:49 CDT)
- autoionization error in VMD (Fri Jul 12 2013 - 03:21:25 CDT)
Melquiond
- Re: secondary structure assignment (Mon Jul 17 2006 - 12:59:39 CDT)
- Re: secondary structure assignment (Mon Jul 17 2006 - 09:23:03 CDT)
- secondary structure assignment (Sun May 14 2006 - 15:34:43 CDT)
Melvyn Drag
- tcl plugins (Sat Jul 18 2015 - 20:20:22 CDT)
Mengjuei Hsieh
- Re: VMD 1.8.7 CUDA on Mac OS X 10.6.1 (Mon Oct 12 2009 - 19:23:08 CDT)
- VMD 1.8.7 CUDA on Mac OS X 10.6.1 (Sat Oct 10 2009 - 18:23:52 CDT)
- Re: Delphi binary phi map problem (Mon Dec 05 2005 - 19:59:12 CST)
- Re: Delphi binary phi map problem (Fri Dec 02 2005 - 18:11:30 CST)
- Delphi binary phi map problem (Thu Dec 01 2005 - 17:10:03 CST)
- Re: AMBER pbsa electrostatic potential map (Tue Apr 19 2005 - 18:05:49 CDT)
- AMBER pbsa electrostatic potential map (Fri Apr 15 2005 - 20:09:09 CDT)
- Re: movies on mac os x (panther) (Mon May 24 2004 - 18:23:44 CDT)
- Re: Announce: VMD 1.8.1 released!! (Sun Jun 15 2003 - 22:47:23 CDT)
- Temperature/Beta factor coloring (Tue May 20 2003 - 02:00:26 CDT)
- FYI: (for OSX version) a document about shell script and applescript (Tue Jan 28 2003 - 17:13:41 CST)
- Re: Stereo VMD (Thu Dec 26 2002 - 03:26:35 CST)
- Re: A very minor question on the MacOS X native bundle version (Wed Nov 27 2002 - 01:28:08 CST)
- Re: New AMBER 7 file reader plugin, testers needed :-) (Fri Nov 22 2002 - 19:58:10 CST)
- A very minor question on the MacOS X native bundle version (Fri Nov 22 2002 - 19:53:57 CST)
- Re: AMBER6 format (Tue Nov 19 2002 - 16:02:55 CST)
- Re: vmd runs slowly on vmware (Mon Nov 04 2002 - 18:51:35 CST)
- Re: AMBER6 format (Mon Nov 04 2002 - 17:22:44 CST)
- AMBER6 format (Mon Nov 04 2002 - 14:39:52 CST)
- Re: VMD 1.8a28 bundle for MacOS X 10.2 available... (Fri Sep 27 2002 - 04:18:46 CDT)
- Re: [Contribute] transparent MacOS X icon for VMD (Fri Aug 16 2002 - 20:54:41 CDT)
- [Contribute] transparent MacOS X icon for VMD (Wed Aug 14 2002 - 19:15:49 CDT)
- Re: vmd on mac 9.1 (Tue Jul 16 2002 - 15:56:54 CDT)
- Re: Not able to read a restart file from AMBER (Mon Jul 15 2002 - 15:48:53 CDT)
- Re: MacOS X VMD 1.8 alpha 16 "bundle" test version... (Wed Jul 03 2002 - 17:22:36 CDT)
- VMD 1.8 alpha 16 MacOSX depends on xterm (Mon Jul 01 2002 - 14:34:29 CDT)
menica dibenedetto
- package MDEnergy (Tue Dec 13 2011 - 12:13:02 CST)
- tcl script (Wed Mar 09 2011 - 08:32:25 CST)
- Fwd: scripts CGTools (Fri Feb 18 2011 - 06:39:29 CST)
- scripts CGTools (Fri Feb 18 2011 - 05:11:05 CST)
Mensur
- VMD & PoV files (Mon Oct 06 1997 - 19:34:47 CDT)
Mercer, Brian S.
- RE: Visualizing and counting broken bonds in VMD (Mon Jun 22 2015 - 10:14:28 CDT)
- RE: Visualizing and counting broken bonds in VMD (Fri Jun 19 2015 - 15:53:28 CDT)
- Visualizing and counting broken bonds in VMD (Fri Jun 19 2015 - 13:43:41 CDT)
MERIC AYSE OVACIK
- linux installation (Wed Nov 03 2004 - 03:57:20 CST)
- dihedral angles at the ends (Sat Oct 02 2004 - 06:42:20 CDT)
Mert Gür
- Re: vmd-I: remove water, protein from a dcd (Thu Mar 28 2013 - 20:50:23 CDT)
- Re: vmd-I: remove water, protein from a dcd (Thu Mar 28 2013 - 18:27:13 CDT)
- Re: Aminoacid selection (Sun Mar 24 2013 - 17:54:42 CDT)
- Re: (Tue Nov 27 2012 - 16:13:21 CST)
- Re: How can I draw secondary structures if I only have the carbon alpha coordinates (Thu Aug 18 2011 - 12:20:30 CDT)
- How can I draw secondary structures if I only have the carbon alpha coordinates (Thu Aug 18 2011 - 10:01:00 CDT)
- Re: RSMD of coarse grained molecules (Mon Aug 16 2010 - 13:58:02 CDT)
- Re: NAMD energy plugin (Thu Aug 05 2010 - 08:51:04 CDT)
- Re: Change only the CA coordinates in a pdb file via tcl (Mon Jun 14 2010 - 16:24:44 CDT)
- Change only the CA coordinates in a pdb file via tcl (Mon Jun 14 2010 - 14:26:14 CDT)
- Re: Number of Hydrogen Bonds among Water an Protein (Tue Jan 26 2010 - 15:31:45 CST)
- Re: Number of Hydrogen Bonds among Water an Protein (Mon Jan 25 2010 - 07:50:25 CST)
- Re: Number of Hydrogen Bonds among Water an Protein (Sun Jan 24 2010 - 14:25:52 CST)
- Re: Number of Hydrogen Bonds among Water an Protein (Sun Jan 24 2010 - 14:00:32 CST)
- Number of Hydrogen Bonds among Water an Protein (Sun Jan 24 2010 - 13:17:09 CST)
Meunier, Vincent
- psfgen and DNA (Wed Jul 06 2005 - 20:46:39 CDT)
Meyer, Douglas K $UMC-Student$
- Basic membrane plugin questions (Fri Apr 15 2005 - 11:20:56 CDT)
Meyer-Almes, Franz-Josef, Prof. Dr.
- Memory used by VMD is much less than installed (Wed Mar 07 2012 - 05:03:08 CST)
- Visualization problem with aromatic bromo atom? (Sun Sep 12 2010 - 13:18:46 CDT)
mfeiglab_at_gmail.com
- RE: STRIDE issues on Windows (Wed Apr 29 2020 - 10:45:52 CDT)
- RE: STRIDE issues on Windows (Wed Apr 29 2020 - 10:08:18 CDT)
- RE: STRIDE issues on Windows (Wed Apr 29 2020 - 08:58:38 CDT)
- STRIDE issues on Windows (Mon Apr 27 2020 - 12:51:01 CDT)
Mgr. Lubos Vrbka
- Re: water selection (Thu Jul 13 2006 - 07:37:58 CDT)
- Re: reading DLPoly VMD 1.8.4 (Sat May 20 2006 - 04:24:10 CDT)
- Re: reading DLPoly VMD 1.8.4 (Thu May 18 2006 - 14:40:41 CDT)
- Re: How to select water near a certain residue if it is outside of the water box? (Wed May 10 2006 - 05:52:32 CDT)
- Re: dlpoly history files in vmd 1.8.4 (Fri May 05 2006 - 00:48:51 CDT)
- Re: dlpoly history files in vmd 1.8.4 (Thu May 04 2006 - 01:09:54 CDT)
- Re: dlpoly history files in vmd 1.8.4 (Wed May 03 2006 - 14:24:57 CDT)
- dlpoly history files in vmd 1.8.4 (Wed May 03 2006 - 02:26:50 CDT)
- Re: coloring trajectory depending on coordination number (Thu Apr 27 2006 - 05:06:46 CDT)
- Re: tcl question (Wed Apr 26 2006 - 06:29:48 CDT)
- tcl question (Tue Apr 25 2006 - 03:31:16 CDT)
- Re: vmd 1.8a21 (Sun Apr 16 2006 - 15:31:57 CDT)
- strange vdw representation behavior (Wed Mar 29 2006 - 14:08:57 CST)
- Re: Q:selection of atoms on the surface of a molecule (Wed Mar 01 2006 - 00:44:11 CST)
- Re: Problem installation on RedHat (Tue Feb 21 2006 - 00:43:11 CST)
- Re: creating periodic images of an atom (Mon Jan 23 2006 - 08:22:43 CST)
- Re: measure hbonds question (Fri Jan 20 2006 - 16:05:16 CST)
- Re: measure hbonds question (Fri Jan 20 2006 - 15:19:54 CST)
- Re: creating periodic images of an atom (Thu Jan 19 2006 - 01:58:15 CST)
- measure hbonds question (Wed Jan 18 2006 - 10:13:29 CST)
- creating periodic images of an atom (Wed Jan 18 2006 - 08:08:41 CST)
- Re: coloring trajectory depending on coordination number (Sun Dec 18 2005 - 08:24:02 CST)
- coloring trajectory depending on coordination number (Fri Dec 09 2005 - 10:41:37 CST)
- Re: PBC and H-bond detection (Fri Dec 09 2005 - 01:51:37 CST)
- Re: PBC and H-bond detection (Fri Dec 09 2005 - 01:32:31 CST)
- Re: Video Card (Wed Nov 30 2005 - 01:12:51 CST)
- wrapping and extra points in gromacs trajectories (Thu Aug 04 2005 - 10:59:44 CDT)
- Re: SAS values for a residue (Thu Jul 28 2005 - 05:00:35 CDT)
- plugins compilation problem - gcc switches (Wed May 25 2005 - 09:19:25 CDT)
- Re: compressed trajectory support (Tue Apr 19 2005 - 01:04:57 CDT)
- Re: compressed trajectory support (Mon Apr 18 2005 - 10:48:02 CDT)
- Re: compressed trajectory support (Mon Apr 18 2005 - 10:08:41 CDT)
- Re: compressed trajectory support (Mon Apr 18 2005 - 09:46:40 CDT)
- compressed trajectory support (Mon Apr 18 2005 - 07:13:10 CDT)
- Re: dihedral & g(r) (Wed Apr 13 2005 - 00:52:34 CDT)
- Re: prefferential adsorption analysis (Fri Mar 04 2005 - 01:12:12 CST)
- Re: prefferential adsorption analysis (Wed Mar 02 2005 - 12:09:43 CST)
- Re: surface residues of protein (Tue Mar 01 2005 - 05:35:26 CST)
- Re: surface residues of protein (Mon Feb 28 2005 - 11:06:05 CST)
- surface residues of protein (Mon Feb 28 2005 - 07:42:52 CST)
- Re: PBC atom selection and contacts (Wed Feb 16 2005 - 09:32:53 CST)
- PBC atom selection and contacts (Mon Feb 14 2005 - 10:29:45 CST)
Mi Yang
- Re: namd-l: RMSD and RMSF of ligand Only (Thu Oct 28 2021 - 08:35:40 CDT)
- RMSD and RMSF of ligand Only (Thu Oct 28 2021 - 04:48:37 CDT)
- Script for contact Vs Freq (Thu Oct 21 2021 - 12:41:06 CDT)
- contactvFreq TCL script not running (Wed Oct 20 2021 - 00:57:01 CDT)
- /usr/local/lib/vmd/vmd_LINUXAMD64: error while loading shared libraries: libOpenGL.so.0: (Mon Jan 04 2021 - 08:40:42 CST)
- RMSF Trajectory extraction script (Tue Dec 08 2020 - 05:39:33 CST)
- VMD crash due to large volume of .dcd file (Sat Nov 28 2020 - 13:49:16 CST)
Micah Watson
- Re: Opening file after i downloaded vmd (Wed Jul 17 2024 - 12:14:41 CDT)
- Opening file after i downloaded vmd (Tue Jul 16 2024 - 20:33:06 CDT)
Michael Bielecki
- Re: building VMD with Ubuntu 18.04 (Mon Aug 03 2020 - 12:33:46 CDT)
Michael Chen
- Inserting missing residues (Sat Jun 12 2004 - 16:49:35 CDT)
Michael Daily
- changing origin of rotation (NOT center of mass) (Fri Aug 19 2011 - 13:41:06 CDT)
Michael Di Domenico
- Re: GPU test machine (Fri Mar 21 2008 - 14:46:37 CDT)
- Re: GPU test machine (Thu Mar 20 2008 - 18:42:50 CDT)
- Re: GPU test machine (Thu Mar 20 2008 - 15:29:41 CDT)
- GPU test machine (Thu Mar 20 2008 - 11:04:59 CDT)
Michael Doig
- Using topotools with no VMD display (Tue May 12 2015 - 07:35:33 CDT)
- Re: Creating multiple views from same trajectory file for movie generation (Fri Oct 03 2014 - 05:45:02 CDT)
- Creating multiple views from same trajectory file for movie generation (Wed Oct 01 2014 - 07:25:04 CDT)
- Colouring by velocity component in VMD (Mon Oct 29 2012 - 05:20:27 CDT)
- Re: Topotools - limit to size of system it can be used for? (Wed Feb 15 2012 - 04:21:28 CST)
- Re: Topotools - limit to size of system it can be used for? (Tue Jan 24 2012 - 10:13:24 CST)
- Re: Topotools - limit to size of system it can be used for? (Tue Jan 24 2012 - 09:55:23 CST)
- Re: Topotools - limit to size of system it can be used for? (Tue Jan 24 2012 - 08:00:46 CST)
- Topotools - limit to size of system it can be used for? (Tue Jan 24 2012 - 05:48:04 CST)
- Re: Spaceball navigator - making movies (Wed Aug 17 2011 - 03:58:38 CDT)
- Spaceball navigator - making movies (Tue Aug 16 2011 - 06:16:42 CDT)
- topotools and Partial charges (Wed Jun 09 2010 - 05:25:25 CDT)
Michael F. Harrach
- Re: impropers dropped when using psfgen (Mon Mar 24 2014 - 03:48:36 CDT)
- impropers dropped when using psfgen (Fri Mar 21 2014 - 11:36:31 CDT)
Michael Feig
- VMD 1.8.2 and 1.8.3 fail on MacOS X after upgrade to 10.3.8 (Wed Mar 02 2005 - 09:12:52 CST)
Michael Galloway
- Re: vmd/vista32b/zalman M220 stereo? (Mon Jun 23 2008 - 10:17:32 CDT)
- vmd/vista32b/zalman M220 stereo? (Fri Jun 20 2008 - 16:03:46 CDT)
- Re: linux graphics adapters? (Thu Jul 13 2000 - 12:36:28 CDT)
- linux graphics adapters? (Thu Jul 13 2000 - 06:57:25 CDT)
Michael Gecht
- Re: New VMD 1.9.4 test versions posted with many new updates/features... (Fri Jul 19 2019 - 04:11:33 CDT)
Michael Geoffrey Klein
- Re: External renderer not rendering colors from volumetric data (Wed Mar 25 2009 - 09:35:25 CDT)
Michael K. Gilson
- Re: 3D pdf problem (Mon Aug 31 2009 - 16:22:55 CDT)
- Re: 3D pdf problem (Mon Aug 31 2009 - 14:36:49 CDT)
- 3D pdf problem (Mon Aug 31 2009 - 06:24:06 CDT)
Michael Klein
- loosing color when rendering molecular surface in VMD (Wed Jan 14 2009 - 20:17:23 CST)
Michael Krause
- Re: VMD and FreeVR (Fri Sep 12 2014 - 02:40:13 CDT)
- VMD and FreeVR (Fri Aug 29 2014 - 08:43:46 CDT)
Michael Kreim
- error using Molecule.save() (vmd python) (Tue Jul 21 2009 - 06:49:44 CDT)
- Re: error after changing of PYTHONPATH variable (Fri Jul 17 2009 - 08:51:46 CDT)
- error after changing of PYTHONPATH variable (Fri Jul 17 2009 - 07:12:52 CDT)
- Re: sys.argv, python and VMD (Fri Apr 24 2009 - 08:43:13 CDT)
- sys.argv, python and VMD (Wed Apr 22 2009 - 03:50:59 CDT)
- Re: updating DCD frames in python (Thu Jan 15 2009 - 03:30:55 CST)
- updating DCD frames in python (Wed Jan 14 2009 - 09:55:06 CST)
- running vmd in parallel (Wed Mar 05 2008 - 11:13:10 CST)
Michael Lamparski
- How to populate lib/ directory when compiling (Fri Apr 03 2015 - 15:48:15 CDT)
Michael Lerner
- Re: Python on Intel Mac? (Thu Oct 12 2006 - 17:15:53 CDT)
- Python on Intel Mac? (Thu Oct 12 2006 - 13:25:01 CDT)
Michael LeVine
- Electrostatic interaction calculations using the NAMD Energy Plugin and PME (Tue Sep 12 2017 - 09:37:30 CDT)
- DCD is not detected as protein but single pdbs are? (Wed Jan 15 2014 - 19:45:48 CST)
- Installing CATDCD on a Mac (Fri Oct 28 2011 - 14:55:14 CDT)
- Selecting Atoms within a Volume, Manipulating Volumetric Data (Sun Oct 23 2011 - 14:24:20 CDT)
- Re: How to select whole residues when at least one atom is within a specific distance (Thu Oct 13 2011 - 16:57:26 CDT)
- How to select whole residues when at least one atom is within a specific distance (Thu Oct 13 2011 - 12:48:43 CDT)
- Max Characters in Writing Files (Wed Nov 17 2010 - 15:36:49 CST)
- Invalid command name "His" during Solvation (Thu Jun 17 2010 - 09:10:52 CDT)
Michael Morgan
- different RMSD number in VMD and charmm (Fri Aug 14 2020 - 17:31:09 CDT)
- vmd console linux shell mode (Wed May 13 2020 - 20:52:04 CDT)
- correct "origin" in VMD (Mon Sep 16 2019 - 16:44:47 CDT)
- is VMD portable? (Wed Apr 03 2019 - 21:04:17 CDT)
Michael Morin
- Colvars module doesn't work (Fri Jan 26 2018 - 14:11:29 CST)
Michael Murray
- Re: vmdmovie problem (Thu Aug 01 2002 - 23:52:26 CDT)
Michael Mwalaba
- Installing vmd-1.8.7 on LINUXAMD64 (Tue Dec 21 2010 - 08:01:18 CST)
Michael Patzschke
- Re: Mac issue (Sat Apr 11 2015 - 07:52:35 CDT)
- Re: Mac issue (Fri Feb 13 2015 - 21:02:28 CST)
- Re: Mac issue (Thu Feb 12 2015 - 10:48:30 CST)
- Mac issue (Thu Feb 12 2015 - 09:08:12 CST)
Michael Radermacher
- how can I read volume data in spider-format (Thu May 12 2005 - 19:50:10 CDT)
Michael Redmond
- Re: Some comments about stereo with nvidia cards & shutter glasses (Tue Apr 22 2003 - 17:15:22 CDT)
- Re: Wait command in Win2000 (Fri Apr 11 2003 - 16:28:43 CDT)
- Wait command in Win2000 (Fri Apr 11 2003 - 15:43:13 CDT)
- Re: Stereo mode on NVidia/Win2000 (Fri Jan 24 2003 - 14:43:16 CST)
- RE: Stereo mode on NVidia/Win2000 (Fri Jan 24 2003 - 13:54:26 CST)
- Stereo mode on NVidia/Win2000 (Fri Jan 24 2003 - 09:29:55 CST)
Michael Robbert
- IMD interface for VASP (Mon Jul 20 2009 - 17:54:36 CDT)
Michael Robinson
- Re: Ramachandran Dihedral Angles Suspiciously Constant (Mon Sep 26 2022 - 08:53:11 CDT)
- Re: Ramachandran Dihedral Angles Suspiciously Constant (Sun Sep 25 2022 - 23:58:49 CDT)
- Re: L-DOPA and non-natural amino acids incorporation (Mon Dec 06 2021 - 05:41:07 CST)
- Re: How can I incorporate non-natural amino acids into proteins? (Tue Nov 30 2021 - 21:52:27 CST)
- Re: How can I incorporate non-natural amino acids into proteins? (Tue Nov 30 2021 - 21:45:06 CST)
- Re: FATAL ERROR: UNABLE TO FIND BOND PARAMETERS FOR CD2R6A LPA1 (Sun Aug 15 2021 - 22:55:51 CDT)
- Re: Custom residue in mutate psfgen (Tue Mar 02 2021 - 05:53:35 CST)
- Re: Restraining selected atoms with multimer (Mon Nov 16 2020 - 21:29:22 CST)
- Re: resizing display exits vmd (Sat Jul 25 2020 - 00:00:54 CDT)
- Re: resizing display exits vmd (Thu Jul 23 2020 - 21:56:31 CDT)
- Re: Fixed atoms (Tue Jun 09 2020 - 22:14:48 CDT)
- Cionize Plugin - Output Options? (Tue Mar 03 2020 - 23:57:34 CST)
Michael S. Marlow
- SASA measurements (Tue May 08 2007 - 11:17:12 CDT)
Michael T. Davis
- Video card compatibility (Tue Dec 20 2005 - 14:34:29 CST)
Michael Von Domaros
- Re: VMD high DPI (Fri Jul 30 2021 - 02:03:22 CDT)
Michael Widmann
- mismatch between phi and pdb files (Tue Apr 10 2007 - 03:07:52 CDT)
Michael Zimmermann
- invisible files in windows (Wed Jun 15 2011 - 16:57:39 CDT)
- Re: installation trouble (Fri Jun 03 2011 - 14:25:31 CDT)
- Re: installation trouble (Fri Jun 03 2011 - 09:38:46 CDT)
- installation trouble (Thu Jun 02 2011 - 23:00:40 CDT)
Michael.Grabe_at_ucsf.edu
- Re: namd-l: is possible to remove the waterbox before running VMD (Thu Mar 09 2006 - 12:29:00 CST)
michaelmorgan937_at_gmail.com
- RE: rdf with respect to a specific point (Thu Aug 25 2022 - 17:15:07 CDT)
- rdf with respect to a specific point (Wed Aug 24 2022 - 13:17:33 CDT)
- simple script question (Fri Jun 10 2022 - 00:02:39 CDT)
Michail Lazaratos
- Create new atoms (Wed Nov 07 2018 - 13:45:21 CST)
- Display representations with Tk Console (Thu Oct 11 2018 - 12:19:13 CDT)
Michail Palaiokostas Avramidis
- Re: Running TCL scripts (textmode) on a Server (Wed Mar 25 2015 - 06:57:57 CDT)
- catdcd 5.1 not working from VMD terminal (Tue Jan 27 2015 - 09:20:46 CST)
- Re: Is a PDB file hiding something ??? (Sat Jan 17 2015 - 05:57:07 CST)
- RE: Nanostructure Plugin from TCL Script (Tue Feb 25 2014 - 12:35:11 CST)
- Nanostructure Plugin from TCL Script (Tue Feb 25 2014 - 11:41:32 CST)
Michal Husak
- VMD for Win32 API based PC CAVE (Mon Apr 02 2007 - 08:00:34 CDT)
Michal Kolinski
- rmsd per residue (Mon Jun 30 2008 - 10:19:40 CDT)
- Re: fedora core 4 install problem (Mon Dec 12 2005 - 05:06:08 CST)
- fedora core 4 install problem (Fri Dec 09 2005 - 05:06:24 CST)
- stereo for XP and Linux (Wed Jan 12 2005 - 11:22:57 CST)
Micha³ Jakub Kañski
- Re: Dynamic atomselect (Thu Oct 30 2014 - 11:49:36 CDT)
MichaÅ‚ Kadlof
- error while loading shared libraries: libcudart.so.4 (Wed Dec 05 2012 - 19:25:26 CST)
Michel Espinoza-Fonseca
- VMD for windows 64-bit (Wed Sep 15 2010 - 14:02:02 CDT)
- RE: slower trajectory loading when CUDA support is enabled (Thu Feb 25 2010 - 15:59:32 CST)
- RE: slower trajectory loading when CUDA support is enabled (Thu Feb 25 2010 - 15:48:00 CST)
- slower trajectory loading when CUDA support is enabled (Thu Feb 25 2010 - 14:35:18 CST)
- RE: default directory (Mon Dec 26 2005 - 10:25:01 CST)
- RE: how to use APBS (Wed Dec 21 2005 - 12:32:36 CST)
- how to measure the distance between centroids (Fri Dec 16 2005 - 13:37:07 CST)
- RE: dihedral angles (Mon Dec 05 2005 - 17:28:28 CST)
- RE: discriminate aromatic ring face (Mon Dec 05 2005 - 10:45:47 CST)
- hbonds count (Wed Nov 30 2005 - 06:34:26 CST)
- RE: Video Card (Wed Nov 30 2005 - 03:12:48 CST)
- RE: Uncharged terminal ends? (Tue Nov 29 2005 - 04:46:38 CST)
- RE: psfgen error: MOLECULE DESTROYED BY FATAL ERROR (Tue Nov 22 2005 - 18:12:31 CST)
- RE: psfgen error: MOLECULE DESTROYED BY FATAL ERROR (Tue Nov 22 2005 - 16:47:42 CST)
- RE: Uncharged terminal ends? (Tue Nov 22 2005 - 06:44:36 CST)
- RE: Uncharged terminal ends? (Tue Nov 22 2005 - 05:41:24 CST)
- RE: Uncharged terminal ends? (Tue Nov 22 2005 - 04:57:18 CST)
- RE: Uncharged terminal ends? (Tue Nov 22 2005 - 04:32:02 CST)
- RE: Uncharged terminal ends? (Tue Nov 22 2005 - 04:18:27 CST)
- RE: Uncharged terminal ends? (Tue Nov 22 2005 - 03:57:06 CST)
- visualizing charge density in vmd (Thu Nov 17 2005 - 09:48:14 CST)
- RE: Loading multiple molecules in one step / "Apply changes automatically" (Fri Oct 21 2005 - 10:46:46 CDT)
- RE: Loading multiple molecules in one step / "Apply changes automatically" (Fri Oct 21 2005 - 10:29:40 CDT)
- RMSF calculation (Thu Oct 06 2005 - 08:23:00 CDT)
- RE: How can I compile win32-vmd (Sun Oct 02 2005 - 05:33:45 CDT)
- ptraj (Tue Sep 27 2005 - 06:24:50 CDT)
- secondary structure assingnment (Tue Sep 20 2005 - 07:22:07 CDT)
- RE: Analyzing pdb files remotely with VMD installed locally (Wed Sep 07 2005 - 11:48:02 CDT)
- RE: SAS values for a residue (Wed Jul 27 2005 - 10:22:41 CDT)
- RE: Rama plot (Mon May 09 2005 - 18:27:12 CDT)
- rmsf calculation (Tue May 03 2005 - 15:58:43 CDT)
- RE: color the surface with electrostatic potential value (Wed Apr 27 2005 - 18:02:31 CDT)
- RE: compiling VMD on mac (Wed Apr 20 2005 - 14:53:05 CDT)
- RE: criteria for detecting hydrogen bonds (Sun Apr 17 2005 - 19:41:29 CDT)
- CA-CA distances in a trayectory (Wed Apr 13 2005 - 18:31:10 CDT)
- RE: how to creat a file containing only one potassium ion (Mon Apr 11 2005 - 16:08:26 CDT)
- snapshots to pdb (Mon Mar 28 2005 - 14:12:21 CST)
Michel Sanner
- Re: MSMS problem (Tue Dec 06 2005 - 15:33:09 CST)
- Re: msms and vmd on amd athlon64. (Fri Mar 19 2004 - 18:05:30 CST)
Michela Candotti
- namd energy plugin error: toplevel (Tue Jan 11 2011 - 04:09:14 CST)
Michele Andrews - Contractor
- Re: New user questions (Thu Feb 13 2003 - 14:52:35 CST)
- New user questions (Thu Feb 13 2003 - 11:11:16 CST)
Michele Formica
- Re: Box boundaries displaying (Mon Jul 01 2013 - 10:40:03 CDT)
- Re: Box boundaries displaying (Mon Jul 01 2013 - 10:36:57 CDT)
- Box boundaries displaying (Mon Jul 01 2013 - 10:21:54 CDT)
- Remove overlapping solvent molecules (Thu May 23 2013 - 07:40:44 CDT)
Michele Garrett
- Reliable w4tches for everyone at Prest1ge Repl1cas (Sat Apr 21 2007 - 10:20:56 CDT)
Michele Seeber
- Re: VMD on redhat9 (Thu May 15 2003 - 12:57:59 CDT)
- Re: VMD on redhat9 (Wed Apr 30 2003 - 03:19:25 CDT)
- VMD on redhat9 (Tue Apr 29 2003 - 03:31:40 CDT)
Michetti Davide
- Re: FFTk: donor water escape during optimization (Tue May 05 2015 - 03:48:42 CDT)
- FFTk: donor water escape during optimization (Mon May 04 2015 - 08:49:46 CDT)
Miguel
- Re: vmd 1.8 Linux mesa on RedHat (Fri Oct 24 2003 - 16:41:36 CDT)
- Re: VMD performance on Mac OSX, 10.2.8 (Wed Oct 15 2003 - 14:34:55 CDT)
- Re: vmd 1.8 Linux mesa on RedHat (Wed Oct 15 2003 - 13:10:08 CDT)
- Re: vmd 1.8 Linux mesa on RedHat (Tue Oct 14 2003 - 18:05:08 CDT)
- Re: vmd 1.8 Linux mesa on RedHat (Tue Oct 14 2003 - 16:26:15 CDT)
- Re: vmd 1.8 Linux mesa on RedHat (Tue Oct 14 2003 - 15:12:42 CDT)
- vmd 1.8 Linux mesa on RedHat (Tue Oct 14 2003 - 13:24:56 CDT)
Miguel Caro
- Re: Using radial coloring method from user-defined center (Tue Mar 27 2018 - 02:32:59 CDT)
- Using radial coloring method from user-defined center (Mon Mar 26 2018 - 10:09:27 CDT)
- Re: Moving atoms so that origin is at fixed position with respect to the display (Fri Oct 27 2017 - 08:43:14 CDT)
- Moving atoms so that origin is at fixed position with respect to the display (Thu Oct 26 2017 - 08:39:07 CDT)
- Setting up a truncation cutoff fro volumetric data (Tue Apr 28 2015 - 04:03:52 CDT)
- Re: How to make solid surfaces work with non-orthorhombic cells (Fri Nov 28 2014 - 10:00:59 CST)
- How to make solid surfaces work with non-orthorhombic cells (Fri Nov 28 2014 - 04:02:43 CST)
- Rotate exchanges y and z axes? (Wed Nov 05 2014 - 04:53:08 CST)
Miguel Ferreira
- hbond questions (Mon Apr 16 2007 - 10:10:03 CDT)
Miguel Ortiz Lombardía
- mapping delphi potential maps on surfaces (Thu Apr 08 2004 - 04:03:00 CDT)
Miguel Teodoro
- Re: Problems with VMD 1.5b1 and XFree4/DRI OpenGL under linux (Thu Jun 29 2000 - 11:37:34 CDT)
- Problems with VMD 1.5b1 and XFree4/DRI OpenGL under linux (Tue Jun 13 2000 - 18:39:48 CDT)
Miguel Valvano
- problems to launch VMD 1.83 in MAC os x tiger (Fri Jul 08 2005 - 11:20:35 CDT)
Mihaela Drenscko
- Selection of lipids not in contact with polymer (Sat May 20 2017 - 18:39:32 CDT)
- Re: Finding waters near a protein (Tue Apr 26 2016 - 18:06:24 CDT)
- Finding waters near a protein (Tue Apr 26 2016 - 16:46:02 CDT)
- psf gen: missing atoms for bonds (Wed Dec 31 2014 - 10:17:49 CST)
- truncated atom types after merge (Sun Nov 23 2014 - 17:06:34 CST)
- topology file for polystyrene (Thu Nov 06 2014 - 19:10:52 CST)
- FATAL ERROR: DIDN'T FIND vdW PARAMETER FOR ATOM TYPE OE (Thu Nov 06 2014 - 12:47:34 CST)
- creating an index file for POPC in water (Fri Oct 03 2014 - 13:57:31 CDT)
- tcl script (Tue Jul 08 2014 - 09:27:06 CDT)
- Re: Centering water molecules (Wed Nov 27 2013 - 06:56:17 CST)
- Centering water molecules (Tue Nov 26 2013 - 18:26:51 CST)
Mihaljevic-Juric Paula (Mme)
- Calculate CC in MDFF (Wed Sep 25 2019 - 10:26:41 CDT)
Mihaly Mezei
- Color surfaces by electrostatic potential (Thu Nov 16 2006 - 17:06:06 CST)
- PDB CONECT (Tue May 30 2006 - 15:26:36 CDT)
- Selecting residues by number (Wed Aug 17 2005 - 17:46:13 CDT)
Mihir Tungare
- Creating bonds using VMD (Mon Mar 29 2010 - 16:34:21 CDT)
Mike Doolin
- Massive Inventory Clearance Sale on DTI 2D/3D 18.1" Flat Panel Displays! (Fri Mar 07 2003 - 18:43:27 CST)
Mike Hanby
- RE: VMD for PPC64 SLES9? (Tue Jun 19 2007 - 11:53:44 CDT)
- VMD for PPC64 SLES9? (Tue Jun 19 2007 - 10:19:26 CDT)
Mike Makowski
- Re: how to select a particular molecule (Thu Feb 12 2015 - 02:28:35 CST)
- Writepdb all frames of DCD to same file using command line (Sun Sep 28 2014 - 21:41:06 CDT)
- Re: Re: Help with RDF calculation (Wed May 28 2014 - 15:44:26 CDT)
- Re: Atom selection to identify residues that clash (Sat Feb 22 2014 - 00:05:19 CST)
- RDF Normalization (Mon Jan 06 2014 - 15:14:21 CST)
Mike McCallum
- Re: tkcon behavior in OS X / selection Q (Tue Feb 08 2022 - 13:18:54 CST)
- tkcon behavior in OS X / selection Q (Tue Feb 08 2022 - 11:57:59 CST)
- Re: Quikmd hangs on new install of vmd 1.9.4 on BigSur (Tue Oct 19 2021 - 16:33:31 CDT)
- Re: Convert problem (Wed Apr 29 2020 - 22:47:43 CDT)
- Re: VMD Text Mode (Thu Mar 07 2019 - 19:19:59 CST)
- Re: distance-based selections applied to velDCD (Tue Jul 03 2018 - 15:25:42 CDT)
- Re: distance-based selections applied to velDCD (Sat Jun 30 2018 - 12:00:27 CDT)
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miyatake_at_riken.jp
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MJR
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moggces_at_rx.mc.ntu.edu.tw
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mohamad rahimi
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MOHAMMAD JAVAD AGHAEI
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Mohammad Khalkhali
- Re: How can I get the path of the TOP molecule in the tcl console? (Thu Dec 04 2014 - 21:04:10 CST)
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- Re: error with make movie (Tue May 05 2020 - 04:14:29 CDT)
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- Re: Placing a peptide between two points (Fri Apr 12 2013 - 10:48:44 CDT)
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mon_sharma_at_research.iiit.ac.in
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Morgan, Brittany
- RE: extract certain part of atoms into separate file (Thu Nov 19 2015 - 08:41:14 CST)
- RE: visualising unit cell "plus a little more" (Wed Sep 23 2015 - 08:36:21 CDT)
- RE: Using bigdcd for an already written script (Mon Jul 06 2015 - 07:43:15 CDT)
- RE: Running TCL scripts (textmode) on a Server (Wed Mar 25 2015 - 07:20:38 CDT)
- RE: VMD secondary structure Stride bug (Fri Feb 13 2015 - 09:17:54 CST)
- RE: Topotools not changing psf (Thu Dec 04 2014 - 14:08:26 CST)
- Topotools not changing psf (Thu Dec 04 2014 - 12:00:21 CST)
Moritz Münsterberg
- Change Path to Povray (Thu Aug 11 2011 - 03:34:59 CDT)
Morizono, Hiroki
- RE: installing MSMS on OS X 10.4.9 (Intel) (Wed May 09 2007 - 08:56:52 CDT)
- Poor man's stereolithography (Thu Nov 30 2006 - 09:07:51 CST)
Morrissey, Liam S.
- Building Al2O3 or Fe2O3 (Sat Jul 21 2018 - 15:59:29 CDT)
morten østergaard jensen
- Re: (Tue Aug 22 2006 - 10:02:19 CDT)
Morteza Chehel Amirani
- dealing with large pdb files (Tue Sep 27 2022 - 15:50:47 CDT)
Morteza Jalalvand
- Re: Possible bug in topotools plugin (Sun Jan 03 2016 - 11:24:45 CST)
- Possible bug in topotools plugin (Sun Jan 03 2016 - 10:53:44 CST)
Mortimer Hemmit
- Re: VMD 64-bit Windows OSPRay Initialization Error Possible Fix (Thu May 04 2023 - 16:05:59 CDT)
- VMD 64-bit Windows OSPRay Initialization Error Possible Fix (Tue Feb 14 2023 - 16:12:48 CST)
- Re: Problem in opening VMD on macOS Catalina (Fri Mar 26 2021 - 13:50:17 CDT)
- Re: Could not load .nc file in MAC installed VMD (Wed Mar 17 2021 - 12:45:15 CDT)
- Re: VMD running on Mac OS Big Sur (Wed Nov 18 2020 - 08:10:13 CST)
- Re: Nanotube in lipid bilayer (Fri Aug 21 2020 - 09:03:30 CDT)
- Re: Nanotube in lipid bilayer (Sat Aug 15 2020 - 17:17:49 CDT)
- Re: Nanotube in lipid bilayer (Thu Aug 13 2020 - 20:21:55 CDT)
- Re: 1.9.4a43-Catalina-Rev6 TkConsole Up Arrow History (Mon Jul 13 2020 - 10:04:19 CDT)
- 1.9.4a43-Catalina-Rev6 TkConsole Up Arrow History (Fri Jul 03 2020 - 20:11:22 CDT)
- Re: Fwd: Electrostatic potential maps (Sun May 24 2020 - 16:31:50 CDT)
- Re: STRIDE issues on Windows (Wed Apr 29 2020 - 10:34:19 CDT)
- Re: STRIDE issues on Windows (Wed Apr 29 2020 - 10:15:45 CDT)
- Re: STRIDE issues on Windows (Wed Apr 29 2020 - 09:42:43 CDT)
- Loading Chemical Component Dictionary File Crashes VMD (Mon Mar 30 2020 - 14:42:05 CDT)
- Re: Memory Pool Size - can I optimize this? (Mon Mar 30 2020 - 13:21:25 CDT)
- Re: CIF file reader (Mon Mar 23 2020 - 15:57:20 CDT)
- VMD 1.9.3 Only Loads 2 Plugins (Thu Oct 31 2019 - 19:23:04 CDT)
- Create Straight Peptide Molefacture Protein Builder (Sat Oct 12 2019 - 16:31:04 CDT)
Moslem Sabouri
- LAMMPS Trajectory (Sun May 23 2010 - 04:46:17 CDT)
Moulton, Steve
- RE: GLXBadLargeRequest and BadLength messages (Tue Sep 14 2010 - 11:03:13 CDT)
- GLXBadLargeRequest and BadLength messages (Mon Sep 13 2010 - 15:43:32 CDT)
Moumita Maiti
- Re: vmd visualization and CMAP run problem (Wed Jun 13 2007 - 04:05:25 CDT)
- vmd visualization and CMAP run problem (Mon Jun 11 2007 - 00:52:23 CDT)
- rmsd calculation for RNA (Fri Jun 08 2007 - 11:48:58 CDT)
- problem in minimization while running (Thu Jun 15 2006 - 15:59:50 CDT)
- the patching problem in psfgen (Wed Jun 14 2006 - 06:13:20 CDT)
- Re: namd-l: the patch between segments for multiple chains molecule. (Wed Jun 14 2006 - 06:21:09 CDT)
- the patch between segments for multiple chains molecule. (Fri Jun 02 2006 - 12:14:58 CDT)
- psf generation (Fri Jun 02 2006 - 11:56:17 CDT)
Moumita Saharay
- Re: AutoPSF error (Wed Jul 30 2014 - 06:06:53 CDT)
Moutusi Manna
- Save molecule in pdb format (Sat Apr 30 2011 - 01:43:55 CDT)
mpincu
- displaying charge distribution (Fri Jan 11 2013 - 15:28:51 CST)
- VMD1.9.1 is crashing my system (Thu May 10 2012 - 16:24:27 CDT)
MQO. Carlos Javier NÃºÃ±ez Aguero
- Re: how to set color parameters differently for different molecules (Thu Jan 29 2009 - 19:03:40 CST)
Mr Bernard Ramos
- Re: On CHARMM angle bending potential (Fri Jul 15 2016 - 19:39:14 CDT)
- On CHARMM angle bending potential (Sun Jul 03 2016 - 22:56:38 CDT)
- Printing Coordinates with Tcl/Tk (Fri Mar 30 2012 - 12:16:00 CDT)
- Retrieving Cremer-Pople parameters (Tue Jul 12 2011 - 07:40:05 CDT)
- On Cremer-Pople ring puckering (Wed Jul 06 2011 - 14:13:05 CDT)
mr.ibid_at_gmail.com
- Converting Files with VMD (Sat Jan 20 2007 - 04:33:56 CST)
mrg28_at_drexel.edu
- installing vmd on IBM AIX 5 (Fri Jan 27 2006 - 15:22:45 CST)
Mubarak Alamri
- Charm++ fatal error: FATAL ERROR: UNABLE TO FIND BOND PARAMETERS FOR CG321 NG301 (ATOMS 6407 6408) .. ERROR) Error connecting to localhost on port 3000 (Sat Dec 14 2019 - 18:30:51 CST)
MUHAMMAD IMTIA SHAFIQ
- Principle Component Analysis of Protein PDB Structures (Mon Feb 22 2010 - 14:03:47 CST)
- Calculation the Surface Area/Volume of a Protein Cavity (Thu Dec 10 2009 - 05:24:12 CST)
Muhammad Radifar
- Muhammad Radifar (Wed Jul 24 2013 - 11:58:37 CDT)
Muhammad tariq
- Finding gas migration pathways in protein using ILS method. (Tue Jun 09 2020 - 04:51:21 CDT)
- volmap computation_ILS method (Sat Jun 06 2020 - 12:08:27 CDT)
- implicit ligand sampling method (Sat Jun 06 2020 - 09:58:00 CDT)
Munir Ahmad
- Re: VMD 1.9.2 Crashes (CUDA,VRPN) (Tue Feb 02 2016 - 04:49:27 CST)
- VMD 1.9.2 Crashes (CUDA,VRPN) (Wed Jan 27 2016 - 07:35:50 CST)
- Re: No error details for VMD compilation from Source. (Thu Jan 21 2016 - 09:45:35 CST)
- Re: No error details for VMD compilation from Source. (Fri Jan 15 2016 - 12:04:48 CST)
- No error details for VMD compilation from Source. (Thu Jan 14 2016 - 15:40:53 CST)
muniyamuthu.raviprasad_at_ndsu.edu
- Atom movement within a range of Z value (Tue May 11 2010 - 14:47:15 CDT)
- merge structure : It is working (Tue Apr 27 2010 - 10:26:45 CDT)
- Re: merge structure: error processing angles (Mon Apr 26 2010 - 18:57:55 CDT)
- merge structure: error processing angles (Fri Apr 23 2010 - 17:36:32 CDT)
- Topotools1.0 (Sat Mar 13 2010 - 13:04:38 CST)
- Patch for Three or More monomers (Fri Mar 12 2010 - 10:41:03 CST)
- Charmm parameters for Polybutylene terephthalate (PBT) (Wed Mar 10 2010 - 13:20:38 CST)
MUNUBARTHI KRANTHI KUMAR
- How to take care of charges while attaching two monomers to form a polymer chain (Sun Jan 12 2020 - 23:11:30 CST)
- How to take care of charges while attaching two monomers to form a polymer chain (Thu Jan 09 2020 - 05:10:08 CST)
Muralikrishna Raju
- VMD 1.9.3 GLSL rendering not available on Linux cluster Install (Mon Mar 20 2017 - 22:25:08 CDT)
Murilo Kramar
- Saving variable information (Wed Jun 08 2016 - 15:49:45 CDT)
Murpholino Peligro
- grid mode in vmd? (Tue Jul 03 2018 - 18:26:11 CDT)
- Re: get avg ca distance (Fri Mar 09 2012 - 11:09:08 CST)
- get avg ca distance (Thu Mar 08 2012 - 15:33:19 CST)
- bigdcd + salt-bridge analysis (Thu Sep 16 2010 - 15:31:58 CDT)
- maximum trajectory size? (Thu Sep 16 2010 - 15:19:58 CDT)
Murray Dyer
- Replica watch is a perfect gift (Sat Apr 26 2008 - 17:18:11 CDT)
Mustafa Burak Boz
- Re: Installing VMFD in kubuntu.............. (Wed Aug 30 2006 - 11:36:49 CDT)
Mustafa Tekpinar
- Automatic PSF Builder on Windows (Sun Oct 13 2024 - 11:38:23 CDT)
- Re: RMSF Trajectory extraction script (Thu Dec 31 2020 - 15:43:35 CST)
- Re: Early VMD 1.9.4 alpha builds for MacOS X Catalina (e.g., 10.15.4) (Sat Apr 25 2020 - 19:37:45 CDT)
- User-defined coloring (Wed Jun 05 2019 - 10:55:24 CDT)
- (no subject) (Tue Nov 27 2012 - 15:00:55 CST)
- Re: Rmsd script with arguments (Wed Feb 01 2012 - 13:38:34 CST)
- Rmsd script with arguments (Tue Jan 31 2012 - 13:48:40 CST)
- Cutting a sphere with a specified radius along a trajectory (Fri Jan 27 2012 - 16:26:29 CST)
mustapha.hamdi_at_ensi-bourges.fr
- About VMD compile in win32 (Wed Mar 08 2006 - 12:04:29 CST)
Muthukumaran Rajagopalan
- Solvation using Charmm36 TIP3P (Fri Jun 22 2018 - 02:31:54 CDT)
MVACKEL
- SpaceNavigator: How can I grab a molecule? (Sat Sep 08 2012 - 08:59:35 CDT)
MW Van der Kamp, School of Chemistry
- question about 'measure bond' (Fri Feb 01 2008 - 09:21:20 CST)
- Re: problem rendering NewCartoon with tachyon (Wed Jan 16 2008 - 03:09:04 CST)
- problem rendering NewCartoon with tachyon (Tue Jan 15 2008 - 03:03:27 CST)
- Re: Connectivity lost when loading second pdb (Tue Oct 03 2006 - 11:31:59 CDT)
- Re: Connectivity lost when loading second pdb (Tue Oct 03 2006 - 04:29:20 CDT)
- Connectivity lost when loading second pdb (Mon Oct 02 2006 - 11:06:33 CDT)
- Re: writing charmm psf files (Fri May 05 2006 - 09:50:23 CDT)
- writing charmm psf files (Fri May 05 2006 - 09:02:37 CDT)
MyLinkka
- Re: Topotools plugin: guessimpropers? (Fri Jan 15 2010 - 23:25:21 CST)
- Re: Topotools plugin: guessimpropers? (Fri Jan 15 2010 - 21:54:19 CST)
- Re: Topotools plugin: guessimpropers? (Fri Jan 15 2010 - 17:53:39 CST)
- Re: Topotools plugin: guessimpropers? (Fri Jan 15 2010 - 06:05:53 CST)
- Re: Topotools plugin: guessimpropers? (Wed Jan 13 2010 - 10:41:18 CST)
- Topotools plugin: guessimpropers? (Wed Jan 13 2010 - 08:28:28 CST)
- VMD lammps plugin: a possible bug (Thu Jan 07 2010 - 10:35:57 CST)
- Re: Rx for VMD crashing PC? (Mon Oct 05 2009 - 17:40:16 CDT)
- Re: default colors (Fri May 29 2009 - 05:15:26 CDT)
- Re: default colors (Tue May 26 2009 - 04:57:50 CDT)
- Re: default colors (Wed May 20 2009 - 11:58:57 CDT)
- Re: Why is the 'antialias' option is grey? (Wed May 20 2009 - 07:31:01 CDT)
- default colors (Wed May 20 2009 - 07:11:35 CDT)
- Re: New vmd Windows version crash (Wed May 20 2009 - 07:20:14 CDT)
- Re: New vmd Windows version crash (Wed May 20 2009 - 06:28:10 CDT)
- Re: New vmd Windows version crash (Wed May 20 2009 - 05:29:22 CDT)
- Why is the 'antialias' option is grey? (Wed May 20 2009 - 05:37:47 CDT)
- New vmd Windows version crash (Tue May 19 2009 - 05:14:34 CDT)
Myunggi Yi
- Re: atom selection (Mon Sep 21 2009 - 14:02:49 CDT)
- atom selection (Mon Sep 21 2009 - 13:45:20 CDT)
- Re: atom selection (Mon Sep 21 2009 - 13:57:29 CDT)
- Re: Re: automated loading (Mon Sep 21 2009 - 11:53:53 CDT)
- automated loading (Mon Sep 21 2009 - 10:27:58 CDT)
- Re: automated loading (Mon Sep 21 2009 - 11:01:19 CDT)
- Re: Mistakes in the 1.8.7 User guide (Wed Sep 09 2009 - 13:20:21 CDT)
- Mistakes in the 1.8.7 User guide (Wed Sep 09 2009 - 10:18:40 CDT)
- Re: pdb file generated not readable by tleap (Fri May 22 2009 - 09:19:36 CDT)
- control drawing method (Mon Feb 25 2008 - 13:26:33 CST)
- Re: smooting structure (Wed Sep 19 2007 - 12:59:12 CDT)
- smooting structure (Wed Sep 19 2007 - 11:38:23 CDT)
- VMD text mode version (Fri Sep 14 2007 - 10:10:58 CDT)
- Re: atomselection in order (Thu Aug 30 2007 - 08:49:25 CDT)
- Re: atomselection in order (Tue Aug 28 2007 - 16:35:49 CDT)
- Re: atomselection in order (Tue Aug 28 2007 - 09:22:35 CDT)
- Re: atomselection in order (Tue Aug 28 2007 - 08:29:03 CDT)
- atomselection in order (Thu Aug 23 2007 - 22:19:35 CDT)
- eigen values (Wed Aug 01 2007 - 14:36:00 CDT)
- rms fitting problem (Wed May 02 2007 - 16:34:04 CDT)
- writing coordinates of a selection only (Sun Apr 15 2007 - 20:51:19 CDT)
- Re: sasa (Thu Apr 12 2007 - 16:16:09 CDT)
- Re: sasa (Thu Apr 12 2007 - 16:14:41 CDT)
- Re: sasa (Thu Apr 12 2007 - 10:02:14 CDT)
- sasa (Wed Apr 11 2007 - 21:42:25 CDT)
- Re: graphic update (Tue Mar 20 2007 - 22:08:32 CDT)
- Re: graphic update (Tue Mar 20 2007 - 20:43:59 CDT)
- graphic update (Tue Mar 20 2007 - 20:09:06 CDT)
- How can I find the rotation matrix information? (Thu Jan 25 2007 - 16:11:12 CST)
- changing frame (Tue Jan 09 2007 - 22:15:11 CST)
- how to use 'lreplace' of 2D array? (Mon Jan 08 2007 - 11:58:26 CST)
- Re: box information amber crdbox (Fri Jan 05 2007 - 10:44:42 CST)
- box information amber crdbox (Fri Dec 22 2006 - 17:24:19 CST)
- Re: Diffusion constant (Tue Dec 12 2006 - 19:22:23 CST)
- Re: Diffusion constant (Tue Dec 12 2006 - 19:12:35 CST)
- Diffusion constant (Tue Dec 12 2006 - 17:26:22 CST)
- Best fit plane axis (Fri Dec 08 2006 - 12:23:58 CST)
- Getting coordinates (Tue Dec 05 2006 - 15:47:20 CST)
- vector summation (Tue Nov 21 2006 - 16:38:54 CST)
- Re: Running a script using text mode (Tue Nov 21 2006 - 11:45:15 CST)
- Re: Running a script using text mode (Tue Nov 21 2006 - 11:39:53 CST)
- Re: Running a script using text mode (Tue Nov 21 2006 - 11:36:11 CST)
- Running a script using text mode (Tue Nov 21 2006 - 09:47:43 CST)
- how to extract atom information? (Thu Nov 16 2006 - 19:07:49 CST)
- adding selections (Fri Oct 20 2006 - 13:04:21 CDT)
- How to use vector calculation ??? (Thu Oct 19 2006 - 22:30:48 CDT)
- rmsd fitting (Mon Sep 11 2006 - 20:30:13 CDT)
Mühlbacher, Markus
- Recenter membrane bilayer to unit cell (Wed May 12 2010 - 03:37:13 CDT)
N. Chitra
- Grasp output view format! (Mon Jan 24 2005 - 12:28:50 CST)
- Grasp file format for VMD!! (Mon Jan 24 2005 - 12:22:53 CST)
nabaneeta mukhopadhyay
- Re: psf file of graphene (Wed Dec 21 2016 - 16:20:25 CST)
- Error in coordinate information of PDB file after merging (Wed Mar 02 2011 - 00:50:42 CST)
nabil Khalil
- Rodlike mixture (Wed Nov 19 2003 - 07:02:47 CST)
Nada Afiva
- Re: Assign active site (Mon Apr 20 2020 - 17:36:38 CDT)
- Re: Assign active site (Mon Apr 20 2020 - 16:38:05 CDT)
- Re: Assign active site (Mon Apr 20 2020 - 08:29:54 CDT)
- Re: Assign active site (Mon Apr 20 2020 - 07:31:45 CDT)
- Re: Assign active site (Mon Apr 20 2020 - 03:16:57 CDT)
- Re: Assign active site (Sun Apr 19 2020 - 18:54:38 CDT)
- Re: Assign active site (Sun Apr 19 2020 - 17:50:51 CDT)
- Assign active site (Sun Apr 19 2020 - 16:50:17 CDT)
Nadia Vahdati
- IED-plugin (Thu Jan 26 2006 - 04:46:40 CST)
nadiav_at_soton.ac.uk
- IED individual eigenvectors/movie (Thu Nov 02 2006 - 05:04:05 CST)
- IED, output from nmode (amber) (Fri Sep 08 2006 - 07:55:42 CDT)
Nadine Utz
- STRIDE error: too many atoms in res (Fri Mar 05 2010 - 10:29:34 CST)
Nadine Utz (Abt. Koslowski)
- ed and vmd (Mon Mar 12 2007 - 12:58:49 CDT)
Nadira Khatoon
- CaFE plugin: Issues with PB solver (Fri Apr 04 2025 - 03:58:16 CDT)
Nadja Lederer
- "mol scaleminmax auto" vs. "mol scaleminmax $min_val $max_val" (Mon Aug 03 2009 - 06:21:42 CDT)
- accessing values for selection keywords (Wed Mar 18 2009 - 05:48:43 CDT)
- accessing values for selection keywords (Wed Mar 18 2009 - 05:25:54 CDT)
- multiplot : integration of undrawing command (?) (Thu Feb 05 2009 - 05:14:43 CST)
- measure rmsf - command (step argument) (Wed Jan 07 2009 - 05:20:42 CST)
- coloring of an item created by canvas (Wed Dec 10 2008 - 04:07:51 CST)
- undrawing lines in multiplot? (Wed Dec 03 2008 - 02:29:57 CST)
- script that reacts on movement of frameslider in vmd main (Mon Dec 01 2008 - 07:41:36 CST)
- Re: multiplot: control reaction for click on datapoints? (Thu Nov 27 2008 - 10:09:53 CST)
- Re: multiplot: control reaction for click on datapoints? (Wed Nov 26 2008 - 14:00:18 CST)
- Re: multiplot: control reaction for click on datapoints? (Wed Nov 26 2008 - 11:12:20 CST)
- multiplot: control reaction for click on datapoints? (Wed Nov 26 2008 - 02:34:31 CST)
Naeem Mahmood Ashraf
- Increasing cores in QwiKMD (Sun Mar 08 2020 - 06:22:04 CDT)
- How to increase the number of core (Tue Feb 25 2020 - 05:47:53 CST)
- NAMD Check points (Fri Dec 09 2016 - 08:25:29 CST)
- GPU conf file (Sun Nov 20 2016 - 02:18:43 CST)
- PSA & Rg values (Sun Jul 03 2016 - 02:42:57 CDT)
- making cluster for simulations (Wed Jun 29 2016 - 11:56:33 CDT)
- System requirement for MD 10ns (Tue Jun 28 2016 - 07:24:04 CDT)
naga raju
- Re: Selecting water molecules within 5 ang in a trajectory( generated by amber). (Sat Dec 29 2007 - 00:02:12 CST)
- Selecting water molecules within 5 ang in a trajectory( generated by amber). (Wed Dec 26 2007 - 01:01:50 CST)
- Regarding APBS calculation in VMD (Tue Jul 17 2007 - 07:39:06 CDT)
- selecting complete residues within perticular distance. (Fri May 25 2007 - 02:33:28 CDT)
- regarding selecting complete residues within a distance (Fri May 25 2007 - 04:43:49 CDT)
Nagarajan C
- Re: vmd in windows 8 (64bite) (Tue Sep 09 2014 - 14:30:07 CDT)
Nagendra Prasad
- Residue numbers changing after addition of simulation boxes below and above membrane cell (Sun Jun 20 2021 - 05:10:31 CDT)
nahren manuel
- Re: PDB manipulation (Wed Aug 31 2011 - 05:07:03 CDT)
- PDB manipulation (Fri Jul 29 2011 - 09:44:38 CDT)
- again :resid of water that is H bonded (Mon Aug 25 2008 - 21:55:40 CDT)
- resid of water that is hydrogen bonded (Mon Aug 25 2008 - 07:35:22 CDT)
Naiyin Yu
- import xyz file (Tue Jan 26 2010 - 16:51:04 CST)
- water in a certein box (Thu Jan 21 2010 - 17:09:10 CST)
- harmonic constraint when equilibrate the system (Wed Jan 13 2010 - 21:44:03 CST)
- trace the distance between center of mass of one certain residue and the other (Wed Jun 24 2009 - 14:59:14 CDT)
Nakshatra Upadhyay
- Applying electric field only on ions (Mon Jan 13 2025 - 14:05:31 CST)
- Re: Two different type of color set for potential map of overlapped molecules (Fri Oct 04 2024 - 02:16:54 CDT)
- Two different type of color set for potential map of overlapped molecules (Wed Oct 02 2024 - 04:13:38 CDT)
- Re: Diffusion Coefficient calculation (Wed Aug 09 2023 - 15:04:29 CDT)
- Diffusion Coefficient calculation (Wed Aug 09 2023 - 11:25:19 CDT)
namd vmd
- problem using NAMD trajectory in charmm 32-bit, 64-bit etc. (yes, I posted this on charmm lists too) (Tue Apr 03 2007 - 07:49:45 CDT)
- assigning variable names using a for loop (Thu Mar 29 2007 - 03:21:45 CDT)
- write trajectory of selected atoms (Wed Mar 28 2007 - 09:51:28 CDT)
- TCl question: preventing STDOUT (Thu Feb 15 2007 - 05:59:50 CST)
- aligning molecules with different number of atoms (Mon Feb 12 2007 - 11:53:49 CST)
- atomselection: number of residues (Sun Feb 11 2007 - 06:35:17 CST)
- splitting segments (Tue Feb 06 2007 - 11:06:15 CST)
- indented atomselect variables (Mon Feb 05 2007 - 14:30:48 CST)
NAMITA BHADRA
- CatDcd Windows Version (Wed Aug 17 2011 - 23:52:28 CDT)
- Re: Question about PSF generation (Sun Sep 20 2009 - 08:50:18 CDT)
- Question about PSF generation (Tue Sep 08 2009 - 23:01:53 CDT)
Nanako Takahashi
- Re: Tracking atoms automatically (Tue Oct 06 2009 - 13:03:16 CDT)
- Tracking atoms automatically (Mon Oct 05 2009 - 11:52:37 CDT)
Nance, Sierra
- VMD Tutorial Help (Tue Feb 26 2013 - 09:07:41 CST)
Nancy Singh
- Error while making th trajectory movie (Tue Jul 20 2021 - 10:26:47 CDT)
- Re: VMD H-bond Plugin error (Mon Jul 05 2021 - 05:55:37 CDT)
- Problem in Installing the linus version of VMD (Thu Jul 01 2021 - 08:21:06 CDT)
- VMD H-bond Plugin error (Tue Jun 29 2021 - 09:22:39 CDT)
Nandigana, Vishal Venkata Raghave
- RE: convert pdb file from angstorm to nm units (Wed May 08 2013 - 12:06:29 CDT)
- convert pdb file from angstorm to nm units (Tue May 07 2013 - 22:47:24 CDT)
- convert pdb file from angstorm to nm units (Tue May 07 2013 - 13:55:18 CDT)
Nara Dashdorj
- VMD on Debian Linux Urgent (Sat Jun 11 2005 - 20:12:41 CDT)
Narasimhan LOGANATHAN
- Adding an atom to the existing pdb (Wed May 19 2010 - 05:18:22 CDT)
- Selection tool (Tue Jan 19 2010 - 03:06:21 CST)
- Re: UNIT CELL (Wed Jan 06 2010 - 05:21:19 CST)
- Re: UNIT CELL (Wed Jan 06 2010 - 02:37:11 CST)
- UNIT CELL (Tue Dec 29 2009 - 09:49:29 CST)
- (no subject) (Tue Apr 14 2009 - 04:33:39 CDT)
Narayanan Veeraraghavan
- Question regarding g(r) utility (Wed Jan 26 2011 - 17:30:33 CST)
Narender Singh Maan
- Re: drawing waterbox (Thu Aug 27 2009 - 10:14:58 CDT)
- drawing waterbox (Wed Aug 26 2009 - 09:35:56 CDT)
- measure hbonds (Mon Dec 17 2007 - 14:52:39 CST)
- NAMDENERGY analysis (Thu Oct 04 2007 - 13:34:16 CDT)
- namdenergy problem (Tue Oct 02 2007 - 14:53:47 CDT)
- smd analysis (Mon Jan 29 2007 - 14:47:02 CST)
- draw line (Fri Jan 26 2007 - 17:01:14 CST)
- trajectory from separate frames (Mon Nov 20 2006 - 17:14:22 CST)
- minimum distance b/w two atoms (Tue Aug 15 2006 - 18:05:30 CDT)
- dihedral angles (Mon Dec 05 2005 - 16:04:20 CST)
Naresh
- Color a protein based on a property (Fri Aug 10 2007 - 14:13:42 CDT)
Naser, Md Abu
- atom index number (Thu Sep 27 2007 - 01:28:29 CDT)
Naser, Md Abu
- Queries on making polymer (Thu Jul 06 2006 - 14:42:49 CDT)
- disulphide bond (Tue May 30 2006 - 13:09:43 CDT)
- adding hydrogen atoms (Tue May 02 2006 - 09:20:34 CDT)
- (no subject) (Wed Mar 01 2006 - 14:17:10 CST)
- (no subject) (Fri Oct 14 2005 - 14:12:44 CDT)
Nash, Anthony
- New atom types in VMD (Mon Feb 29 2016 - 00:56:29 CST)
Natal Kanaan
- Re: averaged structure (Tue Aug 12 2014 - 12:47:56 CDT)
- Re: averaged structure (Tue Aug 12 2014 - 12:01:02 CDT)
- Re: averaged structure (Tue Aug 12 2014 - 11:42:05 CDT)
- averaged structure (Tue Aug 12 2014 - 06:30:30 CDT)
- renumbering water molecules (Mon Aug 11 2014 - 11:41:36 CDT)
nataliaperez_at_infomed.sld.cu
- VMD-I: rsmd calculation (Mon Jun 27 2011 - 14:57:41 CDT)
- VMD-I: (Mon Jun 27 2011 - 11:21:02 CDT)
- vmd-I:Hbonds (Thu Nov 11 2010 - 10:53:57 CST)
- vmd-I:Hbonds (Thu Nov 11 2010 - 08:59:11 CST)
Nate Abraham
- Installation Issue (Fri Apr 08 2016 - 17:01:39 CDT)
Nate Hurley
- Selecting based on parameters from another file (Thu Aug 09 2012 - 11:22:02 CDT)
- Setting molecule ColorID to values greater than 32 (Thu Aug 02 2012 - 13:36:02 CDT)
- Finding the Number of Chains Present via Scripting (Fri Jun 08 2012 - 11:19:12 CDT)
Nathan C. Rockwell
- Re: non-standard residue (Fri May 25 2007 - 11:20:57 CDT)
- Re: questions for 1.8.4 (Fri Apr 21 2006 - 15:08:00 CDT)
- questions for 1.8.4 (Fri Apr 21 2006 - 14:32:16 CDT)
- Re: APBS plugin (Thu Dec 08 2005 - 15:17:48 CST)
- Re: Import gromos output file into VMD without format conversion? (Wed Sep 21 2005 - 14:17:10 CDT)
Nathan K Houtz
- using topotools: error in identifying atoms and dihedrals (Wed Jan 14 2015 - 16:18:42 CST)
Nathan Kern
- Re: Period images not appearing (Fri Sep 23 2022 - 15:13:43 CDT)
- Re: Vmd on Monterey (Fri Dec 24 2021 - 10:02:34 CST)
- Re: Autoionize with non water solvent (Sat Nov 20 2021 - 13:16:21 CST)
- Re: Glycosphingolipids structure (Wed Aug 18 2021 - 09:39:58 CDT)
- Re: Atom selection with asterisk atom name (Fri May 28 2021 - 11:49:41 CDT)
- Re: Atom selection with asterisk atom name (Fri May 28 2021 - 11:48:44 CDT)
- Re: Topology for carbon nanotube compatible to Amber (Wed Feb 10 2021 - 09:11:50 CST)
- Re: how to search for existing topology (Mon Feb 01 2021 - 11:06:18 CST)
- Re: LAMMPS output with VMD (Mon Aug 03 2020 - 10:28:15 CDT)
- Re: How to get a transparent background with Tachyon (Mon Jul 13 2020 - 11:29:51 CDT)
- Re: Explain Script (Wed May 06 2020 - 18:43:22 CDT)
- Re: Query on preferred encoder/settings for producing MPEG files (Sun Oct 27 2019 - 11:22:36 CDT)
Nathan Li
- PSF not generating (Tue Jun 18 2013 - 12:53:27 CDT)
Nathan M. Lim (UCI)
- Re: VMD hangs on startup (MacOSX 10.14) (Sun Nov 11 2018 - 00:00:45 CST)
- VMD hangs on startup (MacOSX 10.14) (Wed Nov 07 2018 - 12:42:01 CST)
Nathaniel Eagan
- Use AMBER files in CG-builder (Mon Jul 01 2013 - 16:21:14 CDT)
Natnael Doilicho
- Parameters for HS(CH2)11NH2 (Fri May 20 2016 - 19:07:28 CDT)
- Constraining two sets of atoms (Mon Sep 15 2014 - 18:21:45 CDT)
- Self-Assemble Monolayer (Wed Jul 23 2014 - 17:22:16 CDT)
Navdeep
- Solvation Box (Fri Sep 19 2008 - 16:43:25 CDT)
Naveen BK
- Re: network path analysis (Tue Oct 15 2019 - 00:17:56 CDT)
- network path analysis (Tue Oct 01 2019 - 04:52:52 CDT)
Navendu bhatnagar
- Vector corresponding to the long axis (Fri Jun 05 2009 - 17:26:16 CDT)
- APBS error : Cannot read output file (Tue Jun 02 2009 - 09:51:01 CDT)
Navid Shervani-Tabar
- Conformation assignment (Wed Sep 16 2020 - 14:01:30 CDT)
Nazanin Samadi
- Re: LAMMPS Trajectory Bond Specification (Thu Aug 14 2008 - 15:24:45 CDT)
- axes (Wed Aug 13 2008 - 14:21:06 CDT)
- PBC (Thu Jan 10 2008 - 07:19:20 CST)
nbabcock_at_qis.ucalgary.ca
- Improving VMD performance on Linux? (Sat Oct 18 2008 - 14:06:35 CDT)
Nd S
- Atoms numbers in VMD (Thu Sep 25 2008 - 14:07:30 CDT)
- Periodic BC (Mon Sep 22 2008 - 15:26:20 CDT)
- Re: Error generating psf files (Thu Sep 18 2008 - 22:30:05 CDT)
- Re: Error generating psf files (Thu Sep 18 2008 - 22:05:07 CDT)
- Error generating psf files (Thu Sep 18 2008 - 18:55:28 CDT)
- How to use Inorganic Builder (Fri Sep 12 2008 - 03:19:12 CDT)
Neale, Christopher Andrew
- sched_setaffinity error message when using srun to give VMD only a portion of the cores on a node [SOLVED] (Tue Apr 12 2022 - 10:52:15 CDT)
nealec
- Re: Using the chirality and cispeptide plugins with "vmd -dispdev text" (Fri Dec 12 2014 - 23:55:20 CST)
- Using the chirality and cispeptide plugins with "vmd -dispdev text" (Fri Dec 12 2014 - 20:17:09 CST)
- molefacture builds leucine with a nearly linear CA-CB-CG angle (Fri Dec 12 2014 - 20:22:47 CST)
- molefacture doesn't recognize lower-case letters (Fri Dec 12 2014 - 20:23:24 CST)
Ned Roy
- Play at the world's leading online casino..... (Wed Apr 09 2008 - 01:14:11 CDT)
Neda Rafieiolhosseini
- Re: Problem with Surf representation in the latest version macOS Catalina (Mon Apr 27 2020 - 16:14:03 CDT)
- Problem with Surf representation in the latest version macOS Catalina (Mon Apr 27 2020 - 12:56:54 CDT)
- Re: Problem compiling VMD 1.9.3 on macOS Catalina 10.15.3 (Thu Apr 02 2020 - 03:35:16 CDT)
- Problem compiling VMD 1.9.3 on macOS Catalina 10.15.3 (Wed Apr 01 2020 - 03:23:13 CDT)
Neelanjana Sengupta
- Re: Trouble launching VMD in Apple M1 (Fri Mar 19 2021 - 21:51:52 CDT)
- Trouble launching VMD in Apple M1 (Fri Mar 12 2021 - 21:54:49 CST)
- writing initial coordinates in Amber format (Sat Aug 08 2015 - 01:40:04 CDT)
- Re: playing legos with peptide segments (Sun Jun 07 2015 - 15:48:40 CDT)
- playing legos with peptide segments (Wed Jun 03 2015 - 10:14:16 CDT)
- Adding groups (Wed Apr 08 2015 - 09:01:41 CDT)
- turns, using Stride (Sat Mar 17 2012 - 02:03:52 CDT)
- Molefacture: creating model helices (Mon Jun 27 2011 - 06:31:03 CDT)
- Re: trajectory of water within 5 A of protein (Tue May 10 2011 - 07:03:55 CDT)
- Re: generating .xsc files using periodic information (Tue Apr 26 2011 - 23:07:07 CDT)
- generating .xsc files using periodic information (Wed Apr 20 2011 - 07:06:04 CDT)
- movie rendering on MacOS 10.6 (Mon Sep 20 2010 - 10:51:59 CDT)
- namdenergy: writepdb failed (Sun Jun 20 2010 - 06:27:02 CDT)
- generating .xsc file from .dcd (Mon Nov 30 2009 - 04:19:43 CST)
- Re: NAMDenergy: problems on changing VMD version/platform (Mon Jul 06 2009 - 05:17:30 CDT)
- NAMDenergy: problems on changing VMD version/platform (Sat Jul 04 2009 - 11:17:44 CDT)
- Re: within, used with pbcwrap (Sat Apr 11 2009 - 00:49:22 CDT)
- within, used with pbcwrap (Fri Apr 10 2009 - 06:35:19 CDT)
- transparent or translucent backgrond for images (Sat Nov 29 2008 - 06:18:46 CST)
- Windows version: Loading/writing files (Mon Oct 13 2008 - 07:53:41 CDT)
- Re: Installing VMD on Fedora (Wed Sep 17 2008 - 03:32:02 CDT)
- Installing VMD on Fedora (Tue Sep 16 2008 - 08:25:54 CDT)
- Re: 'within' command in VMD (Sun May 11 2008 - 12:35:35 CDT)
- 'within' command in VMD (Sun May 11 2008 - 02:04:57 CDT)
- Re: NAMDenergy: how to override a FATAL ERROR (Sun Mar 30 2008 - 15:51:45 CDT)
- NAMDenergy: how to override a FATAL ERROR (Sun Mar 30 2008 - 14:50:29 CDT)
- Re: Timeline viewer (Fri Nov 30 2007 - 19:59:40 CST)
- Re: Timeline viewer (Fri Nov 30 2007 - 19:29:49 CST)
- Timeline viewer (Fri Nov 30 2007 - 09:50:33 CST)
- Re: residue selection (water molecule within 5 ang. to protein in simulation) (Sun Oct 14 2007 - 08:05:40 CDT)
- Writing out .dcd for discontinous frames (Thu Jul 19 2007 - 00:09:36 CDT)
- Skip frames in writing shorter trajectory (Mon Jan 29 2007 - 11:56:10 CST)
- Stride (Mon Dec 18 2006 - 23:14:22 CST)
- Re: Correlation Functions (Tue Dec 12 2006 - 14:39:13 CST)
- Re: VMD 'guesses' no. of frames? (Thu Nov 16 2006 - 21:55:01 CST)
- Re: VMD 'guesses' no. of frames? (Thu Nov 16 2006 - 21:44:14 CST)
- VMD 'guesses' no. of frames? (Thu Nov 16 2006 - 21:15:38 CST)
- Re: how to extract atom information? (Thu Nov 16 2006 - 20:44:11 CST)
- Re: Re: How to get the coordinates of periodic image! (Wed Oct 25 2006 - 19:33:52 CDT)
- VMD 1.8.5 on Mac OSX Panther (Mon Oct 16 2006 - 08:32:06 CDT)
- Re: Re: pbc: relation of orthonormalizing; cart. coords; rotation matrices. (Mon Oct 09 2006 - 09:48:49 CDT)
- Re: pbc: relation of orthonormalizing; cart. coords; rotation matrices. (Thu Oct 05 2006 - 12:17:57 CDT)
- pbc: relation of orthonormalizing; cart. coords; rotation matrices. (Thu Oct 05 2006 - 11:55:17 CDT)
- Re: Min. Image Convention after Translation & Rotation (Mon Oct 02 2006 - 12:14:44 CDT)
- Re: Min. Image Convention after Translation & Rotation (Fri Sep 08 2006 - 13:01:13 CDT)
- Min. Image Convention after Translation & Rotation (Thu Sep 07 2006 - 17:53:22 CDT)
- Re: Matrix inverse (Tue Sep 05 2006 - 18:26:31 CDT)
- Matrix inverse (Tue Sep 05 2006 - 17:38:23 CDT)
- Re: qsub (torque/maui) and vmd (Mon Sep 04 2006 - 09:02:16 CDT)
- CoordinateTransformation (Sun Sep 03 2006 - 15:33:32 CDT)
- CoordinateTransformation (Sun Sep 03 2006 - 15:34:48 CDT)
- CoordinateTransformation (Sun Sep 03 2006 - 15:29:56 CDT)
Neena Susan Eappen
- Re: Total H-bond occupancy analysis (Thu Sep 28 2023 - 14:34:14 CDT)
- Total H-bond occupancy analysis (Mon Sep 25 2023 - 14:14:33 CDT)
- Drawing multiple frames (Thu May 07 2020 - 17:58:22 CDT)
- Explain Script (Wed May 06 2020 - 16:54:37 CDT)
- Unit for RMSD cut-off in clustering tool (Fri Oct 18 2019 - 10:53:58 CDT)
- Re: Extract Most Frequently found structure (Fri Aug 23 2019 - 19:13:22 CDT)
- Re: Extract Most Frequently found structure (Fri Aug 23 2019 - 09:27:18 CDT)
- Re: Extract Most Frequently found structure (Fri Aug 16 2019 - 11:42:32 CDT)
- Extract Most Frequently found structure (Thu Aug 15 2019 - 22:31:08 CDT)
- Re: Amide peptide capping group lost in VMD (Sat May 11 2019 - 09:05:49 CDT)
- Find Hydrogens not participating in H-bond (Wed May 01 2019 - 17:11:11 CDT)
- Amide peptide capping group lost in VMD (Wed May 01 2019 - 16:54:29 CDT)
- Track H-bonds at a site in a trajectory (Wed Apr 24 2019 - 12:44:39 CDT)
Neeraj
- Custom VMD script development service for fee (Thu Jun 07 2018 - 15:08:32 CDT)
Neeraj Agrawal
- Re: charmm36 vs charmm27/22 topology (Mon Jan 30 2017 - 14:14:28 CST)
- charmm36 vs charmm27/22 topology (Mon Jan 30 2017 - 11:29:19 CST)
Neeraj Dhandia
- Protein breaks after automatic psf builder (Fri Oct 14 2022 - 06:45:08 CDT)
Neeraj Jagdish Agrawal
- Finding residues with some distance (Wed Mar 03 2010 - 17:38:33 CST)
Negar Ashari Astani
- VMD animating spindensity (Tue Feb 07 2017 - 04:28:31 CST)
- Script error (Tue Sep 01 2009 - 11:58:32 CDT)
Neha Gupta
- VISUALIZE HYDROGEN BOND BETWEEN PROTEIN AND LIGAND (Wed Feb 21 2018 - 05:08:07 CST)
- Re: HOW TO VISUALIZE HBOND AFTER SIMULATIONS THROUGH VMD (Thu Oct 26 2017 - 09:43:29 CDT)
- HOW TO VISUALIZE HBOND AFTER SIMULATIONS THROUGH VMD (Wed Oct 11 2017 - 00:04:10 CDT)
Neil Henson T-12
- Re: Babel and VMD (Tue Mar 03 1998 - 12:12:27 CST)
Nels Thorsteinson
- problem/bug? calling hbonds within a loop over the residues (tcl) (Thu Dec 07 2006 - 17:31:01 CST)
- giant spike in rmsd curve (Mon Nov 13 2006 - 13:36:14 CST)
nepenthes_at_vplaces.net
- save config & RMSD not functioning (Thu Nov 29 2001 - 01:28:10 CST)
nettles
- Re: molecular dynamics problems (Mon Jul 19 2004 - 16:01:02 CDT)
- Re: vmdnumpy ? (IED 2.0 on MacOS X /w VMD 1.8.2) (Fri Jun 11 2004 - 15:29:15 CDT)
- vmdnumpy ? (Thu Jun 03 2004 - 18:02:19 CDT)
NG HUI WEN
- porcupine plot - dynatraj server missing (Mon Feb 18 2013 - 00:18:29 CST)
- RE: Structure won't move after loading trajectory (Tue Aug 24 2010 - 00:08:49 CDT)
- Structure won't move after loading trajectory (Mon Aug 23 2010 - 19:40:36 CDT)
ngpntm_at_gmail.com
- Secondary structure analysis (Wed Oct 24 2012 - 05:44:33 CDT)
Nguyen Hoang Phuong
- movie for Openoffice (Fri Nov 17 2006 - 15:40:34 CST)
- labels (Wed Mar 29 2006 - 10:42:50 CST)
- Re: Using VMD for non-atomic simulations? (Wed Mar 03 2004 - 06:21:57 CST)
- graphics card (Sun Nov 30 2003 - 09:41:16 CST)
- Re: vizualization of modes (Tue Sep 30 2003 - 10:12:03 CDT)
- Re: trio program (Tue Sep 16 2003 - 02:22:36 CDT)
- trio program (Fri Sep 12 2003 - 08:19:38 CDT)
- draw a vector (Thu Nov 28 2002 - 07:59:56 CST)
- springs (Wed Sep 04 2002 - 07:20:00 CDT)
- Re: vibration (Fri Jun 07 2002 - 12:55:30 CDT)
- vibration (Fri Jun 07 2002 - 10:13:54 CDT)
- Animate data (Fri Apr 26 2002 - 12:31:38 CDT)
- Re: strange bond (Wed Apr 03 2002 - 12:49:57 CST)
- Re: strange bond (Wed Apr 03 2002 - 11:03:00 CST)
- Re: strange bond (Wed Apr 03 2002 - 10:20:54 CST)
- strange bond (Wed Apr 03 2002 - 05:24:16 CST)
niaz poorgholami
- how to change color of the one type of atom (Fri Jul 13 2012 - 08:15:42 CDT)
- (no subject) (Fri Nov 11 2011 - 22:02:25 CST)
- Re: how to place polymers on carbon nanotube surface (Fri Nov 11 2011 - 13:21:24 CST)
- how to place polymers on carbon nanotube surface (Fri Nov 11 2011 - 12:31:47 CST)
Nibedita Ray Chaudhuri
- Re: Error in charge optimization (Fri Nov 13 2020 - 00:54:16 CST)
- Re: Error in charge optimization (Thu Nov 12 2020 - 22:36:04 CST)
- Error in charge optimization (Fri Nov 06 2020 - 05:22:09 CST)
nicholas blake
- vmd 1.8.3 mac OS-X dlpoly history file (Tue Mar 29 2005 - 12:49:17 CST)
- Re: Mac OS X problems with 1.8.3 (Thu Mar 17 2005 - 13:27:03 CST)
- Mac OS X problems with 1.8.3 (Wed Mar 16 2005 - 17:25:10 CST)
Nicholas Labello
- VMD, VRPN, Phantom Desktop (Fri Dec 12 2008 - 09:43:19 CST)
nicholas lee
- Problems with "animate next" inside for-loops (Wed Mar 10 2010 - 16:41:45 CST)
- Re: Breaking Bonds in VMD (Tue Jan 20 2009 - 15:01:16 CST)
- Breaking Bonds in VMD (Tue Jan 20 2009 - 10:40:46 CST)
- LAMMPS Trajectory Bond Specification (Thu Aug 14 2008 - 14:25:07 CDT)
Nicholas Musolino
- Re: problem at convert single trajectory frame to pdb (Tue Oct 19 2010 - 12:10:51 CDT)
- Re: RMSF calculation: residue wise (Fri Aug 20 2010 - 12:46:36 CDT)
- Re: NAMD energy plugin (Thu Aug 05 2010 - 10:17:23 CDT)
- Re: water molecules shooting during SMD + PDB WRITE ERROR (Tue Aug 03 2010 - 08:59:00 CDT)
- Re: structure file for big molecules (Sun Jun 20 2010 - 20:23:50 CDT)
- Re: Hydrophobic interaction (Fri Jun 18 2010 - 08:40:44 CDT)
- Re: adding atomselections? (Sat May 08 2010 - 20:10:24 CDT)
- Re: Coloring atoms based on timeframe range? (Thu Apr 22 2010 - 10:53:08 CDT)
- Re: pbc and measure hbond (Tue Apr 20 2010 - 11:27:39 CDT)
- Re: vmd-l digest V1 #1583 (Sun Apr 18 2010 - 20:14:36 CDT)
- Re: Load and change representation? (Sun Apr 18 2010 - 12:13:12 CDT)
- Re: creating and appending to DCD in VMD (Thu Apr 08 2010 - 17:04:40 CDT)
- creating and appending to DCD in VMD (Thu Apr 08 2010 - 15:50:04 CDT)
Nichols A. Romero
- dumb movie maker question (Thu May 03 2007 - 10:32:26 CDT)
- Re: GLSL rendering problems (??) (Tue Apr 24 2007 - 16:00:20 CDT)
- GLSL rendering problems (??) (Tue Apr 24 2007 - 15:40:57 CDT)
- selecting atoms (Tue Apr 24 2007 - 09:55:36 CDT)
- Re: GLSL rendering problems (Thu Apr 05 2007 - 15:07:14 CDT)
- GLSL rendering problems (Thu Apr 05 2007 - 14:41:22 CDT)
- Re: dcd header information missing (Sat Mar 31 2007 - 18:11:30 CDT)
- dcd header information missing (Thu Mar 29 2007 - 10:21:31 CDT)
- Re: Re: bug report in VMD 1.8.5 (Wed Feb 28 2007 - 14:10:47 CST)
- Re: Re: bug report in VMD 1.8.5 (Mon Feb 26 2007 - 17:03:54 CST)
- Re: bug report in VMD 1.8.5 (Mon Feb 26 2007 - 16:28:41 CST)
- bug report in VMD 1.8.5 (Mon Feb 26 2007 - 16:24:53 CST)
Nicholson, James D Mr ARO
- BUG with MODEL card in PDB file (Mon Sep 20 2004 - 15:34:41 CDT)
Nick Bayhi
- Re: Concatenate DCD Files with Different Numbers of Atoms (Sat Jul 01 2023 - 17:32:29 CDT)
- Hbonds details every frame (Thu Nov 10 2022 - 16:57:02 CST)
- Part of my molecule isn't rendering in New Cartoon (Fri Sep 23 2022 - 16:22:49 CDT)
- "Error: no indices found in file." in carma.indices using NetworkView (Fri Jan 07 2022 - 14:19:55 CST)
Nick Fisher
- Problem with VMD 1.9.1 and OS X 10.10 (OpenGL display freezing on reading PDB coordinates) (Fri Oct 31 2014 - 10:51:09 CDT)
Nick I
- Ask the Cluster Expert (Tue Oct 25 2005 - 11:45:59 CDT)
- Re: What applications are the cest? (Tue Oct 25 2005 - 11:43:17 CDT)
- What applications are the cest? (Mon Aug 15 2005 - 15:01:29 CDT)
Nick Palmer
- Keeping Dotted Structure when Rendering using PovRay (Fri Aug 23 2019 - 10:25:31 CDT)
- Partial rendering of periodic cells` (Wed May 15 2019 - 16:14:07 CDT)
- Re: Defining a layer for a micelle (Wed May 15 2019 - 11:08:33 CDT)
- Re: Defining a layer for a micelle (Tue May 14 2019 - 21:33:36 CDT)
- Defining a layer for a micelle (Mon May 13 2019 - 11:26:22 CDT)
- Centering an atom over the length of a trajectory (Tue Feb 26 2019 - 15:11:55 CST)
- Determining energies between two different molecules (Thu Aug 16 2018 - 10:58:05 CDT)
- Re: Fusing proteins together (Fri Jul 27 2018 - 10:05:31 CDT)
- Fusing proteins together (Thu Jul 26 2018 - 13:53:48 CDT)
- Connecting new residues to old residues in topology file (Wed Jun 20 2018 - 13:28:08 CDT)
- Re: Easy way to add hydrogens and get their internal coordinates? (Wed Jun 20 2018 - 12:42:00 CDT)
- Re: Easy way to add hydrogens and get their internal coordinates? (Wed Jun 20 2018 - 12:38:12 CDT)
- Easy way to add hydrogens and get their internal coordinates? (Thu Jun 14 2018 - 13:27:56 CDT)
- Large number of harmonic distance restraints (Tue May 29 2018 - 11:04:27 CDT)
- Creating a constraints file(.pdb) from NMR constraints file(.mr) (Thu May 24 2018 - 15:40:08 CDT)
- Finding Local Kinetic Energy or Velocities (Wed May 23 2018 - 10:28:53 CDT)
Nicola De Mitri
- 3D texture mapping (Thu Jan 23 2014 - 04:07:49 CST)
Nicola Giacche'
- Re: pbc unwrap not complete (Tue May 24 2011 - 09:42:19 CDT)
- pbc unwrap not complete (Fri May 20 2011 - 08:05:40 CDT)
- hbonds.tcl selection problem in command-line (Tue Dec 15 2009 - 05:25:01 CST)
- distance of two center of mass (Mon Oct 05 2009 - 04:36:37 CDT)
- RE: script to resolve trajectory "jumps" on Desmond dynamic (Thu Mar 05 2009 - 09:01:08 CST)
- script to resolve trajectory "jumps" on Desmond dynamic (Wed Mar 04 2009 - 10:15:03 CST)
Nicolas
- Re: selection by residue (Thu Mar 05 2009 - 10:34:05 CST)
- Re: Outline rendering style with Tachyon (Tue Mar 03 2009 - 16:04:17 CST)
- Re: Gromacs reading: Why scaling?? (Thu Jul 31 2008 - 19:32:16 CDT)
- Re: User defined charges with PMEpot (Thu Jun 12 2008 - 23:08:24 CDT)
Nicolas Belloy
- Re: illegal stereo mode (Fri Jan 28 2011 - 08:58:11 CST)
- illegal stereo mode (Fri Jan 28 2011 - 08:34:28 CST)
- duplicate frames / slow down movie (Tue Jan 25 2011 - 07:50:10 CST)
- Re: creating nonstandard solvent (Fri Oct 05 2007 - 09:16:30 CDT)
Nicolas Bigaouette
- Re: Gromacs reading: Why scaling?? (Thu Jul 31 2008 - 19:21:12 CDT)
- Gromacs reading: Why scaling?? (Thu Jul 31 2008 - 18:33:26 CDT)
Nicolas CHARVIN
- Re: Maximum numbers of atoms (Wed Apr 06 2005 - 11:10:12 CDT)
- Re: Maximum numbers of atoms (Mon Apr 04 2005 - 05:31:31 CDT)
- Maximum numbers of atoms (Wed Mar 30 2005 - 01:54:37 CST)
- Re: Building plugins with Borland Bcc32 (Tue Mar 15 2005 - 11:30:14 CST)
- Building plugins with Borland Bcc32 (Mon Mar 14 2005 - 04:41:04 CST)
Nicolas Coudray
- RE.: Re: VMD and MDFF: ssrestraints package error message under Windows (Mon Jul 18 2011 - 14:46:13 CDT)
- VMD and MDFF: ssrestraints package error message under Windows (Wed Jul 06 2011 - 13:55:21 CDT)
Nicolas Floquet
- choice of VDW radius (Fri Apr 30 2010 - 02:43:58 CDT)
- VMD: set light coordinates (Thu Apr 29 2010 - 02:48:16 CDT)
- 3D glasses with LCD (Wed Jan 20 2010 - 06:52:16 CST)
- 3D Glasses with LCD for VMD (Wed Jan 20 2010 - 06:46:11 CST)
- VMD video-projection in 3D (Mon Nov 16 2009 - 08:08:49 CST)
- Psfgen : apply patches (Tue Nov 04 2008 - 06:51:57 CST)
- Paratools problem with Gaussian Output (Tue Mar 11 2008 - 02:39:05 CDT)
- Diffusion coefficient (Fri Dec 08 2006 - 04:24:27 CST)
- diffusion coefficient (Fri Dec 08 2006 - 04:21:48 CST)
Nicolas Foloppe
- VMD and CHARMm format (Fri Aug 30 2002 - 04:54:19 CDT)
Nicolas Martin
- Re: wrapping multi chain proteins (Tue Feb 23 2016 - 06:46:44 CST)
- Re: wrapping multi chain proteins (Fri Feb 19 2016 - 12:04:18 CST)
- Re: wrapping multi chain proteins (Fri Feb 19 2016 - 12:14:44 CST)
- Re: wrapping multi chain proteins (Fri Feb 19 2016 - 11:48:59 CST)
- wrapping multi chain proteins (Fri Feb 19 2016 - 08:30:12 CST)
- Re: Counting water transition through a channel (Thu Mar 19 2015 - 09:29:20 CDT)
- Counting water transition through a channel (Thu Mar 19 2015 - 03:04:26 CDT)
Nicolas Sapay
- Hbond rendering issue with VMD 1.9 (Fri Mar 18 2011 - 04:58:27 CDT)
- Re: H-bond life time (Wed Sep 15 2010 - 07:45:06 CDT)
- H-bond life time (Wed Sep 15 2010 - 03:22:09 CDT)
- Re: Conversion into POVRay coordinates (Fri Aug 06 2010 - 08:41:47 CDT)
- Conversion into POVRay coordinates (Wed Aug 04 2010 - 04:01:20 CDT)
- Focal blur with Tachyon (Fri Jul 30 2010 - 03:13:49 CDT)
- Re: Hydrophobic interaction (Fri Jun 18 2010 - 08:25:09 CDT)
- Re: Retrieving the Cremer-Pople parameters (Mon Jun 07 2010 - 04:05:01 CDT)
- Retrieving the Cremer-Pople parameters (Fri Jun 04 2010 - 03:46:30 CDT)
- Re: running under Shell using VMD (Tue Nov 03 2009 - 05:07:45 CST)
- Re: Render command not executed (Wed Aug 19 2009 - 04:59:45 CDT)
- Render command not executed (Wed Aug 19 2009 - 02:22:18 CDT)
- Re: Rendering polyhedra with POV-Ray (Tue Aug 18 2009 - 11:11:35 CDT)
- Re: Rendering polyhedra with POV-Ray (Tue Aug 18 2009 - 10:54:44 CDT)
- Rendering polyhedra with POV-Ray (Tue Aug 18 2009 - 09:53:10 CDT)
- Re: removed all proton in protein with vmd (Mon Jul 27 2009 - 03:36:38 CDT)
- Re: Disable the set output (Thu Jul 23 2009 - 09:28:13 CDT)
- Disable the set output (Thu Jul 23 2009 - 05:15:24 CDT)
- VMD 1.8.7b3 and desktop effects on Fedora 10 (Wed May 20 2009 - 07:48:33 CDT)
- Re: render "color by volume" (Tue Jun 17 2008 - 17:11:45 CDT)
- Re: specify a rtf file when generating a psf file. (Tue Jun 17 2008 - 15:28:34 CDT)
- Re: opening gromacs .gro file gives warning messsage and does not display the molecule (Tue Jun 17 2008 - 13:51:36 CDT)
- specify a rtf file when generating a psf file. (Tue Jun 17 2008 - 13:46:22 CDT)
- User defined charges with PMEpot (Thu Jun 12 2008 - 18:24:57 CDT)
- Re: residue selection: conflict between resid and residue (Fri Sep 21 2007 - 16:04:56 CDT)
- Re: residue selection: conflict between resid and residue (Fri Sep 21 2007 - 15:14:23 CDT)
- residue selection: conflict between resid and residue (Fri Sep 21 2007 - 13:22:45 CDT)
- Using namdplot from the command line (Thu Sep 28 2006 - 12:41:03 CDT)
- Re: Convert an ascii matrix to an image (Mon Mar 13 2006 - 04:34:22 CST)
- Re: Re: pbc and vmd (Mon Mar 06 2006 - 10:52:23 CST)
- Re: Selections in periodic boxes (Mon Mar 06 2006 - 09:13:38 CST)
- loading a trajectory using bigdcd and job launched on a PBS server (Thu Feb 23 2006 - 15:05:09 CST)
- How to display a periodic image using TCL commands? (Wed Feb 22 2006 - 11:08:28 CST)
- Re: namd-l: ptraj (Tue Sep 27 2005 - 10:03:18 CDT)
- tachyon rendering and background color (Fri Sep 23 2005 - 07:20:07 CDT)
- [Fwd: Re: Lipid Order Parameter] (Wed Sep 21 2005 - 13:29:06 CDT)
- Re: Lipid Order Parameter (Wed Sep 21 2005 - 13:21:28 CDT)
- Re: Lipid Order Parameter (Wed Sep 21 2005 - 02:44:45 CDT)
- Re: how to delete atoms from the command line? (Tue May 10 2005 - 09:59:30 CDT)
- how to delete atoms from the command line? (Tue May 10 2005 - 07:30:50 CDT)
- Re: smoothed trajectory (Fri Feb 18 2005 - 02:45:07 CST)
- smoothed trajectory (Thu Feb 17 2005 - 10:06:41 CST)
Nicolas Tilmans
- HBONDS bug? (Mon Dec 13 2010 - 15:21:20 CST)
nicolas.floquet_at_univ-reims.fr
- self-coeeficient diffusion (Fri Jun 01 2007 - 07:41:27 CDT)
NICOLÃS DÃAZ ROUSSEL
- Problem with Calc. inter-sel. contacts (Fri Apr 23 2021 - 07:12:40 CDT)
NicolÃ¡s Veiga
- Re: fftk problem in opt. bonded step (Sun Dec 16 2018 - 13:38:09 CST)
- fftk problem in opt. bonded step (Fri Dec 14 2018 - 14:57:59 CST)
Nidhi Jatana
- number of atoms changes on loading .cms file (Fri Apr 26 2013 - 02:04:09 CDT)
- converting Desmond trajectory and energy file to gromacs (Tue Jul 24 2012 - 04:53:48 CDT)
Niels Müller
- TNG Plugin (Thu Sep 29 2016 - 03:49:51 CDT)
Nifeng Guo hui
- Re: Fwd: namd-l: Why RDF increases as r increase instead of constant (Tue Nov 04 2014 - 13:07:26 CST)
- Re: Fwd: namd-l: Why RDF increases as r increase instead of constant (Tue Nov 04 2014 - 10:58:23 CST)
- Re: Fwd: namd-l: Why RDF increases as r increase instead of constant (Mon Nov 03 2014 - 15:29:25 CST)
- Re: Fwd: namd-l: Why RDF increases as r increase instead of constant (Sun Nov 02 2014 - 22:19:43 CST)
- Fwd: namd-l: Why RDF increases as r increase instead of constant (Sun Nov 02 2014 - 16:01:29 CST)
Nikhil Maroli
- Re: Rendering using GPU (Fri Apr 16 2021 - 12:16:41 CDT)
- Rendering using GPU (Thu Apr 15 2021 - 02:31:50 CDT)
- MSD calculation (Mon Feb 20 2017 - 06:39:44 CST)
- water permeation across the channel (Sun Jan 08 2017 - 06:56:48 CST)
- Fwd: namd-l: water permeation through nanotube in lipid bilayer (Fri Jul 29 2016 - 10:59:23 CDT)
- Including two parameters for protein-ligand simulation (Wed Oct 28 2015 - 01:52:30 CDT)
- GPU accelerated MD (Fri Oct 23 2015 - 04:12:24 CDT)
- Re: Topology for drugs to do MD after docking (Thu Oct 22 2015 - 12:59:02 CDT)
- Re: Topology for drugs to do MD after docking (Thu Oct 22 2015 - 12:15:49 CDT)
- Topology for drugs to do MD after docking (Wed Oct 21 2015 - 11:40:04 CDT)
- Cyclic peptide nanotube psf second mail (Tue Oct 13 2015 - 00:42:55 CDT)
- Cyclic peptide Nanotube (Fri Oct 02 2015 - 08:52:59 CDT)
- script error (Fri Oct 02 2015 - 08:44:13 CDT)
- PSF for cyclic peptide nanotube (Fri Oct 02 2015 - 08:36:47 CDT)
- psf for cyclic peptide nanotube:psf ready for one ring but required for 8 ring (Sat Sep 26 2015 - 06:50:31 CDT)
- PSF for CYCLIC PEPTIDE : (Sat Sep 26 2015 - 05:45:17 CDT)
- Which VMD AND NAMD should install (Sat Sep 19 2015 - 01:57:30 CDT)
- error with tutorial beginer required help (Fri Sep 18 2015 - 02:42:58 CDT)
- New user encounter an error as follows ;please guide me :: Tutorial (Tue Sep 15 2015 - 02:56:47 CDT)
- New user encounter an error as follows ;please guide me :: Tutorial (Tue Sep 15 2015 - 00:37:12 CDT)
Niklas.Blomberg_at_astrazeneca.com
- Coloring mols by carbon only (Mon Jul 09 2001 - 04:09:32 CDT)
nikolaev_at_spbau.ru
- Adding residues to dowser (Thu Sep 29 2016 - 16:32:10 CDT)
Nikolai Smolin
- secondary structure (Tue Dec 11 2001 - 07:45:20 CST)
- movie under Windows (Fri Oct 05 2001 - 04:07:00 CDT)
Nikolaos Galanakis
- FFTK Dihedral Optimization Error (Fri Oct 20 2017 - 11:50:39 CDT)
Nikolay Simakov
- Re: wrong bonds during loading pdb file(protein plus lipids) (Fri Feb 27 2009 - 21:24:13 CST)
- Re: wrong bonds during loading pdb file(protein plus lipids) (Fri Feb 27 2009 - 20:07:52 CST)
- wrong bonds during loading pdb file(protein plus lipids) (Fri Feb 27 2009 - 16:01:30 CST)
niladri patra
- script for size distribution (Tue Jul 16 2013 - 10:53:29 CDT)
- charge visualization (Tue Feb 07 2012 - 18:41:37 CST)
Nilesh Ingle
- Parameter file for protein siloxane interactions (Thu Oct 08 2009 - 21:47:14 CDT)
- Re: How to generate a monolayer in VMD (Thu Oct 08 2009 - 21:58:50 CDT)
- How to generate a monolayer in VMD (Mon Oct 05 2009 - 18:55:37 CDT)
Nima Emadi
- Re: making a movie in a tcl script using graphics commands (Thu Jan 28 2016 - 15:37:23 CST)
- Re: making a movie in a tcl script using graphics commands (Thu Jan 28 2016 - 14:50:50 CST)
- making a movie in a tcl script using graphics commands (Thu Jan 28 2016 - 14:10:33 CST)
Nima Nouri
- tcl script for averaging a parameter along length (Thu Jan 22 2015 - 03:40:31 CST)
- Successful VMD win64 Compile (Thu Oct 09 2014 - 16:48:15 CDT)
- Fwd: VMD Compile problem (Mon Oct 06 2014 - 16:51:59 CDT)
- Re: Compiling VMD for Windows 64bit (Sun Oct 05 2014 - 11:07:33 CDT)
- Re: Compiling VMD for Windows 64bit (Sun Oct 05 2014 - 07:56:08 CDT)
- Re: Compiling VMD for Windows 64bit (Sun Oct 05 2014 - 07:46:47 CDT)
- Compiling VMD for Windows 64bit (Fri Oct 03 2014 - 15:08:15 CDT)
- Custom Visualization of Atom Properties Change with Color (Sun Mar 16 2014 - 16:59:58 CDT)
- Compiling 64bit VMD (Wed Feb 26 2014 - 03:15:31 CST)
- Re: Wrap PBC inside unit cellâ€ (Mon Aug 22 2011 - 18:56:25 CDT)
- Re: rmsf (Fri Aug 12 2011 - 02:20:23 CDT)
- Re: a file for commands of console (Sat Jul 30 2011 - 11:56:58 CDT)
- Re: Add user output to DCD trajectories (Thu Jul 21 2011 - 18:41:05 CDT)
- Re: how to change working directory of VMD? (Wed Jul 20 2011 - 05:42:55 CDT)
- Add user output to DCD trajectories (Thu Jul 14 2011 - 05:18:29 CDT)
- Re: draw bond across cell boudary (Fri Jan 21 2011 - 01:01:23 CST)
- Re: Problem installing vmd in UBUNTU 10.10 (Sat Jan 15 2011 - 13:18:21 CST)
- Problem installing vmd in UBUNTU 10.10 (Sat Jan 15 2011 - 12:55:17 CST)
- Where can I download VMD alpha version (Sat Jan 15 2011 - 09:30:16 CST)
- Binary request (Fri Jan 07 2011 - 04:19:13 CST)
Nima Soltani
- atoms inside a Nanotube, Deleting (Sun Jun 07 2020 - 22:49:58 CDT)
- can I change the axes type to look like something like a graduated coordinate? (Sun Nov 08 2015 - 15:23:51 CST)
- Fwd: Segmentation fault (core dump) (Fri Mar 13 2015 - 16:00:30 CDT)
Nir London
- Rosetta Academic Training Webinar (Wed Mar 25 2009 - 11:10:34 CDT)
- VMD needs your vote. (Mon Mar 16 2009 - 12:21:07 CDT)
- Rosetta Academic Training Workshop (Tue Jan 27 2009 - 07:05:12 CST)
Nirmitee Mulgaonkar
- (no subject) (Sat Jul 13 2019 - 21:45:50 CDT)
- How to incorporate new probe molecules in DruGui? (Sat Jul 06 2019 - 17:17:45 CDT)
Nisler, Collin R.
- VMD Failing to Recognize Path (Sat Jun 20 2020 - 16:21:28 CDT)
Nithin Rai
- tcl script for writinging modified pdb co-ordinates (Thu Dec 04 1997 - 16:13:22 CST)
- drawing spheres (Tue Nov 18 1997 - 11:34:14 CST)
- reading minimalised pdb files (Tue Oct 07 1997 - 04:12:06 CDT)
Nitin Bhardwaj
- Why does lipid move out of water box (Tue Jan 09 2007 - 11:29:24 CST)
- "Not all atoms have unique coordinates" (Fri Jan 05 2007 - 12:31:18 CST)
- Re: using namdenergy with amber prmtop file (Thu Jan 04 2007 - 13:02:06 CST)
- using namdenergy with amber prmtop file (Wed Jan 03 2007 - 18:06:20 CST)
- Re: average z-coordinate of a selection (Tue Dec 19 2006 - 11:08:42 CST)
- average z-coordinate of a selection (Tue Dec 19 2006 - 10:54:29 CST)
- FEP Energy very high: Mutual exclusion of atoms (Tue Nov 07 2006 - 17:29:49 CST)
- Finding residues involved in Hbonds. (Thu Sep 14 2006 - 11:16:21 CDT)
- Re: Counting H-bonds from a dcd file (Tue Aug 29 2006 - 18:15:56 CDT)
- Counting H-bonds from a dcd file (Tue Aug 29 2006 - 17:06:21 CDT)
- Re: breaking a big dcd file (Tue Dec 20 2005 - 16:48:08 CST)
- breaking a big dcd file (Tue Dec 20 2005 - 16:09:40 CST)
- Re: Creating bond between two atoms (Tue Oct 25 2005 - 16:09:00 CDT)
- Re: Creating bond between two atoms (Fri Oct 21 2005 - 13:33:00 CDT)
- Creating bond between two atoms (Fri Oct 21 2005 - 12:05:09 CDT)
- Knowing the euler angles from a particular orientation (Tue Mar 29 2005 - 13:18:20 CST)
- Problem with the Graphics Command (Mon Mar 28 2005 - 18:56:16 CST)
- Knowing the euler angles from a particular orientation. (Mon Mar 28 2005 - 18:41:25 CST)
- Problem with the move command to rotate a molecule (Wed Dec 08 2004 - 16:06:50 CST)
- Re: Rotating a molecule around its center of mass... (Wed Dec 08 2004 - 12:43:35 CST)
- Rotating a molecule around its center of mass... (Wed Dec 08 2004 - 12:40:21 CST)
- putting Lipid layers around a protein (Sun Nov 14 2004 - 19:20:22 CST)
Nitin Rathore
- visualizing trr files (Fri Jun 18 2004 - 10:03:37 CDT)
Nixon Raj
- Re: Re: Molecule not visible in VMD 1.9.2 MAC OS X El Capitan (Wed Feb 17 2016 - 04:21:33 CST)
- Molecule not visible in VMD 1.9.2 MAC OS X El Capitan (Mon Feb 15 2016 - 20:56:53 CST)
- Re: Molecule not visible in VMD 1.9.2 MAC OS X El Capitan (Mon Feb 15 2016 - 20:58:13 CST)
nlabello
- Re: (Minnesota Supercomputing Institute Install) VMD 1.9 beta 3 posted for download... (Tue Mar 08 2011 - 16:00:25 CST)
nmichaud_at_jhu.edu
- Re: time step (Fri Oct 05 2007 - 07:23:38 CDT)
- dcd reading routines (Fri Aug 10 2007 - 13:12:15 CDT)
- Re: within and exwithin macro (Tue Aug 07 2007 - 11:54:20 CDT)
no tengo nombre
- Re: How to set the default properties of drawing methods? (Thu Nov 13 2008 - 11:55:11 CST)
- Re: reading multiples molecules. (Wed Oct 29 2008 - 05:26:09 CDT)
- Re: reading multiples molecules. (Wed Oct 29 2008 - 04:17:12 CDT)
- reading multiples molecules. (Tue Oct 28 2008 - 05:05:19 CDT)
noel.oboyle2_at_mail.dcu.ie
- Missing bonds (Fri May 30 2003 - 09:14:49 CDT)
Norbert Straeter
- Re: calculation of rotation angle (Wed Mar 22 2023 - 03:35:17 CDT)
- Re: Re: Re: Using BigDCD on Simulation Files Located on Mapped Network Drive (Wed Oct 12 2022 - 03:02:29 CDT)
- Re: Re: Using BigDCD on Simulation Files Located on Mapped Network Drive (Tue Oct 11 2022 - 14:33:49 CDT)
- Re: Using BigDCD on Simulation Files Located on Mapped Network Drive (Tue Oct 11 2022 - 14:05:57 CDT)
- Re: Re: Problem with measure bond command returning -NaN for some frames (Mon Aug 29 2022 - 11:00:01 CDT)
- Problem with measure bond command returning -NaN for some frames (Mon Aug 29 2022 - 07:32:17 CDT)
Norberto Martinez
- You can s4ve 80% Villa (Mon Jul 21 2008 - 01:18:56 CDT)
nordgren_at_sas.upenn.edu
- Re: phi and psi information (Thu Jun 23 2005 - 04:02:50 CDT)
- Re: "animate readdel"? (was: multiple automated calls to NAMD) (Wed Jun 15 2005 - 08:15:10 CDT)
- "animate readdel"? (was: multiple automated calls to NAMD) (Tue Jun 14 2005 - 03:09:48 CDT)
- Re: namd-l: Re: multiple automated calls to NAMD (Thu Jun 09 2005 - 21:56:31 CDT)
- multiple automated calls to NAMD (Wed Jun 08 2005 - 20:57:56 CDT)
- PSFGEN vs. VMD (Wed May 11 2005 - 05:01:37 CDT)
- Re: writing DCD files (Sat May 07 2005 - 23:48:24 CDT)
- writing DCD files (Fri May 06 2005 - 03:54:18 CDT)
- Re: pdb files (Tue Jan 04 2005 - 23:02:30 CST)
- torsions = NaN ? (Mon Dec 20 2004 - 18:23:07 CST)
Norfarisha Mohd Fadil
- Opening GROMACS Simulation File (Wed Jun 07 2017 - 20:04:51 CDT)
Norge Cruz HernÃ¡ndez
- Pressure Control (Tue Oct 23 2018 - 09:26:09 CDT)
- Re: Force Field Toolkit (ffTK) (Wed Aug 08 2018 - 11:43:40 CDT)
- Force Field Toolkit (ffTK) (Mon Jul 30 2018 - 05:32:39 CDT)
- Re: convert AMBER format file to CHARMM format file or NAMD format file (Thu Apr 17 2014 - 10:08:29 CDT)
- convert AMBER format file to CHARMM format file or NAMD format file (Wed Apr 16 2014 - 13:24:26 CDT)
Noriaki Okimoto
- multiple peptides simulation (Mon Apr 10 2006 - 14:14:18 CDT)
- Vibration (Tue Feb 01 2005 - 12:29:21 CST)
Norman Geist
- AW: Native contacts tcl script crashed (Thu Feb 18 2021 - 01:53:14 CST)
- AW: How do I define "collision only" atoms using MSMS? (Thu Aug 20 2020 - 02:24:05 CDT)
- Dangerous bug with pbwithin selection? (Fri Jun 26 2020 - 06:24:02 CDT)
- AW: How to increase the number of core (Wed Feb 26 2020 - 01:59:33 CST)
- AW: Re: namd-l: Is there someway to render protein picture without background color? (Thu Sep 19 2019 - 04:13:05 CDT)
- AW: Defining a layer for a micelle (Tue May 14 2019 - 01:17:08 CDT)
- AW: regarding the coordinate transformation on a curved surface to plane surface (Wed Jan 09 2019 - 02:13:09 CST)
- AW: Measure Center Question (Sun Oct 21 2018 - 04:02:15 CDT)
- AW: Userani.tcl script jumps frame after no play (Thu Aug 16 2018 - 01:41:22 CDT)
- AW: z-direction selection (Mon Jun 18 2018 - 02:38:44 CDT)
- AW: Measure Distance Script Question (Fri Apr 27 2018 - 02:07:09 CDT)
- AW: Average structure (Wed Mar 21 2018 - 04:02:14 CDT)
- AW: Obtaining VMD view matrices for tcl script (Mon Feb 19 2018 - 02:39:47 CST)
- AW: Affordable 3D stereo. (Wed Jan 31 2018 - 01:08:09 CST)
- AW: graphics in VMD and overlay (Wed Nov 15 2017 - 01:24:53 CST)
- AW: Visualize temperature (Mon Aug 21 2017 - 00:08:08 CDT)
- AW: Zoom-to-fit before rendering (Fri Mar 03 2017 - 02:24:46 CST)
- AW: Center camera rotation on a molid (Thu Mar 02 2017 - 07:30:55 CST)
- AW: Zoom-to-fit before rendering (Thu Mar 02 2017 - 07:19:40 CST)
- AW: Building NAMD 2.12 from Source with IB and CUDA (Thu Mar 02 2017 - 04:37:40 CST)
- AW: SASA area (Wed Feb 01 2017 - 01:44:51 CST)
- AW: SASA area (Tue Jan 31 2017 - 09:35:48 CST)
- AW: SASA area (Tue Jan 31 2017 - 05:05:52 CST)
- AW: HBonds Plugin - Hbonds criteria (Wed Jan 25 2017 - 02:19:24 CST)
- AW: Re: AW: why vmd cannot load the dcd trajectory? (Tue Jan 10 2017 - 07:20:23 CST)
- AW: AW: why vmd cannot load the dcd trajectory? (Tue Jan 10 2017 - 03:18:54 CST)
- AW: why vmd cannot load the dcd trajectory? (Tue Jan 10 2017 - 02:43:17 CST)
- AW: veldcd file (Thu Jan 05 2017 - 04:49:12 CST)
- AW: Draw arrows in trajectory file (Tue Dec 20 2016 - 07:55:37 CST)
- AW: Draw arrows in trajectory file (Tue Dec 20 2016 - 02:37:41 CST)
- AW: CUDA acceleration for Tachyon rendering? (Fri Dec 02 2016 - 01:51:05 CST)
- AW: Superimpose Models (Thu Nov 24 2016 - 01:39:44 CST)
- AW: Fast PBC wrapping in VMD (Thu Nov 17 2016 - 02:05:46 CST)
- AW: Error connecting to localhost on port 3000 and IMD connection ended unexpectedly; connection terminated. (Thu Oct 27 2016 - 07:50:51 CDT)
- AW: AW: AW: How to smooth atom labels in a MD trajectory? (Mon Aug 22 2016 - 08:32:34 CDT)
- AW: AW: AW: How to smooth atom labels in a MD trajectory? (Mon Aug 22 2016 - 08:42:30 CDT)
- AW: How to smooth atom labels in a MD trajectory? (Mon Aug 22 2016 - 01:04:04 CDT)
- AW: merging independent dcd files, (Thu Jul 28 2016 - 02:42:45 CDT)
- AW: merging independent dcd files, (Wed Jul 27 2016 - 02:04:09 CDT)
- AW: Exactly align view direction to coordinate axes (Thu Jun 30 2016 - 01:30:04 CDT)
- AW: Selecting atoms of same type in a certain distance (between X and Y angstroms away) (Thu Jun 23 2016 - 01:22:06 CDT)
- AW: Selecting atoms of same type in a certain distance (between X and Y angstroms away) (Wed Jun 22 2016 - 10:58:55 CDT)
- AW: zooming into a chosen atom (Thu Jun 16 2016 - 04:39:19 CDT)
- AW: zooming into a chosen atom (Thu Jun 16 2016 - 02:53:57 CDT)
- AW: hiding atoms outside the unit cell (Fri Jun 10 2016 - 01:55:01 CDT)
- AW: Wrapping problem (Mon May 30 2016 - 00:51:46 CDT)
- Namdenergy BUG: Namd started without initial box info, pairlist invalid (Tue May 24 2016 - 03:02:26 CDT)
- AW: TCL script to track molecules moving within a specified region each time frame (Tue May 17 2016 - 00:02:49 CDT)
- AW: setting up a 4k HD TV for passive stereoscopic 3d (Fri Apr 08 2016 - 01:46:12 CDT)
- AW: setting up a 4k HD TV for passive stereoscopic 3d (Thu Apr 07 2016 - 00:30:41 CDT)
- AW: Animate Molekul (Tue Apr 05 2016 - 09:53:28 CDT)
- AW: Residue numbers in outfiles PDB/GRO (Fri Apr 01 2016 - 01:54:51 CDT)
- AW: making a movie of a atomselection of a very large trajectory (Wed Mar 30 2016 - 03:57:05 CDT)
- Residue numbers in outfiles PDB/GRO (Wed Mar 23 2016 - 06:19:22 CDT)
- AW: How to work on multiple pdbs by tcl script? (Tue Mar 22 2016 - 07:04:36 CDT)
- AW: Gaussian *.log/out visualize (Mon Mar 21 2016 - 02:41:13 CDT)
- AW: Unable to visualize my polymer chains generated using RIS theory using VMD properly (Wed Mar 16 2016 - 04:56:34 CDT)
- AW: speed of pbc join is slow (Wed Mar 16 2016 - 04:52:28 CDT)
- AW: Unable to visualize my polymer chains generated using RIS theory using VMD properly (Tue Mar 15 2016 - 02:53:21 CDT)
- AW: NAMD 2.11 Cuda does not work with Quadro FX 3800 (Sun Mar 13 2016 - 12:37:40 CDT)
- AW: printing out trajectories with some random indices of atoms renamed frame by frame (Mon Mar 07 2016 - 01:07:22 CST)
- AW: Fwd: distance using pbc (Wed Mar 02 2016 - 01:53:56 CST)
- AW: pbc to keep membrane in center (Wed Mar 02 2016 - 01:41:01 CST)
- AW: Define the percentage of zoom (Tue Feb 23 2016 - 01:35:16 CST)
- AW: moving atoms and updating distances (Mon Feb 15 2016 - 00:14:22 CST)
- AW: loading electron density maps with a script (Fri Feb 05 2016 - 02:30:05 CST)
- AW: loading electron density maps with a script (Thu Feb 04 2016 - 01:33:21 CST)
- AW: making a movie in a tcl script using graphics commands (Fri Jan 29 2016 - 05:02:16 CST)
- AW: tcl command to write amber format files (Wed Jan 27 2016 - 03:12:33 CST)
- AW: tcl command to write amber format files (Wed Jan 27 2016 - 03:10:18 CST)
- AW: select atoms within a sphere - atomselect (Mon Jan 25 2016 - 01:09:42 CST)
- AW: new structure file (Tue Dec 01 2015 - 01:26:52 CST)
- AW: new structure file (Mon Nov 30 2015 - 23:51:22 CST)
- AW: how to measure the thickness of the water shell (Tue Oct 27 2015 - 06:28:09 CDT)
- AW: GPU accelerated MD (Fri Oct 23 2015 - 07:18:01 CDT)
- AW: query regarding phi-psi range for asigning secondary structure (Mon Oct 12 2015 - 01:44:23 CDT)
- AW: query regarding phi-psi range for asigning secondary structure (Fri Oct 09 2015 - 05:29:00 CDT)
- AW: query regarding phi-psi range for asigning secondary structure (Fri Oct 09 2015 - 02:56:42 CDT)
- AW: RE: visualising unit cell "plus a little more" (Thu Sep 24 2015 - 02:31:36 CDT)
- AW: Align only translation not rotation (Tue Sep 15 2015 - 01:40:02 CDT)
- RE: .mdcrd to .trr conversion problem (Wed Aug 05 2015 - 05:12:02 CDT)
- RE: VMD movie error (Wed Aug 05 2015 - 00:12:33 CDT)
- RE: Hydrogen bond angle (Tue Aug 04 2015 - 01:29:48 CDT)
- RE: How to write coordinates to a pdb without replacing existing entries (Mon Jul 06 2015 - 04:58:16 CDT)
- RE: How to write coordinates to a pdb without replacing existing entries (Mon Jul 06 2015 - 02:28:01 CDT)
- RE: Running 64-bit Linux VMD in VMWare VM on Windows 8.1 64-bit Host Machine (Mon May 18 2015 - 02:47:21 CDT)
- RE: How to continue the calculation of NAMD in case of power failure? (Mon May 18 2015 - 02:56:39 CDT)
- RE: PBC Plugin (Thu Mar 12 2015 - 02:27:03 CDT)
- RE: How to write coordinates to a pdb without replacing existing entries (Mon Mar 09 2015 - 06:08:36 CDT)
- RE: How to write coordinates to a pdb without replacing existing entries (Mon Mar 09 2015 - 04:42:44 CDT)
- RE: Protein went out of the Box (Mon Mar 02 2015 - 02:15:16 CST)
- RE: Nvidia GPU driver not detected with VMD (Fri Feb 27 2015 - 07:29:06 CST)
- RE: Extracting coordinates from DCD file to a single PDB file (Tue Feb 17 2015 - 01:57:28 CST)
- RE: Extracting coordinates from DCD file to a single PDB file (Mon Feb 16 2015 - 06:33:50 CST)
- On the behavior of "graphics material" (Mon Feb 16 2015 - 05:44:43 CST)
- RE: On the behavior of "graphics material" (Mon Feb 16 2015 - 05:48:33 CST)
- RE: Extracting coordinates from DCD file to a single PDB file (Mon Feb 16 2015 - 03:29:54 CST)
- RE: Handful of rendering issues (Mon Feb 16 2015 - 02:23:37 CST)
- RE: Extracting coordinates from DCD file to a single PDB file (Mon Feb 16 2015 - 01:52:34 CST)
- RE: Handful of rendering issues (Fri Feb 13 2015 - 09:25:36 CST)
- RE: Handful of rendering issues (Fri Feb 13 2015 - 01:42:15 CST)
- RE: Change VDW scaling in CPK drawing method (Fri Feb 13 2015 - 01:47:34 CST)
- RE: how to select a particular molecule (Thu Feb 12 2015 - 02:35:21 CST)
- RE: Handful of rendering issues (Thu Feb 12 2015 - 02:44:34 CST)
- RE: Handful of rendering issues (Wed Feb 11 2015 - 09:32:35 CST)
- RE: BUG: vmd-1.9.2 final Representations GUI (Wed Feb 11 2015 - 01:38:08 CST)
- RE: BUG: vmd-1.9.2 final Representations GUI (Tue Feb 10 2015 - 10:30:48 CST)
- RE: BUG: vmd-1.9.2 final Representations GUI (Tue Feb 10 2015 - 05:01:19 CST)
- RE: Problem by removing vmd 1.9.1 and installing 1.9.2. (Fri Feb 06 2015 - 07:15:18 CST)
- RE: Problem by removing vmd 1.9.1 and installing 1.9.2. (Fri Feb 06 2015 - 02:41:41 CST)
- RE: Problem by removing vmd 1.9.1 and installing 1.9.2. (Thu Feb 05 2015 - 06:46:40 CST)
- RE: vmd-I: Fatal Error: Unable to Open CHARMM Parameter File (Tue Feb 03 2015 - 06:17:36 CST)
- RE: movie maker extension (Tue Feb 03 2015 - 01:49:42 CST)
- RE: BUG: vmd-1.9.2 final Representations GUI (Mon Feb 02 2015 - 05:30:42 CST)
- RE: plot secondary structure of protein along trajectory. (Mon Feb 02 2015 - 03:39:04 CST)
- BUG: vmd-1.9.2 final Representations GUI (Mon Feb 02 2015 - 03:52:52 CST)
- AW: Re-centering protein molecule (Wed Jan 28 2015 - 07:26:42 CST)
- AW: making self-adjustable high resolution images (Wed Jan 28 2015 - 06:24:51 CST)
- AW: tcl script for averaging a parameter along length (Thu Jan 22 2015 - 06:11:42 CST)
- AW: ion visualization in VMD (Thu Jan 22 2015 - 03:34:26 CST)
- AW: AW: The quality of movie made by VMD (Wed Jan 21 2015 - 09:18:17 CST)
- AW: The quality of movie made by VMD (Wed Jan 21 2015 - 03:42:46 CST)
- AW: The quality of movie made by VMD (Wed Jan 21 2015 - 02:20:22 CST)
- AW: coloring scheme in "VolumeSlice" (Mon Jan 19 2015 - 02:34:06 CST)
- AW: The quality of movie made by VMD (Mon Jan 19 2015 - 02:41:23 CST)
- AW: Feature Request: Stride on vmd commandline startup (Wed Jan 14 2015 - 02:23:12 CST)
- Feature Request: Stride on vmd commandline startup (Tue Jan 13 2015 - 07:44:31 CST)
- AW: Fwd: VMD 1.9.2 released! (Tue Jan 13 2015 - 01:16:34 CST)
- AW: Re: FW: atomselection by wildcard and distance exclusion (Tue Jan 13 2015 - 01:27:02 CST)
- AW: VMD TkConsole command (Thu Jan 08 2015 - 09:17:15 CST)
- AW: VMD TkConsole command (Thu Jan 08 2015 - 03:00:37 CST)
- AW: Change bond per atom limit of VMD (Wed Jan 07 2015 - 05:41:11 CST)
- AW: Problem with Kinetic Energy of Atomselection (Wed Jan 07 2015 - 02:58:12 CST)
- AW: How to constrain a atom (Mon Jan 05 2015 - 00:54:35 CST)
- AW: the usage of measure bond (Mon Jan 05 2015 - 00:50:46 CST)
- AW: AW: namd-l: FATAL ERROR: seek failed while writing DCD file: No such file or directory (Fri Dec 19 2014 - 02:45:26 CST)
- AW: VMD with 3D TV (Wed Dec 17 2014 - 10:34:14 CST)
- AW: VMD crashing when loading prmtop files (Wed Dec 17 2014 - 04:03:32 CST)
- AW: Question (Tue Dec 16 2014 - 04:03:18 CST)
- AW: VMD with 3D TV (Mon Dec 15 2014 - 01:43:12 CST)
- AW: format I should use if I have different total number of atoms for each timesteps (Fri Dec 12 2014 - 02:43:08 CST)
- AW: H-Bonds not shown when loading by topo readlammpsdata (Mon Dec 08 2014 - 01:49:11 CST)
- AW: Antw: AW: Oculus Rift DK2 (Mon Dec 01 2014 - 03:15:36 CST)
- AW: program errors (Mon Dec 01 2014 - 02:09:08 CST)
- AW: How to make solid surfaces work with non-orthorhombic cells (Fri Nov 28 2014 - 05:49:09 CST)
- AW: Oculus Rift DK2 (Fri Nov 28 2014 - 05:33:58 CST)
- Announcement: User defined movie animation (Fri Nov 28 2014 - 01:04:06 CST)
- AW: Any interest in VMD supporting mirror reflections w/ ray tracing? (Thu Nov 27 2014 - 10:31:26 CST)
- AW: Re: Need testers: VMD 1.9.2 w/ interactive GPU ray tracing w/ AO, depth of field, etc. (Thu Nov 27 2014 - 03:19:00 CST)
- AW: Re: Need testers: VMD 1.9.2 w/ interactive GPU ray tracing w/ AO, depth of field, etc. (Wed Nov 26 2014 - 02:32:21 CST)
- Tachyon Optix BUG vmd-1.9.2beta1 (Mon Nov 24 2014 - 05:12:59 CST)
- AW: Protein went out of the Box (Wed Nov 12 2014 - 00:15:06 CST)
- AW: Selecting atoms based on the charges (Tue Nov 11 2014 - 03:32:24 CST)
- AW: BUG(s): vmd-1.9.2b (Thu Oct 30 2014 - 09:25:36 CDT)
- BUG(s): vmd-1.9.2b (Wed Oct 29 2014 - 04:10:16 CDT)
- AW: Tachyon-Optix failure when SSH X11 (Wed Oct 29 2014 - 03:01:50 CDT)
- AW: Tachyon-Optix failure when SSH X11 (Tue Oct 28 2014 - 09:31:36 CDT)
- AW: Tachyon-Optix failure when SSH X11 (Tue Oct 28 2014 - 08:57:59 CDT)
- AW: AW: AW: VMD warnings (Mon Oct 27 2014 - 03:05:14 CDT)
- AW: AW: VMD warnings (Fri Oct 24 2014 - 13:01:27 CDT)
- AW: Tachyon-Optix failure when SSH X11 (Fri Oct 24 2014 - 07:15:21 CDT)
- AW: VMD warnings (Fri Oct 24 2014 - 05:05:16 CDT)
- AW: Tachyon-Optix failure when SSH X11 (Fri Oct 24 2014 - 02:10:23 CDT)
- AW: Tachyon-Optix failure when SSH X11 (Thu Oct 23 2014 - 10:48:28 CDT)
- Tachyon-Optix failure when SSH X11 (Thu Oct 23 2014 - 10:01:31 CDT)
- AW: Scale the molecule (Wed Oct 15 2014 - 05:25:25 CDT)
- AW: Transparency rendering by Tachyon (Mon Oct 13 2014 - 09:03:37 CDT)
- AW: Transparency rendering by Tachyon (Mon Oct 13 2014 - 01:52:28 CDT)
- AW: How to remove particular residues and then view "ramachandran plot" in VMD (Thu Oct 09 2014 - 07:05:14 CDT)
- AW: log colorscale (Mon Oct 06 2014 - 05:25:26 CDT)
- AW: Reg: Peptide dimer (Tue Sep 30 2014 - 08:49:55 CDT)
- AW: how to make the structures in the movie look better (Mon Sep 29 2014 - 07:58:00 CDT)
- AW: "OpenGL Display" and "VMD Main" windows; size and location on launch (Mon Sep 29 2014 - 00:49:34 CDT)
- AW: Accessible volume around an atom (Thu Aug 28 2014 - 03:41:21 CDT)
- AW: Tachyon transparency and depth cueing (Thu Aug 21 2014 - 04:42:53 CDT)
- AW: Rendering snapshots (Wed Aug 13 2014 - 11:56:14 CDT)
- AW: Rendering snapshots (Tue Aug 12 2014 - 10:57:54 CDT)
- AW: To the developers: TCL implementation of autofit zoom (Mon Aug 11 2014 - 05:04:29 CDT)
- AW: To the developers: TCL implementation of autofit zoom (Mon Aug 11 2014 - 00:24:13 CDT)
- AW: Tcl scripting - Coloring residues by frame along trajectory (Mon Aug 11 2014 - 00:29:19 CDT)
- AW: To the developers: TCL implementation of autofit zoom (Mon Aug 11 2014 - 00:22:42 CDT)
- To the developers: TCL implementation of autofit zoom (Fri Aug 08 2014 - 07:11:32 CDT)
- AW: To the developers: Get current zoom value (scale) (Fri Aug 08 2014 - 05:05:13 CDT)
- To the developers: Get current zoom value (scale) (Fri Aug 08 2014 - 01:27:45 CDT)
- AW: Does the VMD Linux 64-bit version perform better than the Windows 32-bit when visualizing large molecules? (Wed Aug 06 2014 - 00:35:18 CDT)
- AW: secondary structure calculation at certain frame (Wed Jul 09 2014 - 02:26:45 CDT)
- AW: obtain a list of residue numbers (Tue Jul 08 2014 - 00:03:24 CDT)
- AW: REï¼š select all residues in a molecule (Mon Jun 30 2014 - 02:48:45 CDT)
- AW: select all residues in a molecule (Mon Jun 30 2014 - 00:19:07 CDT)
- AW: Cannot start VMD in background from a script (Mon Jun 23 2014 - 03:29:50 CDT)
- AW: pbc wrap -center com (Mon May 26 2014 - 02:20:27 CDT)
- AW: pbc wrap -center com (Thu May 22 2014 - 06:10:23 CDT)
- pbc wrap -center com (Thu May 22 2014 - 04:43:39 CDT)
- AW: BUG? Hbond rep brakes RowInterleaved Stereo VMD 1.9.2a35 (Mon May 19 2014 - 02:33:46 CDT)
- AW: number of water molecules within 5 angstroms of the ligand (Wed May 07 2014 - 07:47:46 CDT)
- AW: number of water molecules within 5 angstroms of the ligand (Wed May 07 2014 - 01:56:50 CDT)
- AW: number of water molecules within 5 angstroms of the ligand (Tue May 06 2014 - 01:44:43 CDT)
- AW: number of water molecules within 5 angstroms of the ligand (Mon May 05 2014 - 05:09:05 CDT)
- AW: number of water molecules within 5 angstroms of the ligand (Mon May 05 2014 - 05:16:47 CDT)
- AW: Visualize a SMILES string (Tue Apr 29 2014 - 10:01:56 CDT)
- AW: measure Hbond and orient (with vec {0 0 1}) of a selected molecule (Fri Apr 25 2014 - 06:36:35 CDT)
- AW: measure Hbond and orient (with vec {0 0 1}) of a selected molecule (Fri Apr 25 2014 - 05:39:11 CDT)
- AW: measure Hbond and orient (with vec {0 0 1}) of a selected molecule (Fri Apr 25 2014 - 02:49:20 CDT)
- AW: measure Hbond and orient (with vec {0 0 1}) of a selected molecule (Fri Apr 25 2014 - 01:13:38 CDT)
- AW: code precision problem (Thu Apr 17 2014 - 01:29:04 CDT)
- AW: get resname from resid (Tue Apr 15 2014 - 06:30:32 CDT)
- AW: how to control the superposition (measure fit) ? (Fri Apr 11 2014 - 09:20:06 CDT)
- AW: writing velocities from VMD (Mon Apr 07 2014 - 01:56:05 CDT)
- AW: writing velocities from VMD (Fri Apr 04 2014 - 02:44:48 CDT)
- BUG? Hbond rep brakes RowInterleaved Stereo VMD 1.9.2a35 (Thu Apr 03 2014 - 02:17:38 CDT)
- AW: secondary structure inconsistency (Thu Apr 03 2014 - 00:40:31 CDT)
- AW: Assigning different temperatures in the same simulaiton (Tue Apr 01 2014 - 00:21:03 CDT)
- AW: Assigning different temperatures in the same simulaiton (Tue Apr 01 2014 - 00:07:02 CDT)
- AW: Align specific residues of two structures (Mon Mar 31 2014 - 00:35:37 CDT)
- AW: TCL scripting question: how to make a list of atomselections persistent? (Fri Mar 28 2014 - 03:02:24 CDT)
- AW: TCL scripting question: how to make a list of atomselections persistent? (Fri Mar 28 2014 - 03:00:02 CDT)
- AW: Writing DCD from modified coordinates (Fri Mar 21 2014 - 02:51:25 CDT)
- AW: Get num. of residues (Wed Mar 19 2014 - 03:56:12 CDT)
- AW: manually change secondary structure (Mon Feb 24 2014 - 00:06:29 CST)
- AW: Simplest file format that includes atom color? (Mon Feb 17 2014 - 06:08:07 CST)
- AW: Simplest file format that includes atom color? (Mon Feb 17 2014 - 05:36:01 CST)
- AW: namd-l: Solvation in non standard solvent (Fri Feb 14 2014 - 06:47:51 CST)
- AW: AW: Simplest file format that includes atom color? (Thu Feb 13 2014 - 03:28:18 CST)
- AW: Simplest file format that includes atom color? (Thu Feb 13 2014 - 00:20:11 CST)
- AW: reg extracting coordinates for first water shell. (Tue Feb 11 2014 - 09:38:29 CST)
- AW: Do I need a "professional" graphics card? (Mon Feb 10 2014 - 01:43:22 CST)
- AW: Do I need a "professional" graphics card? (Mon Feb 10 2014 - 01:38:00 CST)
- AW: SScache performance; fast secondary structure assignment (Tue Feb 04 2014 - 08:00:29 CST)
- SScache performance; fast secondary structure assignment (Tue Feb 04 2014 - 06:40:26 CST)
- AW: wrapper for VMD to read compressed .xz files (Mon Feb 03 2014 - 01:01:49 CST)
- AW: wrapper for VMD to read compressed .xz files (Sat Feb 01 2014 - 15:06:26 CST)
- AW: VMD crash on large DCD files. (Thu Jan 30 2014 - 02:17:24 CST)
- AW: changing chain id and pdb generating (Thu Dec 12 2013 - 06:55:01 CST)
- AW: AW: AW: vmd-1.9.1 broken after upgrade to Ubuntu 13.10 (Wed Dec 11 2013 - 01:06:44 CST)
- AW: how can we improve it in VMD? (Tue Dec 10 2013 - 08:13:44 CST)
- AW: AW: vmd-1.9.1 broken after upgrade to Ubuntu 13.10 (Tue Dec 10 2013 - 00:57:37 CST)
- AW: Change transparency along a trajectory (Mon Dec 09 2013 - 08:58:33 CST)
- AW: vmd-1.9.1 broken after upgrade to Ubuntu 13.10 (Mon Dec 09 2013 - 01:25:59 CST)
- AW: AW: hydrogen bond criteria (Fri Dec 06 2013 - 01:14:33 CST)
- AW: hydrogen bond criteria (Thu Dec 05 2013 - 07:10:21 CST)
- Trace Frame in "Draw Multiple Frames"-Representations (Thu Nov 14 2013 - 04:17:53 CST)
- AW: loading trajectory (Tue Oct 22 2013 - 10:31:56 CDT)
- AW: fftk-charges (Mon Oct 21 2013 - 07:59:53 CDT)
- BUG Report -> Draw multiple frames (Fri Oct 11 2013 - 02:41:25 CDT)
- AW: Certain combinations of X-server and X-client do not allow VMD to start (Tue Sep 17 2013 - 05:23:26 CDT)
- AW: calculating total energy (Mon Sep 16 2013 - 01:44:38 CDT)
- BUG in VMD dx reader plugin (Thu Aug 01 2013 - 03:43:07 CDT)
Norouzi, Seyed
- Rendering resolution (Mon Mar 02 2020 - 10:02:46 CST)
- Re: vmd draw material affects previous drawings (Mon Dec 16 2019 - 14:25:58 CST)
- vmd draw material affects previous drawings (Mon Dec 16 2019 - 12:59:28 CST)
nsapay_at_ibcp.fr
- Re: loading a trajectory using bigdcd and job launched on a PBS server (Thu Feb 23 2006 - 16:59:07 CST)
- fancy representations for lipids? (Wed Sep 28 2005 - 18:22:51 CDT)
NSTI Nanotech Ventures
- Nanotech Ventures 2005 - Tokyo & California (Thu Dec 16 2004 - 00:50:00 CST)
Nuno Cerqueira
- Re: VMD license (Thu Dec 16 2021 - 11:55:55 CST)
- add new color index do VMD (Tue Nov 19 2019 - 10:54:52 CST)
Nuno Loureiro Ferreira
- Re: the script do not update the frame for secondary structure analysis (Mon Feb 11 2008 - 03:03:19 CST)
- Re: Residue highlighting in MD Traj (Fri Sep 28 2007 - 03:45:32 CDT)
- Re: Residue highlighting in MD Traj (Wed Sep 19 2007 - 05:05:01 CDT)
- Re: coordinates with get command (Sat Aug 25 2007 - 23:27:28 CDT)
- coordinates with get command (Sat Aug 25 2007 - 18:10:02 CDT)
- Re: Selecting the N-closest Waters (Tue Aug 21 2007 - 16:34:25 CDT)
- Re: Selecting the N-closest Waters (Tue Aug 21 2007 - 15:55:13 CDT)
- Re: ntermolecular atomselection (Thu Jul 26 2007 - 03:23:25 CDT)
- Re: Writing out .dcd for discontinous frames (Thu Jul 19 2007 - 03:47:18 CDT)
- Re: how to save a list in a file (Tue Jul 17 2007 - 12:12:56 CDT)
- Re: how to save a list in a file (Tue Jul 17 2007 - 10:18:04 CDT)
- Re: how to save a list in a file (Tue Jul 17 2007 - 10:31:00 CDT)
- Re: Language definitions - \usepackage{listings} (Tue Jul 17 2007 - 10:26:20 CDT)
- Re: Language definitions - \usepackage{listings} (Tue Jul 17 2007 - 07:35:17 CDT)
- Re: how to save a list in a file (Tue Jul 17 2007 - 02:57:40 CDT)
- Re: Language definitions - \usepackage{listings} (Mon Jul 16 2007 - 12:19:59 CDT)
- Re: how to save a list in a file (Sat Jul 14 2007 - 11:49:29 CDT)
- Language definitions - \usepackage{listings} (Sat Jul 14 2007 - 10:47:57 CDT)
- Re: visualizing NMR constrains (Fri Mar 23 2007 - 09:29:41 CDT)
Nuno R. L. Ferreira
- Salt bridges (Thu Apr 27 2006 - 09:14:32 CDT)
- Re: problem with viewing gromacs xtc files in vmd (Mon Mar 27 2006 - 09:16:54 CST)
- Re: Convert an ascii matrix to an image (Mon Mar 13 2006 - 11:47:04 CST)
- Convert an ascii matrix to an image (Sat Mar 11 2006 - 13:05:10 CST)
- Re: converting pdb to xtc (Mon Feb 27 2006 - 10:50:16 CST)
- Re: Warning) Unusual bond between residues 25 and 26 (Mon Feb 27 2006 - 09:25:57 CST)
- Warning) Unusual bond between residues 25 and 26 (Sat Feb 25 2006 - 11:42:49 CST)
- Re: very large pdb file (Thu Feb 23 2006 - 11:51:45 CST)
- Re: restart simulation with NAMD (Thu Feb 23 2006 - 05:02:23 CST)
- Re: problem with script to get RMSD-solved (Tue Feb 21 2006 - 11:41:30 CST)
- Re: problem with script to get RMSD (Fri Feb 17 2006 - 03:50:45 CST)
- Re: Writing a pdb file with header information (Tue Feb 14 2006 - 04:42:50 CST)
- Re: tcl-reading files (Mon Feb 13 2006 - 08:10:20 CST)
- Re: uncompress files in tcl script (Thu Feb 09 2006 - 10:28:22 CST)
- Re: Tcl scripting (Thu Feb 09 2006 - 03:07:25 CST)
- Tcl scripting (Mon Feb 06 2006 - 13:13:06 CST)
- timeline - write canvas to ps (Sat Jan 28 2006 - 07:54:14 CST)
- vmd plugins / external programs (Wed Jan 25 2006 - 04:11:09 CST)
- Re: transoffset command (Thu Jan 12 2006 - 12:05:55 CST)
- transoffset command (Thu Jan 12 2006 - 10:49:05 CST)
- Re: calculate rmsd in a loop:feedback [sorry if you get it twice] (Fri Nov 18 2005 - 04:10:16 CST)
- Re: Re: Réf. : calculate rmsd in a loop:feedback [sorry if you get it twice] (Thu Nov 17 2005 - 04:34:44 CST)
- Re: Réf. : calculate rmsd in a loop:feedback [sorry if you get it twice] (Thu Nov 17 2005 - 04:14:40 CST)
- Re: calculate rmsd in a loop:feedback [sorry if you get it twice] (Thu Nov 17 2005 - 03:31:13 CST)
- ied - again (Tue Jul 19 2005 - 13:41:57 CDT)
- CA-CA distances in a trayectory (Thu Apr 14 2005 - 03:29:03 CDT)
- Python, numpy, and so on .... (Tue Mar 29 2005 - 05:42:23 CST)
- Intersurf plugin (Wed Mar 09 2005 - 13:07:01 CST)
- Re: Intersurf plugin (Wed Mar 09 2005 - 09:32:51 CST)
- Re: Intersurf plugin (Mon Mar 07 2005 - 07:40:35 CST)
- Intersurf plugin (Sat Mar 05 2005 - 07:27:53 CST)
Nuno Ricardo Loureiro Ferreira
- moveby command in vmd (Fri Dec 15 2006 - 10:42:36 CST)
- Re: How to make movie with .crd files? (Fri Dec 15 2006 - 03:51:01 CST)
- Re: How to make movie with .crd files? (Wed Dec 13 2006 - 03:31:54 CST)
- Re: draw hydrophobic contact (Sat Dec 02 2006 - 03:18:05 CST)
- Re: draw hydrophobic contact (Thu Nov 30 2006 - 15:11:28 CST)
- Re: problem with tcl script in text mode (Wed Sep 20 2006 - 13:28:55 CDT)
Nuno Sousa Cerqueira
- graphics in VMD and overlay (Tue Nov 14 2017 - 12:21:21 CST)
- VMD text (Fri Jul 28 2017 - 05:33:44 CDT)
- Re: using vslab in vmd (Fri Aug 12 2016 - 15:25:30 CDT)
- Q=80=9CGraphical_Representation=E2=80=9D_question_?= (Tue Jul 12 2016 - 07:13:35 CDT)
- Re: Clonerep GUI issue with VMD CVS (Fri Apr 08 2016 - 09:56:57 CDT)
- Re: tcl8.6 (Thu Mar 03 2016 - 15:28:24 CST)
- Re: tcl8.6 (Thu Mar 03 2016 - 11:19:13 CST)
- tcl8.6 (Thu Mar 03 2016 - 10:28:43 CST)
- viewMaster plugin (Sun Oct 18 2015 - 12:11:41 CDT)
- sqlite and vmd (Fri Oct 02 2015 - 08:39:08 CDT)
- camera navigator question (Mon Feb 23 2015 - 16:42:16 CST)
- Re: pdb animation (Thu Jul 10 2014 - 08:56:02 CDT)
- RE: pdb animation (Thu Jul 10 2014 - 08:33:19 CDT)
- pdb animation (Thu Jul 10 2014 - 07:24:47 CDT)
- Re: How to contribute to VMD? (Wed Jul 09 2014 - 07:10:36 CDT)
- Re: Ask VMD scripts (Wed May 21 2014 - 03:17:07 CDT)
- Re: selection manager (Wed Apr 23 2014 - 04:16:08 CDT)
- selection manager (Tue Apr 22 2014 - 05:44:00 CDT)
- Re: Area per lipid for tubular micellae (Thu Aug 01 2013 - 18:29:57 CDT)
- Re: Default representation style in command line (Fri Apr 13 2012 - 07:08:18 CDT)
- Text in line with line (Wed Aug 24 2011 - 21:21:52 CDT)
- ViewChangerRender (VCR) plug-in (Thu Jul 21 2011 - 11:53:32 CDT)
- Re: about docking with VMD (Wed Jul 20 2011 - 10:32:41 CDT)
- Fwd: -samples flag of measure sasa (Fri Jun 18 2010 - 15:20:23 CDT)
- Re: Running IMD interactivelly under the shell (Thu Mar 18 2010 - 17:50:33 CDT)
- Running IMD interactivelly under the shell (Thu Mar 18 2010 - 14:18:22 CDT)
- Re: vmd 1.8.7 getting the terminal free (Fri Jan 08 2010 - 07:38:29 CST)
- Fwd: Calculation the Surface Area/Volume of a Protein Cavity (Thu Dec 10 2009 - 07:13:07 CST)
- Fwd: paratool - parameter generation from gaussian log files (Thu Dec 10 2009 - 01:05:51 CST)
- Re: desmond plugin (Fri Dec 04 2009 - 15:07:32 CST)
- desmond plugin (Thu Dec 03 2009 - 17:43:02 CST)
- desmond plugin (Thu Dec 03 2009 - 17:37:51 CST)
- Re: desmond plug-in error (Mon Nov 30 2009 - 18:35:39 CST)
- desmond plug-in error (Thu Nov 26 2009 - 11:53:58 CST)
- aquire coordinates from the points of the solvent representation (Thu Nov 19 2009 - 13:53:40 CST)
- Re: Problem with exit button (Tue Nov 10 2009 - 18:14:12 CST)
- Problem with exit button (Tue Nov 10 2009 - 04:55:24 CST)
- Re: running under Shell using VMD (Tue Nov 03 2009 - 07:41:11 CST)
- running under Shell using VMD (Tue Nov 03 2009 - 02:29:30 CST)
- Re: mac tk widgets (Mon Oct 12 2009 - 15:58:03 CDT)
- Load struture form memory (Mon Oct 12 2009 - 06:06:47 CDT)
- mac tk widgets (Sat Oct 10 2009 - 21:13:15 CDT)
- Draw in a new layer problems (Fri May 16 2008 - 08:36:58 CDT)
nunolf_at_ci.uc.pt
- Re: Removing water in tcl (Thu Jan 04 2007 - 11:03:59 CST)
- Re: pdb file (Thu Dec 21 2006 - 14:22:10 CST)
- Re: pdb file (Thu Dec 21 2006 - 08:49:55 CST)
- Re:Problem rendering NewCartoon (Fri Nov 17 2006 - 12:43:03 CST)
- Change properties of representations - batch mode (Fri Nov 17 2006 - 09:48:18 CST)
- VMD - ATI video card (Tue Oct 31 2006 - 13:01:24 CST)
- VMD - ATI video card (Fri Oct 27 2006 - 12:32:36 CDT)
- VMD not working with a Matrox Graphic Card (Thu Oct 26 2006 - 11:09:03 CDT)
nupur bansal
- VMD not working with Yosemite (Thu Jan 15 2015 - 20:38:54 CST)
- namdenergy plugin for Amber simulations (Mon Oct 28 2013 - 11:06:07 CDT)
- namdenergy plugin for Amber simulations (Thu Oct 10 2013 - 12:25:00 CDT)
- Re: No timestep available for 'within' search! (Mon Oct 07 2013 - 15:42:15 CDT)
- No timestep available for 'within' search! (Mon Oct 07 2013 - 15:28:04 CDT)
nur avneet
- How to align a protein normal to lipid bilayer (Sun May 06 2007 - 23:29:45 CDT)
- How to align a protein normal to lipid bilayer (Fri May 04 2007 - 06:33:55 CDT)
O'Reilly Science Art
- Re: Unable to load (Thu Oct 05 2017 - 17:20:24 CDT)
- Re: Unable to load (Thu Oct 05 2017 - 13:25:01 CDT)
- Re: Unable to load (Thu Oct 05 2017 - 13:43:16 CDT)
- Unable to load (Thu Oct 05 2017 - 13:07:21 CDT)
Ocar Campos
- Re: vmd installation in linux (Fri Jan 08 2010 - 10:37:12 CST)
- Re: vmd installation in linux (Fri Jan 08 2010 - 10:14:50 CST)
- Re: vmd installation in linux (Fri Jan 08 2010 - 06:48:56 CST)
- Re: vmd installation in linux (Sat Jan 02 2010 - 06:20:15 CST)
- Re: Searching for Number of Resname (Thu Mar 26 2009 - 15:21:28 CDT)
- Searching for Number of Resname (Thu Mar 26 2009 - 14:51:44 CDT)
Oded Kleifeld
- psfgen (Mon Aug 25 2003 - 19:50:26 CDT)
oguz gurbulak
- Re: using namdstats.tcl (Sat Apr 11 2015 - 04:51:38 CDT)
- Re: using namdstats.tcl (Wed Apr 08 2015 - 01:50:47 CDT)
- using namdstats.tcl (Sun Apr 05 2015 - 16:54:50 CDT)
- shift the molecules via VMD (Thu Aug 23 2012 - 05:11:18 CDT)
- Re: vmd 1.9.1 Centos (Wed Jul 25 2012 - 02:04:08 CDT)
- vmd 1.9.1 Centos (Tue Jul 24 2012 - 04:12:29 CDT)
- Re: vmd installation problem (Thu Jul 12 2012 - 02:43:58 CDT)
- vmd installation problem (Wed Jul 11 2012 - 09:54:16 CDT)
- Re: about analysis plugin (Fri Jul 06 2012 - 01:39:08 CDT)
- about analysis plugin (Wed Jul 04 2012 - 09:40:30 CDT)
- questions for trajectory analysis (Wed May 30 2012 - 01:44:59 CDT)
- create images in vmd (Fri Feb 03 2012 - 06:21:28 CST)
- create images in vmd (Fri Feb 03 2012 - 05:34:54 CST)
- Re: represent water molecules (Tue Jan 03 2012 - 03:09:43 CST)
- Re: represent water molecules (Mon Jan 02 2012 - 13:07:45 CST)
- water molecules (Mon Jan 02 2012 - 07:49:12 CST)
- represent water molecules (Mon Jan 02 2012 - 05:48:41 CST)
- Re: vmd topotools 1.2 (Thu Sep 29 2011 - 06:15:12 CDT)
- vmd topotools 1.2 error (Wed Sep 28 2011 - 09:05:17 CDT)
- vmd topotools 1.2 error (Wed Sep 28 2011 - 08:21:55 CDT)
- vmd topotools 1.2 error (Wed Sep 28 2011 - 06:41:37 CDT)
- Density Profile in VMD (Mon Sep 05 2011 - 02:37:37 CDT)
- prepare initial structure (Mon Dec 01 2008 - 13:52:31 CST)
Olaf Lenz
- Re: Help request regarding PBCTOOLs plugin in vmd (Mon May 26 2014 - 02:38:58 CDT)
- Re: pbc wrap -center com (Sun May 25 2014 - 06:04:35 CDT)
- Re: Distance measurement and PBC (Sun May 25 2014 - 05:41:59 CDT)
- Re: pbc wrap -center com (Thu May 22 2014 - 05:45:00 CDT)
- Periodic boundaries and long bonds (Thu May 22 2014 - 01:17:51 CDT)
- Re: Update Plugin (Tue Feb 25 2014 - 06:28:57 CST)
- Re: Security problem? (Fri Feb 21 2014 - 03:20:39 CST)
- Re: Security problem? (Fri Feb 21 2014 - 02:46:04 CST)
- Re: Security problem? (Wed Feb 19 2014 - 08:30:59 CST)
- Security problem? (Wed Feb 19 2014 - 06:01:26 CST)
- Re: Simplest file format that includes atom color? (Tue Feb 18 2014 - 04:21:08 CST)
- Re: Simplest file format that includes atom color? (Mon Feb 17 2014 - 06:29:54 CST)
- Re: Simplest file format that includes atom color? (Mon Feb 17 2014 - 05:48:56 CST)
- Re: Simplest file format that includes atom color? (Mon Feb 17 2014 - 02:44:09 CST)
- Re: AW: Simplest file format that includes atom color? (Thu Feb 13 2014 - 04:42:45 CST)
- Re: Simplest file format that includes atom color? (Thu Feb 13 2014 - 02:18:39 CST)
- Re: Re: VTF (Tue Feb 04 2014 - 10:22:15 CST)
- Re: Re: VTF (Tue Feb 04 2014 - 10:27:57 CST)
- Re: Re: VTF (Tue Feb 04 2014 - 08:32:49 CST)
- Re: VTF (Mon Feb 03 2014 - 12:09:13 CST)
- Re: The radius of sphere representing an atom shown as vdw (Mon Nov 04 2013 - 01:39:53 CST)
- Re: Finding particles that are close (Wed Oct 09 2013 - 02:37:07 CDT)
- Finding particles that are close (Tue Oct 08 2013 - 03:31:45 CDT)
- Re: problems wrapping waters using PBC tools (Tue Jul 30 2013 - 03:43:42 CDT)
- Leap Motion (Tue Jul 30 2013 - 03:19:38 CDT)
- Re: remove vmd in ubuntu (Mon Jul 29 2013 - 01:50:58 CDT)
- Re: VTF (Thu Jul 18 2013 - 10:10:48 CDT)
- Re: Box boundaries displaying (Mon Jul 01 2013 - 12:46:00 CDT)
- Re: variable particle size (Tue Jun 18 2013 - 01:55:17 CDT)
- Re: problem of pbc command (Mon Apr 22 2013 - 02:40:32 CDT)
- Re: how to write pbc option in python? (Mon Apr 22 2013 - 02:00:37 CDT)
- Re: ellipsoidal particles (Mon Apr 22 2013 - 01:44:15 CDT)
- Re: differing particle numbers in each frame (Fri Feb 08 2013 - 10:01:15 CST)
- Re: Solvated outside the box (Mon Oct 01 2012 - 06:24:05 CDT)
- Re: Solvated outside the box (Mon Oct 01 2012 - 04:19:32 CDT)
- ESPResSo Summer School (Mon Aug 06 2012 - 09:10:22 CDT)
- Re: Python plans (Fri Jul 27 2012 - 01:36:50 CDT)
- Re: Python plans (Wed Jul 25 2012 - 03:07:49 CDT)
- Re: periodic bonds in vmd (Tue Jul 17 2012 - 14:15:45 CDT)
- Re: pbc-box (Wed May 23 2012 - 01:31:41 CDT)
- Re: Fw: pbc-box (Tue May 22 2012 - 02:42:45 CDT)
- Re: starting tkcon (Wed Mar 21 2012 - 11:56:20 CDT)
- Re: pbc wrap (Mon Nov 14 2011 - 09:57:04 CST)
- Re: how to wrap a protein with periodic waters (Mon Aug 15 2011 - 02:43:51 CDT)
- Re: pbctools plugin & protein-bound ligand (Wed May 25 2011 - 02:01:11 CDT)
- Re: pbc unwrap not complete (Mon May 23 2011 - 04:57:38 CDT)
- Re: pbc wrap (Mon May 16 2011 - 03:14:25 CDT)
- Re: PhD position in Computational Structural Biology at MPI Muenster (Sun May 15 2011 - 10:34:40 CDT)
- Re: command for volume slice? (Wed May 11 2011 - 09:11:32 CDT)
- Re: Replica Exchange (Fri Apr 15 2011 - 04:18:17 CDT)
- Re: recenter (Tue Apr 05 2011 - 02:29:57 CDT)
- Re: recenter (Mon Apr 04 2011 - 02:11:25 CDT)
- Re: Triclinic boxes in VMD using the LAMMPS file format (Thu Mar 10 2011 - 07:44:14 CST)
- Re: Zero box vector (Thu Mar 10 2011 - 07:07:35 CST)
- VMD and Kinect (Wed Mar 09 2011 - 05:30:16 CST)
- Re: Installing VMD 1.8.7 on i686/SL5 (Wed Mar 02 2011 - 08:31:01 CST)
- Re: Drawing Bonds in Periodic structure (Tue Mar 01 2011 - 03:06:06 CST)
- Re: pbc wrap (Tue Jun 01 2010 - 05:23:05 CDT)
- Re: monomer transposes boundary box (Wed May 26 2010 - 05:10:21 CDT)
- Re: Recenter membrane bilayer to unit cell (Wed May 12 2010 - 04:55:06 CDT)
- Fragments (Wed Apr 21 2010 - 03:19:04 CDT)
- Re: RE : pbc tools in vmd for simulation (Sat Apr 17 2010 - 10:06:32 CDT)
- Re: Visualisation of VTF trajectories using VMD under Windows ? (Wed Mar 24 2010 - 10:19:33 CDT)
- VMD-Cones and Povray rendering (Fri Mar 05 2010 - 02:31:11 CST)
- Re: pbc in water count (Fri Mar 05 2010 - 01:06:46 CST)
- Compiling VMD plugins on Windows? (Fri Jan 08 2010 - 09:20:47 CST)
- Re: VMD hangs up with a file size ~ 1.2 GB ? (Wed Jan 06 2010 - 05:57:47 CST)
- Re: UNIT CELL (Wed Jan 06 2010 - 05:36:13 CST)
- Re: UNIT CELL (Wed Jan 06 2010 - 05:36:13 CST)
- Re: UNIT CELL (Wed Jan 06 2010 - 05:36:13 CST)
- Re: UNIT CELL (Wed Jan 06 2010 - 05:36:13 CST)
- Re: UNIT CELL (Wed Jan 06 2010 - 04:58:21 CST)
- Re: (Tue Jan 05 2010 - 09:12:28 CST)
- Re: UNIT CELL (Wed Dec 30 2009 - 04:13:59 CST)
- Re: PBC + DCD wrap/unwrap (Tue Dec 15 2009 - 03:38:55 CST)
- Re: Broken bonds in trajectory due to pbc (Wed Dec 09 2009 - 04:14:34 CST)
- Re: Broken bonds in trajectory due to pbc (Wed Dec 09 2009 - 04:04:29 CST)
- Re: Broken bonds in trajectory due to pbc (Tue Dec 08 2009 - 13:07:39 CST)
- Re: Broken bonds in trajectory due to pbc (Tue Dec 08 2009 - 07:39:39 CST)
- Re: polymer bead spring model file format (Wed Nov 18 2009 - 02:20:38 CST)
- Re: vmd bug in ubuntu 9.10 (Thu Nov 12 2009 - 02:28:14 CST)
- Re: vmd bug in ubuntu 9.10 (Thu Nov 12 2009 - 02:06:03 CST)
- Re: Using Tcl functions in a C-plugin (Mon Nov 02 2009 - 14:57:49 CST)
- Using Tcl functions in a C-plugin (Mon Nov 02 2009 - 07:29:24 CST)
- Re: pbwithin and within differences (Tue Oct 27 2009 - 08:26:08 CDT)
- Re: how to display the periodic box in VMD (Fri Oct 09 2009 - 01:49:07 CDT)
- Re: how to display the periodic box in VMD (Thu Oct 08 2009 - 02:03:54 CDT)
- Re: Bond in pbc condition (Fri Aug 28 2009 - 04:06:39 CDT)
- Re: Periodic Bonding (Wed Aug 12 2009 - 10:56:53 CDT)
- Re: VMD Periodic cells (Wed Aug 12 2009 - 09:06:01 CDT)
- Re: VMD Periodic cells (Wed Aug 12 2009 - 08:43:09 CDT)
- Re: .xst file disagrees with pbctools/.dcd file - what are the limitations of pbctools? (Thu Jul 16 2009 - 01:14:37 CDT)
- Re: Need Guidance with pbctools (Sun Jul 12 2009 - 03:00:58 CDT)
- Re: Problem using pbc wrap..... (Sat Jun 27 2009 - 10:44:53 CDT)
- Re: Problem using pbc wrap..... (Fri Jun 26 2009 - 10:06:06 CDT)
- Re: vmd 1.8.7 not spawn new console: feature,bug, or just different? (Thu Jun 25 2009 - 00:52:39 CDT)
- Re: VMD 1.8.7beta1 doesn't close OpenGL window (Tue May 05 2009 - 09:07:35 CDT)
- VMD 1.8.7beta1 doesn't close OpenGL window (Tue May 05 2009 - 07:53:57 CDT)
- Selection "@myselection" (Thu Apr 30 2009 - 04:25:05 CDT)
- Re: pbctools on alpha version (Wed Apr 22 2009 - 06:14:42 CDT)
- Re: pbctools on alpha version (Sat Apr 18 2009 - 04:18:50 CDT)
- Re: within, used with pbcwrap (Sat Apr 11 2009 - 07:15:51 CDT)
- Re: PBCtools verison 2.3: how to obtain it? (Sun Oct 26 2008 - 02:57:17 CDT)
- Re: Improving VMD performance on Linux? (Mon Oct 20 2008 - 07:37:58 CDT)
- Re: Improving VMD performance on Linux? (Mon Oct 20 2008 - 07:57:28 CDT)
- Re: Periodic BC (Tue Sep 23 2008 - 02:47:30 CDT)
- Re: pbc join (Tue Sep 02 2008 - 14:14:17 CDT)
- Re: preriodic box problem (Sat May 31 2008 - 06:20:06 CDT)
- Re: Vmd too slow on Suse10.x (Mon May 05 2008 - 09:01:51 CDT)
- Re: measure hbonds between protein and water - problem with periodic boundary conditions (Thu Apr 17 2008 - 05:19:52 CDT)
- Re: measure hbonds between protein and water - problem with periodic boundary conditions (Thu Apr 17 2008 - 04:32:34 CDT)
- Re: Displaying nearest images using PBCTools (Wed Apr 09 2008 - 03:06:08 CDT)
- Re: problem with pbc (Thu Mar 27 2008 - 06:33:42 CDT)
- Re: problem with pbc (Thu Mar 27 2008 - 02:30:00 CDT)
- Re: pbc join (Mon Mar 10 2008 - 01:49:46 CDT)
- Re: complete residues within (Thu Mar 06 2008 - 03:28:08 CST)
- Re: periodic images for trajectory (Wed Feb 27 2008 - 04:59:30 CST)
- Re: display of periodic DCD information (Thu Feb 14 2008 - 16:05:32 CST)
- Re: display of periodic DCD information (Thu Feb 14 2008 - 16:08:46 CST)
- Re: heuristic bond computation (Fri Feb 08 2008 - 01:33:37 CST)
- Re: visualizing a simple polymer chain via VMD (Thu Jan 17 2008 - 01:24:34 CST)
- Re: PBC (Mon Jan 14 2008 - 03:51:10 CST)
- Re: Question about Gromacs box size in VMD..... (Thu Jan 03 2008 - 08:38:47 CST)
- molfile reader plugin woes (Thu Nov 08 2007 - 02:31:42 CST)
- Re: setting unit cell dimensions (Mon Oct 15 2007 - 02:43:47 CDT)
- Re: Selection within VMD (Wed Aug 22 2007 - 15:36:09 CDT)
- Re: bilayer thickness in simulation of POPC membranes (Sun Aug 12 2007 - 04:00:41 CDT)
- Re: radial density (Thu Aug 09 2007 - 10:19:22 CDT)
- Re: Deleting bonds based on length (Fri Jul 27 2007 - 01:28:09 CDT)
- Re: how to wrap trajectory into truncated octahedral box (Thu Jul 26 2007 - 09:20:03 CDT)
- Re: how to wrap trajectory into truncated octahedral box (Wed Jul 25 2007 - 12:39:39 CDT)
- Re: atomselect (Tue Jul 10 2007 - 06:41:49 CDT)
- Re: atomselect (Tue Jul 10 2007 - 05:43:26 CDT)
- Re: atomselect (Tue Jul 10 2007 - 03:52:46 CDT)
- Re: VTF file (Mon Jul 02 2007 - 02:53:38 CDT)
- Re: problem when drawing a cylinder (Fri Jun 08 2007 - 04:01:40 CDT)
- Re: Installing VMD 1.8.6 (Mon Jun 04 2007 - 08:54:21 CDT)
- Re: pbcunwrap, DL_POLY v 3 (Wed May 09 2007 - 23:50:34 CDT)
- Re: pbcunwrap, DL_POLY v 3 (Wed May 09 2007 - 08:52:55 CDT)
- Re: increase light under depth cueing (Sun Apr 29 2007 - 03:31:34 CDT)
- Re: Problem with periodic condition (Sat Apr 28 2007 - 17:14:20 CDT)
- Re: Problem with periodic condition (Sat Apr 28 2007 - 13:27:51 CDT)
- Re: assigning variable names using a for loop (Thu Mar 29 2007 - 04:38:08 CDT)
- Re: Scripts to unwrap PBC from REMD trajectory (Fri Mar 16 2007 - 03:57:59 CDT)
- Re: Scripts to unwrap PBC from REMD trajectory (Fri Mar 16 2007 - 02:52:57 CDT)
- Re: Tracing VMD variables (Wed Feb 28 2007 - 00:30:35 CST)
- Tracing VMD variables (Mon Feb 26 2007 - 08:10:03 CST)
- Re: "get {x y z}" returns single value (Fri Feb 23 2007 - 11:16:30 CST)
- Re: plot the box margins (Wed Jan 10 2007 - 03:11:40 CST)
- Re: VMD email support next two weeks (Tue Dec 19 2006 - 01:04:21 CST)
- Problem solved (was: Re: Unable to compile plugins on MACOSXX86) (Fri Dec 08 2006 - 10:56:44 CST)
- Unable to compile plugins on MACOSXX86 (Fri Dec 08 2006 - 07:27:11 CST)
- VMD trajectory/structure/coordinate format (Thu Oct 26 2006 - 07:28:52 CDT)
- Re: Re: pbc: relation of orthonormalizing; cart. coords; rotation matrices. (Mon Oct 09 2006 - 09:58:55 CDT)
- Re: no main window with ATI openGL (Wed Oct 04 2006 - 08:11:02 CDT)
- Mesa rendering (Thu Jul 20 2006 - 07:56:26 CDT)
- Re: Customizing VMD Sessions (Thu Apr 14 2005 - 05:39:22 CDT)
- Re: How to image molecules back into a PBC box? (Wed Feb 16 2005 - 03:08:15 CST)
- VMD vs. BALLview? (Tue Feb 01 2005 - 01:45:03 CST)
- Extensions to the selection language (Thu Jul 22 2004 - 11:08:38 CDT)
- Re: Axes are not rotated? (Thu Jul 22 2004 - 10:50:06 CDT)
- Re: Picking atoms: romoving or changing the position of atoms (Tue Jul 20 2004 - 12:11:17 CDT)
- Re: FPS indicator color (Tue Jul 20 2004 - 12:06:03 CDT)
- Axes are not rotated? (Mon Jul 19 2004 - 10:12:29 CDT)
- FPS indicator color (Mon Jul 19 2004 - 10:06:55 CDT)
- Re: File Reader Plugin Issues (Mon Jul 19 2004 - 06:14:29 CDT)
- Re: Picking atoms: romoving or changing the position of atoms (Mon Jul 19 2004 - 03:44:44 CDT)
- Picking atoms (Fri Jul 16 2004 - 10:06:46 CDT)
- "Selection not understood" (Fri Jul 16 2004 - 09:47:04 CDT)
- File Reader Plugin Issues (Fri Jul 16 2004 - 09:40:33 CDT)
- Default radii and colors (Fri Jul 16 2004 - 09:21:03 CDT)
- Re: Elliptic molecules (Fri Jul 16 2004 - 09:07:36 CDT)
- Re: Elliptic molecules (Thu Jul 15 2004 - 09:56:21 CDT)
- Using VMD for non-atomic simulations? (Wed Mar 03 2004 - 03:51:39 CST)
- Re: Color error on loading (Wed Mar 03 2004 - 03:12:02 CST)
Oleg Stroganov
- VMD crashes when files are drag-and-dropped - any resolution? (Wed Jun 03 2020 - 22:14:54 CDT)
- VMD crashes when drag-and-dropping files in Windows (Tue Nov 13 2018 - 04:16:09 CST)
- Re: Depth Cueing and dispdev none (Tue Aug 12 2008 - 18:03:29 CDT)
- Depth Cueing and dispdev none (Thu Aug 07 2008 - 16:10:36 CDT)
Oleg V. Stroganov
- Re[2]: Basic VMD questions... (Sat Oct 09 2004 - 12:21:35 CDT)
- MSMS under Windows (Sun Sep 19 2004 - 06:33:40 CDT)
Oleksii Zdorevskyi
- Re: compiling VMD with cuda from source (Mon May 04 2020 - 09:11:25 CDT)
- Re: compiling VMD with cuda from source (Mon Apr 13 2020 - 09:45:11 CDT)
- Re: compiling VMD with cuda from source (Mon Apr 13 2020 - 04:28:00 CDT)
- compiling VMD with cuda from source (Fri Apr 10 2020 - 10:28:57 CDT)
- Re: VMD 1.9.3 compiled from source does not work (Fri Jan 24 2020 - 11:06:12 CST)
- VMD 1.9.3 compiled from source does not work (Wed Jan 22 2020 - 15:24:58 CST)
Olesya Haze
- plotting spin density (Thu May 05 2011 - 18:17:50 CDT)
olga hrydziuszko
- top2psf script (Mon Oct 02 2006 - 09:08:29 CDT)
Olga Kravchenko
- Re: bad resolution and too slow on mandrake 10.0 (Wed May 25 2005 - 05:00:28 CDT)
- RE: trouble loading dcd files (Sun May 09 2004 - 03:30:27 CDT)
Olimpia Popko
- (no subject) (Tue Dec 07 2010 - 05:08:50 CST)
Oliver Beckstein
- Re: porcupine plot (Wed Apr 02 2008 - 16:46:40 CDT)
- Re: Increasing MAXATOMBONDS? (Mon Jan 21 2008 - 10:42:05 CST)
- Re: Increasing MAXATOMBONDS? (Thu Dec 20 2007 - 15:50:10 CST)
- Re: Increasing MAXATOMBONDS? (Tue Dec 18 2007 - 16:05:02 CST)
- Increasing MAXATOMBONDS? (Mon Dec 17 2007 - 13:37:42 CST)
- Re: vmd command delay (Wed Nov 21 2007 - 20:27:41 CST)
- Re: analysing big trajectories (fwd) (Wed Nov 21 2007 - 19:05:14 CST)
- Re: analysing big trajectories (Wed Nov 21 2007 - 19:13:32 CST)
- analysing big trajectories (Tue Nov 20 2007 - 14:28:45 CST)
- Re: volume shading in 1.8.3b1 ? (Tue Feb 08 2005 - 15:28:30 CST)
- Re: volume shading in 1.8.3b1 ? (Mon Feb 07 2005 - 10:58:50 CST)
- volume shading in 1.8.3b1 ? (Mon Feb 07 2005 - 10:03:34 CST)
- Re: HOLE output visualization (Wed Mar 17 2004 - 04:45:45 CST)
- Re: attempting to source a script (Wed Feb 11 2004 - 18:05:24 CST)
- Re: random graphics outages on startup (Thu Feb 05 2004 - 12:23:42 CST)
- Re: Spatial Distributionb Functions (Thu Feb 05 2004 - 12:35:41 CST)
- random graphics outages on startup (Wed Feb 04 2004 - 08:06:33 CST)
- plt plugin missing (?) (Tue Nov 25 2003 - 09:14:51 CST)
- plt plugin found (Tue Nov 25 2003 - 09:33:14 CST)
- Re: vmd 1.8 Linux mesa on RedHat (Tue Oct 14 2003 - 17:44:42 CDT)
- Re: remote_ctl.tcl: VMD's stdout -> socket ? (Wed Feb 12 2003 - 17:22:38 CST)
- remote_ctl.tcl: VMD's stdout -> socket ? (Wed Feb 12 2003 - 16:10:04 CST)
- remote control (fifo/socket) ? (Tue Feb 04 2003 - 09:58:54 CST)
- python: readline support (Tue Feb 04 2003 - 09:47:13 CST)
- python: packages not found (Tue Feb 04 2003 - 09:45:46 CST)
Oliver Grant
- Re: Ambient/direct light missing after adding Glow lights to a tachyon scene with glow_lights.tcl (Fri Oct 19 2018 - 10:07:41 CDT)
- Ambient/direct light missing after adding Glow lights to a tachyon scene with glow_lights.tcl (Fri Oct 19 2018 - 06:04:37 CDT)
Oliver Inderwildi
- Tcl commands on Mac (Mon Jun 26 2006 - 17:51:15 CDT)
Oliver Lanning
- Changing the atom species during animation (Wed Sep 08 2004 - 02:59:11 CDT)
Oliver Otto
- Re: Test version of VMD 1.8.4 for Linux/IA64 (SGI Prism, Altix, etc..) (Wed Jul 06 2005 - 12:38:43 CDT)
- Re: Test version of VMD 1.8.4 for Linux/IA64 (SGI Prism, Altix, etc..) (Thu Jun 23 2005 - 05:32:24 CDT)
- Re: VMD 1.8.4 test builds, 32-bit and 64-bit AIX5... (Wed Jun 22 2005 - 12:25:54 CDT)
- Re: VMD 1.8.4 test builds, 32-bit and 64-bit AIX5... (Wed Jun 22 2005 - 11:55:05 CDT)
- Re: Test version of VMD 1.8.4 for Linux/IA64 (SGI Prism, Altix, etc..) (Wed Jun 22 2005 - 05:34:37 CDT)
- VMD for SGI Altix/Prism, IBM AIX5, etc.. (Mon Jun 20 2005 - 06:16:01 CDT)
Oliver Schillinger
- atom selection from multiple molecules (Mon Sep 02 2013 - 10:17:06 CDT)
Oliver Schmetzer
- problem with polygon file conversion to pdb (Fri Aug 03 2012 - 11:33:21 CDT)
Oliver Stenning
- Autobond Criterion (Fri Sep 06 2013 - 03:52:40 CDT)
Oliver Sørensen Siig
- Problems with rendering with POV-Ray (Sat Dec 22 2018 - 07:12:41 CST)
Oliver Wenisch
- Head tracking with VRPN and VMD (Mon May 09 2005 - 09:57:43 CDT)
Olivia Reilly
- Save thousands... no one will know (Sat Mar 07 2009 - 11:23:52 CST)
olivier Walker
- Problem starting VMD with Fedora Core3 (Fri Mar 04 2005 - 09:10:15 CST)
Olve Peersen
- Re: Hardware for NAMD / VMD machine (Mon Jul 06 2009 - 13:39:53 CDT)
- Hardware for NAMD / VMD machine (Fri Jul 03 2009 - 01:26:11 CDT)
Olya Kravchenko
- problem with adding ions (Fri Apr 20 2018 - 12:33:14 CDT)
- namd plot not showing full range of data? (Fri Jun 30 2017 - 15:38:45 CDT)
- Re: substitute one residue without rebuilding the structure? (Fri May 05 2017 - 13:27:39 CDT)
- Re: substitute one residue without rebuilding the structure? (Fri May 05 2017 - 13:12:41 CDT)
- Re: substitute one residue without rebuilding the structure? (Thu May 04 2017 - 22:00:20 CDT)
- substitute one residue without rebuilding the structure? (Thu May 04 2017 - 16:58:38 CDT)
- Re: is there any plugin or software to combine PMF trajectory with VMD image? (Wed Feb 08 2017 - 14:45:52 CST)
- is there any plugin or software to combine PMF trajectory with VMD image? (Wed Feb 08 2017 - 11:11:16 CST)
- Re: getting list of correct indices? (Thu Aug 18 2016 - 17:01:15 CDT)
- Re: getting list of correct indices? (Thu Aug 18 2016 - 15:37:55 CDT)
- getting list of correct indices? (Thu Aug 18 2016 - 14:54:16 CDT)
- Re: adding free Fe(II) ions? (Mon Apr 25 2016 - 14:25:32 CDT)
- adding free Fe(II) ions? (Wed Apr 20 2016 - 15:01:39 CDT)
- Re: solvate fails to set coordinates for the first few residues of the first chain? (Wed Apr 20 2016 - 10:57:07 CDT)
- solvate fails to set coordinates for the first few residues of the first chain? (Tue Apr 19 2016 - 14:59:01 CDT)
- Re: constructing spherical molecule? (Tue Apr 05 2016 - 10:23:46 CDT)
- constructing spherical molecule? (Mon Apr 04 2016 - 15:16:12 CDT)
- Re: building a solvent/gas filled simulation box, no protein inside (Thu Feb 04 2016 - 20:53:17 CST)
- Re: building a solvent/gas filled simulation box, no protein inside (Thu Feb 04 2016 - 21:23:13 CST)
- Re: building a solvent/gas filled simulation box, no protein inside (Fri Jan 29 2016 - 13:36:24 CST)
- building a solvent/gas filled simulation box, no protein inside (Fri Jan 29 2016 - 13:17:28 CST)
- removing water from inside the membranes in a duplicate membrane system (Wed Jan 06 2016 - 15:51:47 CST)
- Re: slow vmd - it works now!!! (Wed May 12 2004 - 16:03:49 CDT)
- Re: vmd 1.8.2 - slow on linux (Tue May 11 2004 - 16:44:27 CDT)
- Re: vmd 1.8.2 - slow on linux (Tue May 11 2004 - 16:38:39 CDT)
- Re: vmd 1.8.2 - slow on linux (Tue May 11 2004 - 15:30:47 CDT)
- tkCon window - how to make font bigger? (Tue May 11 2004 - 14:16:29 CDT)
- Re: vmd 1.8.2 - slow on linux (Tue May 11 2004 - 13:21:22 CDT)
- vmd 1.8.2 - slow on linux (Mon May 10 2004 - 16:35:36 CDT)
- how to look for overlaps? (Thu May 06 2004 - 14:55:05 CDT)
OMAR NABEEL ALY DEMERDASH
- Re: error message using gofr (Mon Jan 08 2007 - 15:17:42 CST)
- error message using gofr (Fri Jan 05 2007 - 16:03:12 CST)
omid gh
- Re: compile vmd for windows 10 (Wed Oct 14 2020 - 05:35:42 CDT)
- high quality videos (Wed Sep 30 2020 - 11:03:01 CDT)
- Re: increase the resolution of images (Wed Sep 30 2020 - 04:46:21 CDT)
- increase the resolution of images (Tue Sep 29 2020 - 13:34:31 CDT)
- compile vmd for windows 10 (Tue Sep 22 2020 - 06:43:36 CDT)
- Re: topo tool guess bond algorithm (Wed Sep 16 2020 - 04:34:47 CDT)
- Re: topo tool guess bond algorithm (Tue Sep 15 2020 - 15:22:15 CDT)
- topo tool guess bond algorithm (Tue Sep 15 2020 - 13:39:34 CDT)
- Re: hide bonds (Thu Sep 10 2020 - 06:12:51 CDT)
- hide bonds (Thu Sep 10 2020 - 02:45:18 CDT)
- topotool lammps data_file viewing (Sun Sep 06 2020 - 06:20:02 CDT)
- new type cross terms in topo tool (Sat May 09 2020 - 13:46:15 CDT)
- delete angle type with topo tool (Sat May 09 2020 - 11:46:22 CDT)
- vmd 1.9.4 (Thu Apr 23 2020 - 12:10:59 CDT)
Omololu
- transparent background in vmd (Fri Feb 23 2007 - 10:11:24 CST)
Ondrej Kroutil
- RDF in big trejectory (Thu Apr 30 2015 - 06:04:23 CDT)
- "Dynamic" gofr (Wed Nov 12 2014 - 17:52:22 CST)
- Re: Dynamic atomselect (Thu Oct 30 2014 - 11:07:02 CDT)
- Dynamic atomselect (Thu Oct 30 2014 - 08:49:09 CDT)
Ondrej Marsalek
- Re: TopoTools and box information in LAMMPS data (Mon Mar 09 2015 - 02:43:29 CDT)
- TopoTools and box information in LAMMPS data (Sun Mar 08 2015 - 23:28:28 CDT)
- Re: VMD 1.8.7 amd64 python libs? (Wed Dec 02 2009 - 11:22:21 CST)
- Re: Resize window from TCL (Mon Sep 21 2009 - 12:52:02 CDT)
- Resize window from TCL (Mon Sep 21 2009 - 11:51:46 CDT)
- Re: plugin: can I load volumetric data as frames (i.e. timesteps)? (Wed Jun 10 2009 - 11:28:26 CDT)
- Re: plugin: can I load volumetric data as frames (i.e. timesteps)? (Wed Jun 10 2009 - 10:09:03 CDT)
- Re: plugin: can I load volumetric data as frames (i.e. timesteps)? (Wed Jun 10 2009 - 07:54:05 CDT)
- Re: how to load a state from the command line (Wed May 20 2009 - 10:18:24 CDT)
- Re: VMD as a python module (Mon May 18 2009 - 11:30:55 CDT)
- VMD as a python module (Mon May 18 2009 - 04:45:39 CDT)
- Re: memory leak found (Tue Dec 02 2008 - 12:40:26 CST)
- Re: memory leak found (Tue Dec 02 2008 - 12:19:51 CST)
- memory leak found (Tue Dec 02 2008 - 09:08:09 CST)
- Re: how to prevent view reset on data load (Sun Nov 30 2008 - 15:58:56 CST)
- how to prevent view reset on data load (Sat Nov 29 2008 - 10:52:45 CST)
- Re: unloading volumetric data (Mon Nov 24 2008 - 11:09:35 CST)
- unloading volumetric data (Mon Nov 24 2008 - 10:18:39 CST)
Ondrej Sramek
- Writing MolFile plugin for CIF (Wed Aug 08 2007 - 06:12:03 CDT)
Onur Alptürk
- FW: Seeking assistance (Sat Dec 12 2020 - 08:01:31 CST)
OPC3_at_pitt.edu
- PBC wrap on hexagonal periodic cells (Thu Oct 28 2010 - 12:12:51 CDT)
Oren Elrad
- Re: Question about trace vmd_frame(molid) (Fri Aug 15 2008 - 13:24:25 CDT)
- Question about trace vmd_frame(molid) (Fri Aug 15 2008 - 11:33:02 CDT)
Orsolya Karácsony
- Error: Maximum number of bonds exceeded (Sat Sep 07 2013 - 13:30:21 CDT)
Oscar Bastidas
- Script Modification to Print Phi and Psi Angles (Mon Jun 06 2022 - 23:12:08 CDT)
- Question for Installing Plugin for VMD on Mac (Sun Oct 06 2019 - 12:41:08 CDT)
- Automating VMD (Thu May 03 2018 - 16:51:01 CDT)
Oscar Moran
- superposition (Thu Jul 17 2003 - 06:53:53 CDT)
- amber trajectory (Wed Jun 18 2003 - 03:17:58 CDT)
- stereo (Wed May 28 2003 - 12:24:47 CDT)
Osman BarÄ±ÅŸ MalcÄ±oÄŸlu
- Remote indirect GLX, Xquartz and nvidia drivers (Wed Nov 29 2017 - 03:42:49 CST)
Osman, Roman
- Re: Vmd on Monterey (Sat Dec 25 2021 - 07:57:55 CST)
- Vmd on Monterey (Thu Dec 23 2021 - 22:31:03 CST)
Osmany Guirola Cruz
- Re: stereo problem with vmd (Fri Jun 25 2010 - 12:51:26 CDT)
- stereo problem with vmd (Fri Jun 25 2010 - 06:58:06 CDT)
- stereo view (Fri Feb 16 2007 - 14:06:43 CST)
- Re: change default drawing and coloring method (Tue May 23 2006 - 10:10:47 CDT)
- Re: ati interlace mode (Sat May 20 2006 - 14:52:25 CDT)
- Re: ati interlace mode (Wed May 17 2006 - 13:45:54 CDT)
- Re: ati interlace mode (Tue May 16 2006 - 14:13:55 CDT)
- Re: ati interlace mode (Tue May 16 2006 - 07:33:00 CDT)
- Re: ati interlace mode (Mon May 15 2006 - 10:03:44 CDT)
- ati interlace mode (Fri May 12 2006 - 12:12:42 CDT)
- pdb - generation (Tue Mar 21 2006 - 06:39:31 CST)
- compose pdb (Fri Feb 03 2006 - 12:37:47 CST)
- stereo with vmd (Wed Feb 01 2006 - 16:53:32 CST)
- Re: ati radeon 9200 (Thu Dec 22 2005 - 14:58:33 CST)
- ati radeon 9200 (Thu Dec 22 2005 - 10:00:07 CST)
- mol files (Tue Nov 08 2005 - 14:26:47 CST)
- merge (Mon Jan 03 2005 - 11:26:46 CST)
- Re: web script (Mon Nov 01 2004 - 10:48:42 CST)
- Re: web script (Mon Nov 01 2004 - 06:49:53 CST)
- web script (Fri Oct 29 2004 - 16:20:05 CDT)
- Re: vmd port on FreeBSD (Mon Aug 23 2004 - 10:42:03 CDT)
- Re: vmd port on FreeBSD (Mon Aug 23 2004 - 09:36:35 CDT)
- Re: draw lines (Wed May 26 2004 - 07:36:13 CDT)
- draw lines (Tue May 25 2004 - 13:02:36 CDT)
Otakandza Glenn
- Visualize a lammpstrij file (Thu Jan 20 2022 - 05:52:50 CST)
- Select a molecule with multiple indexes (Mon Nov 22 2021 - 09:17:27 CST)
- Atomic bond counting wuth VMD (Fri Jun 19 2020 - 06:11:03 CDT)
Owen Lindsay
- Re: Your Val1um 0rder #6578980 (Fri Apr 20 2007 - 22:11:49 CDT)
Owen Vickery
- Re: new cartoon representation resid selection (Mon Apr 20 2020 - 05:08:47 CDT)
- new cartoon representation resid selection (Thu Apr 16 2020 - 05:04:27 CDT)
Ozan Dernek
- Bader Charge Analysis (Fri Aug 21 2015 - 10:05:18 CDT)
- Re: (Wed Aug 19 2015 - 03:40:08 CDT)
- (no subject) (Tue Aug 18 2015 - 09:31:29 CDT)
OZGE ENGIN
- usage for the pacth 5DP (there is no information in the tutorial) (Sat Nov 08 2008 - 03:10:17 CST)
- usage for the patch 5DP (there is no information in the tutorial) (Sat Nov 08 2008 - 03:17:41 CST)
- usage for the patch 5DP (there is no information in the tutorial) (Fri Nov 07 2008 - 19:04:35 CST)
- coloring according to charge of residues (Mon May 12 2008 - 10:05:33 CDT)
- Re: Re: unusual bond between the cysteine and arginine residue during the simulation (Fri Feb 29 2008 - 15:01:10 CST)
- unusual bond between the cysteine and arginine residue during the simulation (Fri Feb 29 2008 - 13:30:01 CST)
- Re: Cluster plugin and Gromacs g_cluster (Wed Feb 27 2008 - 07:21:15 CST)
- visualizing disulphide bonds (Sun Feb 24 2008 - 04:31:18 CST)
- Re: Re: monitor helicity change (Fri Feb 22 2008 - 01:58:26 CST)
- Re: Re: the script do not update the frame number for secondary structure analysis (Mon Feb 11 2008 - 04:01:15 CST)
- the script do not update the frame number for secondary structure analysis (Sun Feb 10 2008 - 05:18:46 CST)
- the script do not update the frame for secondary structure analysis (Sun Feb 10 2008 - 04:13:03 CST)
- ssrecalc output for the whole trajectory (Sat Feb 09 2008 - 08:28:02 CST)
- Re: Re: Re: output of the ssrecalc command (Sat Feb 09 2008 - 07:22:59 CST)
- Re: Re: output of the ssrecalc command (Sat Feb 09 2008 - 06:39:27 CST)
- output of the ssrecalc command (Fri Feb 08 2008 - 14:01:45 CST)
- About Cluster Plug-in (Tue Feb 05 2008 - 09:05:00 CST)
- Re: Re: Cluster analysis (Tue Feb 05 2008 - 06:29:17 CST)
- Re: Re: Re: problem with the new cartoon representation mode (Sat Dec 08 2007 - 16:53:51 CST)
- Re: Re: problem with the new cartoon representation mode (Sat Dec 08 2007 - 15:36:37 CST)
- problem with the new cartoon representation mode (Sat Dec 08 2007 - 13:42:12 CST)
Ozgun Kirker (Student)
- Distance measurement and PBC (Fri May 23 2014 - 21:30:17 CDT)
- Using bigdcd (Thu May 15 2014 - 18:40:57 CDT)
P A Deshpande
- Problem in invoking VMD (Mon Oct 08 2012 - 10:27:00 CDT)
P C Kroon
- RE: Plugins show no text (Thu Aug 30 2018 - 04:25:46 CDT)
P.-L. Chau
- VMD membrane builder (Thu May 31 2012 - 07:03:34 CDT)
- Re: file splitting (Thu May 17 2012 - 07:42:58 CDT)
- file splitting (Thu May 17 2012 - 03:19:50 CDT)
p.w.fowler_at_qmul.ac.uk
- Re: removing surrounding water molecules (Fri Feb 13 2004 - 17:04:08 CST)
Pablo Alfonso Madero Ayala
- Problem with QwikMD automatic NTER patch (Wed Apr 17 2019 - 16:45:37 CDT)
Pablo De Biase
- Re: rlwrap problem on (Tue Nov 22 2011 - 13:38:58 CST)
Pablo M. De Biase
- Re: Can Catdcd Write Out Periodic Cell Size Information? (Mon Nov 28 2011 - 17:41:40 CST)
- Re: Can Catdcd Write Out Periodic Cell Size Information? (Mon Nov 28 2011 - 16:11:36 CST)
- Re: Can Catdcd Write Out Periodic Cell Size Information? (Mon Nov 28 2011 - 10:39:55 CST)
Pablo Villalobos Navarro
- beta column in a multiseq sequences alignment (Tue Aug 21 2012 - 18:21:07 CDT)
Pacci Evaristo, Felipe Fabricio
- How can a known point be moved to the origin of the screen? (Sun Jul 21 2024 - 23:19:36 CDT)
- Set constant length scale to molecules in boxes of different sizes (Sun Feb 26 2023 - 14:39:37 CST)
- Re: mail about VMD installation (Fri Dec 31 2021 - 14:00:29 CST)
- Re: Open VMD in current terminal directory (Tue Dec 21 2021 - 13:10:55 CST)
- Open VMD in current terminal directory (Tue Dec 14 2021 - 16:57:13 CST)
- Re: Render image background-free (Tue Mar 02 2021 - 15:52:59 CST)
- Render image background-free (Tue Mar 02 2021 - 13:43:02 CST)
- Re: VMD 1.9.4a50 test versions for MacOS Big Sur -- both x86 and ARM64 (M1) (Mon Dec 14 2020 - 11:27:17 CST)
- Re: VMD 1.9.4a50 test versions for MacOS Big Sur -- both x86 and ARM64 (M1) (Mon Dec 14 2020 - 09:37:03 CST)
- Re: VMD for macOS Big Sur (Mon Dec 07 2020 - 12:10:17 CST)
- VMD for macOS Big Sur (Sun Dec 06 2020 - 16:35:36 CST)
Pacho Ramos
- VMD python3 version (Sat Sep 05 2020 - 07:16:15 CDT)
Pallab Dutta
- regarding the python interface of vmd (Tue Jul 11 2017 - 00:45:48 CDT)
Palmer, Teresa
- Writing a pdb file with header information (Mon Feb 13 2006 - 16:57:04 CST)
- Changing the title in the viewer window (Wed Sep 28 2005 - 12:16:55 CDT)
- Creating a demo - updating the OpenGL window (Mon Jun 20 2005 - 14:30:22 CDT)
- Adding a logo to a screenshot (Fri May 20 2005 - 15:12:55 CDT)
- Enabling a menu on the top level (Wed Apr 20 2005 - 11:17:43 CDT)
- Setting the speed of rotation (Mon Apr 18 2005 - 11:27:26 CDT)
- Displaying simulations and rotations (Wed Apr 06 2005 - 11:03:11 CDT)
Panagiota Georgoulia
- volmap (Tue Oct 21 2008 - 09:07:35 CDT)
- volmap (Tue Oct 21 2008 - 06:17:51 CDT)
- animated gif (Mon Oct 20 2008 - 06:37:32 CDT)
PANAGIOTA KYRIAKOU
- Fwd: APBS on each frame (Thu Aug 08 2013 - 14:56:39 CDT)
Panagiotis Lagarias
- change_tkconsole_color_of_background_and_foreground (Sun Dec 04 2016 - 04:48:07 CST)
Pang, Yui Tik
- RE: Error in FFTK charges optimization (Run Optimization) (Sun Aug 28 2022 - 20:03:48 CDT)
- Re: Error in FFTK charges optimization (Run Optimization) (Fri Aug 19 2022 - 08:40:30 CDT)
- Re: FFTK Parameterization of Halogenated Molecule (Fri May 06 2022 - 12:08:43 CDT)
- RE: FFTK Parameterization of Halogenated Molecule (Fri May 06 2022 - 10:00:10 CDT)
- Re: FFTK segmentation fault when guessing charge groups (Tue Dec 07 2021 - 15:12:20 CST)
- Re: FFTK segmentation fault when guessing charge groups (Fri Dec 03 2021 - 09:05:49 CST)
- Re: Error "vecscale: parameters must have data" in water interaction step of FFTK (Wed Nov 18 2020 - 15:15:10 CST)
- RE: extended system file not found (Tue Nov 17 2020 - 20:36:02 CST)
- Re: "atomsel: set: bad data in 0th element" ffTK (Thu Nov 12 2020 - 00:07:15 CST)
Panichakorn Jaiyong
- a problem with installation (to generate the Makefile ) (Mon Aug 06 2007 - 23:52:26 CDT)
Paolo Conflitti
- Re: Analysis of DLG filles (Fri Nov 06 2020 - 07:26:01 CST)
- Re: Analysis of DLG filles (Fri Nov 06 2020 - 03:00:43 CST)
- Visualization of coarse grained molecule with coarse_grain.tcl (Tue May 03 2011 - 10:10:41 CDT)
Papan S
- Re: using min. image. conven. for transport properties (Wed Apr 04 2012 - 23:06:18 CDT)
- using min. image. conven. for transport properties (Wed Apr 04 2012 - 08:16:00 CDT)
paquotau_at_loria.fr
- (no subject) (Wed May 21 2008 - 08:12:51 CDT)
- Several molecules (Tue May 20 2008 - 10:17:18 CDT)
parinaz bashirbanaem
- question about RDF (Fri Feb 19 2021 - 11:19:36 CST)
- question about RDF (Fri Feb 19 2021 - 10:46:32 CST)
- Having problem with geometrical structure (Sun Jan 28 2018 - 04:16:44 CST)
- question about point substitution Aâ†’U (Sat Dec 30 2017 - 12:32:03 CST)
Parisa Akhski
- RE: VMD text mode/unwrap (Mon Nov 01 2010 - 21:40:11 CDT)
- VMD text mode/unwrap (Sun Oct 31 2010 - 19:53:47 CDT)
- RE: missing frames in trajectory file (Tue Oct 12 2010 - 16:33:12 CDT)
- missing frames in trajectory file (Wed Oct 06 2010 - 17:49:29 CDT)
- RE: minimization changed the occupancy of all atoms to zero (Mon Sep 20 2010 - 10:35:35 CDT)
- RE: Autoionize question for DNA molecule (Fri Sep 17 2010 - 16:11:50 CDT)
- minimization changed the occupancy of all atoms to zero (Fri Sep 17 2010 - 16:17:11 CDT)
- Autoionize question for DNA molecule (Tue Sep 14 2010 - 17:45:52 CDT)
- RE: RMSD trajectory tool (Fri Aug 27 2010 - 15:22:03 CDT)
- RMSD trajectory tool (Fri Aug 27 2010 - 13:06:40 CDT)
- RE: Cannot find "cionize plugin" in VMD (Wed Jul 21 2010 - 13:31:39 CDT)
- RE: Cannot find "cionize plugin" in VMD (Tue Jul 20 2010 - 12:36:32 CDT)
- Cannot find "cionize plugin" in VMD (Fri Jul 16 2010 - 14:26:59 CDT)
- RE: Cionize question for DNA molecule (Thu Jul 15 2010 - 11:52:54 CDT)
- Autoionize question for DNA molecule (Mon Jul 12 2010 - 10:10:11 CDT)
- RE: Autoionize does not neutralize the system (Wed Jul 07 2010 - 10:04:12 CDT)
- RE: Autoionize does not neutralize the system (Tue Jul 06 2010 - 14:36:20 CDT)
- Autoionize does not neutralize the system (Tue Jul 06 2010 - 09:16:20 CDT)
- problem with generating PSF file for guanine based molecule (Sun Feb 07 2010 - 11:51:03 CST)
Parker de Waal
- OptiX AO rendering (Wed Oct 19 2016 - 11:50:39 CDT)
- TachyonLOptiXInternal antialiasing (Mon Jul 06 2015 - 22:44:45 CDT)
- Sodium within distance (Mon Jul 06 2015 - 21:56:39 CDT)
- RE: Atom Selection Rectangle (Wed Sep 24 2014 - 14:45:42 CDT)
- RE: Atom Selection Rectangle (Wed Sep 24 2014 - 13:49:27 CDT)
- Re: Atom Selection Rectangle (Tue Sep 23 2014 - 21:49:32 CDT)
- Atom Selection Rectangle (Tue Sep 23 2014 - 20:27:08 CDT)
PARMINDER MANKOO
- Time series for SASA calculation: (Wed Sep 26 2007 - 13:40:12 CDT)
- Re: RMSF calculation question: (Sat Jun 30 2007 - 22:06:43 CDT)
- RMSF calculation question: (Sat Jun 30 2007 - 19:09:18 CDT)
- angle between protein domains: (Tue Jun 26 2007 - 15:46:02 CDT)
Parth Chaturvedi
- using martini forcefields for DNA in NAMD (Mon Jul 01 2019 - 18:34:51 CDT)
parth singh
- how to make a movie of 2 or more trajectories (Thu Jun 26 2008 - 15:59:08 CDT)
Parul tew
- problem in overlapping atoms (Sun May 22 2011 - 05:02:18 CDT)
- problem in overlapping atoms (Sun May 22 2011 - 05:01:31 CDT)
Parvez Mh
- bond Label position (Mon Jun 06 2016 - 12:21:00 CDT)
- Re: Gaussian *.log/out visualize (Sun Mar 27 2016 - 20:04:01 CDT)
- Re: Gaussian *.log/out visualize (Mon Mar 21 2016 - 18:26:47 CDT)
- Gaussian *.log/out visualize (Thu Mar 17 2016 - 17:57:44 CDT)
- Re: default drawing style (Thu Mar 17 2016 - 18:02:06 CDT)
- Re: default drawing style (Tue Mar 15 2016 - 08:28:27 CDT)
- default drawing style (Mon Mar 14 2016 - 21:15:10 CDT)
- default drawing style (Fri Mar 11 2016 - 01:02:06 CST)
- Double bond in VMD (Wed Oct 21 2015 - 17:45:25 CDT)
Parviz Seifpanahi Shabane
- How to get box information from file.dcd. (Mon Jun 17 2019 - 14:16:45 CDT)
- How to calculate water density. (Mon Jun 17 2019 - 09:34:57 CDT)
- How to transfer Anton trajectory to AMBER trajectory. (Mon Apr 22 2019 - 09:29:14 CDT)
Pascal Bonnet
- delete bonds in TIP3P (Wed Jul 31 2002 - 06:52:07 CDT)
- delete bonds in TIP3P water model (Sat Jul 27 2002 - 05:51:49 CDT)
- icon in LABEL (Wed Jul 17 2002 - 08:17:58 CDT)
pascal boulet
- draw bond across cell boudary (Thu Jan 20 2011 - 15:47:44 CST)
- variable atom count in XYZ multiframe trajectory (Tue Feb 01 2005 - 10:55:36 CST)
Pascal Mercier
- Empty Extension menu on OSX (Mon Dec 09 2002 - 17:24:52 CST)
pascal.baillod_at_epfl.ch
- Re: frame number input in tcl and direct mol graph display update (II) (Fri Jul 27 2007 - 04:56:24 CDT)
- dssp in vmd (II) (Fri Jul 27 2007 - 05:04:54 CDT)
- frame number input in tcl and direct mol graph display update (II) (Tue Jul 24 2007 - 09:36:35 CDT)
- frame number input in tcl and direct mol graph display update (Thu Jul 12 2007 - 09:35:45 CDT)
- TCL: centering molecule into middle of display after translation (Wed Oct 05 2005 - 12:13:53 CDT)
- changing cpk shere scale in TCL (Wed Oct 05 2005 - 12:07:15 CDT)
- dssp in vmd (Wed Aug 17 2005 - 02:15:11 CDT)
Pascale Geysermans
- vmd 1.8.6 doesn't run on Fedora Core 7 EMT64 (Fri Nov 16 2007 - 09:37:50 CST)
Passerone, Daniele
- R: Re: Add bond across boundaries (Tue May 06 2014 - 09:58:19 CDT)
- Add bond across boundaries (Tue May 06 2014 - 08:25:54 CDT)
- FW: 3D-Connexion Space Navigator for Macosx (Fri Jan 04 2013 - 00:47:42 CST)
- 3D-Connexion Space Navigator for Macosx (Wed Nov 21 2012 - 04:35:43 CST)
- VMD 1.9.1 on Macosx Snow Leopard: items greyed out (Tue Aug 14 2012 - 04:14:17 CDT)
- Re: 3d space navigator and MacosX-vmd (Wed Jul 11 2012 - 09:41:45 CDT)
- Re: 3d space navigator and MacosX-vmd (Wed Jul 11 2012 - 04:25:37 CDT)
- Re: 3d space navigator and MacosX-vmd (Fri Jul 06 2012 - 07:01:20 CDT)
- 3d space navigator and MacosX-vmd (Mon Jul 02 2012 - 22:08:28 CDT)
- Volume Slice + Coloring by volume problem in MacOsx (REPOST) (Fri Nov 11 2011 - 15:06:27 CST)
- Volume Slice + Coloring by volume problem in MacOsx (Fri Nov 04 2011 - 00:31:15 CDT)
- vmd for mac: range in isosurface representation (Tue Mar 15 2011 - 04:34:48 CDT)
- Re: snow leopard CUDA and VMD 1.9 (Fri Mar 11 2011 - 12:14:55 CST)
- snow leopard CUDA and VMD 1.9 (Fri Mar 11 2011 - 09:29:30 CST)
Pat Yee
- RE: Water molecules within a definite radius (Mon Nov 15 2010 - 17:47:29 CST)
- RE: trouble with measure hbonds (Mon Oct 04 2010 - 17:09:42 CDT)
- Re: Solvent accessible surface area change during MD run (Fri Oct 01 2010 - 19:33:41 CDT)
- DCD Based on a parameter (Thu Aug 26 2010 - 09:01:51 CDT)
Patargias, George
- Distance lines (Thu Sep 09 2010 - 15:24:38 CDT)
Patric Beuthen
- problems with MSMS (Fri Jun 26 1998 - 08:38:12 CDT)
Patricia Soto
- stl (Wed Apr 17 2002 - 05:08:20 CDT)
Patrick Buck
- Render alpha-carbon trace as cartoon (Thu Feb 05 2009 - 13:57:54 CST)
Patrick Burney
- Re: Bond Colors (Wed Oct 13 2010 - 14:41:43 CDT)
- maximum trajectory size? (Wed Sep 08 2010 - 19:04:38 CDT)
Patrick Charchar
- Smoothing PBC jumps across PBC (Wed Nov 15 2023 - 23:27:39 CST)
- Re: Script to Build Cyclic Peptides (Thu Oct 26 2023 - 19:02:23 CDT)
- Re: Script to Build Cyclic Peptides (Thu Oct 26 2023 - 17:31:26 CDT)
- Re: How to measure several angles? (Mon Dec 07 2020 - 19:48:48 CST)
- RE: measure rmsd with non-serial atom ordering between two selections (Tue May 07 2019 - 20:16:32 CDT)
- measure rmsd with non-serial atom ordering between two selections (Tue May 07 2019 - 17:54:41 CDT)
- Pause script, make display interactive, then resume script after user input (Wed Jan 16 2019 - 19:59:54 CST)
- Parallel analysis using dynamic atom selections (Tue Jul 26 2016 - 23:01:01 CDT)
Patrick Fleming
- generating lipid membrane psf file (Thu Dec 02 2010 - 07:15:22 CST)
Patrick Kiley
- .xst file disagrees with pbctools/.dcd file - what are the limitations of pbctools? (Wed Jul 15 2009 - 05:05:01 CDT)
Patrick Ladam
- Re: New version very slow? Fixed also... (Fri Jan 09 2004 - 09:19:40 CST)
- Python's future in VMD (Tue Sep 30 2003 - 05:58:23 CDT)
- Backspace not functionning in console (Wed Sep 10 2003 - 07:07:05 CDT)
- python: packages not found also...(FIXED, thanks John) (Tue Sep 09 2003 - 05:14:14 CDT)
- python: packages not found also...(repost) (Thu Sep 04 2003 - 07:28:17 CDT)
- NMR module in VMD ? (Tue Sep 02 2003 - 05:00:41 CDT)
- python: packages not found also... (Tue Sep 02 2003 - 04:44:33 CDT)
- Rotating dihedrals (Fri May 30 2003 - 05:09:43 CDT)
- Sequence Menu For Nucleic Acids (Mon May 19 2003 - 08:55:45 CDT)
- Plugins Problem with 1.8.1b2 (Mon May 12 2003 - 04:08:14 CDT)
- Error compiling trio (Wed Apr 09 2003 - 10:18:56 CDT)
- AMBER parmfiles (Mon Mar 17 2003 - 05:24:31 CST)
- 'topology' command crashes vmd 1.8 (LINUX) (Wed Mar 05 2003 - 06:22:43 CST)
Patrick Osmer
- Auto PSF problem with VMD 1.9.4a48-Catalina-Rev7 (Sun May 09 2021 - 14:29:00 CDT)
Patrick Redmill
- Re: Breaking a trajectory into separate files with tcl (Mon Oct 05 2009 - 05:41:39 CDT)
- Breaking a trajectory into separate files with tcl (Sun Oct 04 2009 - 21:48:27 CDT)
- Reference for SASA (Sat Aug 11 2007 - 17:48:03 CDT)
- Misunderstanding about SASA (Sat Apr 21 2007 - 10:14:19 CDT)
patrick wintrode
- Strange results when visualizing .trr trajectory (Sat Jun 02 2012 - 11:41:04 CDT)
- .trr files slow to load (Mon May 07 2012 - 12:00:19 CDT)
- Average pocket size? (Wed Apr 18 2012 - 11:45:04 CDT)
- Individual components of RMSD? (Tue Mar 06 2012 - 11:36:44 CST)
- Measuring specific distances over a trajectory (Wed Mar 14 2007 - 16:06:30 CDT)
Patrik MolnÃ¡r
- XenoView saved file (.car/.mdf file) (Tue Sep 24 2019 - 10:49:39 CDT)
- XenoView saved file (.car/.mdf file) (Tue Sep 24 2019 - 01:11:46 CDT)
Patrycja
- xterm problem?? (Fri Oct 27 2006 - 09:31:11 CDT)
Pattanayek, Sabuj
- Re: console in vmd-1.8.3 amd64 is blank (like white text on white background) so I can't see any output messages (Tue Jun 07 2005 - 11:57:52 CDT)
- base plane not being filled in for terminal adenines in ribbons/new ribbons (Mon Jun 14 2004 - 13:30:18 CDT)
Patti Schaefer
- Electrostatic potential mapping (Mon Nov 15 2004 - 15:28:15 CST)
- problems loading dcd files (Thu Jul 15 2004 - 13:55:18 CDT)
Patzschke, Dr. Michael
- Re: Different bond styles in VMD (Mon Sep 03 2018 - 03:37:35 CDT)
- Different bond styles in VMD (Fri Aug 31 2018 - 09:01:28 CDT)
Paul Anderson
- Re: Installation problems with VMD 1.9 (Fri Nov 18 2011 - 12:51:34 CST)
Paul Christopher Millett
- new user: how to load output file (Sun Sep 05 2004 - 12:04:40 CDT)
paul d jones
- Adjacent surface? (Thu Aug 18 2005 - 07:54:31 CDT)
Paul D. Jones
- Clipping plane tool and export (Wed Dec 07 2005 - 12:58:40 CST)
- H-Bonds (Tue Dec 06 2005 - 15:18:31 CST)
- vmd and k3b (Mon Mar 28 2005 - 11:11:34 CST)
- model export (Wed Jan 19 2005 - 13:33:04 CST)
Paul Daniel Jones
- Off Topic: Small Molecule Modeling (Wed Apr 20 2005 - 11:00:21 CDT)
Paul Darwen
- Compilation issues with tcl.h (Tue Mar 25 2003 - 21:36:27 CST)
- Missing vmdplugin.h in VMD source code (Wed Mar 19 2003 - 22:35:22 CST)
- Quick question about 3-letter codes for positive residues (Wed Feb 19 2003 - 01:58:36 CST)
- How to add atoms to a molecule? (Tue Nov 12 2002 - 22:39:53 CST)
Paul Dennis Simonson
- Newbie Questions (Sun Jul 06 2008 - 21:15:13 CDT)
Paul Fons
- Re: VMD1.82 version with MacOS10.3.3 DO NOT WORK (Mon Mar 22 2004 - 06:07:16 CST)
- Bond drawing questino (Tue Oct 21 2003 - 01:52:22 CDT)
Paul Grayson
- Re: Getting history and file completion to work in vmd console ? (Fri Aug 30 2002 - 10:01:50 CDT)
- Re: from points to a surface ? (Fri Aug 30 2002 - 09:59:54 CDT)
- Re: Getting history and file completion to work in vmd console ? (Fri Aug 30 2002 - 09:36:22 CDT)
- Re: from points to a surface ? (Wed Aug 28 2002 - 17:08:19 CDT)
- Re: 2D projection (Fri Jul 26 2002 - 10:11:58 CDT)
- Re: MSD (Wed May 29 2002 - 11:03:40 CDT)
- Re: strange bond (Wed Apr 03 2002 - 14:05:41 CST)
- Re: strange bond (Wed Apr 03 2002 - 12:37:30 CST)
- Re: record changed {x y z} (Wed Mar 20 2002 - 13:31:50 CST)
- Re: atom coloring (Tue Mar 12 2002 - 14:33:29 CST)
- Re: Loading new molecules into VMD from an application (Wed Feb 20 2002 - 19:59:54 CST)
- Re: up arrow for previous commands (with the command attached) (Fri Jan 18 2002 - 13:42:54 CST)
Paul Hubbard
- Re: Animation (Tue Apr 09 2002 - 15:09:40 CDT)
- Animation (Tue Apr 09 2002 - 14:12:49 CDT)
- Pretty Picture (Wed Jun 21 2000 - 16:15:59 CDT)
- Re: VMD and GRASP Qu.II (Thu Jun 15 2000 - 10:08:22 CDT)
- VMD and GRASP Qu.II (Wed Jun 14 2000 - 15:16:23 CDT)
- Re: GRASP files (Wed Jun 14 2000 - 11:10:34 CDT)
- B-factor Plot (Mon Feb 28 2000 - 17:06:33 CST)
PAUL NEWMAN
- Re: an old question (Tue Apr 10 2012 - 16:22:09 CDT)
- Gromacs analysis tools for Namd output (Wed Feb 01 2012 - 11:41:40 CST)
- Dividing the water in groups like WAT1; WAT2; WAT3 (Wed Jun 22 2011 - 20:41:32 CDT)
- water is forming bonds between hydrogens (Wed Jun 15 2011 - 00:25:46 CDT)
- water is forming bonds between oxigens (Wed Jun 15 2011 - 00:01:37 CDT)
Paul O'Leary
- Re: Rendering using GPU (Thu Apr 15 2021 - 03:45:02 CDT)
- Non-natural amino acid issues with autopsf (Thu Aug 20 2020 - 04:19:38 CDT)
Paul R Brenner
- measure fit sufficient for alignment prior to RMSD? (Wed Oct 18 2006 - 10:08:49 CDT)
- RE: Representing disulfide bonds when using psfgen (Thu Jul 21 2005 - 13:26:53 CDT)
- Representing disulfide bonds when using psfgen (Thu Jul 21 2005 - 11:15:30 CDT)
- Combine Drawing Methods - Cartoon and Disulfide Bonds (Tue Jun 14 2005 - 17:00:12 CDT)
- Re: Outputing Dihedral Indexes for key structures (backbone, alpha-helix, etc...) (Tue Feb 01 2005 - 21:47:38 CST)
- Re: Outputing Dihedral Indexes for key structures (backbone, alpha-helix, etc...) (Tue Feb 01 2005 - 13:59:55 CST)
- Outputing Dihedral Indexes for key structures (backbone, alpha-helix, etc...) (Mon Jan 31 2005 - 22:11:28 CST)
Paul Schlesinger
- catdcd (Wed Jun 22 2016 - 06:11:00 CDT)
- vmd_init (Wed May 28 2008 - 18:25:38 CDT)
- winvmd error (Mon Mar 21 2005 - 12:09:17 CST)
Paul T. Bauman
- Re: CONECT Records in .pdb file - bonds not getting plotted (Wed Sep 03 2008 - 11:53:37 CDT)
- CONECT Records in .pdb file - bonds not getting plotted (Wed Sep 03 2008 - 10:42:10 CDT)
- Re: Details of .psf format (Fri Dec 08 2006 - 15:24:48 CST)
- Details of .psf format (Fri Dec 08 2006 - 14:52:09 CST)
Paul Tangney
- Volumeslice doesn't work in 1.8.3 (Mon Feb 28 2005 - 13:55:17 CST)
- Updating colors (Tue Apr 22 2003 - 20:44:35 CDT)
- Updating colors at each trajectory step (Sun Feb 23 2003 - 20:34:51 CST)
Paul Van Allsburg
- nVidia Quadro FX1400 Stereo Clone Mode (Wed Mar 08 2006 - 13:01:31 CST)
- Re: ntdll.dll problem when changing drawing methods (Tue Jan 31 2006 - 10:53:24 CST)
- ntdll.dll problem when changing drawing methods (Mon Jan 30 2006 - 14:06:54 CST)
- Re: Classroom Stereo projection (Mon Oct 17 2005 - 08:42:01 CDT)
- Classroom Stereo projection (Thu Oct 13 2005 - 15:16:20 CDT)
Paul VanAllsburg
- Re: Understand a script (Mon Jul 25 2011 - 10:58:51 CDT)
Paul Whitford
- Re: Re: your mail (Thu Nov 18 2004 - 17:35:29 CST)
- Re: your mail (Thu Nov 18 2004 - 17:12:28 CST)
- (no subject) (Wed Nov 17 2004 - 19:01:11 CST)
Paul, Kristian (Cont, ARL/WMRD)
- POV-Ray 3.6; VMD Movie Maker; Continuous Render (UNCLASSIFIED) (Thu Jan 10 2008 - 12:16:16 CST)
- (UNCLASSIFIED) (Fri Jan 04 2008 - 13:22:28 CST)
Paula Marcela Petrone
- ViewMaster and rendering (Wed Aug 01 2007 - 10:00:34 CDT)
Paula Mihaljevic-Juric
- Angular energy term (Thu Mar 05 2020 - 08:06:15 CST)
- Cross correlation (Tue Dec 03 2019 - 08:17:02 CST)
- SSrestraints (Wed Oct 16 2019 - 12:19:19 CDT)
- GBIS parameters (Wed Oct 02 2019 - 07:24:17 CDT)
- Decrease in CC during MDFF (Fri Sep 20 2019 - 04:45:38 CDT)
- Cionize plugin (Tue May 21 2019 - 09:46:53 CDT)
Paula Schneider
- VMD Visualizers and AutoPSF unusable on Mac BigSur and VMD1.9.4a55 (Thu Feb 17 2022 - 14:27:31 CST)
Paulo E. Abreu
- Re: Status of VR in VMD (Tue Sep 07 2021 - 04:04:30 CDT)
- Status of VR in VMD (Tue Jun 01 2021 - 13:46:01 CDT)
- vrpn and vmd 1.9.3 - which version to use ? (Wed Dec 19 2018 - 03:41:42 CST)
- Default representation style in command line (Fri Apr 13 2012 - 06:10:43 CDT)
- Re: problem (Wed Feb 11 2009 - 11:00:15 CST)
PaulW
- Installation problems with VMD 1.9 (Thu Nov 17 2011 - 07:17:44 CST)
Pavan Ghatty
- vmd solvate (Sun Nov 27 2011 - 13:56:17 CST)
- Re: Question about eval (Tue Jul 26 2011 - 11:14:15 CDT)
- Re: Question about eval (Tue Jul 26 2011 - 08:45:56 CDT)
- Question about eval (Mon Jul 25 2011 - 13:51:53 CDT)
- lindex related question (Fri Feb 25 2011 - 15:09:45 CST)
- Re: FW: Disulfide bonds (Mon Oct 19 2009 - 10:55:24 CDT)
- Selection in VMD Graphical representation (Wed Feb 20 2008 - 10:22:03 CST)
- Re: Water within the minmax of protein (Thu Nov 29 2007 - 21:08:06 CST)
- Water within the minmax of protein (Thu Nov 29 2007 - 09:17:51 CST)
- Simple TCL/Tk question (Fri Jun 08 2007 - 11:04:10 CDT)
- Command line troubles (Sat Nov 11 2006 - 16:11:46 CST)
- psfgen woes... (Mon Aug 28 2006 - 16:00:42 CDT)
- Help with psfgen (Mon Aug 28 2006 - 08:09:46 CDT)
- Problem with cellBasisVector 1, 2 and 3 (Wed Aug 23 2006 - 08:55:04 CDT)
- Help with "move" command (Mon Aug 21 2006 - 11:52:50 CDT)
Pavan Miriyala
- Re: How to get all bond angles and bond distances for all atoms in sheet (Wed Sep 03 2014 - 10:14:35 CDT)
- Re: How to get all bond angles and bond distances for all atoms in sheet (Wed Sep 03 2014 - 10:23:12 CDT)
- Re: How to get all bond angles and bond distances for all atoms in sheet (Wed Sep 03 2014 - 05:05:03 CDT)
- Re: How to get all bond angles and bond distances for all atoms in sheet (Wed Sep 03 2014 - 02:08:45 CDT)
- Re: How to get all bond angles and bond distances for all atoms in sheet (Wed Sep 03 2014 - 01:21:35 CDT)
- Re: How to get all bond angles and bond distances for all atoms in sheet (Tue Sep 02 2014 - 07:11:05 CDT)
- How to get all bond angles and bond distances for all atoms in sheet (Mon Sep 01 2014 - 07:36:34 CDT)
- Re: Problem with amorphous silicon dioxide: Inorganic builder (Mon May 12 2014 - 00:59:46 CDT)
- Re: Problem with amorphous silicon dioxide: Inorganic builder (Sun May 11 2014 - 23:37:19 CDT)
- Problem with amorphous silicon dioxide: Inorganic builder (Sun May 11 2014 - 08:53:30 CDT)
- Error : Lammps-data file error after merging two structures. (Tue Mar 18 2014 - 10:47:37 CDT)
- Re: How to delete atoms in graphene sheet (Wed Mar 05 2014 - 11:01:58 CST)
- How to delete atoms in graphene sheet (Wed Mar 05 2014 - 10:21:29 CST)
pavan.vmd_at_gmail.com
- Voicemail from Pavan Ghatty (5 seconds) (Thu Dec 21 2006 - 18:17:51 CST)
Pavel Macek
- grid (Mon Jan 30 2006 - 06:30:07 CST)
Pawel Kedzierski
- Re: Molefacture 2 does not generate angles & dihedrals (Fri Nov 10 2023 - 02:43:50 CST)
- Re: Molefacture 2 does not generate angles & dihedrals (Fri Nov 03 2023 - 07:32:57 CDT)
- Re: Molefacture 2 does not generate angles & dihedrals (Mon Oct 30 2023 - 07:22:18 CDT)
- Re: loading multiple different topologies into the same "molecule" (Thu Jun 10 2021 - 02:00:01 CDT)
- Re: Generating parameter files (Wed May 19 2021 - 15:00:34 CDT)
- Re: Angles generated by AutoPSF? (Mon May 17 2021 - 14:50:37 CDT)
- Nanotube builder bug (Thu May 13 2021 - 08:06:06 CDT)
- Re: BFEE plugin error: 'measure center: bad weight sum would cause divide by zero' (Thu Apr 22 2021 - 10:43:27 CDT)
- Re: charge opt not converged (Thu Apr 22 2021 - 09:13:08 CDT)
- Re: BFEE plugin error: 'measure center: bad weight sum would cause divide by zero' (Thu Apr 22 2021 - 08:42:25 CDT)
- Re: fftk wat. opt. when charges overlap (Tue Mar 09 2021 - 11:19:20 CST)
- Re: fftk wat. opt. when charges overlap (Tue Mar 09 2021 - 05:51:15 CST)
- Re: Render image background-free (Tue Mar 02 2021 - 14:58:22 CST)
- Re: Fwd: Naming Atoms in VMD (Wed Jan 20 2021 - 08:19:46 CST)
- Re: FW: Seeking assistance (Sat Dec 12 2020 - 12:34:37 CST)
- Re: FW: Seeking assistance (Sat Dec 12 2020 - 11:27:04 CST)
- Possible memory leak in vmd 1.9.4a38 or FFTK on Linux (Tue Nov 24 2020 - 07:35:35 CST)
- Re: charge opt not converged (Thu Nov 19 2020 - 03:25:43 CST)
- Re: Molefacture 2.0 - missing functionality? (Fri Oct 30 2020 - 14:54:21 CDT)
- Molefacture 2.0 - missing functionality? (Fri Oct 30 2020 - 07:17:00 CDT)
- Re: error in reading Gaussian log file (Wed Oct 14 2020 - 06:46:50 CDT)
- Re: increase the resolution of images (Wed Sep 30 2020 - 06:27:03 CDT)
- Re: Convert problem (Sat Apr 25 2020 - 10:45:18 CDT)
- Re: compilation of vmd from source on armv8 RK3399 processor (Tue Feb 11 2020 - 06:33:11 CST)
- Re: compilation of vmd from source on armv8 RK3399 processor (Fri Feb 07 2020 - 02:19:13 CST)
- Re: compilation of vmd from source on armv8 RK3399 processor (Tue Feb 04 2020 - 03:01:29 CST)
- Re: compilation of vmd from source on armv8 RK3399 processor (Sat Feb 01 2020 - 05:06:47 CST)
- Re: Error at Dihedral Optimization using fftk (Thu Dec 13 2018 - 09:01:46 CST)
- Re: Error at Dihedral Optimization using fftk (Wed Dec 12 2018 - 10:09:45 CST)
- Re: Advantages of new RTX/Turing NVidia cards? (Thu Oct 11 2018 - 06:13:47 CDT)
- Advantages of new RTX/Turing NVidia cards? (Wed Oct 10 2018 - 03:55:13 CDT)
- VMD 1.9.4 for Windows? (Fri Jun 01 2018 - 02:54:26 CDT)
- Re: AutoPSF formatted PDB: wrong residue order (Fri Feb 02 2018 - 05:45:47 CST)
- Re: View sidechains in VMD (Tue Jan 16 2018 - 02:49:38 CST)
- Re: Bug report for NAMDgui plugin in VMD (1.9.4 alpha 8) (Wed Oct 11 2017 - 08:07:35 CDT)
- Bug report for NAMDgui plugin in VMD (1.9.4 alpha 8) (Wed Oct 11 2017 - 04:10:20 CDT)
- Re: VMD from remote workstation (followup: crash with Intel drivers) (Wed Oct 11 2017 - 03:39:23 CDT)
- Re: VMD from remote workstation (followup: crash with Intel drivers) (Tue Oct 10 2017 - 06:21:30 CDT)
- VMD from remote workstation (Tue Oct 10 2017 - 03:45:58 CDT)
- Re: VMD crashed during reading the trajectory file (Sat Jun 10 2017 - 05:33:58 CDT)
- Re: psfgen error with charmm36 parameters? (Wed Apr 05 2017 - 06:23:50 CDT)
- Re: Close contacts upon solvation of XYZ file. (Fri Nov 25 2016 - 03:20:37 CST)
- Re: Close contacts upon solvation of XYZ file. (Fri Nov 25 2016 - 01:27:57 CST)
- Re: VMD called from python hangs on Windows (Wed Jul 13 2016 - 03:46:22 CDT)
- VMD called from python hangs on Windows (Mon Jul 11 2016 - 15:35:40 CDT)
- Re: generating autopsf (Tue Jun 28 2016 - 15:10:23 CDT)
- Re: default drawing style (Fri Mar 18 2016 - 05:44:07 CDT)
- Re: default drawing style (Fri Mar 11 2016 - 02:43:29 CST)
- Re: Unable to access config file (Fri Dec 11 2015 - 03:52:26 CST)
- Re: what is difference between "TOTAL", Q=80=9cTOTAL2=22_and_=22POTENTIAL=22_in_the_VMD_plugin_NAMD_Plo?= t? (Mon Nov 09 2015 - 04:09:48 CST)
- Re: Charge optimization in ffTK (Thu Nov 05 2015 - 02:04:17 CST)
- Re: Problem of VMD in ubuntu 14.04 (Fri Oct 23 2015 - 08:31:27 CDT)
- Re: Problem of VMD in ubuntu 14.04 (Fri Oct 23 2015 - 06:43:31 CDT)
- Re: Problem of VMD in ubuntu 14.04 (Fri Oct 23 2015 - 03:17:14 CDT)
- Re: Problems with S-Adenosyl-L-Methionine / SAM Topology & Parameter for MD simulations (Sun Oct 11 2015 - 08:33:33 CDT)
- Re: How to extract data from NAMD log file for viscosity calculation (Wed Aug 19 2015 - 09:23:22 CDT)
- Re: fftk water interaction questions (Tue Apr 21 2015 - 03:04:32 CDT)
- Re: Running VMD in user folder on Windows (bug fix?) (Tue Mar 31 2015 - 04:09:21 CDT)
- Re: Running VMD in user folder on Windows (bug fix?) (Wed Mar 25 2015 - 10:20:20 CDT)
- Re: Running VMD in user folder on Windows (bug fix?) (Wed Mar 25 2015 - 04:33:10 CDT)
- Running VMD in user folder on Windows (bug fix?) (Wed Mar 25 2015 - 03:50:29 CDT)
- Re: writing a new plugin (Tue Mar 10 2015 - 07:38:34 CDT)
- Re: namd2.exe has stopped working - NAMDEnergy (Tue Feb 03 2015 - 05:02:37 CST)
- Re: namd2.exe has stopped working - NAMDEnergy (Tue Feb 03 2015 - 03:23:32 CST)
- Re: ion visualization in VMD (Thu Jan 22 2015 - 02:53:57 CST)
- Re: Small bugfix for NAMD Plot (Sat Dec 13 2014 - 03:33:28 CST)
- Small bugfix for NAMD Plot (Fri Dec 12 2014 - 02:35:54 CST)
- Re: format I should use if I have different total number of atoms for each timesteps (Fri Dec 12 2014 - 02:32:05 CST)
- Re: (Sun Apr 21 2013 - 09:44:28 CDT)
- Re: Solvate with a define number of water molecule (Fri Apr 05 2013 - 05:32:38 CDT)
- Re: How do I make sure the normals value of trinorms? (Thu Nov 29 2012 - 06:34:21 CST)
- Re: clip plane and cpk / VdW (Thu Nov 24 2011 - 02:52:49 CST)
- Re: Visualization of FEP simulation (Fri Oct 21 2011 - 04:26:51 CDT)
- Re: Coloring atoms by a general scalar (Wed Jul 01 2009 - 04:27:32 CDT)
- Re: Display not updated when using move() from Python in VMD 1.8.6 (Thu May 07 2009 - 07:31:25 CDT)
- Display not updated when using move() from Python in VMD 1.8.6 (Wed May 06 2009 - 13:50:47 CDT)
- Stereo on Linux: Eyes3D Premium + Nvidia (Tue Aug 27 2002 - 23:49:49 CDT)
- Re: Separate graphical objects? (Sat Aug 17 2002 - 11:36:24 CDT)
- Re: Cannot start CAVE display (Thu Aug 15 2002 - 23:00:42 CDT)
- Separate graphical objects? (Wed Aug 14 2002 - 23:40:31 CDT)
- Cannot start CAVE display (Tue Aug 13 2002 - 15:20:17 CDT)
Pawel Sikorski
- periodic display and space group and VMD (Tue Jul 06 2004 - 09:24:40 CDT)
Pawel Siuda
- problem with ascribing data to the user field (Thu Dec 13 2012 - 04:48:58 CST)
- Re: update selection every frame not working (Wed Nov 28 2012 - 08:42:11 CST)
- update selection every frame not working (Mon Nov 26 2012 - 15:41:15 CST)
Pawel Weronski
- Re: animate write of a selection in Linux version of VMD (Wed Jan 31 2007 - 16:24:02 CST)
- animate write of a selection in Linux version of VMD (Wed Jan 31 2007 - 15:54:25 CST)
Pawel Wielgus
- Re: VolumeSlices (Tue Mar 13 2007 - 08:07:38 CDT)
- Re: VolumeSlices (Mon Mar 12 2007 - 03:00:45 CDT)
- Re: VolumeSlices (Fri Mar 09 2007 - 09:54:26 CST)
- VolumeSlices (Fri Mar 09 2007 - 09:27:17 CST)
Pawe³ Kêdzierski
- CUDA cores seen by VMD on GT540M (Wed Aug 31 2011 - 09:02:09 CDT)
PaweÅ‚ KÄ™dzierski
- Re: molefacture isn't writing PDB coords (Wed Mar 05 2025 - 02:06:02 CST)
- Re: Automatic PSF Builder on Windows (Mon Oct 14 2024 - 05:15:32 CDT)
- Re: ffTK Water Int Tab Optimization INTERACTION DISTANCE INQUIRY (Mon Jul 08 2024 - 04:51:34 CDT)
- Re: ffTK Water Int Tab Optimization INTERACTION DISTANCE INQUIRY (Mon Jul 08 2024 - 01:38:32 CDT)
- Re: Re: ffTK Parameter Selection i.e. just Scan and Opt Torsion Selection Viable? (Tue Feb 20 2024 - 07:29:39 CST)
- Re: Anyone Completed ffTK Calc Bonded Tab using ORCA gbw instead of Gaussian chk? (Tue Feb 20 2024 - 01:32:05 CST)
- Re: VMD openGL over ssh from a server with NVIDIA (Fri Nov 03 2023 - 02:36:17 CDT)
- Molefacture 2 does not generate angles & dihedrals (Mon Oct 30 2023 - 02:54:26 CDT)
- Re: Total H-bond occupancy analysis (Tue Sep 26 2023 - 05:32:52 CDT)
- Re: How to shortening bonds length in a molecule ? (Thu Aug 31 2023 - 08:34:35 CDT)
- Re: Generating single amino acid using PSFGEN (Sat Dec 03 2022 - 05:19:10 CST)
- Re: Protein breaks after automatic psf builder (Mon Oct 17 2022 - 07:11:35 CDT)
- Re: Cafe 1.0 plugin does not recognize commands (Wed Jul 13 2022 - 04:09:11 CDT)
- Re: VMD/QMTool generating multiple outputs (Wed Sep 22 2021 - 04:56:10 CDT)
- Re: Re: FFTk GUI unresponsive (Wed Jul 28 2021 - 06:05:27 CDT)
- Re: Could not read file problem (Fri Jul 23 2021 - 10:55:22 CDT)
- Re: loading PDBs with multiple states having different numbers of atoms in VMD (Wed Jul 14 2021 - 04:30:29 CDT)
- Re: Using namdEnergy from an external python script (Thu Jan 16 2020 - 03:36:20 CST)
- Re: Formatting labels in script (Fri May 17 2013 - 09:03:40 CDT)
- Formatting labels in script (Fri May 17 2013 - 04:17:59 CDT)
- Re: HEME acting unplanar (Tue Apr 23 2013 - 03:13:08 CDT)
- Re: how to visualize water movement over trajectory (Sun Apr 07 2013 - 10:30:22 CDT)
- Re: FFTK... and now gaussian version or QMtool problem (Thu Mar 28 2013 - 19:23:45 CDT)
- Re: FFTK... and now gaussian version or QMtool problem (Thu Mar 28 2013 - 09:25:50 CDT)
- FFTK Update Parameter File with Optimized Parameters - fails? (Thu Mar 28 2013 - 06:26:15 CDT)
- Re: Command not found Error (Fri Feb 15 2013 - 02:03:46 CST)
- Re: rgyr from big DCD (Tue Jan 08 2013 - 03:29:58 CST)
- Re: questions for trajectory analysis (Thu May 31 2012 - 03:07:51 CDT)
- Re: TR: VMD atomselect with cartesian reference (Thu May 24 2012 - 12:45:08 CDT)
- Re: Memory used by VMD is much less than installed (Wed Mar 07 2012 - 08:15:54 CST)
- Re: vmd-l DynamicBond between two given type of atoms (Mon Dec 19 2011 - 14:42:33 CST)
- Re: clip plane and cpk / VdW (Thu Nov 24 2011 - 02:52:32 CST)
- Re: Visualization of FEP simulation (Thu Oct 20 2011 - 03:06:30 CDT)
- Re: question on "Recompile VMD with larger index types" (Wed Sep 28 2011 - 08:17:35 CDT)
- Re: Selecting a laptop for VMD and NAMD (Wed Sep 28 2011 - 04:07:30 CDT)
- Re: Selecting a laptop for VMD and NAMD (was: CUDA cores seen by VMD on GT540M) (Tue Sep 27 2011 - 09:29:31 CDT)
- Re: CUDA cores seen by VMD on GT540M (Thu Sep 01 2011 - 08:07:26 CDT)
- Re: simulation in Nitrogen box (Sun Jun 12 2011 - 08:59:40 CDT)
- Re: measure dipole (Fri Mar 25 2011 - 02:55:54 CDT)
- Fwd: Re: script for projection of c-alpha atom cordinates on xy plane (Tue Mar 22 2011 - 08:19:14 CDT)
- Re: script for projection of c-alpha atom cordinates on xy plane (Tue Mar 22 2011 - 04:11:53 CDT)
- Re: script for projection of c-alpha atom cordinates on xy plane (Fri Mar 18 2011 - 15:17:31 CDT)
PaweÅ‚ Wolski
- Re: Tk script (Wed Oct 01 2014 - 02:26:59 CDT)
- Re: Tk script (Tue Sep 30 2014 - 13:08:50 CDT)
- Tk script (Tue Sep 30 2014 - 09:54:26 CDT)
- color by Name (Mon Sep 29 2014 - 04:10:04 CDT)
Payal Chatterjee
- Re: Re: namd-l: Including two parameters for protein-ligand simulation (Wed Oct 28 2015 - 03:08:16 CDT)
- Re: Problems_calling_VMD_remotely_from_cluster (Tue Sep 29 2015 - 11:15:12 CDT)
- Problems_calling_VMD_remotely_from_cluster (Fri Sep 25 2015 - 17:32:25 CDT)
Payman Pirzadeh
- dynamical network analysis on GROMACS trajectories (Thu May 16 2013 - 14:46:23 CDT)
- performing PCA in VMD (Tue May 14 2013 - 19:38:23 CDT)
- making movies in vmd (Fri Feb 01 2013 - 01:53:05 CST)
Paymon Pirzadeh
- Re: radial distribution funtion (Mon Feb 13 2012 - 21:43:54 CST)
- radial distribution funtion (Mon Feb 13 2012 - 15:21:25 CST)
- radial distribution function (Thu Feb 09 2012 - 20:15:15 CST)
- memory issues (Mon Nov 02 2009 - 12:02:14 CST)
Payne, Christina M
- Re: Puckering Parameters (Wed Sep 04 2013 - 12:43:56 CDT)
- VMD with Python on MacOSX 10.7.5 (Fri Jul 26 2013 - 11:52:24 CDT)
Payne, Christy
- Re: Retrieving Cremer-Pople parameters (Tue Jul 12 2011 - 10:31:26 CDT)
- Re: Retrieving Cremer-Pople parameters (Tue Jul 12 2011 - 10:32:24 CDT)
- Pucker parameters (Thu Jul 07 2011 - 14:35:18 CDT)
pbrenne1_at_nd.edu
- Re: Deleting atomselect selections for proper memory management (Wed Jan 12 2005 - 13:10:44 CST)
- Deleting atomselect selections for proper memory management (Wed Jan 12 2005 - 08:56:43 CST)
- Re: Cluster Analysis given a dcd trajectory (Sun Jan 09 2005 - 13:25:16 CST)
- Cluster Analysis given a dcd trajectory (Fri Jan 07 2005 - 15:58:41 CST)
pebblepeddle_at_gmail.com
- ccp4 in vmd (Wed Dec 02 2009 - 21:55:58 CST)
Pedley, Anthony M
- Desmond Trajectory Alignment for Timeline Analysis (Tue Jun 25 2013 - 09:15:33 CDT)
Peitong Duan
- Dynamic bond representations (Tue Jan 22 2013 - 16:44:02 CST)
Peixi Zhu
- Intel HD Graphics and VMD (Thu Feb 24 2011 - 22:28:40 CST)
peng liu
- vmd does not run on the VNC client (Thu Aug 25 2011 - 21:15:15 CDT)
Peng Tao
- Re: Cannot run IED! :( (Thu Aug 03 2006 - 11:23:03 CDT)
- Re: Cannot run IED! :( (Thu Aug 03 2006 - 10:00:30 CDT)
- Re: Cannot run IED! :( (Thu Aug 03 2006 - 09:47:21 CDT)
- Re: Cannot run IED! :( (Thu Aug 03 2006 - 09:04:00 CDT)
- Cannot run IED! :( (Wed Aug 02 2006 - 21:13:04 CDT)
- Re: Reading large traj file error or how to divide a large traj file into parts? (Wed Sep 10 2003 - 15:12:44 CDT)
- Reading large traj file error or how to divide a large traj file into parts? (Wed Sep 10 2003 - 14:15:43 CDT)
Penny Boyle
- Watches for him, her and you (Fri Jun 06 2008 - 19:47:03 CDT)
Per Jr. Greisen
- Re: Sasa script in python returns "Runtime error" (Wed Jan 30 2008 - 10:13:38 CST)
- Sasa script in python returns "Runtime error" (Tue Jan 29 2008 - 09:53:59 CST)
- Re: rna topology and parameters for rna (Mon Oct 29 2007 - 01:55:01 CDT)
- Re: rna topology and parameters for rna (Sun Oct 28 2007 - 04:56:03 CDT)
- Error with stride (Tue Oct 16 2007 - 09:01:21 CDT)
- Generating parameter file for Cl2- (Mon Oct 15 2007 - 10:39:36 CDT)
- python pro.align() (Thu Mar 29 2007 - 12:27:21 CDT)
- Average structure (Thu Mar 15 2007 - 14:14:20 CDT)
- Problems running APBS (Tue Mar 13 2007 - 13:32:04 CDT)
- Calculating dipole moment of protein (Fri Mar 02 2007 - 06:26:23 CST)
- convert tcl to python (Thu Mar 01 2007 - 05:54:18 CST)
- PC-gamess (Tue Feb 20 2007 - 05:02:45 CST)
- Save coordinates from MD simulation (Thu Jan 04 2007 - 10:55:34 CST)
- Calculating changes (Tue Dec 12 2006 - 12:56:37 CST)
- Bigdcd - get coordinates from file (Sun Nov 05 2006 - 05:56:34 CST)
- Alignment Python (Fri Aug 11 2006 - 05:19:15 CDT)
- python - writes frames to pdb files (Sat Jun 10 2006 - 06:19:11 CDT)
- PSFGEN NAD spilts up in 3 (Tue May 02 2006 - 10:42:29 CDT)
- Unknown residue type ZN (Tue Apr 18 2006 - 08:22:33 CDT)
- Generating psfgen of multimeric protein complex (Tue Apr 18 2006 - 04:35:50 CDT)
- Genrating psf (Wed Mar 29 2006 - 10:50:38 CST)
- Warning: add bond failed in patch ACE (Thu Oct 20 2005 - 09:35:44 CDT)
- Measuring distance during a trajectory (Tue Oct 18 2005 - 14:59:42 CDT)
Per Larsson
- Re: (Semi-)transparent windows on installation on a virtual server (Thu Nov 18 2021 - 14:21:04 CST)
- Re: (Semi-)transparent windows on installation on a virtual server (Wed Nov 10 2021 - 02:07:52 CST)
- (Semi-)transparent windows on installation on a virtual server (Tue Nov 09 2021 - 14:33:47 CST)
- Re: Parameterization strategy with fragmentation in fftk (Wed Sep 25 2019 - 02:21:09 CDT)
- Re: Parameterization strategy with fragmentation in fftk (Fri Sep 20 2019 - 04:31:50 CDT)
- Parameterization strategy with fragmentation in fftk (Thu Sep 19 2019 - 06:14:37 CDT)
- Assertion failure OS X 10.14 (Thu Dec 13 2018 - 03:11:53 CST)
- Creating VR-movies with tachyon renderer (Thu Mar 08 2018 - 03:49:38 CST)
- Re: Creating VR-movies with tachyon renderer (Wed Mar 07 2018 - 14:24:31 CST)
- Re: Creating VR-movies with tachyon renderer (Wed Mar 07 2018 - 08:09:49 CST)
- Re: Creating VR-movies with tachyon renderer (Wed Mar 07 2018 - 02:09:16 CST)
- Creating VR-movies with tachyon renderer (Tue Mar 06 2018 - 06:52:54 CST)
Perreault, Roger Edward
- Multiseq error: 'can't read 'SequenceIDtoMolID(122)': no such element in array' (Wed Oct 22 2008 - 20:34:57 CDT)
Pete Kekenes-Huskey
- Re: How to prevent psfgen from adding atoms (Mon Nov 04 2013 - 15:42:49 CST)
- How to prevent psfgen from adding atoms (Fri Nov 01 2013 - 11:23:22 CDT)
petefred_at_ks.uiuc.edu
- Make sure girls notice your package (Sat Jul 04 2009 - 22:12:43 CDT)
- Be the largest man around (Thu Jul 02 2009 - 13:35:37 CDT)
- Packed with Antioxidants . Acai Berry. (Mon Jun 29 2009 - 21:30:17 CDT)
- Oprah certified wieght loss solution Acai.Berri. (Mon Jun 29 2009 - 19:29:14 CDT)
Peter
- Re: Passing frame number list to measure command (Wed Mar 19 2025 - 19:39:25 CDT)
- Re: Passing frame number list to measure command (Thu Feb 27 2025 - 15:29:18 CST)
- Passing frame number list to measure command (Tue Feb 25 2025 - 00:29:42 CST)
- Re: Atom selection based on center of sphere (Wed Mar 27 2024 - 16:14:08 CDT)
- Re: Atom selection based on center of sphere (Wed Mar 27 2024 - 01:29:46 CDT)
- Atom selection based on center of sphere (Tue Mar 26 2024 - 17:04:45 CDT)
- Re: Color Coding by Residue Type (Thu Jul 28 2022 - 09:06:13 CDT)
- Color Coding by Residue Type (Mon Jul 25 2022 - 15:28:58 CDT)
Peter Bazeley
- VMD scripting questions (Fri Oct 29 2004 - 04:48:11 CDT)
Peter C. Lai
- Re: Name selections (Wed Sep 19 2012 - 18:50:55 CDT)
- Re: Showing frame number on display? (Wed Aug 08 2012 - 16:49:54 CDT)
- Re: Showing frame number on display? (Wed Aug 08 2012 - 16:35:41 CDT)
- Re: Changing alphanumeric atom naming scheme to numeric (Wed Jun 06 2012 - 14:21:46 CDT)
- Re: VMD membrane builder (Thu May 31 2012 - 18:59:35 CDT)
- Re: Flickering display when running remotely (Tue May 29 2012 - 12:51:51 CDT)
- Re: Secondary structure assignment (Wed Feb 22 2012 - 00:31:39 CST)
- Re: Re: atomselect counting (Wed Jan 25 2012 - 16:51:49 CST)
- select whole residues (Tue Jan 03 2012 - 17:50:00 CST)
- Re: Analyzing a 10ns simulation on Mac aborts (Wed Dec 07 2011 - 01:47:12 CST)
- Re: Save pdb with original numbering (Tue Nov 29 2011 - 17:22:35 CST)
- Re: VMD slows down at multiple windows (Thu Nov 17 2011 - 00:35:13 CST)
- Re: Save molecule in pdb format (Sat Apr 30 2011 - 13:50:01 CDT)
- Re: Save molecule in pdb format (Sat Apr 30 2011 - 04:34:27 CDT)
- Re: Re: VMD 1.9 beta 1 posted for download... (Tue Feb 22 2011 - 12:51:56 CST)
- Re: Re: VMD 1.9 beta 1 posted for download... (Tue Feb 22 2011 - 12:39:00 CST)
- Re: vrml2 output crashes VTK/Paraview (Thu Feb 03 2011 - 02:42:17 CST)
- vrml2 output crashes VTK/Paraview (Thu Jan 27 2011 - 19:14:25 CST)
Peter Carlsson
- Re: VMD 1.8.4 hangs on AMD64 (Tue Dec 13 2005 - 15:38:22 CST)
- VMD 1.8.4 hangs on AMD64 (Tue Dec 13 2005 - 11:48:48 CST)
Peter Deák
- element Si (Fri Jul 09 2004 - 06:59:03 CDT)
Peter Engelhardt
- Re: Where to find cholesterol ester in PDB format (Tue Mar 06 2007 - 03:56:26 CST)
- Stereo on MacG5 (single processor) for VMD, Chimera UCSF etc. (Tue Mar 28 2006 - 23:53:56 CST)
- Fwd: Re: Any methods for real stereo viewing with Mac and OsX (Sat Nov 06 2004 - 16:51:32 CST)
- Any methods for real stereo viewing with Mac and OsX (Sat Nov 06 2004 - 13:19:33 CST)
- Re: VMD1.82 version with MacOS10.3.3 Problem solved (Tue Mar 23 2004 - 02:18:27 CST)
- VMD1.82 version with MacOS10.3.3 DO NOT WORK (Mon Mar 22 2004 - 02:22:03 CST)
Peter Freddolino
- Re: namd-l: Selecting atom of given residue in namdenergy plugin (Wed Apr 19 2023 - 09:50:00 CDT)
- Re: Using Molefacture plugin in batch mode (Wed Sep 07 2022 - 07:52:54 CDT)
- Re: Using Molefacture plugin in batch mode (Tue Sep 06 2022 - 16:42:35 CDT)
- Re: Re: Visualisation of CG bonds (Mon Jun 27 2022 - 09:41:15 CDT)
- Re: PSF Script (Sat Mar 05 2022 - 18:33:13 CST)
- Re: autopsf question (Sat Feb 05 2022 - 18:27:49 CST)
- Re: Error in tcl script (Sun Jan 23 2022 - 09:41:25 CST)
- Re: Failure of autopsf with modified nucleotides (Thu Jan 06 2022 - 15:27:37 CST)
- Re: Failure of autopsf with modified nucleotides (Thu Jan 06 2022 - 12:12:50 CST)
- Re: Failure of autopsf with modified nucleotides (Thu Jan 06 2022 - 07:55:42 CST)
- Re: Fatal error: Unable to find dihedral parameters (Wed Dec 08 2021 - 07:30:05 CST)
- Re: Fatal error: Unable to find dihedral parameters (Tue Dec 07 2021 - 08:06:11 CST)
- Re: Fatal error: Unable to find dihedral parameters (Mon Dec 06 2021 - 07:57:07 CST)
- Re: Fatal error: Unable to find dihedral parameters (Sun Dec 05 2021 - 10:14:11 CST)
- Re: Re: namd-l: namd minimization looking for wrong angle (Fri Nov 19 2021 - 11:02:59 CST)
- Re: Re: namd-l: namd minimization looking for wrong angle (Fri Nov 19 2021 - 07:56:58 CST)
- Re: namd-l: namd minimization looking for wrong angle (Thu Nov 18 2021 - 08:03:40 CST)
- Re: energy partitioning (Thu Oct 28 2021 - 07:56:37 CDT)
- Re: energy partitioning (Wed Oct 27 2021 - 23:57:32 CDT)
- Re: energy partitioning (Wed Oct 27 2021 - 23:55:46 CDT)
- Re: Fwd: autopsf with many modifiers (Sun Sep 19 2021 - 00:11:26 CDT)
- Re: Fwd: autopsf with many modifiers (Mon Sep 13 2021 - 12:00:20 CDT)
- Re: wraping creates extra bonds! (Sun Jun 13 2021 - 19:22:32 CDT)
- Re: Auto PSF problem with VMD 1.9.4a48-Catalina-Rev7 (Mon May 10 2021 - 11:03:17 CDT)
- Re: Auto PSF problem with VMD 1.9.4a48-Catalina-Rev7 (Mon May 10 2021 - 08:14:12 CDT)
- Re: Auto PSF problem with VMD 1.9.4a48-Catalina-Rev7 (Sun May 09 2021 - 19:17:26 CDT)
- Re: Why do the coordinates of my atoms change when writing to a pdb file? (Sun Mar 21 2021 - 16:01:32 CDT)
- Re: Why do the coordinates of my atoms change when writing to a pdb file? (Sun Mar 21 2021 - 10:36:48 CDT)
- Re: Calculation of residue pair energy values (Mon Feb 15 2021 - 11:07:34 CST)
- Re: setting coloring and drawing methods (Fri Jan 29 2021 - 10:29:40 CST)
- Re: novel residue creation and parameterization (Thu Jan 28 2021 - 16:21:29 CST)
- Re: novel residue creation and parameterization (Thu Jan 28 2021 - 12:23:51 CST)
- Re: novel residue creation and parameterization (Wed Jan 27 2021 - 20:13:30 CST)
- Re: Fixing Memory Overflow Issue with LJ Parameter Assignment (Thu Jan 21 2021 - 00:33:44 CST)
- Re: Problem with following NAMD tutorial (Thu Jan 07 2021 - 21:09:52 CST)
- Re: PSF Files Giving Long Bonds (Fri Dec 25 2020 - 12:05:00 CST)
- Re: Fwd: Fake angles created by AutoPSF (Thu Dec 24 2020 - 09:19:58 CST)
- Re: Fwd: Fake angles created by AutoPSF (Wed Dec 23 2020 - 20:35:40 CST)
- Re: SBCG of molecules (Fri Dec 18 2020 - 11:36:08 CST)
- Re: PDB Format (Thu Dec 17 2020 - 22:50:15 CST)
- Re: Incorrect visualization of system after catdcd (Sat Dec 12 2020 - 20:03:27 CST)
- Re: Readpsf Error (Sat Nov 28 2020 - 18:03:01 CST)
- Re: Outdated Tutorial Files? (Mon Nov 23 2020 - 08:50:56 CST)
- Re: Discrepancy in interaction energy of amber coordinate trajectories of a system (Fri Nov 20 2020 - 11:47:47 CST)
- Re: Re: Trajectory analysis without loading all frames (Thu Nov 19 2020 - 15:14:08 CST)
- Re: Translation Script (Thu Nov 12 2020 - 00:38:10 CST)
- Re: Translation Script (Wed Nov 11 2020 - 19:09:58 CST)
- Re: Translation Script (Wed Nov 11 2020 - 11:17:19 CST)
- Re: cionize plugin VMD (Mon Nov 09 2020 - 14:34:37 CST)
- Re: Discrepancy in interaction energy of amber coordinate trajectories of a system (Mon Nov 09 2020 - 00:15:42 CST)
- Re: Discrepancy in interaction energy of amber coordinate trajectories of a system (Sat Nov 07 2020 - 19:35:23 CST)
- Re: Pulling vector direction in SMD (Wed Nov 04 2020 - 08:05:49 CST)
- Re: Autopsf Failed on end of segment (Tue Nov 03 2020 - 11:07:14 CST)
- Re: PSFGEN vs AUTOPSF (Fri Oct 30 2020 - 08:00:10 CDT)
- Re: Error in building a psf file for nanoparticle (Tue Oct 13 2020 - 18:40:42 CDT)
- Re: TCL script for creating multiple representations on the same molecule (Wed Sep 30 2020 - 21:22:36 CDT)
- Re: Unusual coordinates in PDB files exracted from dcd file (Sat Sep 26 2020 - 21:29:29 CDT)
- Re: Do different version of NAMD would give different results? (Mon Sep 07 2020 - 07:31:01 CDT)
- Re: Do different version of NAMD would give different results? (Sun Sep 06 2020 - 19:00:34 CDT)
- Re: Fwd: N-glycosylation in AutoPSF (Sat Aug 29 2020 - 23:21:49 CDT)
- Re: Coarse graining disordered protein (Tue Aug 18 2020 - 00:32:47 CDT)
- Re: different RMSD number in VMD and charmm (Sat Aug 15 2020 - 20:30:19 CDT)
- Re: PME boolean (Fri Aug 14 2020 - 07:27:01 CDT)
- Re: Error (bug?) with Simulated annealing in FFTK-Bond/Angle opt (Thu Aug 06 2020 - 10:50:43 CDT)
- Re: Error (bug?) with Simulated annealing in FFTK-Bond/Angle opt (Thu Aug 06 2020 - 10:53:48 CDT)
- Re: Error (bug?) with Simulated annealing in FFTK-Bond/Angle opt (Wed Aug 05 2020 - 21:46:46 CDT)
- Re: Non-standard solvents in Solvate (Thu Jul 30 2020 - 15:44:22 CDT)
- Re: Re: Error with initiation of additional production simulation using Qwikmd (Thu Jul 30 2020 - 10:02:09 CDT)
- Re: Problem with Residue Based Coarse Grain tutorial (Wed Jul 29 2020 - 14:15:24 CDT)
- Re: Problem with Residue Based Coarse Grain tutorial (Tue Jul 28 2020 - 23:50:47 CDT)
- Re: Problem with Residue Based Coarse Grain tutorial (Tue Jul 28 2020 - 15:01:58 CDT)
- Re: Problem with Residue Based Coarse Grain tutorial (Mon Jul 27 2020 - 22:25:08 CDT)
- Re: RBCG models using Martini forces - psf file (Mon Jul 13 2020 - 11:35:03 CDT)
- Re: Fwd: namd-l: Re: scripts to generate initial boxes of solvents (Tue Jul 07 2020 - 00:00:06 CDT)
- Re: Unable to create PSF file (Fri Jul 03 2020 - 13:01:33 CDT)
- Re: Unable to create PSF file (Thu Jul 02 2020 - 19:05:20 CDT)
- Re: NAMD energy plugin reference (Mon Jun 08 2020 - 10:05:07 CDT)
- Re: NAMD energy plugin reference (Sat Jun 06 2020 - 22:21:32 CDT)
- Re: Issues generating a .psf file (Tue May 26 2020 - 11:52:02 CDT)
- Re: Setting graphical representations from the command line (Fri Apr 10 2020 - 18:24:05 CDT)
- Re: AutoPSF error vecsub (Sun Feb 02 2020 - 11:19:46 CST)
- Re: AutoPSF error vecsub (Sun Feb 02 2020 - 08:04:37 CST)
- Re: replacing an existig residue with a novel residue (Fri Jan 24 2020 - 07:28:40 CST)
- Re: Acetylation AutoPSF (Mon Aug 26 2019 - 19:26:17 CDT)
- Re: AutoPSF charge generation (Sat Jul 06 2019 - 21:00:48 CDT)
- Re: Getting the topology,PSF files (Fri Jul 05 2019 - 08:02:29 CDT)
- Re: Getting the topology,PSF files (Thu Jul 04 2019 - 17:09:41 CDT)
- Re: PDB manipulation options (Wed May 29 2019 - 14:12:16 CDT)
- Re: Re: psfgen problems of many segment complex (Tue May 28 2019 - 10:05:05 CDT)
- Re: psfgen problems of many segment complex (Mon May 27 2019 - 08:47:37 CDT)
- Re: psfgen problems of many segment complex (Fri May 24 2019 - 07:22:38 CDT)
- Re: regarding cionize (Fri May 17 2019 - 12:01:23 CDT)
- Re: Autopsfgen verbose error output? (Wed May 01 2019 - 21:26:03 CDT)
- Re: Autopsfgen verbose error output? (Wed May 01 2019 - 14:54:52 CDT)
- Re: Re: VMD on a WINDOWS 7 64-bit computer (Wed Mar 27 2019 - 20:42:37 CDT)
- Re: Re: VMD Text Mode (Thu Mar 07 2019 - 22:42:30 CST)
- Re: Re: VMD Text Mode (Thu Mar 07 2019 - 20:58:58 CST)
- Re: Calculate the bond and angle energy of a glucosidic linkage using NAMD Energy plugin (Mon Feb 25 2019 - 07:47:05 CST)
- Re: Patch DISU fails for MARTINIZED protein segments (Tue Dec 04 2018 - 14:06:47 CST)
- Re: Patch DISU fails for MARTINIZED protein segments (Tue Dec 04 2018 - 12:54:13 CST)
- Re: Patch DISU fails for MARTINIZED protein segments (Tue Dec 04 2018 - 07:22:26 CST)
- Re: REG building non standard solvent simulation box. (Wed Nov 28 2018 - 07:51:17 CST)
- Re: autopsf ERROR (Thu Nov 08 2018 - 11:29:36 CST)
- Re: unknown residue type (Sun Nov 04 2018 - 07:48:48 CST)
- Re: RBCG Builder (Mon Sep 24 2018 - 21:59:09 CDT)
- Re: Running Cionize1.0 (Sat Aug 25 2018 - 20:44:35 CDT)
- Re: Autopsf CGenFF input (Tue Jul 17 2018 - 09:52:42 CDT)
- Re: Autopsf CGenFF input (Tue Jul 17 2018 - 09:37:37 CDT)
- Re: Autopsf CGenFF input (Tue Jul 17 2018 - 08:00:32 CDT)
- Re: Connecting new residues to old residues in topology file (Wed Jun 20 2018 - 21:10:23 CDT)
- Re: Easy way to add hydrogens and get their internal coordinates? (Fri Jun 15 2018 - 12:27:16 CDT)
- Re: Adding a hydrogen through the command line and Molefacture (Thu May 24 2018 - 21:57:32 CDT)
- Re: Scan Torsions (Wed May 23 2018 - 22:07:13 CDT)
- Re: SPC/E Water models (Wed May 23 2018 - 11:19:35 CDT)
- Re: How autoionzie plugin works? (Tue May 22 2018 - 21:43:40 CDT)
- Re: reverting coarse-grained system to all-atom system (Sun Apr 15 2018 - 20:14:26 CDT)
- Re: Improper terms in topology files processed by psfgen (Fri Jan 05 2018 - 11:56:31 CST)
- Re: Improper terms in topology files processed by psfgen (Tue Jan 02 2018 - 09:31:43 CST)
- Re: Nonbond energy between 3 part (Tue Dec 12 2017 - 21:50:52 CST)
- Re: Nonbond energy between 3 part (Tue Dec 12 2017 - 07:25:16 CST)
- Re: sqm not active in molefacture (Thu Nov 02 2017 - 09:08:09 CDT)
- Re: Problem with cionize (Wed Aug 02 2017 - 22:11:31 CDT)
- Re: Problem with cionize (Wed Aug 02 2017 - 10:35:08 CDT)
- Re: Problem with cionize (Tue Aug 01 2017 - 22:01:30 CDT)
- Re: CG builder for martini force field (Thu May 25 2017 - 22:35:38 CDT)
- Re: CG builder for martini force field (Thu May 25 2017 - 22:10:03 CDT)
- Re: CG builder for martini force field (Sat May 13 2017 - 21:36:21 CDT)
- Re: CG builder for martini force field (Fri May 12 2017 - 15:33:54 CDT)
- Re: Need help in NAMD Energy plugin (Tue Apr 11 2017 - 22:16:52 CDT)
- Re: namd-l: psfgen giving wrong structure in the autopdb file (Fri Apr 07 2017 - 07:58:04 CDT)
- Re: namd-l: psfgen giving wrong structure in the autopdb file (Thu Apr 06 2017 - 19:50:01 CDT)
- Re: Problem with CG Builder/AutoPSF extension in VMD (Thu Mar 09 2017 - 07:06:56 CST)
- Re: autoionize plugin parsing error (vmd 1.9.3 ) (Wed Jan 04 2017 - 21:23:48 CST)
- Re: autoionize plugin parsing error (vmd 1.9.3 ) (Wed Jan 04 2017 - 20:11:44 CST)
- Re: autoionize plugin parsing error (vmd 1.9.3 ) (Wed Jan 04 2017 - 20:01:57 CST)
- Re: namd-l: psfgen - pdbalias when using readpsf (Thu Dec 15 2016 - 15:37:40 CST)
- Re: namd-l: psfgen - pdbalias when using readpsf (Thu Dec 15 2016 - 15:03:23 CST)
- Re: namd-l: psfgen - pdbalias when using readpsf (Thu Dec 15 2016 - 14:40:40 CST)
- Re: Unable to set coordinates in pdb - AutoPSF (Sun Dec 11 2016 - 14:46:51 CST)
- Re: Trying to Use AutoPSF on Hundreds of pdb Files (Sun Dec 11 2016 - 14:32:00 CST)
- Re: NAMD Check points (Fri Dec 09 2016 - 10:12:25 CST)
- Re: Trying to Use AutoPSF on Hundreds of pdb Files (Thu Dec 08 2016 - 21:00:34 CST)
- Re: Trying to Use AutoPSF on Hundreds of pdb Files (Thu Dec 08 2016 - 19:58:04 CST)
- Re: geometry optimization with SQM (Thu Dec 08 2016 - 16:31:52 CST)
- Re: which water models are inbult in namd? can I use SPCE if yes how? (Wed Nov 16 2016 - 08:57:32 CST)
- Re: problem with molfacture plugin 1.3 (Fri Oct 21 2016 - 00:24:33 CDT)
- Re: problem with molfacture plugin 1.3 (Thu Oct 20 2016 - 21:25:24 CDT)
- Re: problem with molfacture plugin 1.3 (Thu Oct 20 2016 - 21:38:02 CDT)
- Re: problem with molfacture plugin 1.3 (Thu Oct 20 2016 - 08:43:21 CDT)
- Re: Problem with Autopsf tool of vmd (Wed Oct 19 2016 - 20:18:04 CDT)
- Re: Re: Problem with Autopsf tool of vmd (Wed Oct 19 2016 - 20:14:58 CDT)
- Re: Problem with Autopsf tool of vmd (Wed Oct 19 2016 - 14:25:49 CDT)
- Re: On CHARMM angle bending potential (Tue Jul 05 2016 - 08:45:15 CDT)
- Re: On CHARMM angle bending potential (Mon Jul 04 2016 - 16:09:39 CDT)
- Re: namdenergy and bigdcd (Sat Jun 04 2016 - 20:58:06 CDT)
- Re: Namdenergy BUG: Namd started without initial box info, pairlist invalid (Tue May 24 2016 - 07:40:30 CDT)
- Re: CHARMM36 alleged missing CC CT1 NH2 angle params (Mon May 16 2016 - 07:46:47 CDT)
- Re: Installation Issue (Sat Apr 09 2016 - 20:30:43 CDT)
- Re: Re: psfgen on proteins with multiple chains (Mon Apr 04 2016 - 13:19:38 CDT)
- Re: protein from protein sequence in VMD (Thu Mar 31 2016 - 14:06:46 CDT)
- Re: Adding hydrogens breaks "protein" atomselection and bonds (Wed Mar 16 2016 - 09:23:48 CDT)
- Re: Adding hydrogens breaks "protein" atomselection and bonds (Wed Mar 16 2016 - 08:55:12 CDT)
- Re: vmd console problem (Sat Feb 06 2016 - 19:40:22 CST)
- Re: vmd console problem (Sat Feb 06 2016 - 19:38:22 CST)
- Re: Updating atomselections in every frame and write to a pdb (Mon Feb 01 2016 - 22:25:26 CST)
- Re: Updating atomselections in every frame and write to a pdb (Mon Feb 01 2016 - 21:21:28 CST)
- Re: Updating atomselections in every frame and write to a pdb (Mon Feb 01 2016 - 20:51:30 CST)
- Re: building a solvent/gas filled simulation box, no protein inside (Sat Jan 30 2016 - 19:28:40 CST)
- Re: tcl scripting for adding hydrogens to particular atoms in multiple pdb files (Thu Jan 28 2016 - 14:21:18 CST)
- Re: tcl scripting for adding hydrogens to particular atoms in multiple pdb files (Thu Jan 28 2016 - 00:00:28 CST)
- Re: Bugs in solvate plugin (Fri Jan 08 2016 - 13:57:47 CST)
- Re: measure contacts not working as expected (Thu Dec 03 2015 - 21:14:13 CST)
- Re: namd-l: Fwd: TIP4P and CHARMM27 (Wed Dec 02 2015 - 12:51:43 CST)
- Re: molefacture "force tetrahedral" failure (Wed May 04 2011 - 19:31:24 CDT)
- Re: (my) problems using molefacture dihedral (Sat Apr 02 2011 - 19:05:13 CDT)
- Re: Reverse Mapping of RBCG Model (Thu Mar 31 2011 - 21:46:14 CDT)
- Re: Reverse Mapping of RBCG Model (Thu Mar 31 2011 - 21:44:25 CDT)
- Re: Reverse Mapping of RBCG Model (Thu Mar 31 2011 - 11:10:35 CDT)
- Re: Fwd: charmmgen to autopsf (Tue Mar 22 2011 - 11:21:42 CDT)
- Re: charmmgen to autopsf (Tue Mar 22 2011 - 08:40:16 CDT)
- Re: charmmgen to autopsf (Tue Mar 22 2011 - 08:37:16 CDT)
- Re: charmmgen to autopsf (Mon Mar 21 2011 - 19:42:50 CDT)
- Re: Fwd: charmmgen to autopsf (Mon Mar 21 2011 - 19:11:35 CDT)
- Re: charmmgen to autopsf (Mon Mar 21 2011 - 05:48:06 CDT)
- Re: Re: namd-l: hBond colvars and patching (Mon Mar 07 2011 - 17:08:23 CST)
- Re: Re: namd-l: hBond colvars and patching (Mon Mar 07 2011 - 09:19:20 CST)
- Re: capping or patching protein ends (Thu Mar 03 2011 - 17:51:20 CST)
- Re: vmd1.9beta1 namdEnergyPlugin (Mon Feb 28 2011 - 19:07:10 CST)
- Re: vmd1.9beta1 namdEnergyPlugin (Fri Feb 25 2011 - 20:09:45 CST)
- Re: autopsf-patches C++ error 'expected integer but got "" ""' (Thu Feb 24 2011 - 21:28:18 CST)
- Re: vmd1.9beta1 namdEnergyPlugin (Thu Feb 24 2011 - 21:03:43 CST)
- Re: vmd1.9beta1 (Wed Feb 23 2011 - 19:30:06 CST)
- Re: how to update the selection in NAMDEnergy (Tue Feb 08 2011 - 23:35:00 CST)
- Re: Fwd: autopsf error: failed on end of segment (Tue Dec 28 2010 - 19:01:22 CST)
- Re: namdenergy problem (Wed Dec 01 2010 - 20:35:52 CST)
- Re: missing fragments in molefacture (Tue Nov 30 2010 - 19:25:50 CST)
- Re: cg_ionize (Mon Sep 20 2010 - 20:34:08 CDT)
- Re: Autoionize question for DNA molecule (Tue Sep 14 2010 - 18:55:35 CDT)
- Re: ion bead (residue based CG) (Wed Aug 18 2010 - 19:16:17 CDT)
- Re: REMD + RBCG (Wed Aug 18 2010 - 00:30:20 CDT)
- Re: REMD + RBCG (Tue Aug 17 2010 - 18:14:05 CDT)
- Re: AutoPSF errors (Tue Jun 22 2010 - 20:16:06 CDT)
- Re: AutoPSF errors (Mon Jun 21 2010 - 18:42:33 CDT)
- Re: namdenergy: writepdb failed (Sun Jun 20 2010 - 19:09:47 CDT)
- Re: solvate nonstandard patch error (Wed Jun 16 2010 - 11:52:23 CDT)
- Re: AutoPSF deleting residues (Tue Jun 15 2010 - 20:33:02 CDT)
- Re: Mol2 with Charmm atom types? (Tue Jun 01 2010 - 21:11:12 CDT)
- Re: namd-l: building a MARTINI bilayer (Wed Apr 21 2010 - 13:16:00 CDT)
- Re: Problem with creation of child fragment in Molefacture (Wed Apr 21 2010 - 09:51:35 CDT)
- Re: Problem with creation of child fragment in Molefacture (Wed Apr 21 2010 - 07:56:35 CDT)
- Re: Problem with creation of child fragment in Molefacture (Tue Apr 20 2010 - 18:02:23 CDT)
- Re: NAMD energy plugin question (Mon Apr 05 2010 - 20:44:59 CDT)
- Re: autopsf needs at least one atom error (Sun Jan 24 2010 - 13:55:07 CST)
- Re: Fwd: Re: namd-l: Fwd: conf file for coarse grained simulation (Wed Dec 16 2009 - 18:49:13 CST)
- Re: Re: namd-l: Fwd: conf file for coarse grained simulation (Tue Dec 15 2009 - 10:45:27 CST)
- Re: namd CG minimization error: unable to find angle parameters for nxg nxx nxg (Thu Dec 10 2009 - 15:06:05 CST)
- Re: Fwd: Failure with AutoPSF (PDB has x, y, z zero) (Sat Dec 05 2009 - 15:40:27 CST)
- Re: Failure with AutoPSF (PDB has x, y, z zero) (Sat Dec 05 2009 - 08:21:29 CST)
- Re: CG lipid bilayer vmd 1.8.7 (Thu Dec 03 2009 - 05:31:58 CST)
- Re: error in rbcg-2007.par file (Fri Nov 27 2009 - 19:27:37 CST)
- Re: destroyed molecule (Sat Nov 21 2009 - 08:59:35 CST)
- Re: Error: failed on end of segment with RBCG (Sun Nov 15 2009 - 08:46:47 CST)
- Re: VMD autopsfgen and Mg2+ (Tue Nov 10 2009 - 23:24:02 CST)
- Re: VMD autopsfgen and Mg2+ (Fri Nov 06 2009 - 19:23:54 CST)
- Re: VMD autopsfgen and Mg2+ (Thu Nov 05 2009 - 20:02:41 CST)
- Re: VMD autopsfgen and Mg2+ (Thu Nov 05 2009 - 09:03:44 CST)
- Re: Solvate-GUI Problem: Collapses Solvent to Origin (Mon Oct 26 2009 - 21:31:23 CDT)
- Re: rotate dihedral angle (Mon Sep 14 2009 - 21:32:23 CDT)
- Re: NAMD setup for organic compounds (Thu Jul 09 2009 - 19:07:56 CDT)
- Re: Memory allocation problem (Mon Jun 15 2009 - 09:22:49 CDT)
- Re: Ho to save exactly the screen structure? (Mon Jun 15 2009 - 09:45:56 CDT)
- Re: psfgen: auto none not working (Mon Jun 15 2009 - 06:50:46 CDT)
- Re: NAMDEnergy (Sun Jun 07 2009 - 16:41:54 CDT)
- Re: Vector corresponding to the long axis (Fri Jun 05 2009 - 19:53:16 CDT)
- Re: Problem in loading data (Sun May 24 2009 - 17:53:19 CDT)
- Re: solvent accessible surface area (Sat May 23 2009 - 14:19:37 CDT)
- Re: Operations with MD frames - acquiring time infromation (Sat May 23 2009 - 09:43:28 CDT)
- Re: Operations with MD frames - acquiring time infromation (Sat May 23 2009 - 09:09:49 CDT)
- Re: Question about introducing variables in "mol selection..." (Fri May 22 2009 - 10:18:59 CDT)
- Re: namdenergy missing for -dispdev none (vmd 1.8.6) (Fri May 15 2009 - 12:43:50 CDT)
- Re: Translate (Wed May 13 2009 - 22:41:34 CDT)
- Re: namdenergy (Mon May 11 2009 - 12:37:07 CDT)
- Re: namdenergy (Thu May 07 2009 - 22:45:00 CDT)
- Re: autopfs: unknown atom type error when processing ATP (Fri May 01 2009 - 22:31:52 CDT)
- Re: autopfs: unknown atom type error when processing ATP (Thu Apr 30 2009 - 16:52:18 CDT)
- Re: autopfs: unknown atom type error when processing ATP (Thu Apr 30 2009 - 16:30:30 CDT)
- Re: Molefacture "namehead" error (Mon Apr 27 2009 - 20:29:31 CDT)
- Re: Calculating system net charge with tcl in VMD (Mon Apr 27 2009 - 07:02:18 CDT)
- Re: graphics for publication (Sat Apr 25 2009 - 07:30:04 CDT)
- Re: graphics for publication (Fri Apr 24 2009 - 11:06:57 CDT)
- Re: display all frames simultaneously (Thu Apr 16 2009 - 22:32:26 CDT)
- Re: ligand names (Fri Apr 03 2009 - 15:54:42 CDT)
- Re: H-bonds (Thu Apr 02 2009 - 09:27:02 CDT)
- Re: pairInteraction and NAMDEnergy (Wed Apr 01 2009 - 22:49:26 CDT)
- Re: pairInteraction and NAMDEnergy (Wed Apr 01 2009 - 20:12:19 CDT)
- Re: helix axes (Tue Mar 31 2009 - 12:16:57 CDT)
- Re: helix axes (Tue Mar 31 2009 - 10:18:06 CDT)
- Re: helix axes (Tue Mar 31 2009 - 09:51:11 CDT)
- Re: namdenergy: how set "runextcommand"? (Sat Mar 28 2009 - 19:36:45 CDT)
- Re: GTP topology file (Fri Mar 20 2009 - 12:03:01 CDT)
- Re: isosurface from pdb with beta field (Fri Mar 13 2009 - 20:26:06 CDT)
- Re: Script problem (Thu Mar 12 2009 - 07:07:14 CDT)
- Re: script to resolve trajectory "jumps" on Desmond dynamic (Thu Mar 05 2009 - 10:43:18 CST)
- Re: namd-l: charm27 forcefield_topology (Wed Feb 25 2009 - 15:09:23 CST)
- Re: Atom distances from trajotory (Sat Feb 14 2009 - 08:01:53 CST)
- Re: Atom distances from trajotory (Fri Feb 13 2009 - 09:33:01 CST)
- Re: Atom distances from trajotory (Thu Feb 12 2009 - 07:40:14 CST)
- Re: Atomselect in NAMD GUI (Thu Feb 12 2009 - 06:21:11 CST)
- Re: scriptable way to add hydrogens (Sat Jan 31 2009 - 16:44:37 CST)
- Re: (Mon Jan 26 2009 - 06:09:46 CST)
- Re: accessing bonds angles dihedrals etc lists after PSF file is read into VMD (Thu Jan 22 2009 - 18:38:36 CST)
- Re: building loops (Tue Jan 13 2009 - 19:18:55 CST)
- Re: Dobule and triple bonds (Tue Jan 13 2009 - 09:30:56 CST)
- Re: 4x4 trafo matrices to get "homo-two-protein-complex" (Mon Jan 12 2009 - 19:30:51 CST)
- Re: 4x4 trafo matrices to get "homo-two-protein-complex" (Mon Jan 12 2009 - 12:17:53 CST)
- Re: odd render problems with Vista (Sun Jan 11 2009 - 18:50:51 CST)
- Re: odd render problems with Vista (Sun Jan 11 2009 - 14:49:47 CST)
- Re: odd render problems with Vista (Sun Jan 11 2009 - 14:05:18 CST)
- Re: Problems with NewCartoon Cartoon Representations (Tue Jan 06 2009 - 19:48:47 CST)
- Re: eliminate atoms from psf and pdb files (Tue Jan 06 2009 - 11:51:45 CST)
- Re: changing bond color (Tue Jan 06 2009 - 11:50:11 CST)
- Re: namd-l: Changing the Secondary Structure of a Protein (Sun Dec 28 2008 - 08:48:38 CST)
- Re: difficulties referencing a variable within a namespace (Mon Dec 22 2008 - 14:04:35 CST)
- Re: Remove PBC (Sun Dec 21 2008 - 21:30:56 CST)
- Re: QM Geometry optimization (Wed Dec 17 2008 - 08:57:05 CST)
- Re: regarding writemol2 (Sat Dec 06 2008 - 19:42:33 CST)
- Re: reagsrding writemol2 (Fri Dec 05 2008 - 09:00:29 CST)
- Re: drawing lines (Tue Nov 25 2008 - 18:23:12 CST)
- Re: need tcl help, please (Fri Nov 21 2008 - 13:22:04 CST)
- Re: representation ColorID in Tcl (Wed Nov 19 2008 - 12:16:07 CST)
- Re: Re: (Tue Nov 11 2008 - 22:33:13 CST)
- Re: Re: (Tue Nov 11 2008 - 22:22:28 CST)
- Re: Re: (Tue Nov 11 2008 - 22:07:42 CST)
- Re: (Tue Nov 11 2008 - 10:30:47 CST)
- Re: fasta2pdb (Mon Nov 10 2008 - 17:30:19 CST)
- Re: doubling a membrane (Mon Nov 10 2008 - 17:29:24 CST)
- Re: Multiple incompatible definitions warning (Thu Nov 06 2008 - 12:04:06 CST)
- Re: Psfgen : apply patches (Tue Nov 04 2008 - 07:16:07 CST)
- Re: conformations of a linker (Fri Oct 31 2008 - 14:37:34 CDT)
- Re: volmap (Tue Oct 21 2008 - 10:57:44 CDT)
- Re: (Tue Oct 21 2008 - 07:21:42 CDT)
- Re: volmap (Tue Oct 21 2008 - 07:26:23 CDT)
- Re: Selecting some atoms and changing the color of them (Tue Oct 21 2008 - 07:24:08 CDT)
- Re: PSFGEN problem with URA residues (Mon Oct 20 2008 - 09:04:03 CDT)
- Re: PSFGEN problem with URA residues (Mon Oct 20 2008 - 06:59:42 CDT)
- Re: animated gif (Mon Oct 20 2008 - 07:01:18 CDT)
- Re: psf file generation: once again (Thu Sep 25 2008 - 08:12:34 CDT)
- Re: psf file generation: once again (Wed Sep 24 2008 - 23:01:48 CDT)
- Re: How to render an image like this one with VMD? (Wed Sep 24 2008 - 21:49:25 CDT)
- Re: Error generating psf files (Thu Sep 18 2008 - 22:45:03 CDT)
- Re: Solid Support Problem (Thu Sep 18 2008 - 22:10:46 CDT)
- Re: Error generating psf files (Thu Sep 18 2008 - 22:14:25 CDT)
- Re: Error generating psf files (Thu Sep 18 2008 - 20:18:14 CDT)
- Re: psfgen problem (Thu Sep 18 2008 - 07:18:15 CDT)
- Re: regarding rotating dihedral (Wed Sep 17 2008 - 22:39:40 CDT)
- Re: Installing VMD on Fedora (Wed Sep 17 2008 - 07:18:07 CDT)
- Re: How to ionize a Shape Based CG Model? (Mon Sep 15 2008 - 10:21:44 CDT)
- Re: psfgen - loss of disulfide bonds (Thu Sep 11 2008 - 22:33:18 CDT)
- Re: Calculating the torsion angles in nucleic acids (Thu Sep 11 2008 - 08:52:36 CDT)
- Re: DIHE in topology file (Thu Sep 04 2008 - 07:51:51 CDT)
- Re: TXT program editor (Fri Aug 29 2008 - 09:34:29 CDT)
- Re: Calculating pocket volume (Thu Aug 28 2008 - 17:27:44 CDT)
- Re: TXT program editor (Thu Aug 28 2008 - 15:06:53 CDT)
- Re: catDCD (Wed Aug 27 2008 - 22:04:10 CDT)
- Re: label all residues (Wed Aug 13 2008 - 10:29:20 CDT)
- Re: NAMDENERGY crashing repeatedly (Tue Aug 05 2008 - 16:26:52 CDT)
- Re: Re: namdenergy and simulation with amber ff (Mon Aug 04 2008 - 11:50:31 CDT)
- Re: problem using pbc wrap: broken molecule (Fri Aug 01 2008 - 15:24:51 CDT)
- Re: problem using pbc wrap: broken molecule (Fri Aug 01 2008 - 10:14:47 CDT)
- Re: Re: namdenergy and simulation with amber ff (Fri Aug 01 2008 - 08:24:36 CDT)
- Re: question about using namdenergy.tcl with vmd -dispdev text -e *.tcl (Fri Jul 25 2008 - 17:31:16 CDT)
- Re: autopsf from console (Thu Jul 17 2008 - 12:52:33 CDT)
- Re: Fwd: memory overflow problem of Tcl scripting when dealing with trajectories(sorry for cross mailing...) (Wed Jul 16 2008 - 07:20:26 CDT)
- Re: contour plots (Thu Jul 10 2008 - 00:27:41 CDT)
- Re: Newbie Questions (Sun Jul 06 2008 - 22:06:53 CDT)
- Re: VMD Mutator, which side chain rotamer? (Wed Jul 02 2008 - 07:52:43 CDT)
- Re: select cylindrical slab (Fri Jun 27 2008 - 12:34:01 CDT)
- Re: Re: Re: PSF works in NAMD but not in VMD (Tue Jun 24 2008 - 07:19:00 CDT)
- Re: Re: PSF works in NAMD but not in VMD (Fri Jun 20 2008 - 08:04:24 CDT)
- Re: PSF works in NAMD but not in VMD (Wed Jun 18 2008 - 06:53:50 CDT)
- Re: specify a rtf file when generating a psf file. (Tue Jun 17 2008 - 14:32:13 CDT)
- Re: measure hbonds problem (Fri May 30 2008 - 15:00:52 CDT)
- Re: silly rmsd script doesn' t work ... (Fri May 30 2008 - 08:44:00 CDT)
- Re: Using NAMD Energy Plugin (Tue May 20 2008 - 08:12:50 CDT)
- Re: plot residues without hydrogen atoms (Tue May 20 2008 - 08:13:32 CDT)
- Re: Draw in a new layer problems (Fri May 16 2008 - 09:09:43 CDT)
- Re: namd-l: NAMDENERGY: function of 'cutoff' parameter when -pme option is enabled (Tue May 06 2008 - 00:37:54 CDT)
- Re: Beginner with cyclic peptide (Tue Apr 29 2008 - 11:44:04 CDT)
- Re: topology files L/D form (Mon Apr 14 2008 - 13:13:10 CDT)
- Re: Using namdenergy in batch mode to compute dihedral energies (Mon Apr 14 2008 - 10:24:53 CDT)
- Re: topology files L/D form (Mon Apr 14 2008 - 10:26:40 CDT)
- Re: Using namdenergy in batch mode to compute dihedral energies (Thu Apr 10 2008 - 17:05:18 CDT)
- Re: Insall Problem VMD Linux 1.8.6 Part II! (Sun Apr 06 2008 - 23:31:25 CDT)
- Re: How to read specific DCD frames directly in Fortran? (Sat Apr 05 2008 - 13:38:39 CDT)
- Re: NAMDenergy: how to override a FATAL ERROR (Tue Apr 01 2008 - 10:55:05 CDT)
- Re: NAMDenergy: how to override a FATAL ERROR (Sun Mar 30 2008 - 16:02:30 CDT)
- Re: NAMDenergy: how to override a FATAL ERROR (Sun Mar 30 2008 - 15:02:58 CDT)
- Re: Using namdenergy without cutoffs? (Tue Mar 11 2008 - 07:45:44 CDT)
- Re: Changing a structure of macromolecule with VMD (Sun Feb 24 2008 - 09:27:34 CST)
- Re: couldn't fork child process: not enough memory (Fri Feb 22 2008 - 06:48:23 CST)
- Re: namd energy plugin (Sun Feb 10 2008 - 15:55:50 CST)
- Re: VMD, NAMDenergy & AMBER parameters (Tue Feb 05 2008 - 06:51:37 CST)
- Re: Percentage Helicity calculation in VMD (Sat Feb 02 2008 - 08:42:40 CST)
- Re: (Mon Jan 28 2008 - 08:56:39 CST)
- Re: Question about autopsf (Tue Jan 22 2008 - 20:00:40 CST)
- Re: Question about autopsf (Tue Jan 22 2008 - 14:26:25 CST)
- Re: SSE from the protein sequence (Mon Jan 21 2008 - 10:09:48 CST)
- Re: How to calculate end-to-end distance in VMD? (Tue Jan 15 2008 - 10:30:10 CST)
- Re: NAMDEnergy problem (Tue Jan 08 2008 - 14:52:46 CST)
- Re: Hydrogens in vmd (Thu Jan 03 2008 - 16:21:53 CST)
- Re: Hydrogens in vmd (Thu Jan 03 2008 - 15:38:31 CST)
- Re: Hydrogens in vmd (Thu Jan 03 2008 - 14:25:05 CST)
- Re: add Mg2+ (Fri Dec 21 2007 - 11:09:10 CST)
- Re: calculation of alpha helical content (Tue Dec 11 2007 - 12:05:04 CST)
- Re: calculation of alpha helical content (Tue Dec 11 2007 - 10:39:05 CST)
- Re: Hydrophobicity plots in VMD (Sat Nov 24 2007 - 08:36:20 CST)
- Re: combine.tcl membrane plugin (Thu Nov 15 2007 - 09:44:00 CST)
- Re: Generatin PSF for alkanes (Sun Nov 11 2007 - 11:02:52 CST)
- Re: Tripos mol2 file in VMD (Mon Nov 05 2007 - 15:02:36 CST)
- Re: Tripos mol2 file in VMD (Mon Nov 05 2007 - 14:59:39 CST)
- Re: changing dihedral angles in molefacture (Mon Nov 05 2007 - 07:11:28 CST)
- Re: easy way to adjust dihedral angles? (Fri Nov 02 2007 - 14:29:14 CDT)
- Re: namd-l: NAMDEnergy (Tue Oct 30 2007 - 12:20:16 CDT)
- Re: Force field atom types (Sun Oct 28 2007 - 10:25:28 CDT)
- Re: Small molecules (Sat Oct 13 2007 - 17:25:13 CDT)
- Re: residue selection (Fri Oct 12 2007 - 14:24:18 CDT)
- Re: residue selection (Fri Oct 12 2007 - 14:27:49 CDT)
- Re: namd-l: Molecule drifts and high average RMSD per residue (Tue Oct 09 2007 - 09:58:06 CDT)
- Re: Re: namd-l: Molecule drifts and high average RMSD per residue (Tue Oct 09 2007 - 09:51:07 CDT)
- Re: namd-l: Molecule drifts and high average RMSD per residue (Tue Oct 09 2007 - 09:45:23 CDT)
- Re: creating nonstandard solvent (Fri Oct 05 2007 - 10:01:12 CDT)
- Re: NAMDENERGY analysis (Thu Oct 04 2007 - 14:18:05 CDT)
- Re: NAMDENERGY analysis (Thu Oct 04 2007 - 14:28:18 CDT)
- Re: creating nonstandard solvent (Wed Oct 03 2007 - 08:19:30 CDT)
- Re: creating nonstandard solvent (Wed Oct 03 2007 - 08:23:07 CDT)
- Re: namdenergy problem (Tue Oct 02 2007 - 18:55:14 CDT)
- Re: namdenergy problem (Tue Oct 02 2007 - 18:14:14 CDT)
- Re: util (Fri Sep 28 2007 - 16:46:40 CDT)
- util (Fri Sep 28 2007 - 16:39:56 CDT)
- Re: Re: topology file in /linux/src/vmd-1.8.6/plugins/noarch/tcl/readcharmmtop1.0/top_all27_prot_lipid_na.inp (Tue Sep 25 2007 - 21:05:12 CDT)
- Re: Create a PSF (Fri Sep 21 2007 - 07:27:34 CDT)
- Re: Create a PSF (Fri Sep 21 2007 - 06:57:23 CDT)
- Re: Generating water transparency around a protein (Fri Sep 14 2007 - 07:18:45 CDT)
- Re: Fwd: peptide builder (Fri Sep 07 2007 - 11:36:45 CDT)
- Re: How to solvate a protein in a large water sphere (Fri Aug 31 2007 - 08:16:08 CDT)
- Re: Paratool Reference (was Re: Paratool Window) (Tue Aug 21 2007 - 10:01:04 CDT)
- Re: residue missed by psfgen (Mon Aug 20 2007 - 16:48:00 CDT)
- Re: NAMD energy plugin (Wed Aug 15 2007 - 20:39:09 CDT)
- Re: NAMD energy plugin (Wed Aug 15 2007 - 20:36:13 CDT)
- Re: Changing the Index values of a molecule (the differenece between gro and pdb files) (Wed Aug 15 2007 - 12:34:52 CDT)
- Re: NAMD energy plugin (Wed Aug 15 2007 - 11:50:55 CDT)
- Re: electrostatic energy (Wed Aug 15 2007 - 09:07:39 CDT)
- Re: create psf and dcd from pdb (Tue Aug 14 2007 - 10:56:07 CDT)
- Re: create psf and dcd from pdb (Mon Aug 13 2007 - 17:35:01 CDT)
- Re: Adjusting R/S configuration (Sat Aug 11 2007 - 08:43:09 CDT)
- Re: mutate residue (Thu Aug 09 2007 - 21:29:10 CDT)
- Re: Automatic PSF Builder Help (Mon Aug 06 2007 - 15:59:17 CDT)
- Re: Automatic PSF Builder Help (Mon Aug 06 2007 - 12:45:09 CDT)
- Re: Automatic PSF Builder Help (Mon Aug 06 2007 - 11:46:46 CDT)
- Re: chloroform box (Sat Aug 04 2007 - 12:04:20 CDT)
- Re: chloroform box (Sat Aug 04 2007 - 08:00:48 CDT)
- Re: vmd residue position (Thu Jul 26 2007 - 14:38:42 CDT)
- Re: nonstandard solvate + cyclic peptides in explicit DMSO box + gofr (Thu Jul 26 2007 - 07:41:24 CDT)
- Re: Rotation matrix translatin vector vmd (Thu Jul 26 2007 - 07:26:09 CDT)
- Re: NAMDEnergy (Tue Jul 24 2007 - 13:26:29 CDT)
- Re: how to select atoms according to b-factor (Mon Jul 23 2007 - 09:17:30 CDT)
- Re: Autopsf (Fri Jul 20 2007 - 13:59:56 CDT)
- Re: Making a selection from another selection (Tue Jul 17 2007 - 21:05:31 CDT)
- Re: Making a selection from another selection (Tue Jul 17 2007 - 20:16:27 CDT)
- Re: Making a selection from another selection (Tue Jul 17 2007 - 20:14:40 CDT)
- Re: atoms deleted in patch try to come back (Sun Jul 15 2007 - 17:36:04 CDT)
- Re: error - with unknown atom type +CA (Thu Jul 12 2007 - 21:56:32 CDT)
- Re: displaying velocity from dlpoly history (Tue Jul 10 2007 - 15:22:13 CDT)
- Re: some principles for building a topology file? (Mon Jul 09 2007 - 21:14:31 CDT)
- Re: RMSD of different molecules (Fri Jul 06 2007 - 01:50:49 CDT)
- Re: Video card query (Thu Jul 05 2007 - 12:41:59 CDT)
- Re: ACE and NH2 (Tue Jul 03 2007 - 16:46:26 CDT)
- Re: atom serial number (Sun Jul 01 2007 - 13:40:52 CDT)
- Re: trouble saving the state of two proteins (Fri Jun 29 2007 - 15:31:51 CDT)
- Re: trouble saving the state of two proteins (Fri Jun 29 2007 - 12:48:33 CDT)
- Re: glycerol box (Thu Jun 28 2007 - 12:00:13 CDT)
- Re: Amber patches for Auto PSF generator (Wed Jun 27 2007 - 12:04:09 CDT)
- Re: adding residue at start or end (Tue Jun 19 2007 - 12:41:10 CDT)
- Re: Simple TCL/Tk question (Fri Jun 08 2007 - 11:37:06 CDT)
- Re: changing certain dihedral angles while keeping rest of molecule fixed (Wed Jun 06 2007 - 10:41:54 CDT)
- Re: changing certain dihedral angles while keeping rest of molecule fixed (Wed Jun 06 2007 - 09:24:18 CDT)
- Re: PSF_and_PDB_file_of_LIGAND (Fri Jun 01 2007 - 11:00:26 CDT)
- Re: overlay (Tue May 29 2007 - 16:20:56 CDT)
- Re: Reading in a MOL2 file (Tue May 29 2007 - 12:16:16 CDT)
- Re: selecting complete residues within perticular distance. (Mon May 28 2007 - 15:58:26 CDT)
- Re: How to use remote GLSL rendering capabilities? (Sun May 27 2007 - 18:10:48 CDT)
- Re: selecting complete residues within perticular distance. (Sun May 27 2007 - 18:09:46 CDT)
- Re: Installation Error Involving TLC (Fri May 25 2007 - 14:02:32 CDT)
- Re: questions about developing a plugin (Wed May 23 2007 - 19:18:48 CDT)
- Re: Automatic loading of mol2 files (Wed May 23 2007 - 10:52:12 CDT)
- Re: atomselection question (Tue May 22 2007 - 19:29:53 CDT)
- Re: (Thu May 17 2007 - 11:21:41 CDT)
- Re: How to add two parallel confinement wall (Wed May 16 2007 - 07:34:31 CDT)
- Re: a air box (Thu May 10 2007 - 10:25:46 CDT)
- Re: autoPSF with a POPC membrane (Tue May 08 2007 - 18:19:12 CDT)
- Re: autoPSF with a POPC membrane (Mon May 07 2007 - 20:40:47 CDT)
- Re: nonbond interaction energy (Fri May 04 2007 - 13:23:48 CDT)
- Re: Contribution of selected atoms to surface (Fri May 04 2007 - 10:13:41 CDT)
- Re: measure Hbond (Thu May 03 2007 - 14:10:21 CDT)
- Re: rms fitting problem (Wed May 02 2007 - 20:21:47 CDT)
- Re: selecting atoms (Tue Apr 24 2007 - 10:10:41 CDT)
- Re: Variable number of atoms in xyz file (Tue Apr 24 2007 - 10:04:40 CDT)
- Re: tcl code atomselect problem in analysis (Mon Apr 23 2007 - 10:57:10 CDT)
- Re: tcl code atomselect problem in analysis (Mon Apr 23 2007 - 10:10:20 CDT)
- Re: tcl variable withing variable name (Thu Apr 19 2007 - 09:38:53 CDT)
- Re: How to get the whole H2O molecule in a domain? (Wed Apr 18 2007 - 12:10:13 CDT)
- Re: How to get the whole H2O molecule in a domain? (Wed Apr 18 2007 - 12:07:52 CDT)
- Re: Saving mol2 file (Wed Apr 18 2007 - 11:00:26 CDT)
- Re: .xyz to .dcd using catdcd (Mon Apr 16 2007 - 21:31:32 CDT)
- Re: Saving mol2 file (Mon Apr 16 2007 - 12:48:18 CDT)
- Re: .xyz to .dcd using catdcd (Fri Apr 13 2007 - 21:26:57 CDT)
- Re: contact map (over all frames) (Fri Apr 13 2007 - 21:25:24 CDT)
- Re: how to connect chains using psfgen (Wed Apr 04 2007 - 11:20:30 CDT)
- Re: write trajectory of selected atoms (Wed Mar 28 2007 - 10:04:03 CDT)
- Re: write trajectory of selected atoms (Wed Mar 28 2007 - 10:03:01 CDT)
- Re: problem creating psf (Tue Mar 27 2007 - 10:45:00 CDT)
- Re: hbond calculation (Mon Mar 26 2007 - 16:00:10 CDT)
- Re: Replica exchange molecular dynamics (REMD) (Tue Mar 20 2007 - 22:02:58 CDT)
- Re: AutoPSF (Thu Mar 15 2007 - 17:13:00 CDT)
- Re: AutoPSF (Thu Mar 15 2007 - 15:29:05 CDT)
- Re: Average structure (Thu Mar 15 2007 - 14:39:21 CDT)
- Re: manually creating frames for VMD (Wed Mar 14 2007 - 20:46:49 CDT)
- Re: BPS Meeting @ Baltimore (Thu Mar 08 2007 - 07:07:25 CST)
- Re: Transform pdb files in psf files using VMD (Thu Mar 01 2007 - 15:05:51 CST)
- Re: convert tcl to python (Thu Mar 01 2007 - 09:28:55 CST)
- Re: Transform pdb files in psf files using VMD (Thu Mar 01 2007 - 09:27:28 CST)
- Re: Strange MOL2 export (Mon Feb 19 2007 - 09:55:24 CST)
- Re: Strange MOL2 export (Sat Feb 17 2007 - 15:36:45 CST)
- Re: problem with autopsf (Thu Feb 15 2007 - 08:20:20 CST)
- Re: problem with autopsf (Thu Feb 15 2007 - 08:11:49 CST)
- Re: ionize (big, big, big system!) (Mon Feb 12 2007 - 11:07:50 CST)
- Re: atomselection: number of residues (Sun Feb 11 2007 - 12:11:09 CST)
- Re: Assigning Color Codes for stress/force in .xyz trajectory files (Fri Feb 09 2007 - 10:48:49 CST)
- Re: Assigning Color Codes for stress/force in .xyz trajectory files (Fri Feb 09 2007 - 07:57:09 CST)
- Re: How to save the snapshot of my protein? (Fri Feb 09 2007 - 07:37:56 CST)
- Re: splitting segments (Tue Feb 06 2007 - 11:12:11 CST)
- Re: Using "membrane package" with different lipid molecules (Fri Feb 02 2007 - 09:37:01 CST)
- Re: DNA and low pH (Wed Jan 31 2007 - 19:51:26 CST)
- Re: Delete frames in a script (Tue Jan 30 2007 - 10:36:01 CST)
- Re: Pls help, Q abt PDB->PSF (Sun Jan 28 2007 - 00:38:29 CST)
- Re: [vmd] K3b bug? (Sat Jan 27 2007 - 08:26:32 CST)
- Re: [vmd] K3b bug? (Sat Jan 27 2007 - 07:59:55 CST)
- Re: Molefacture error (Wed Jan 24 2007 - 17:28:14 CST)
- Re: [Fwd: pdb from trajectory] some clarification (Wed Jan 24 2007 - 07:55:05 CST)
- Re: [Fwd: pdb from trajectory] some clarification (Tue Jan 23 2007 - 10:10:59 CST)
- Re: CGTools Plugin (Sat Jan 20 2007 - 11:17:00 CST)
- Re: H-bond energy (Fri Jan 19 2007 - 07:51:34 CST)
- Re: H-bond energy (Thu Jan 18 2007 - 18:23:24 CST)
- Re: sasa by residue (Thu Jan 11 2007 - 22:33:55 CST)
- Re: [Fwd: Re: create new topology file for new molecule] (Wed Jan 10 2007 - 08:51:29 CST)
- [Fwd: Re: create new topology file for new molecule] (Tue Jan 09 2007 - 11:11:04 CST)
- Re: sasa by residue (Tue Jan 09 2007 - 10:02:00 CST)
- Re: question about setting variables in a loop (Tue Jan 09 2007 - 09:49:21 CST)
- Re: using namdenergy with amber prmtop file (Thu Jan 04 2007 - 13:05:19 CST)
- Re: using namdenergy with amber prmtop file (Wed Jan 03 2007 - 20:09:29 CST)
- Re: Load last frame of dcd on TKconsole (how?) (Sun Dec 31 2006 - 08:15:01 CST)
- Re: (); [Fwd: PET force field & topolgy files etc.] (Thu Dec 28 2006 - 15:46:31 CST)
- Re: I have working PETE xbgf file, now how to combine into membrane? (Wed Dec 27 2006 - 13:21:27 CST)
- Re: Trying to Build a Membrane w/conical pore out of PET (polyethylene terephthalate) (Mon Dec 25 2006 - 11:38:07 CST)
- Re: Trying to Build a Membrane w/conical pore out of PET (polyethylene terephthalate) (Sat Dec 23 2006 - 01:02:19 CST)
- Re: Trying to Build a Membrane w/conical pore out of PET (polyethylene terephthalate) (Fri Dec 22 2006 - 13:19:24 CST)
- Re: VMD 1.8.5 installed. The graphics flashed and disappeared after installation. (Wed Dec 20 2006 - 10:08:49 CST)
- Re: VMD 1.8.5 installed. The graphics flashed and disappeared after installation. (Tue Dec 19 2006 - 13:30:20 CST)
- Re: Calculating changes (Tue Dec 12 2006 - 14:07:18 CST)
- Re: Details of .psf format (Fri Dec 08 2006 - 15:19:26 CST)
- Re: generating psf file for a lipid: vmd looking for c-term and n-term ? (Tue Dec 05 2006 - 15:57:09 CST)
- Re: Installing VMD Windows version on 64-bit Windows Environment (Wed Nov 22 2006 - 10:52:07 CST)
- Re: Change properties of representations - batch mode (Fri Nov 17 2006 - 10:38:07 CST)
- Re: changing the representation of a vector (Fri Nov 17 2006 - 10:36:11 CST)
- Re: giant spike in rmsd curve (Mon Nov 13 2006 - 15:37:46 CST)
- Re: Bigdcd - get coordinates from file (Sun Nov 05 2006 - 07:47:42 CST)
- Re: autopsf errors in vmd1.8.5 (Mon Oct 30 2006 - 12:18:43 CST)
- Re: problem running pgn script file (Tue Oct 03 2006 - 11:07:52 CDT)
- Re: Color by volume (Sat Sep 30 2006 - 10:41:09 CDT)
- Re: problem loading dcd file (Sat Sep 30 2006 - 09:15:20 CDT)
- Re: HBonds criterion (Wed Sep 27 2006 - 17:20:57 CDT)
- Re: HBonds criterion (Tue Sep 26 2006 - 16:06:03 CDT)
- Re: HBonds criterion (Tue Sep 26 2006 - 16:00:11 CDT)
- Re: HBonds criterion (Tue Sep 26 2006 - 12:24:46 CDT)
- Re: What unit system does VMD use? (Thu Sep 21 2006 - 21:37:27 CDT)
- Re: how to build an atomistic protein from a low resolution data. (Fri Sep 15 2006 - 20:06:54 CDT)
- Re: drawing of direction vectors for conformational transition (Wed Sep 13 2006 - 17:34:34 CDT)
- Re: Opening DCD file >2GB (Sun Sep 10 2006 - 15:23:31 CDT)
- Re: namd-l: electric field (Sun Sep 03 2006 - 08:10:10 CDT)
- Re: Installing VMFD in kubuntu.............. (Wed Aug 30 2006 - 11:12:27 CDT)
- Re: VMD runtime error (Wed Aug 30 2006 - 07:06:21 CDT)
- Re: psfgen woes... (Mon Aug 28 2006 - 16:11:11 CDT)
- Re: Problem with cellBasisVector 1, 2 and 3 (Wed Aug 23 2006 - 09:32:39 CDT)
- Re: problems with autoionize (Tue Aug 22 2006 - 22:54:31 CDT)
- Re: psfgen probs (Tue Aug 22 2006 - 10:12:45 CDT)
- Re: (Tue Aug 22 2006 - 07:36:35 CDT)
- [Fwd: Re: Help with "move" command] (Mon Aug 21 2006 - 14:40:50 CDT)
- Re: Atom selection based on arbitrary columns in the pdb file (Sat Aug 05 2006 - 15:17:21 CDT)
- Re: Altering Definition of Molecular Coloring Method (Mon Jul 31 2006 - 09:05:16 CDT)
- Re: psf for already hydrogen-added structure (Thu Jul 20 2006 - 20:22:05 CDT)
- Re: third time..can someone help!! (Wed Jul 12 2006 - 01:57:31 CDT)
- Re: third time..can someone help!! (Tue Jul 11 2006 - 23:45:30 CDT)
- Re: Please, help (Mon Jul 10 2006 - 17:14:17 CDT)
- Re: namdenergy plugin (Mon Jul 10 2006 - 00:08:12 CDT)
- Re: namdenergy plugin (Mon Jul 10 2006 - 00:02:33 CDT)
- Re: Missing atom error while atoms exist in pdb (Thu Jul 06 2006 - 13:12:39 CDT)
- Re: Missing atom error while atoms exist in pdb (Thu Jul 06 2006 - 11:33:04 CDT)
- Re: Missing atom error while atoms exist in pdb (Thu Jul 06 2006 - 11:27:45 CDT)
- Re: error using Namdenergy (Wed Jun 21 2006 - 20:15:21 CDT)
- Re: error using Namdenergy (Wed Jun 21 2006 - 17:17:17 CDT)
- Re: problem in minimization while running (Thu Jun 15 2006 - 16:06:09 CDT)
- Re: psfgen: last CTER does not work (Thu Jun 15 2006 - 14:35:02 CDT)
- Re: where's the download link for one specific plugin? (Wed Jun 07 2006 - 13:27:36 CDT)
- Re: Simple one-liner? (Wed Jun 07 2006 - 10:59:49 CDT)
- Re: disulphide bond (Tue May 30 2006 - 13:38:20 CDT)
- Re: bug in membrane plugin (Wed May 17 2006 - 14:14:56 CDT)
- Re: skip frames in dcd file=> no effect? (Mon May 15 2006 - 09:35:43 CDT)
- Re: adding hydrogen atoms (Tue May 02 2006 - 13:00:10 CDT)
- [Fwd: Re: bad angels] (Mon Apr 24 2006 - 10:15:42 CDT)
- Re: rms and align strucs (Wed Apr 19 2006 - 12:02:46 CDT)
- Re: Unknown residue type ZN (Tue Apr 18 2006 - 09:33:19 CDT)
- Re: Generating psfgen of multimeric protein complex (Tue Apr 18 2006 - 09:29:09 CDT)
- Re: breaking the DCD file (Sun Apr 16 2006 - 17:23:42 CDT)
- Re: Multiple residues at same position (Sun Apr 16 2006 - 08:38:30 CDT)
- Re: write output pdb for lots of different selections (Thu Apr 13 2006 - 12:04:25 CDT)
- Re: VMD-L: how to rotate the molecule so the long axis will be aligned to Z (Wed Apr 12 2006 - 12:16:30 CDT)
- Re: VMD-L: how to rotate the molecule so the long axis will be aligned to Z (Wed Apr 12 2006 - 11:37:27 CDT)
- Re: RMSD (Tue Apr 11 2006 - 13:57:58 CDT)
- Re: HELP (Fri Apr 07 2006 - 01:02:43 CDT)
- Re: question about psfgen (Thu Apr 06 2006 - 15:40:05 CDT)
- Re: question about psfgen (Thu Apr 06 2006 - 13:34:49 CDT)
- Re: dummy atoms and FEP (Thu Apr 06 2006 - 11:45:26 CDT)
- Re: parameter files (Tue Mar 28 2006 - 14:31:59 CST)
- Re: why the same operation vary so large (Mon Mar 27 2006 - 09:41:24 CST)
- Re: Poor Hydrogen Placement in AutoPSF (Mon Mar 20 2006 - 17:00:30 CST)
- Re: Poor Hydrogen Placement in AutoPSF (Mon Mar 20 2006 - 16:50:03 CST)
- Re: Poor Hydrogen Placement in AutoPSF (Mon Mar 20 2006 - 13:09:04 CST)
- Re: Poor Hydrogen Placement in AutoPSF (Sun Mar 19 2006 - 14:51:49 CST)
- Re: Problem with gopython (Fri Mar 17 2006 - 11:42:12 CST)
- Re: radial distribution (Fri Mar 10 2006 - 10:52:38 CST)
- Re: namd-l: Aligning structures (Thu Mar 09 2006 - 21:37:05 CST)
- Re: energy minimization of a trajectory with vmd+namd (Wed Mar 08 2006 - 10:02:25 CST)
- Re: PSF tools in windows and long paths (Wed Feb 15 2006 - 10:34:21 CST)
- Re: Problem with biotin autopsf (Fri Jan 20 2006 - 09:14:56 CST)
- Re: General query on MD (Fri Jan 20 2006 - 09:06:49 CST)
- Re: trouble with autopsf (Tue Jan 17 2006 - 09:57:46 CST)
- Re: trouble with autopsf (Sat Oct 22 2005 - 17:35:21 CDT)
- Re: overlapping two structures (Fri Oct 07 2005 - 11:20:25 CDT)
- Re: VMD scripting (Thu Oct 06 2005 - 14:43:15 CDT)
- Re: protein peptide alignment. (Sat Feb 12 2005 - 13:23:01 CST)
- Installer problem (Sat Aug 21 2004 - 09:55:02 CDT)
Peter Hains
- Insall Problem VMD Linux 1.8.6 Part II! (Sun Apr 06 2008 - 23:07:55 CDT)
- Install problem VMD Linux 1.8.6 (Sun Apr 06 2008 - 19:19:15 CDT)
- Solvent accessibility with sasa (Thu Jan 18 2007 - 15:34:16 CST)
- MSMS on Windows (Tue Jan 16 2007 - 23:21:52 CST)
Peter Hamm
- WARNING: Coordinates will be rotated to comply ... (Mon Apr 03 2006 - 08:01:57 CDT)
Peter Holm
- Movie frame rendering (Wed Jun 29 2005 - 11:06:50 CDT)
- Re: Re: Display shuts down on startup (Wed Jun 29 2005 - 02:37:37 CDT)
- Re: Display shuts down on startup (Tue Jun 28 2005 - 07:05:04 CDT)
- Re: MSMS (Mon Jun 27 2005 - 10:37:57 CDT)
- MSMS (Mon Jun 27 2005 - 07:19:22 CDT)
- Re: Display shuts down on startup (Mon Jun 27 2005 - 07:07:07 CDT)
- Display shuts down on startup (Mon Jun 27 2005 - 05:36:50 CDT)
- Re: Display only side chains (Mon Mar 07 2005 - 17:04:25 CST)
- Re: Display only side chains (Mon Mar 07 2005 - 16:21:02 CST)
- Display only side chains (Mon Mar 07 2005 - 15:42:40 CST)
- VMD object exported to Pymol (Mon Feb 21 2005 - 07:47:52 CST)
Peter Husen
- Re: Ubuntu launcher and WM_CLASS (Mon Dec 14 2015 - 07:25:27 CST)
- Re: Ubuntu launcher and WM_CLASS (Fri Dec 11 2015 - 06:55:03 CST)
- Re: Ubuntu launcher and WM_CLASS (Fri Dec 11 2015 - 02:47:50 CST)
- Re: Ubuntu launcher and WM_CLASS (Fri Dec 11 2015 - 06:31:44 CST)
- Ubuntu launcher and WM_CLASS (Thu Dec 10 2015 - 06:07:44 CST)
Peter Jensen Husen
- Suspected bug in BaseMolecule::default_mass (Mon Dec 18 2017 - 03:35:44 CST)
- Re: Water molar mass in autoionize.tcl (Mon Dec 18 2017 - 03:26:09 CST)
- Water molar mass in autoionize.tcl (Fri Dec 08 2017 - 07:16:07 CST)
Peter Jones
- selection syntax (Mon Mar 30 2009 - 01:54:32 CDT)
- CHARMM to AMBER trajectory conversion (Thu Dec 18 2008 - 22:40:53 CST)
- IED on MacOSX 10.3.9 (Tue Jun 10 2008 - 05:54:54 CDT)
- scale trajectory coords (Wed May 21 2008 - 22:28:35 CDT)
- NAMD unit cell data (Thu Jul 20 2006 - 00:43:24 CDT)
- catDCD 4.0 and xplor (Mon May 29 2006 - 23:23:10 CDT)
Peter Kroon
- Re: VMD does not display bonds (Fri Nov 09 2018 - 06:15:55 CST)
- Re: Plugins show no text (Wed Aug 29 2018 - 10:15:22 CDT)
- Re: Plugins show no text (Wed Aug 29 2018 - 10:04:02 CDT)
- Plugins show no text (Tue Aug 28 2018 - 05:04:06 CDT)
- Re: Tachyon with DoF ignores FocalLength (Tue Aug 28 2018 - 03:51:13 CDT)
- Re: Tachyon with DoF ignores FocalLength (Mon Aug 27 2018 - 05:40:52 CDT)
- Re: Re: Tachyon with DoF ignores FocalLength (Fri Aug 03 2018 - 09:32:48 CDT)
- Re: Re: Tachyon with DoF ignores FocalLength (Fri Aug 03 2018 - 04:17:28 CDT)
- Re: Re: Tachyon with DoF ignores FocalLength (Thu Aug 02 2018 - 05:03:21 CDT)
- Re: Tachyon with DoF ignores FocalLength (Wed Aug 01 2018 - 03:48:45 CDT)
- Tachyon with DoF ignores FocalLength (Mon Jul 09 2018 - 09:36:14 CDT)
Peter Lai
- RE: VMD in Linux, assigning a variable using awk (Thu Sep 20 2012 - 16:23:13 CDT)
Peter Mawanga
- Distances with respect to principal axis (Mon Mar 21 2022 - 09:30:57 CDT)
- Re: Saving visualization state coordinates (Fri Mar 13 2020 - 17:00:55 CDT)
- Re: Saving visualization state coordinates (Fri Mar 13 2020 - 16:43:38 CDT)
- Saving visualization state coordinates (Fri Mar 13 2020 - 11:00:16 CDT)
- Mailing list for Postdoctoral opportunities in Simulations (Tue Aug 20 2019 - 01:24:38 CDT)
- Re: Query about PME data in .dx format (Fri Sep 14 2018 - 10:55:42 CDT)
- Query about PME data in .dx format (Fri Sep 14 2018 - 04:32:10 CDT)
- Re: Secondary structure representation stays static (Mon Aug 27 2018 - 04:41:46 CDT)
- Secondary structure representation stays static (Mon Aug 27 2018 - 02:41:22 CDT)
- Re: Issue with "measure rmsf" command (Mon Jun 04 2018 - 11:39:37 CDT)
- Re: Issue with "measure rmsf" command (Mon Jun 04 2018 - 11:58:32 CDT)
- Issue with "measure rmsf" command (Mon Jun 04 2018 - 10:49:11 CDT)
- Re: NAMD Energy Plugin: Cutoff error (Mon Jun 04 2018 - 10:24:09 CDT)
- NAMD Energy Plugin: Cutoff error (Wed May 23 2018 - 08:42:05 CDT)
- Re: Decompose Transformation Matrix to Rotations and Translations along XYZ axes (Fri Mar 30 2018 - 12:51:59 CDT)
- Re: Propagating PDB coordinates using Quaternion matrix (Wed Mar 21 2018 - 12:27:40 CDT)
- Decompose Transformation Matrix to Rotations and Translations along XYZ axes (Wed Mar 21 2018 - 11:12:20 CDT)
- Re: Propagating PDB coordinates using Quaternion matrix (Tue Mar 20 2018 - 13:22:18 CDT)
- Propagating PDB coordinates using Quaternion matrix (Tue Mar 20 2018 - 09:29:06 CDT)
- Re: Writing all transformed coordinates into single file (Thu Mar 15 2018 - 07:35:36 CDT)
- Writing all transformed coordinates into single file (Wed Mar 14 2018 - 14:23:05 CDT)
- Multiseq: Perform peptide trajectory clustering (Wed Mar 07 2018 - 11:09:19 CST)
- PSFGEN: Residue addition not working (Fri Mar 02 2018 - 04:05:45 CST)
- Loading multiple dcd files crashes VMD (Thu Jan 11 2018 - 07:46:33 CST)
- Re: Drawing hollow circles (Tue May 30 2017 - 08:40:32 CDT)
- Re: Unable to remove sudden RMSD jumps between two segments (Thu May 25 2017 - 21:02:18 CDT)
- Unable to remove sudden RMSD jumps between two segments (Thu May 25 2017 - 02:13:12 CDT)
- Re: Drawing hollow circles (Tue May 23 2017 - 20:58:32 CDT)
- Drawing hollow circles (Tue May 23 2017 - 19:02:28 CDT)
- Unable to Render modified positions of labels with Tachyon (Mon Apr 10 2017 - 20:33:11 CDT)
- Unable to Render modified positions of labels with Tachyon (Mon Apr 10 2017 - 20:22:17 CDT)
Peter Monson
- Trouble launching VMD 1.9.2 from the dock in Mac OS X el capitan (Thu Mar 03 2016 - 15:10:33 CST)
Peter Murphy
- Re: movie making in vmd (Mon Aug 26 2013 - 14:24:36 CDT)
- Bond Labels - Issue with Rendering (Mon Jun 03 2013 - 12:12:04 CDT)
- Re: VMD: Mutator --> ASP to ASN problems (Wed Apr 24 2013 - 07:19:23 CDT)
- Re: VMD: Mutator --> ASP to ASN problems (Wed Apr 24 2013 - 05:52:41 CDT)
- Re: VMD: Mutator --> ASP to ASN problems (Tue Apr 23 2013 - 13:30:46 CDT)
- VMD: Mutator --> ASP to ASN problems (Tue Apr 23 2013 - 13:40:57 CDT)
- Re: Water Sphere Solvation (Tue Oct 13 2009 - 16:54:45 CDT)
Peter Schellenberg
- applying forces on a protein in VMD (Tue Dec 04 2007 - 02:05:58 CST)
- Re: chime vs vmd (Tue Aug 14 2007 - 05:37:55 CDT)
- overlapping two structures (Thu Oct 06 2005 - 08:37:24 CDT)
- Re: Using VMD to overlay structures (Mikolai Fajer) (Sun Aug 28 2005 - 05:28:29 CDT)
- Backbone representation of RNA (Fri Aug 12 2005 - 01:40:44 CDT)
- Re: Re: wrong bond drawing with pdb files (Thu Jul 14 2005 - 07:03:50 CDT)
- Re: wrong bond drawing with pdb files (Wed Jul 13 2005 - 03:02:52 CDT)
- wrong bond drawing with pdb files (Tue Jul 12 2005 - 02:36:11 CDT)
Peter Schmidtke
- Re: molfile plugin compilation for webassembly (Thu Dec 02 2021 - 07:58:11 CST)
- Best way to extend molfile plugin (Tue Jul 07 2020 - 07:28:19 CDT)
- Re: access to molfile plugin source code (Sat Apr 22 2017 - 17:44:42 CDT)
- access to molfile plugin source code (Sat Apr 22 2017 - 16:20:52 CDT)
- segmentation fault on OSX El capitan (Tue Jun 14 2016 - 03:00:50 CDT)
Peter Tieleman
- quicktime/mpeg movies (Wed Jun 18 2003 - 10:51:56 CDT)
- dti monitor linux (Fri Nov 29 2002 - 15:12:58 CST)
- stereo on linux: DTI monitors? (Sat Aug 24 2002 - 00:12:23 CDT)
- Re: membrane modeling (Sat Mar 25 2000 - 18:43:50 CST)
Peter van Heusden
- VMD on multi-projector digital planetarium dome (Mon Sep 30 2019 - 07:53:15 CDT)
Peter Varnai
- isosurface from pdb with beta field (Fri Mar 13 2009 - 16:09:33 CDT)
- change cylinder surface properties (Mon Feb 16 2009 - 11:42:13 CST)
- polar coordinates (Wed Nov 27 2002 - 11:52:10 CST)
- draw text or title in pov (Thu Apr 04 2002 - 10:04:03 CST)
- resid color (Wed Apr 03 2002 - 12:00:09 CST)
- picture/resid color (Tue Apr 02 2002 - 11:11:36 CST)
peter.schellenberg_at_ipht-jena.de
- Re: TCL for adding bonds? (Sun Jul 10 2005 - 05:59:27 CDT)
peter.schmidtke_at_fr.netgrs.com
- RE: how to convert dcd to pdbs in command line (Tue Apr 09 2013 - 01:12:20 CDT)
- RE: how to plot per-atom field variable (Mon Jan 07 2013 - 02:56:30 CST)
- RE: Stride update in every frame of a trajectory? (Mon Jan 07 2013 - 03:03:13 CST)
- RE: TR: VMD atomselect with cartesian reference (Wed May 30 2012 - 02:00:24 CDT)
- TR: VMD atomselect with cartesian reference (Thu May 24 2012 - 08:16:55 CDT)
Peterson J
- Measuring angle between two domains? (Thu Oct 03 2013 - 10:40:50 CDT)
- Error during Water interaction data generation using gaussian following ffTK screencast (Wed Jul 10 2013 - 12:03:45 CDT)
- Water interaction generation step in ffTK (Tue Jul 09 2013 - 14:59:47 CDT)
- Reusing the psf file (Fri Jun 28 2013 - 22:06:56 CDT)
- calculating distance between center of mass of two set of residues (Thu Jun 27 2013 - 13:06:44 CDT)
- Re: namd-l: Re: Suggestions on parameterizing a ligand to simulate in NAMD (Thu Jun 13 2013 - 17:08:29 CDT)
- Re: namd-l: Re: Suggestions on parameterizing a ligand to simulate in NAMD (Thu Jun 13 2013 - 11:59:28 CDT)
- Re: namd-l: Re: Suggestions on parameterizing a ligand to simulate in NAMD (Tue May 21 2013 - 16:38:07 CDT)
- Re: namd-l: Re: Suggestions on parameterizing a ligand to simulate in NAMD (Tue May 21 2013 - 14:24:51 CDT)
- Re: namd-l: Re: Suggestions on parameterizing a ligand to simulate in NAMD (Tue May 21 2013 - 11:35:01 CDT)
- Re: namd-l: Re: Suggestions on parameterizing a ligand to simulate in NAMD (Mon May 20 2013 - 23:48:48 CDT)
- Suggestions on parameterizing a ligand to simulate in NAMD (Mon May 20 2013 - 13:03:57 CDT)
Petr Jerabek
- Re: visualization of el. potential (Mon Oct 14 2013 - 14:06:22 CDT)
- visualization of el. potential (Mon Oct 14 2013 - 07:44:32 CDT)
Petrica GASCA
- independent stereo display (Thu Oct 23 2008 - 11:39:07 CDT)
- create movie from multiple frames (Thu Oct 23 2008 - 08:25:17 CDT)
- Re: Text/Labels on ray tracing external renderer (Sat Jun 23 2007 - 06:06:55 CDT)
- Text/Labels on ray tracing external renderer (Fri Jun 22 2007 - 09:28:57 CDT)
- Re: show atom number in xyz file (Wed Jun 06 2007 - 10:24:47 CDT)
- Re: show atom number in xyz file (Tue May 22 2007 - 04:32:36 CDT)
- show atom number in xyz file (Fri May 11 2007 - 06:49:10 CDT)
Petridis, Loukas
- Software to create 3D PDF documents (Fri Mar 25 2011 - 14:03:03 CDT)
Peyman Yamin
- Pyhton Mode (Thu Aug 20 2009 - 04:49:33 CDT)
Peyman Z.Moghadam
- angle calculation trajectory (Tue Oct 18 2011 - 12:28:16 CDT)
- creating chiral molecules (Thu Jul 28 2011 - 04:21:16 CDT)
- pdb file with different number of molecules (Wed Mar 16 2011 - 12:30:53 CDT)
Phelan Jr, Frederick R. Dr.
- Regarding the Use of STL Files as Boundary Features (Wed May 23 2012 - 11:05:46 CDT)
- Auto Bead Display Size using topotools (Mon Apr 02 2012 - 14:50:47 CDT)
- RE: Is there any way to stop the display of bonds for bonded atoms on opposite sides of a periodic boundary without unwrapping? (Thu Mar 29 2012 - 15:32:59 CDT)
- Is there any way to stop the display of bonds for bonded atoms on opposite sides of a periodic boundary without unwrapping? (Thu Mar 29 2012 - 14:31:58 CDT)
- RE: error in movie generator (Thu Jun 02 2011 - 08:44:38 CDT)
Phelan Jr., Frederick R. Dr.
- Hydration Shell RDF -- VMD Nomenclature Needed (Mon Feb 23 2015 - 15:31:03 CST)
- RE: Installation/Upgrade Error (Wed Apr 20 2011 - 16:48:08 CDT)
- Installation/Upgrade Error (Wed Apr 20 2011 - 15:57:49 CDT)
- RE: Generating Topo Bond Data from LAMMPS Data File (Wed Apr 20 2011 - 15:30:52 CDT)
- Generating Topo Bond Data from LAMMPS Data File (Wed Apr 20 2011 - 10:23:29 CDT)
- Save Coordinates Question ... (Fri Mar 25 2011 - 12:34:01 CDT)
- Save Coordinates Question ... (Fri Mar 25 2011 - 12:22:50 CDT)
- VMD.RC Question (Tue Mar 01 2011 - 14:33:45 CST)
- TCL Related Question (Mon Feb 28 2011 - 21:34:31 CST)
- Using the MovieMaker (Thu Feb 24 2011 - 15:52:28 CST)
- Drawing using variables (Mon Feb 21 2011 - 16:01:52 CST)
- Displaying Bead and Bonds (Wed Jan 19 2011 - 13:32:48 CST)
Phelan Jr., Frederick R. Dr. (Fed)
- RE: New User Cannot Access VMD on Windows (Fri Feb 26 2021 - 19:09:01 CST)
- New User Cannot Access VMD on Windows (Fri Feb 26 2021 - 18:20:29 CST)
Philip Blood
- Re: Compiling VMD from source on SDSC Datastar (AIX 5.2) (Fri Mar 02 2007 - 18:14:23 CST)
- Compiling VMD from source on SDSC Datastar (AIX 5.2) (Fri Mar 02 2007 - 17:09:25 CST)
- RE: limit on segment atom number in solvate and autoionize (Fri Mar 11 2005 - 13:44:45 CST)
- RE: limit on segment atom number in solvate and autoionize (Fri Mar 11 2005 - 13:18:22 CST)
- limit on segment atom number in solvate and autoionize (Fri Mar 11 2005 - 11:52:41 CST)
- displaying many frames with periodic images (Mon Feb 21 2005 - 10:49:51 CST)
- obtaining lists of bond, angle, and dihedral interactions (Fri Nov 19 2004 - 17:21:44 CST)
Philip Fowler
- Re: help with modifying script (Mon Nov 07 2005 - 03:05:48 CST)
- calculating lipid order parameters (Wed Sep 21 2005 - 07:54:59 CDT)
- Re: VMD for ALTIX (Thu May 05 2005 - 11:04:18 CDT)
- VMD, NAMD and Interactive Essential Dynamics (IED) (Tue Feb 22 2005 - 10:06:55 CST)
- Re: using gimp for converting jpg, tga ... images to high quality eps files (Mon Feb 07 2005 - 03:46:07 CST)
- Re: Copying a selection (Mon Mar 22 2004 - 02:42:02 CST)
- Re: get average structure from dcd file? (Wed Mar 17 2004 - 03:31:58 CST)
- spacemice (Fri Sep 19 2003 - 11:09:11 CDT)
- VMD, CAVEs and pointing devices (Wed Sep 17 2003 - 12:05:07 CDT)
Philip Loche
- Absolute ruler or position limits of the current view (Thu Nov 25 2021 - 07:50:20 CST)
- Re: VR (Wed Aug 01 2018 - 02:32:42 CDT)
- Re: VR (Tue Jul 31 2018 - 15:24:46 CDT)
- Playing trajectories using HMDs (Wed Apr 12 2017 - 04:48:49 CDT)
Philip Peartree
- RMSD Trajectory Tool (Tue Jun 01 2010 - 20:33:54 CDT)
- Compiling without graphics (Tue Jun 01 2010 - 20:31:18 CDT)
Philipp Schoen1
- atom position update for reference atom list (Wed Jun 13 2007 - 08:28:30 CDT)
- What is the influence of PBC on measure bond? (Tue Jun 05 2007 - 09:30:03 CDT)
- Distance measurement via measure bond (Mon Jun 04 2007 - 10:32:02 CDT)
- Installing VMD 1.8.6 (Mon Jun 04 2007 - 07:54:24 CDT)
- Consider fluctuating volume for density (Thu May 10 2007 - 05:16:57 CDT)
- How to get the whole H2O molecule in a domain? (Wed Apr 18 2007 - 11:55:03 CDT)
- RE: "which files to make a spatial grid?" => Bug for list command? (Tue Apr 17 2007 - 07:03:46 CDT)
- which files to make a spatial grid? (Mon Apr 16 2007 - 07:39:44 CDT)
- how to connect chains using psfgen (Wed Apr 04 2007 - 09:49:10 CDT)
Philipp Schön
- problems with atomselect: missing selection (Mon Nov 12 2007 - 05:23:32 CST)
- Is catdcd running on Windows? (Wed Oct 17 2007 - 03:45:54 CDT)
- VMD analysis using NAMD plot (Wed Aug 29 2007 - 05:47:01 CDT)
- Increasing use of RAM even if I put unset/delete for selections! Due to use of arrays? (Tue Aug 14 2007 - 05:28:13 CDT)
- how to make user input during runtime of a tcl program using TkConsole? (Fri Aug 10 2007 - 10:14:46 CDT)
- package require Tcl 8.5 => ::tcl::mathfunc:: (Thu Aug 09 2007 - 10:56:09 CDT)
- calculation limit of gofr? (Thu Jul 05 2007 - 10:16:00 CDT)
Philippe Bopp
- Re: Re: CNT structure formation (Sat Nov 27 2021 - 17:32:46 CST)
- rmsdtt 'batch mode' (Tue Mar 24 2020 - 08:14:22 CDT)
- Re: Periodic boundary conditions for multimeric systems (Mon Jul 22 2019 - 10:47:24 CDT)
- followup: atomselect one liner (Sat Jul 20 2019 - 04:09:27 CDT)
- atomselect one liner (Sat Jul 20 2019 - 02:22:12 CDT)
- Re: Calculating Diffusion Coefficient Using VMD (Tue May 01 2018 - 21:38:17 CDT)
- Re: Regarding RDF calculation (Fri Dec 01 2017 - 11:27:33 CST)
- Re: Finding atoms in protein-lipid system having electrostatic interaction (Wed Aug 09 2017 - 15:14:56 CDT)
- Re: replicating a trajectory in VMD (Sun Mar 19 2017 - 09:10:12 CDT)
- Re: colvars problem - different values in VMD and NAMD (Fri Apr 15 2016 - 11:29:02 CDT)
- strange behavior of render command (Thu Aug 28 2014 - 10:57:33 CDT)
- Re: problem for VMD extension_radial pair distribution function_truncation (Fri Mar 21 2014 - 12:21:38 CDT)
- Re: AW: AW: Simplest file format that includes atom color? (Thu Feb 13 2014 - 06:34:59 CST)
- PME calculations (Wed Nov 06 2013 - 10:50:37 CST)
- question concerning measure gofr (Tue Jun 25 2013 - 11:14:51 CDT)
Philippe Bopp / temporary
- Re: RDF (Mon Dec 03 2012 - 06:56:54 CST)
- RE: not very helpful documentation (Wed Nov 28 2012 - 10:58:32 CST)
- not very helpful documentation (Wed Nov 28 2012 - 09:02:28 CST)
- kill source'd tcl script (Wed Mar 28 2012 - 03:37:12 CDT)
- quicksurf and PBC (Sat Feb 18 2012 - 09:45:48 CST)
- quick-surf and throb (Thu Feb 16 2012 - 03:55:32 CST)
- charges in VMD 1.9 vs. VMD 1.8.7 (Fri Feb 10 2012 - 07:43:17 CST)
- Re: clip plane and cpk / VdW (Thu Nov 24 2011 - 09:58:54 CST)
- clip plane and cpk / VdW (Wed Nov 23 2011 - 04:48:33 CST)
Philippe Roche
- Problem with bondsrecalc (Mon May 28 2007 - 11:29:47 CDT)
- Problem with bondsrecalc (Mon May 28 2007 - 11:33:07 CDT)
Phillip Compeau
- Re: Issue with STAMP Alignment (Mon Dec 20 2021 - 17:22:00 CST)
- Re: Multiseq / stamp alignment on Windows 1.9.4alpha (Tue Nov 30 2021 - 10:27:03 CST)
- Issue with STAMP Alignment (Fri Nov 26 2021 - 22:05:02 CST)
Phillips, Carolyn L.
- Re: Issues using VMD 1.91. with CUDA on Mac OSX 10.9.1 (Tue Mar 04 2014 - 19:50:32 CST)
- Re: Issues using VMD 1.91. with CUDA on Mac OSX 10.9.1 (Tue Mar 04 2014 - 19:39:23 CST)
- Re: Issues using VMD 1.91. with CUDA on Mac OSX 10.9.1 (Tue Mar 04 2014 - 19:31:53 CST)
- Re: Issues using VMD 1.91. with CUDA on Mac OSX 10.9.1 (Tue Mar 04 2014 - 12:09:54 CST)
- Re: Issues using VMD 1.91. with CUDA on Mac OSX 10.9.1 (Tue Mar 04 2014 - 11:09:46 CST)
- Re: Issues using VMD 1.91. with CUDA on Mac OSX 10.9.1 (Tue Mar 04 2014 - 10:47:34 CST)
- Re: Issues using VMD 1.91. with CUDA on Mac OSX 10.9.1 (Tue Mar 04 2014 - 10:35:49 CST)
- Re: Issues using VMD 1.91. with CUDA on Mac OSX 10.9.1 (Tue Mar 04 2014 - 09:45:23 CST)
- Re: Issues using VMD 1.91. with CUDA on Mac OSX 10.9.1 (Sun Mar 02 2014 - 16:54:02 CST)
- Issues using VMD 1.91. with CUDA on Mac OSX 10.9.1 (Sun Mar 02 2014 - 14:42:31 CST)
phoenix
- Warining when generating psf file (Sun Oct 16 2005 - 03:12:12 CDT)
phubbard_at_post.its.mcw.edu
- Hi (Sun Jan 18 2004 - 22:09:47 CST)
- 2 more quick questions (Wed Jan 22 2003 - 17:53:54 CST)
- RE: Surfaces/Cavities (Wed Jan 22 2003 - 16:04:25 CST)
- Re: Surfaces/Cavities (Wed Jan 22 2003 - 14:45:36 CST)
- Surfaces/Cavities (Wed Jan 22 2003 - 14:01:37 CST)
Phuong Chau
- Rendering Images from VMD (Tue Aug 07 2018 - 12:20:48 CDT)
Pierpaolo Pravatto
- Labels on top of atoms (Mon Jan 02 2023 - 02:27:13 CST)
Pierre de Buyl
- follow-up of "new VMD plugin for H5MD file format" (Thu Apr 23 2015 - 06:56:29 CDT)
Pieter van 't Hof
- Re: building VMD is tricky -please help (Tue Dec 01 2009 - 03:40:05 CST)
- Survey: 3 minutes of your time (Mon Nov 30 2009 - 07:56:47 CST)
- Main menu not compiled? (Fri Sep 04 2009 - 09:00:56 CDT)
Pietro Amodeo
- Re: MD very slow on a 8400M GS laptop (but not on a GT230M one) after NVidia driver update to 304.64 or 310.14 (Mon Nov 19 2012 - 20:18:27 CST)
- Re: MD very slow on a 8400M GS laptop (but not on a GT230M one) after NVidia driver update to 304.64 or 310.14 (Mon Nov 19 2012 - 14:03:38 CST)
- Re: MD very slow on a 8400M GS laptop (but not on a GT230M one) after NVidia driver update to 304.64 or 310.14 (Mon Nov 19 2012 - 12:58:26 CST)
- Re: MD very slow on a 8400M GS laptop (but not on a GT230M one) after NVidia driver update to 304.64 or 310.14 (Mon Nov 19 2012 - 10:25:33 CST)
- Typo in my previous e-mail subject. It's: "VMD" very slow on a 8400M GS laptop.... (Sat Nov 17 2012 - 02:18:12 CST)
- MD very slow on a 8400M GS laptop (but not on a GT230M one) after NVidia driver update to 304.64 or 310.14 (Fri Nov 16 2012 - 13:44:51 CST)
- Re: VMD-1.8.5: GLSL & NVidia troubles + fixed previous Spaceball problem (Sun Feb 11 2007 - 06:22:46 CST)
- VMD-1.8.5: GLSL & NVidia troubles + fixed previous Spaceball problem (Sat Feb 10 2007 - 05:59:42 CST)
- Re: GLSL rendermode now OK on Linux with NVidia 8756 driver version (Tue Apr 11 2006 - 13:52:48 CDT)
- GLSL rendermode now OK on Linux with NVidia 8756 driver version (Tue Apr 11 2006 - 12:24:49 CDT)
- Re: vmd-1.8.4b10/Linux amd64 only libstdc++.so.6 dependancy (Fri Feb 10 2006 - 05:01:22 CST)
- Problems with Spaceball 4000FLX (Thu Feb 02 2006 - 15:04:58 CST)
Pijush Ghosh
- RE: movie (Wed Oct 11 2006 - 19:38:21 CDT)
- movie (Wed Oct 11 2006 - 17:36:40 CDT)
- VMD Command (Tue Mar 21 2006 - 00:00:42 CST)
Pilar Saiz Vela
- core when using some features of vmd-xplor (Thu May 06 2004 - 13:10:48 CDT)
pinisetty dinesh
- slicing (Wed Sep 06 2006 - 11:29:48 CDT)
- euler angles (Tue Mar 21 2006 - 19:07:47 CST)
- vmd@ks.uiuc.edu,johns@ks.uiuc.edu (Fri Oct 21 2005 - 14:20:45 CDT)
- xyz (Tue Oct 19 2004 - 18:18:11 CDT)
- thanks (Fri Sep 03 2004 - 15:19:23 CDT)
- xyz-file loading (Wed Sep 01 2004 - 12:50:06 CDT)
- readable files (Mon Aug 02 2004 - 14:47:58 CDT)
- angles (Wed Jul 28 2004 - 21:11:12 CDT)
Piotr Cieplak
- [Fwd: problems with manipulating control switches on VMS main menu] (Fri Oct 31 2008 - 12:57:15 CDT)
- problems with manipulating control switches on VMS main menu (Wed Oct 29 2008 - 19:52:24 CDT)
piriboy
- Some pdb file contains many frames : How Can I retrieve all in a frame... (Thu Feb 12 2004 - 18:50:30 CST)
pkb bioinfo
- missing" Number of frames to render" in VMD window movie generator (Mon Jun 12 2006 - 05:39:40 CDT)
pkmukher
- VMD_orient (Thu Mar 08 2007 - 21:36:49 CST)
pl
- atom index starting at 0 (Fri Jan 07 2005 - 09:47:00 CST)
- turning Info output off in vmd console? (Fri Dec 17 2004 - 06:44:03 CST)
- Re: writepdb and list problem- Resolved but still... (Fri Nov 12 2004 - 07:59:48 CST)
- writepdb and list problem (Tue Nov 09 2004 - 05:52:51 CST)
- getbonds for H-bonds request (Mon Nov 08 2004 - 08:10:57 CST)
- bridging_waters.tcl error and usage (Mon Nov 08 2004 - 05:18:21 CST)
- Display of H-bonded waters only (Wed Nov 03 2004 - 10:04:29 CST)
plbrown_at_cs.duke.edu
- Getting started with VMD/freeVR (Wed Sep 15 2004 - 08:14:08 CDT)
Pletezhov Alexandr
- Output of forces (Thu Dec 02 2010 - 03:18:26 CST)
poker_at_physics.usyd.edu.au
- Re: Gromacs index file (Wed Dec 19 2012 - 06:04:23 CST)
- Re: is it possible to hide ONLY non-polar hydrogens? (Fri Jan 20 2012 - 16:41:14 CST)
- Re: Direct manipulation of the camera (Wed Oct 21 2009 - 03:26:59 CDT)
- Direct manipulation of the camera (Wed Oct 21 2009 - 00:21:57 CDT)
- Re: selection for polar hydrogens only (Wed Aug 26 2009 - 02:05:44 CDT)
- selection for polar hydrogens only (Tue Aug 25 2009 - 22:13:26 CDT)
- Wrong coordinates using guesscoord in psfgen - lipids (Wed Jun 17 2009 - 02:30:55 CDT)
- Re: Using namdenergy without cutoffs? (Tue Mar 11 2008 - 20:05:46 CDT)
- Using namdenergy without cutoffs? (Tue Mar 11 2008 - 01:09:20 CDT)
- Re: the script do not update the frame for secondary structure analysis (Mon Feb 11 2008 - 18:51:32 CST)
- Re: measure hbonds (Mon Dec 17 2007 - 19:03:50 CST)
- Writing in NAMD binary format in VMD from TCl/Tk console? (Tue Oct 23 2007 - 20:33:05 CDT)
Pol Garcia-Segura
- Re: VMD on Windows 11 (Wed Feb 08 2023 - 13:18:56 CST)
- VMD on Windows 11 (Wed Feb 08 2023 - 11:58:56 CST)
politr_at_huji.ac.il
- NAMD energy plugin (Thu Aug 05 2010 - 07:41:37 CDT)
- append pdb (Sun May 16 2010 - 09:48:19 CDT)
- implicit solvent (Tue Mar 23 2010 - 09:16:29 CDT)
- analyzing gromacs trajectory (.trr) with VMD (Tue Mar 09 2010 - 03:48:24 CST)
- Re: using NAMD with SPC water (Tue Oct 27 2009 - 11:12:21 CDT)
- using NAMD with SPC water (Mon Oct 26 2009 - 07:48:26 CDT)
- covalently bonded atoms (Mon Oct 12 2009 - 11:11:22 CDT)
- hydrogen bonds tcl script (Tue Apr 28 2009 - 09:40:12 CDT)
- Re: a way to create a nice image (Sun Feb 22 2009 - 10:52:01 CST)
- Re: a way to create a nice image (Sun Feb 22 2009 - 10:51:35 CST)
- a way to create a nice image (Sat Feb 21 2009 - 08:36:44 CST)
- DIHE in topology file (Thu Sep 04 2008 - 02:31:52 CDT)
- Re: measure hbonds problem (Sun Jun 01 2008 - 06:27:48 CDT)
- measure hbonds problem (Fri May 30 2008 - 10:59:28 CDT)
- hydrogen bonds (Fri May 30 2008 - 06:05:12 CDT)
- How to discard certain atoms (Sun May 25 2008 - 05:50:43 CDT)
- clarification to "problem using pbc wrap" (Tue Apr 29 2008 - 06:43:23 CDT)
- (no subject) (Tue Apr 29 2008 - 05:49:41 CDT)
- problem using pbc wrap (Tue Apr 29 2008 - 05:52:09 CDT)
- problem with "within" command of VMD (Thu Apr 24 2008 - 08:22:23 CDT)
- problem while running VMD (Thu Apr 24 2008 - 03:31:22 CDT)
- measure distance (Wed Apr 23 2008 - 09:02:41 CDT)
- memorry problem (Wed Apr 23 2008 - 06:48:53 CDT)
pontes_at_if.usp.br
- Volume slice-I: slice color (Thu Sep 11 2008 - 07:22:07 CDT)
- Volume slice: slice color (Wed Sep 10 2008 - 10:31:55 CDT)
POTTER T.D.
- Re: vmd not working on remote server (Wed Oct 18 2017 - 05:31:53 CDT)
- vmd not working on remote server (Tue Oct 17 2017 - 08:20:07 CDT)
pouyan farzinpor
- Re: not to display atoms in certain region (Fri Jun 24 2011 - 15:29:11 CDT)
- not to display atoms in certain region (Fri Jun 24 2011 - 14:53:03 CDT)
prabhakar g
- orientation of protein molecule (Wed Jan 05 2011 - 18:12:19 CST)
Prabhakar Reddy Gudla
- VMD on Solaris 2.x doesn't compile (Fri May 02 2003 - 00:45:53 CDT)
Prabir Khatua
- orient package problem (Wed Jan 02 2019 - 17:15:56 CST)
- beta barrel structure generation (Fri Dec 21 2018 - 16:41:42 CST)
- ring-like structure formation with distance restraints (Tue Dec 18 2018 - 21:32:48 CST)
prachi singh
- (No Subject) (Mon Jun 05 2000 - 08:26:51 CDT)
Praedor Atrebates
- Re: ???UNSURE??? Re: vmd that works with ati/linux (Wed Sep 28 2005 - 16:43:14 CDT)
- Re: ???UNSURE??? Re: vmd that works with ati/linux (Wed Sep 28 2005 - 07:15:28 CDT)
- Re: ???UNSURE??? Re: vmd crashes upon load of pdb (Fri Sep 23 2005 - 16:14:28 CDT)
- Re: ???UNSURE??? Re: ???UNSURE??? Re: ???UNSURE??? Re: ???UNSURE??? Re: vmd crashes upon load of pdb (Fri Sep 23 2005 - 15:48:52 CDT)
- Re: ???UNSURE??? Re: ???UNSURE??? Re: ???UNSURE??? Re: vmd crashes upon load of pdb (Fri Sep 23 2005 - 15:24:51 CDT)
- Re: ???UNSURE??? Re: ???UNSURE??? Re: ???UNSURE??? Re: vmd crashes upon load of pdb (Fri Sep 23 2005 - 15:20:19 CDT)
- Re: ???UNSURE??? Re: ???UNSURE??? Re: vmd crashes upon load of pdb (Fri Sep 23 2005 - 15:03:03 CDT)
- Re: ???UNSURE??? Re: vmd crashes upon load of pdb (Fri Sep 23 2005 - 14:30:03 CDT)
- vmd crashes upon load of pdb (Fri Sep 23 2005 - 13:30:56 CDT)
pragya.saxena_at_research.iiit.ac.in
- Re: Regarding fitframes.tcl (Tue Jan 04 2011 - 07:37:45 CST)
- Re: Regarding fitframes.tcl (Tue Jan 04 2011 - 06:41:21 CST)
- Regarding fitframes.tcl (Tue Jan 04 2011 - 04:51:39 CST)
prakhar gupta
- Re: Error in reading data file (Tue Oct 23 2012 - 12:10:45 CDT)
- Re: Error in reading data file (Tue Oct 23 2012 - 10:05:29 CDT)
- Error in reading data file (Tue Oct 23 2012 - 08:50:50 CDT)
- Problem in making IMD connection (Thu May 31 2012 - 05:57:27 CDT)
Pranjal Sur
- Calculating time variation of potential. (Fri Sep 23 2022 - 04:47:39 CDT)
Prapti Lohi
- Micelle formation visualisation (Tue Jun 27 2017 - 13:29:49 CDT)
Prasad S Garimella
- Change representation default from lines to points (Thu Jun 02 2005 - 09:56:16 CDT)
- Open diff pdbs with diff # of atoms? (Fri May 13 2005 - 17:02:51 CDT)
- Loading a script (Mon Aug 02 2004 - 17:21:31 CDT)
Prashanth Athri
- Question about rendering across multiple frames (Mon Jun 11 2007 - 13:51:29 CDT)
- vmd 1.8.b does not start up (Thu Feb 16 2006 - 17:59:50 CST)
Prateek Bansal
- How to choose solid color in clipping plane render with POV-Ray (Tue Aug 30 2022 - 11:10:42 CDT)
- VMD Tachyon Render fails with new material (Mon Aug 23 2021 - 10:21:48 CDT)
prateeksha s
- namd-l: Creating topology for carbon nanotube / any new structure (Tue Dec 18 2007 - 23:10:42 CST)
Prathit Chatterjee
- Create CHARMM COR files with VMD (Tue Jul 26 2022 - 08:50:27 CDT)
- Cannot write parm7 file with type parm7 (Thu Jul 14 2022 - 08:54:37 CDT)
- Re: How to write a netcdf file in vmd from already loaded netcdf/dcd trajectory (Thu Dec 23 2021 - 09:08:51 CST)
- How to write a netcdf file in vmd from already loaded netcdf/dcd trajectory (Thu Dec 23 2021 - 05:00:44 CST)
- Re: Could not load .nc file in MAC installed VMD (Thu Mar 18 2021 - 01:46:47 CDT)
- Could not load .nc file in MAC installed VMD (Wed Mar 17 2021 - 03:03:39 CDT)
- Problem in DISPLAY of VMD from remote server in local Mac Machine (Tue Feb 23 2021 - 07:20:39 CST)
- Re: Discrepancy in interaction energy of amber coordinate trajectories of a system (Fri Nov 20 2020 - 22:40:10 CST)
- Re: Discrepancy in interaction energy of amber coordinate trajectories of a system (Fri Nov 20 2020 - 04:49:42 CST)
- Re: Sorting as an increasing function of the integers in suffices (Mon Nov 16 2020 - 14:23:42 CST)
- Sorting as an increasing function of the integers in suffices (Mon Nov 16 2020 - 05:31:29 CST)
- Re: Discrepancy in interaction energy of amber coordinate trajectories of a system (Mon Nov 09 2020 - 01:14:26 CST)
- Re: Discrepancy in interaction energy of amber coordinate trajectories of a system (Sun Nov 08 2020 - 21:55:55 CST)
- Re: Discrepancy in interaction energy of amber coordinate trajectories of a system (Sun Nov 08 2020 - 21:50:23 CST)
- Discrepancy in interaction energy of amber coordinate trajectories of a system (Sat Nov 07 2020 - 07:22:40 CST)
- Failing to load AMBER parameter files in VMD (Thu Oct 22 2020 - 06:11:34 CDT)
- Loading AMBER coordinates in VMD text mode (Fri Aug 28 2020 - 00:39:33 CDT)
- Re: Selecting first three characters of a variable with tcl in VMD (Thu Jun 04 2020 - 21:20:56 CDT)
- Re: Selecting first three characters of a variable with tcl in VMD (Thu Jun 04 2020 - 02:59:49 CDT)
- Selecting first three characters of a variable with tcl in VMD (Thu Jun 04 2020 - 01:37:54 CDT)
- Selecting first three characters of a variable with tcl in VMD (Wed Jun 03 2020 - 22:56:41 CDT)
- Re: (Tue Jan 05 2010 - 07:34:39 CST)
- Re: (Mon Jan 04 2010 - 23:22:16 CST)
- Re: vmd installation in linux (Sun Jan 03 2010 - 04:09:13 CST)
- reply (Sat Jan 02 2010 - 05:33:04 CST)
- vmd installation in linux (Fri Jan 01 2010 - 22:08:09 CST)
Pratik Narain Srivastava
- Re: Glycoprotein simulation (Sun Nov 22 2020 - 02:04:59 CST)
- Re: Trajectory analysis without loading all frames (Sun Nov 22 2020 - 02:07:30 CST)
- Re: Regarding installation of DruGui (Tue Mar 27 2018 - 02:03:09 CDT)
- Atoms moving too fast (Wed May 24 2017 - 14:36:45 CDT)
Praveen Madala
- core dump (Mon Apr 24 2006 - 03:14:15 CDT)
- need HELP with psf file (Mon Apr 10 2006 - 22:23:30 CDT)
- HELP (Thu Apr 06 2006 - 18:26:23 CDT)
preeda
- About openning a file to write in callback function (Mon Apr 23 2007 - 12:07:59 CDT)
- About using trace (Fri Apr 20 2007 - 10:04:09 CDT)
- How can i obtain a force and trajectory data of a PHANTOM in IMD simulation (Tue Apr 17 2007 - 09:44:30 CDT)
- Need helps about connecting phantom with VMD through VRPN (Mon Mar 19 2007 - 09:30:43 CDT)
- Connecting a phantom with NAMD and VMD (Mon Nov 06 2006 - 00:39:36 CST)
PREETA DATTA
- Re: generating (Tue Feb 20 2007 - 14:30:11 CST)
- generating COORDINATE FILES (Tue Feb 20 2007 - 05:48:41 CST)
- Fwd: generating COORDINATE FILES (Tue Feb 20 2007 - 07:22:53 CST)
- generating (Tue Feb 20 2007 - 07:19:13 CST)
- building bilayer with DOPC or other lipids (Fri Feb 16 2007 - 04:29:41 CST)
preethi_at_bu.edu
- Re: VMD too slow on my Linux system (Mon Aug 23 2004 - 09:34:38 CDT)
- VMD too slow on my Linux system (Thu Aug 19 2004 - 11:33:48 CDT)
Prevost Martine
- load MSMS files into vmd (Fri Nov 07 2008 - 09:29:34 CST)
- Compute the angle between a vector and the largest inertia axis (Tue Jan 30 2007 - 04:15:03 CST)
- (no subject) (Thu Jan 25 2007 - 04:41:37 CST)
Prithwish Nandi
- VMD not displaying Gromacs TRR format traj (Thu Aug 26 2021 - 11:36:12 CDT)
- Re: Funnel metadynamics (Fri Aug 13 2021 - 08:27:08 CDT)
- Re: Funnel metadynamics (Fri Aug 13 2021 - 07:59:36 CDT)
- Funnel metadynamics (Fri Aug 13 2021 - 06:14:45 CDT)
Priti Hansia
- vmd installation in rehdat7.3 (Mon Mar 21 2005 - 22:40:59 CST)
- Re: Re: Installation on vmd-1.8 on mandrake10 (Sat Aug 28 2004 - 02:26:36 CDT)
- Re: Installation on vmd-1.8 on mandrake10 (Thu Aug 26 2004 - 23:06:11 CDT)
- Installation on vmd-1.8 on mandrake10 (Thu Aug 26 2004 - 10:47:22 CDT)
PRITI ROY
- Problem in Network analysis (Sun Aug 04 2019 - 01:51:30 CDT)
- Re: Salt-Bridge Calculation (Fri Jun 23 2017 - 02:10:40 CDT)
- Re: Interacting H-bond between two dimer (Sun Feb 12 2017 - 13:10:36 CST)
- Interacting H-bond between two dimer (Thu Feb 02 2017 - 23:58:56 CST)
Priyabrata Panigrahi
- Different output of Saltbridge calculation between Saltbridge plugin and Timeline (Sat Feb 23 2013 - 02:21:14 CST)
Priyanshu Gupta
- Atoms dropped on running AutoPSF (Fri Mar 24 2023 - 12:52:46 CDT)
priyaranjini ranju
- Request for help in command line in VMD (Thu Jun 06 2019 - 04:30:37 CDT)
priyodorshi satpati
- Translating an atom along a specific direction and saving the pdb files (Tue Oct 20 2009 - 04:08:12 CDT)
- RMSD of a protein shell, from the NAMD traj (Sun Apr 12 2009 - 11:02:13 CDT)
proclus_at_gnu-darwin.org
- GNU-Darwin rides Tiger, packages back on-line (Fri May 06 2005 - 11:05:55 CDT)
Prof. Eddie
- loading movies of ply files (Thu Sep 02 2021 - 10:35:03 CDT)
- psfgen on console missing dihedral parameters for standard residues (Tue Mar 09 2021 - 13:00:06 CST)
- Re: fftk wat. opt. when charges overlap (Tue Mar 09 2021 - 08:28:34 CST)
- fftk wat. opt. when charges overlap (Mon Mar 08 2021 - 08:46:07 CST)
- Re: Custom residue in mutate psfgen (Tue Mar 02 2021 - 07:56:53 CST)
- Custom residue in mutate psfgen (Mon Mar 01 2021 - 14:10:15 CST)
- Re: fftk and charmmgui vdW parameters (Sat Feb 06 2021 - 08:11:04 CST)
- fftk and charmmgui vdW parameters (Wed Feb 03 2021 - 10:29:56 CST)
- Re: novel residue creation and parameterization (Wed Feb 03 2021 - 10:14:56 CST)
- Re: novel residue creation and parameterization (Thu Jan 28 2021 - 15:22:59 CST)
- Re: novel residue creation and parameterization (Thu Jan 28 2021 - 14:21:13 CST)
- Re: novel residue creation and parameterization (Thu Jan 28 2021 - 10:45:17 CST)
- Re: novel residue creation and parameterization (Wed Jan 27 2021 - 17:46:11 CST)
- launching fftk (Wed Jan 27 2021 - 16:36:47 CST)
- novel residue creation and parameterization (Wed Jan 27 2021 - 08:33:12 CST)
- Re: Is occulus rift plug-and-play with VMD yet? If so, what are the capabilities? (Wed Oct 11 2017 - 13:08:38 CDT)
- CD spectra (Fri Feb 19 2016 - 10:34:02 CST)
- scipt for loading multiple copies in psfgen (Tue Sep 29 2015 - 12:59:40 CDT)
- Re: multiple parameterized ligands (Tue Sep 29 2015 - 10:42:58 CDT)
- Re: multiple parameterized ligands (Tue Sep 29 2015 - 10:39:22 CDT)
- multiple parameterized ligands (Mon Sep 28 2015 - 18:57:37 CDT)
- fftk and impropers (Thu Sep 24 2015 - 08:04:42 CDT)
- Re: Plot of distance between two atoms vs frame number (Tue Aug 18 2015 - 15:26:01 CDT)
- Re: paratool (Tue Aug 18 2015 - 13:09:22 CDT)
- paratool (Mon Aug 17 2015 - 14:52:20 CDT)
- namdenergy fulldirect (Fri Oct 04 2013 - 14:02:30 CDT)
- Re: fftk Opt. Charges (Thu Jun 27 2013 - 16:12:27 CDT)
- Re: fftk Opt. Charges (Thu Jun 27 2013 - 14:37:15 CDT)
- Re: fftk Opt. Charges (Wed Jun 19 2013 - 13:16:20 CDT)
- Re: fftk Opt. Charges (Wed Jun 19 2013 - 08:50:47 CDT)
- fftk Opt. Charges (Tue Jun 18 2013 - 16:47:25 CDT)
- Re: molfracture force field (Fri Jun 14 2013 - 12:05:46 CDT)
- Re: autopsf (Fri Jun 14 2013 - 11:23:39 CDT)
- namdenergy non-bonded question (Fri Jun 14 2013 - 11:45:14 CDT)
- Re: molfracture force field (Fri Jun 14 2013 - 11:35:33 CDT)
- Re: autopsf (Tue Jun 04 2013 - 07:11:31 CDT)
- Re: molfracture force field (Tue Jun 04 2013 - 07:12:11 CDT)
- molfracture force field (Wed May 29 2013 - 15:32:57 CDT)
- Re: autopsf (Wed May 29 2013 - 08:56:48 CDT)
- Re: autopsf (Tue May 28 2013 - 16:27:32 CDT)
- autopsf (Tue May 28 2013 - 14:43:16 CDT)
- Re: dynamic cross correlation map (Thu May 16 2013 - 09:29:32 CDT)
- paratool and g09 (Wed May 15 2013 - 16:13:29 CDT)
- dynamic cross correlation map (Tue May 14 2013 - 11:12:26 CDT)
- non-bonded residue-residue namdEnergy question (Mon Feb 11 2013 - 08:51:38 CST)
- Name selections (Wed Sep 19 2012 - 13:23:33 CDT)
- Re: scripting bond labeling (Sat Jun 30 2012 - 09:29:50 CDT)
- Bond angle distribution (Tue Jun 19 2012 - 13:49:33 CDT)
- scripting bond labeling (Wed Jun 13 2012 - 16:44:18 CDT)
- wrapall visualization (Tue Jun 12 2012 - 12:03:39 CDT)
Prof. Y. U. Sasidhar
- Re: plotting x y z data (Thu May 04 2006 - 07:12:57 CDT)
- plotting x y z data (Thu May 04 2006 - 02:14:38 CDT)
Projesh Roy
- SASA calculation with periodic images (Tue Apr 16 2019 - 05:04:49 CDT)
Prskalo, Alen-Pilip
- AW: PhD position in Computational Structural Biology at MPI Muenster (Fri May 13 2011 - 06:26:56 CDT)
- RE: Graphics card for VMD, number of atoms, file format (Tue Nov 09 2010 - 10:43:08 CST)
- Graphics card for VMD, number of atoms, file format (Mon Nov 08 2010 - 11:38:22 CST)
- RE: PC suitable for visualisation of large systems, maximum namuber of atoms in a .pdb file (Wed Jul 21 2010 - 08:42:42 CDT)
- PC suitable for visualisation of large systems, maximum namuber of atoms in a .pdb file (Wed Jul 21 2010 - 02:40:27 CDT)
puroorava annapaneni
- topotools readvarxyz (Sun Sep 18 2011 - 12:22:58 CDT)
- Graphics Representation - Drawing methods (Tue Jul 13 2010 - 17:39:06 CDT)
Puspita Halder
- Re: sscache with bigdcd (Fri Jun 27 2014 - 00:35:33 CDT)
- Re: sscache with bigdcd (Thu Jun 26 2014 - 09:15:40 CDT)
- sscache with bigdcd (Wed Jun 25 2014 - 08:23:56 CDT)
pxq ÅÓÑ©ÇÛ
- abnormal water surface after nvt and npt for POPC membrane (Tue Oct 27 2009 - 19:57:58 CDT)
- can we control the number and distribution of solvate molecular (Wed Aug 12 2009 - 03:02:33 CDT)
Pär Olsson
- Updating atom names/types in xyz-files (Fri Sep 24 2004 - 02:24:29 CDT)
q
- Mutator plugin console (Mon Feb 22 2010 - 07:04:50 CST)
Q=96zer_Duman?=
- Display Problem with VMD in Mac OS (Sat Jan 03 2015 - 10:32:29 CST)
Q=A3ukasz_Pi=EAko=B6=22?=
- H-H dynamic bonds (Mon Apr 23 2012 - 17:21:42 CDT)
Q=C5=CC=C1=CC=CF=D7_=E9=CC=D8=D1?=
- problem with psfgen (Sat Oct 03 2009 - 05:35:24 CDT)
q=CF=20=B3=C2?=
- something about simulation of small molecules in NAMD (Thu May 25 2006 - 05:02:31 CDT)
- Something about loading LAMMPS trace file (Wed Mar 22 2006 - 01:45:12 CST)
- Something about loading LAMMPS trace file (Wed Mar 22 2006 - 01:45:23 CST)
q=E2=BA=E9=C3=F7?=
- How to deal with this sugar residues though psfgen? (Mon Apr 17 2006 - 06:22:22 CDT)
- Re: How to add some small peptides to a water box randomly ? (Sun Apr 02 2006 - 21:00:57 CDT)
- How to add some small peptides to a water box randomly ? (Sun Apr 02 2006 - 09:57:26 CDT)
- Re: TkCon History (Mon Sep 05 2005 - 10:50:55 CDT)
Qasim Pars
- Re: the number of hydrogen bonds per residue (Fri May 04 2018 - 11:09:48 CDT)
- the number of hydrogen bonds per residue (Fri Apr 20 2018 - 08:27:07 CDT)
- Re: helix orientation (Wed Oct 12 2016 - 12:33:25 CDT)
- Re: helix orientation (Wed Oct 12 2016 - 11:19:09 CDT)
- helix orientation (Wed Oct 12 2016 - 07:42:28 CDT)
- secondary structure script (Tue Jun 28 2016 - 19:31:58 CDT)
Qiang Fu
- Re: Adding bonds between many metal atoms (Mon Feb 28 2011 - 03:41:34 CST)
- Adding bonds between many metal atoms (Fri Feb 25 2011 - 09:48:45 CST)
Qiang Liu
- why does VMD quit automatically? (Tue Mar 04 1997 - 18:04:36 CST)
Qiao Baofu
- problem about "mol load psf md.pdf pdb md.pdb" (Wed Oct 25 2006 - 04:31:31 CDT)
Qinghua Liao
- Re: convert psf to top with topotools (Wed Jun 21 2017 - 18:21:22 CDT)
- Re: convert psf to top with topotools (Wed Jun 21 2017 - 16:58:52 CDT)
- Re: convert psf to top with topotools (Wed Jun 21 2017 - 17:45:11 CDT)
- Re: convert psf to top with topotools (Wed Jun 21 2017 - 13:35:12 CDT)
- convert psf to top with topotools (Wed Jun 21 2017 - 12:20:43 CDT)
Qmer_AN?=
- Superimposition problem (Mon Jun 06 2011 - 12:30:04 CDT)
- Save Coordinates for Multiple Loads (Sun May 29 2011 - 09:14:25 CDT)
- Tkcon on at startup (Tue May 17 2011 - 11:00:19 CDT)
- Secondary Structure Disappears after Molecule Move (Mon May 16 2011 - 05:45:21 CDT)
QS=2E_Teletch=E9a=22?=
- Re: Display shuts down on startup (Mon Jun 27 2005 - 07:33:36 CDT)
- Re: Display shuts down on startup (Mon Jun 27 2005 - 06:55:45 CDT)
quantrum75
- Re: Water molecules within a definite radius (Mon Nov 15 2010 - 17:14:39 CST)
- Background gradient in image (Mon Nov 15 2010 - 15:45:43 CST)
- Water molecules within a definite radius (Mon Nov 15 2010 - 15:26:18 CST)
- Re: 3D protein visualization (Mon Nov 08 2010 - 17:31:55 CST)
- 3D protein visualization (Mon Nov 08 2010 - 12:37:50 CST)
qun.ma_at_njit.edu
- Re: mpg image speed (Mon Apr 11 2005 - 14:28:20 CDT)
- Re: mpg image speed (Mon Apr 11 2005 - 13:44:01 CDT)
qwang_at_mail.uh.edu
- Re: question about sscache (Mon Sep 29 2008 - 11:44:35 CDT)
- question about sscache (Sun Sep 28 2008 - 19:33:02 CDT)
- question about sscache (Fri Sep 26 2008 - 14:00:07 CDT)
r xu
- sparse volumetric file format (Wed Jul 26 2017 - 15:53:07 CDT)
R. Charbel MAROUN
- catdcd a vmd extension? (Tue Jul 23 2013 - 12:09:30 CDT)
- catdcd -first (Tue Jul 23 2013 - 09:30:01 CDT)
- Re: Stand-alone VMD ? (Mon Feb 13 2012 - 05:58:52 CST)
- Re: Stand-alone VMD ? (Fri Feb 10 2012 - 09:25:21 CST)
- Stand-alone VMD ? (Fri Feb 10 2012 - 05:26:38 CST)
- Save coor coordinates as pdb (Wed Feb 01 2012 - 12:26:31 CST)
R. Johnson
- Solvent Accessible Surface (Thu Aug 12 2010 - 13:26:48 CDT)
R. M. Fesinmeyer
- Re: SMP, coord transform, cpu usage (Sat Oct 06 2001 - 22:57:14 CDT)
R.Sathyapriya
- Re: VMD Error! (fwd) (Thu Jun 12 2003 - 00:33:35 CDT)
- Re: VMD Error! (fwd) (Wed Jun 11 2003 - 10:10:31 CDT)
Raag Saluja
- Question about code (Sun Dec 04 2022 - 13:43:40 CST)
- Re: selecting residues in a heterodimer (Mon Oct 29 2018 - 03:48:21 CDT)
- Re: selecting residues in a heterodimer (Mon Oct 29 2018 - 02:51:27 CDT)
- selecting residues in a heterodimer (Mon Oct 29 2018 - 01:42:50 CDT)
- Connect particular residues with a line (Sat Sep 01 2018 - 12:39:02 CDT)
- unable to install VMD on OSX (Wed Apr 04 2018 - 12:40:18 CDT)
- Re: unable to view .pdb file (Tue Sep 08 2015 - 10:02:17 CDT)
- unable to view .pdb file (Tue Sep 08 2015 - 08:16:51 CDT)
Rabab Toubar
- Re: installing and running VMD on Windows 64-bit (Thu Nov 10 2011 - 15:08:05 CST)
- Couldn't locate ppmtompeg (Thu Nov 10 2011 - 14:57:58 CST)
- installing and running VMD on Windows 64-bit (Thu Nov 10 2011 - 09:17:54 CST)
- Re: Secondary structure elements in VMD (Sat Nov 05 2011 - 00:38:29 CDT)
- Secondary structure elements in VMD (Fri Nov 04 2011 - 16:03:26 CDT)
- RMSD vs RMSF (Thu Oct 06 2011 - 14:22:09 CDT)
- Selecting basic residues in g(r) GUI Plugin (Tue Jul 06 2010 - 10:47:06 CDT)
- Add/Remove Bonds (Thu Jun 24 2010 - 12:27:20 CDT)
- saving a GMX trajectory using tcl script (Wed Jun 16 2010 - 07:21:00 CDT)
- Re: topotools (Tue Jun 15 2010 - 11:57:12 CDT)
- topotools (Tue Jun 15 2010 - 11:22:55 CDT)
- Re: top2psf.tcl (Tue Jun 15 2010 - 10:14:14 CDT)
- Re: top2psf.tcl (Tue Jun 15 2010 - 08:49:31 CDT)
- Re: top2psf.tcl (Tue Jun 15 2010 - 08:21:19 CDT)
- top2psf.tcl (Sun Jun 13 2010 - 05:59:28 CDT)
- Re: Autoionize plugin (Wed Nov 19 2008 - 10:07:33 CST)
- Autoionize plugin (Tue Nov 18 2008 - 19:40:24 CST)
- Alias histidine residue (Fri Sep 12 2008 - 23:31:47 CDT)
- psfgen - loss of disulfide bonds (Thu Sep 11 2008 - 21:35:53 CDT)
- Re: solvating a water molecule (Tue Sep 02 2008 - 22:35:50 CDT)
- solvating a water molecule (Tue Sep 02 2008 - 13:54:47 CDT)
- Re: psf generation of circular proteins (Wed Jun 11 2008 - 13:30:05 CDT)
- psf generation of circular proteins (Sun Jun 08 2008 - 09:36:00 CDT)
Rabeta Yeasmin
- Re: How to fix the position of the lipid bilayer in the trajectories (Thu Mar 14 2019 - 12:33:01 CDT)
- Re: How to fix the position of the lipid bilayer in the trajectories (Thu Mar 14 2019 - 12:04:50 CDT)
- How to fix the position of the lipid bilayer in the trajectories (Wed Mar 13 2019 - 14:38:00 CDT)
- Re: reverting coarse-grained system to all-atom system (Mon Apr 16 2018 - 10:43:25 CDT)
- reverting coarse-grained system to all-atom system (Sun Apr 15 2018 - 18:57:10 CDT)
- Re: Diffusion Coefficient calculation (Wed Apr 11 2018 - 10:52:54 CDT)
- Re: ATOM VELOCITY HIGH ERROR in Coarse grained Simulation (Fri Mar 30 2018 - 10:19:32 CDT)
- Re: setting up POPS or POPG in VMD (Tue Feb 13 2018 - 13:05:15 CST)
- Re: setting up POPS or POPG in VMD (Tue Feb 13 2018 - 13:44:48 CST)
- Re: setting up POPS or POPG in VMD (Tue Feb 13 2018 - 13:41:25 CST)
- Re: setting up POPS or POPG in VMD (Tue Feb 13 2018 - 13:36:35 CST)
- setting up POPS or POPG in VMD (Mon Feb 12 2018 - 16:32:33 CST)
- selecting residues within 5-10A of another molecule (Wed Jan 10 2018 - 15:22:26 CST)
- vector passing through a point and parallel to z axis, TCL code (Thu Jan 04 2018 - 18:57:39 CST)
- vector passing through a point and parallel to z axis, TCL code (Wed Dec 20 2017 - 17:12:38 CST)
- Re: distance between two groups of atoms (Mon Dec 18 2017 - 10:02:23 CST)
- distance between two groups of atoms (Fri Dec 15 2017 - 14:39:06 CST)
- How to get 3D figure of solvent accessible surface area from APBS output (Fri Aug 11 2017 - 17:19:24 CDT)
- Re: Finding atoms in protein-lipid system having electrostatic interaction (Wed Aug 09 2017 - 15:22:53 CDT)
- Re: Finding atoms in protein-lipid system having electrostatic interaction (Wed Aug 09 2017 - 15:29:27 CDT)
- Finding atoms in protein-lipid system having electrostatic interaction (Wed Aug 09 2017 - 13:33:44 CDT)
- Software for molecular electrostatic calculations (Wed Aug 09 2017 - 13:07:34 CDT)
RABIUL ISLAM
- Re: Re: Error at Dihedral Optimization using fftk (Sun Sep 09 2018 - 13:19:36 CDT)
- Re: Re: Error at Dihedral Optimization using fftk (Fri Sep 07 2018 - 14:08:03 CDT)
- Re: Error at Dihedral Optimization using fftk (Fri Sep 07 2018 - 12:42:29 CDT)
- Error at Dihedral Optimization using fftk (Fri Sep 07 2018 - 04:30:51 CDT)
- Re: Re: Tachyon with DoF ignores FocalLength (Sat Aug 04 2018 - 07:23:56 CDT)
- Re: Re: Tachyon with DoF ignores FocalLength (Fri Aug 03 2018 - 09:50:37 CDT)
Rachel
- Re: question about measure contacts (Thu Aug 02 2007 - 12:31:33 CDT)
- question about measure contacts (Tue Jul 31 2007 - 08:42:57 CDT)
- how to run VMD on IBM machines (Wed Jul 25 2007 - 11:11:34 CDT)
- how to wrap trajectory into truncated octahedral box (Wed Jul 25 2007 - 10:51:54 CDT)
- how to select atoms according to b-factor (Mon Jul 23 2007 - 07:37:05 CDT)
- question about ligand volmap (Tue Jun 26 2007 - 10:56:34 CDT)
- how to select the problematic residues(atoms) (Thu Oct 26 2006 - 05:53:14 CDT)
Rachel Ruskin
- NAMD energy plugin question (Mon Apr 05 2010 - 12:02:44 CDT)
- Mirror reflection (Sat Feb 13 2010 - 01:24:58 CST)
Radak, Brian K
- Re: convert psf to top with topotools (Wed Jun 21 2017 - 17:03:23 CDT)
- RE: Minimum distance between atoms within representation (Fri May 05 2017 - 15:15:55 CDT)
- RE: substitute one residue without rebuilding the structure? (Fri May 05 2017 - 13:26:23 CDT)
- RE: substitute one residue without rebuilding the structure? (Fri May 05 2017 - 08:54:51 CDT)
- RE: Amber visualization problem (Tue Jan 31 2017 - 14:05:37 CST)
radak004_at_umn.edu
- Re: Conversion of GAMESS Quantum MD trajectory file (Mon Apr 26 2010 - 16:38:36 CDT)
- Running Python within VMD (Tue Mar 02 2010 - 13:07:51 CST)
Rafael Bernardi
- Re: Deselecting the atoms (Fri Jan 29 2021 - 11:21:07 CST)
- Re: Question about NAMD configuration files (Sat Jan 16 2021 - 14:29:33 CST)
- Re: Running equilibration MD simulation (Tue Jan 05 2021 - 22:23:27 CST)
- Re: Qurry Regarding Vizualization of two data sets (Mon Dec 21 2020 - 12:16:45 CST)
- Re: Problems with QwickMD plugin (Tue Dec 08 2020 - 23:05:56 CST)
- Re: [EXTERNAL]Re: h-bond plugin with QMMM (Thu Dec 03 2020 - 10:44:37 CST)
- Re: h-bond plugin with QMMM (Wed Dec 02 2020 - 12:48:28 CST)
RafaÅ‚ GÄ…sior
- How can i connect molecules? (Wed Aug 20 2014 - 10:26:19 CDT)
ragesh c
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- How to create strong bond between atoms in VMD (Wed Sep 19 2012 - 04:22:41 CDT)
- How to create strong bond between atoms in VMD (Wed Sep 19 2012 - 04:24:38 CDT)
- (no subject) (Tue Sep 18 2012 - 12:22:58 CDT)
- (no subject) (Wed Aug 22 2012 - 05:18:37 CDT)
- how to generate .pdb file of graphene in VMD(nanotube builder) (Wed Aug 01 2012 - 04:45:23 CDT)
Raghunadha Reddy Burri
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Rahul Mahajan
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Rahul Nikhar
- ffTK can't use empty string as operand of "*" vmd194a53win64-SetupV7.exe (Tue Apr 05 2022 - 18:46:47 CDT)
Rahul Sampath
- VTK with VMD (Thu Feb 09 2006 - 21:15:27 CST)
RAHUL SURESH
- NT in bilayer (Sun Aug 23 2020 - 15:19:33 CDT)
- Re: Nanotube in lipid bilayer (Tue Aug 18 2020 - 06:05:04 CDT)
- Nanotube in lipid bilayer (Thu Aug 13 2020 - 06:08:42 CDT)
- Removing water molecules from nanotubes (Mon Feb 03 2020 - 04:56:45 CST)
- Moving a molecule, regarding (Sat Feb 01 2020 - 09:28:53 CST)
- Re: could not read file no atoms found error (Thu Jan 23 2020 - 05:17:37 CST)
- Membrane tutorial regarding (Wed Mar 14 2018 - 10:54:23 CDT)
- Re: FFTK, regarding (Sat Dec 16 2017 - 00:12:31 CST)
- FFTK, regarding (Fri Dec 15 2017 - 05:45:54 CST)
- Re: Improper angle-ffTK, regarding (Thu Oct 05 2017 - 01:23:19 CDT)
- Improper angle-ffTK, regarding (Tue Oct 03 2017 - 05:44:49 CDT)
- ffTK, regarding (Sun Oct 01 2017 - 02:22:19 CDT)
- VMD installation (Mon Sep 18 2017 - 05:07:39 CDT)
- FfTK (Thu Aug 31 2017 - 10:35:21 CDT)
- ffTK (Mon Aug 14 2017 - 03:14:35 CDT)
- Re: ffTK (Sat Aug 12 2017 - 10:57:02 CDT)
- ffTK (Fri Aug 11 2017 - 02:04:38 CDT)
- Fwd: ffTk, regarding (Mon Jul 31 2017 - 05:38:55 CDT)
- ffTk, regarding (Mon Jul 31 2017 - 05:13:44 CDT)
- Re: FFTk, dihedral optimization (Sat Jul 29 2017 - 10:04:57 CDT)
- ffTK, regarding (Sat Jul 29 2017 - 03:15:46 CDT)
- FFTk, dihedral optimization (Sat Jul 29 2017 - 02:45:46 CDT)
Raik Grunberg
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- dementi: VMD freezes KDE under Linux Redhat = nVidia problem (Mon Nov 05 2001 - 15:04:19 CST)
- Re: more animating trajectories (Mon Nov 05 2001 - 14:46:15 CST)
- VMD freezes KDE under Linux Redhat 7.1 (Wed Oct 24 2001 - 07:22:06 CDT)
Raik Gruenberg
- update sec. structure in animation, sscache (Mon Dec 11 2000 - 10:40:13 CST)
Rainer Fink
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rainy908
- (no subject) (Wed Sep 12 2012 - 11:55:53 CDT)
- Translocate molecule within a box (Wed Nov 23 2011 - 19:51:03 CST)
rainy908_at_yahoo.com
- Hello (Fri Sep 14 2012 - 04:17:41 CDT)
- Hi (Fri Sep 14 2012 - 02:48:50 CDT)
- Re: Hi (Fri Sep 14 2012 - 01:53:34 CDT)
- Re: (Thu Sep 13 2012 - 07:20:27 CDT)
- (no subject) (Wed Sep 12 2012 - 23:43:19 CDT)
- Re: Hello (Wed Sep 12 2012 - 15:49:24 CDT)
- (no subject) (Wed Sep 12 2012 - 14:05:37 CDT)
- Re: Hi (Wed Sep 12 2012 - 05:13:32 CDT)
- (no subject) (Tue Sep 11 2012 - 23:53:20 CDT)
- (no subject) (Thu Apr 12 2012 - 20:54:30 CDT)
- (no subject) (Fri Mar 23 2012 - 07:55:48 CDT)
- (no subject) (Thu Mar 22 2012 - 17:42:38 CDT)
- (no subject) (Thu Mar 22 2012 - 15:06:33 CDT)
- Re: Drawing cylinder in VMD (Wed Dec 02 2009 - 20:22:50 CST)
- Drawing cylinder in VMD (Wed Dec 02 2009 - 17:29:24 CST)
- Re: Drawing cylinder in VMD (Wed Dec 02 2009 - 17:36:00 CST)
Raisa Carmen Andeme Ela
- Re: Re: ethanol solvation box (Thu Apr 15 2021 - 13:37:45 CDT)
- Re: Re: ethanol solvation box (Wed Apr 14 2021 - 19:31:56 CDT)
- Re: Solvating with Pre-equilibration ethanol box (Tue Mar 09 2021 - 15:43:10 CST)
Raj Gupta
- How to determine distribution of the orientation of a molecule (Thu May 05 2005 - 07:31:56 CDT)
- Projection on plane (Fri Aug 02 2002 - 10:41:38 CDT)
Rajahmundry Ganesh Kumar ch20d408
- Re: Volume considered in calculation of g(r) (Wed Nov 13 2024 - 23:38:36 CST)
- Volume considered in calculation of g(r) (Mon Nov 04 2024 - 06:37:36 CST)
rajan kumar
- Re: XTC to DCD conversion (Sat Apr 18 2015 - 03:33:16 CDT)
- XTC to DCD conversion (Thu Apr 16 2015 - 13:41:24 CDT)
- HOW MAKE CROSS CO-RELATION MATRIX (Thu Apr 03 2014 - 04:06:55 CDT)
Rajan Vatassery
- Re: autoionize error in vmd (Fri Jul 26 2013 - 12:55:36 CDT)
- Re: Autoionize error in VMD (Fri Jan 11 2013 - 14:44:39 CST)
- Re: Autoionize error in VMD (Fri Jan 11 2013 - 14:05:47 CST)
- RE: Determining the Size of my Molecule. . (Sat Sep 15 2012 - 16:43:08 CDT)
- Re: PSFGEN and Reading Bonds from PDB Files (Mon Feb 06 2012 - 11:02:14 CST)
- PSFGEN and Reading Bonds from PDB Files (Sun Feb 05 2012 - 14:13:43 CST)
- Re: Solvating with Nonaqueous Solvent (Thu Dec 15 2011 - 16:58:43 CST)
- Re: Solvating with Nonaqueous Solvent (Thu Dec 15 2011 - 16:30:47 CST)
- Solvating with Nonaqueous Solvent (Tue Dec 13 2011 - 12:46:50 CST)
Rajat Chakraborty
- Losing atoms while solvating (Mon Oct 10 2022 - 13:06:00 CDT)
Rajesh
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Rajitha Tatikonda
- dihedral energy using namdenergy -regd (Wed Nov 07 2012 - 06:52:20 CST)
Rajorshi Chattopadhyay
- Create bonds in VMD (Tue Apr 11 2023 - 15:21:54 CDT)
RAKESH
- ATOM VELOCITY HIGH ERROR in Coarse grained Simulation (Fri Mar 30 2018 - 08:39:40 CDT)
Rakesh K
- Packing periodic simulation using Pbc wrap error (Thu Jan 14 2021 - 06:41:38 CST)
- Packing periodic simulation using Pbc wrap error (Tue Nov 24 2020 - 12:22:26 CST)
Ralph Jimenez
- Re: installing MSMS on OS X 10.4.9 (Intel) (Thu May 10 2007 - 20:38:00 CDT)
- Re: installing MSMS on OS X 10.4.9 (Intel) (Tue May 08 2007 - 22:38:01 CDT)
- Re: installing MSMS on OS X 10.4.9 (Intel) (Tue May 08 2007 - 14:15:54 CDT)
- Re: installing MSMS on OS X 10.4.9 (Intel) (Tue May 08 2007 - 12:12:33 CDT)
- installing MSMS on OS X 10.4.9 (Intel) (Mon May 07 2007 - 21:37:38 CDT)
- Re: GAMESS plugin bus error (Wed Mar 28 2007 - 15:11:17 CDT)
- Re: Feature request: output to Blender 3D modelling software (Tue Jul 11 2006 - 14:19:30 CDT)
- Feature request: output to Blender 3D modelling software (Tue Jul 11 2006 - 10:32:31 CDT)
- renderman output? (Wed May 10 2006 - 15:50:47 CDT)
Raluca Mihaela ANDREI
- Re: Synchronization of statements in tcl script (Tue Mar 31 2009 - 02:57:56 CDT)
- Synchronization of statements in tcl script (Fri Mar 27 2009 - 12:44:32 CDT)
- building VMD on LINUX (Tue Mar 17 2009 - 06:51:51 CDT)
- Re: obj export (Wed Mar 11 2009 - 10:55:03 CDT)
- Re: obj export (Wed Mar 11 2009 - 10:04:07 CDT)
- Re: obj export (Tue Mar 10 2009 - 10:02:01 CDT)
- obj export (Tue Mar 10 2009 - 03:27:40 CDT)
- isosurface question (Tue Oct 28 2008 - 12:48:14 CDT)
- Re: electrostatic potential (Fri Sep 26 2008 - 09:38:52 CDT)
- Re: electrostatic potential (Wed Sep 24 2008 - 10:46:54 CDT)
- Re: electrostatic potential (Thu Sep 18 2008 - 07:33:00 CDT)
- electrostatic potential (Tue Sep 16 2008 - 03:28:02 CDT)
Ram Krishna Adhikari
- Re: faced error in operating vmd (Mon Apr 06 2020 - 10:36:17 CDT)
- faced error in operating vmd (Fri Mar 27 2020 - 11:45:42 CDT)
ram prasad via LinkedIn
- Invitation to connect on LinkedIn (Sun Mar 27 2011 - 12:38:16 CDT)
rama david
- Vmd problem in display of surface in Md movie ( Gromacs trajectory) (Tue Aug 05 2014 - 10:05:58 CDT)
- Change in color of residue (Fri Jun 28 2013 - 09:59:29 CDT)
Raman Parkesh
- RE: Re:vmd_start_problem_in_mac OSX (Thu Sep 30 2010 - 14:38:38 CDT)
- Re:vmd_start_problem_in_mac OSX (Tue Sep 14 2010 - 12:27:26 CDT)
Raman Preet Singh
- Re: VMD 2.0 Segmentation Fault on Ubuntu 24.04 and Containers (Wed Feb 26 2025 - 01:42:36 CST)
- Re: VMD 2.0 Segmentation Fault on Ubuntu 24.04 and Containers (Wed Feb 26 2025 - 01:27:33 CST)
- Re: VMD 2.0 Segmentation Fault on Ubuntu 24.04 and Containers (Tue Feb 25 2025 - 12:03:27 CST)
- VMD 2.0 Issue (Thu Feb 20 2025 - 00:50:29 CST)
- Using tprplugin (Thu Dec 19 2024 - 11:44:46 CST)
- Re: Visualizing elastic network proteins (Tue Sep 17 2024 - 01:49:40 CDT)
- Re: Select atoms on surface of sphere (Mon Aug 19 2024 - 03:38:33 CDT)
- Select atoms on surface of sphere (Fri Aug 16 2024 - 09:05:20 CDT)
- Re: Opening file after i downloaded vmd (Thu Jul 18 2024 - 09:25:10 CDT)
- Update structure on-the-fly (Mon Oct 16 2023 - 02:18:14 CDT)
- PDB with CONECT records (Tue Mar 14 2023 - 08:18:34 CDT)
- Re: Re: vmd-l@ks.uiuc.edu (Sun Nov 27 2022 - 08:01:01 CST)
- Re: Overriding default bond heuristics (Tue Oct 04 2022 - 01:48:28 CDT)
- Overriding default bond heuristics (Mon Oct 03 2022 - 12:50:36 CDT)
- Re: Label all atoms using script (Sat Oct 01 2022 - 11:40:20 CDT)
- Label all atoms using script (Sat Oct 01 2022 - 08:55:36 CDT)
- Visualisation of CG bonds (Sun Jun 26 2022 - 13:07:45 CDT)
- Re: How to reduce the size of a .dcd file? (Thu Jun 16 2022 - 08:23:34 CDT)
- Distance from surface (Mon Dec 06 2021 - 12:07:40 CST)
- Re: Multiseq / stamp alignment on Windows 1.9.4alpha (Thu Dec 02 2021 - 07:27:27 CST)
- Re: Re: CNT structure formation (Mon Nov 29 2021 - 03:11:57 CST)
- Re: support for gromacs topology files (Thu Nov 25 2021 - 06:23:34 CST)
- Re: protein and lipid jumping (Sat Oct 23 2021 - 08:36:59 CDT)
- Phosphate ions (Sat Aug 28 2021 - 08:43:43 CDT)
- Re: Stripping water from psf (Fri Aug 13 2021 - 08:41:18 CDT)
- Stripping water from psf (Thu Aug 12 2021 - 12:44:46 CDT)
- Re: Does CHARMM-GUI Drude-Prepper input generator work for MD simulation of carbon nanotubes? (Tue Jul 27 2021 - 02:03:23 CDT)
- Building micelles (Sun Jun 13 2021 - 13:29:34 CDT)
- Re: loading multiple different topologies into the same "molecule" (Thu Jun 10 2021 - 05:02:58 CDT)
- Re: Topology for carbon nanotube compatible to Amber (Wed Feb 10 2021 - 06:34:27 CST)
- Re: novel residue creation and parameterization (Wed Jan 27 2021 - 11:28:56 CST)
- Re: Coarse-Graining Protein with Ion Ligands (Thu Jan 21 2021 - 00:48:57 CST)
- Re: SBCG of molecules (Fri Dec 18 2020 - 11:50:00 CST)
- Re: Re: PDB Format (Fri Dec 18 2020 - 00:45:47 CST)
- SBCG of molecules (Sat Dec 12 2020 - 12:29:43 CST)
- Re: Glycoprotein simulation answer (Sat Nov 21 2020 - 01:09:10 CST)
- Trajectory analysis without loading all frames (Thu Nov 19 2020 - 08:35:23 CST)
- Re: Silver nanoparticle with coating of protein. (Tue Oct 06 2020 - 12:57:28 CDT)
- Re: compile vmd for windows 10 (Tue Sep 22 2020 - 07:33:20 CDT)
- Re: Regarding arsorite files (Tue Sep 15 2020 - 08:15:13 CDT)
- Distance between multiple residues as heat plot (Fri Sep 11 2020 - 06:21:21 CDT)
- RE: hide bonds (Thu Sep 10 2020 - 05:02:28 CDT)
- RE: Non-standard solvents in Solvate (Wed Aug 12 2020 - 12:44:32 CDT)
- RE: Merge Structure changes coordinates to 0 (Wed Aug 12 2020 - 12:47:51 CDT)
- Merge Structure changes coordinates to 0 (Mon Aug 03 2020 - 01:58:25 CDT)
- Non-standard solvents in Solvate (Thu Jul 30 2020 - 13:29:52 CDT)
Ramasamy, Ellankavi
- vmd_pdb file format (Fri Sep 17 2010 - 11:43:18 CDT)
- vmd - rendering (Wed Aug 25 2010 - 09:32:14 CDT)
- povray rendering help (Fri Jul 30 2010 - 07:45:31 CDT)
Ramesh K. Sistla
- vmd1.8.2 on laptop (Thu May 27 2004 - 07:34:39 CDT)
- Bondlength information! (Wed Aug 06 2003 - 02:54:34 CDT)
- Re: .XYZ File format (Mon Jun 23 2003 - 06:10:30 CDT)
- Re: VMD Error! (Tue Jun 10 2003 - 02:33:56 CDT)
- VMD Error! (Tue Jun 10 2003 - 02:02:02 CDT)
Ramesh Sistla
- polar surface area with VMD! (Mon Jul 12 2004 - 13:22:48 CDT)
Rameswar Bhattacharjee
- Re: Visualizing Molecule-Molecule RDFs instead of atom-atom (Tue Jun 16 2020 - 16:15:39 CDT)
- Visualizing Molecule-Molecule RDFs instead of atom-atom (Tue Jun 16 2020 - 15:31:58 CDT)
- Re: Radial distribution function calculation (Thu Jun 11 2020 - 00:35:06 CDT)
- Radial distribution function calculation (Wed Jun 10 2020 - 23:01:30 CDT)
Ramie
- How to read the output of ParseFEP (Fri Jun 14 2013 - 07:58:04 CDT)
Ramin Ekhteiari
- IR Spectral Density Calculator Plugin (Tue Dec 23 2014 - 02:31:01 CST)
- Accelerated MD (aMD) (Sat Jul 26 2014 - 06:06:25 CDT)
- membrane lipid involvement of cholesterol (Sat Jul 26 2014 - 03:14:38 CDT)
- NAMD energy plugin - dielectric constant (Mon Jul 07 2014 - 14:59:42 CDT)
- Re: namd-l: Re: NAMD energy calculation (Tue Jul 01 2014 - 12:07:47 CDT)
- NAMD energy calculation (Wed Jun 25 2014 - 11:45:33 CDT)
- Re: namd-l: NAMD energy plugin (Wed Jun 04 2014 - 13:55:23 CDT)
- NAMD energy plugin (Wed Jun 04 2014 - 12:45:36 CDT)
- NAMD-GPU (Wed May 14 2014 - 07:19:10 CDT)
- Re: number of water molecules within 5 angstroms of the ligand (Mon May 05 2014 - 13:05:21 CDT)
- Re: number of water molecules within 5 angstroms of the ligand (Mon May 05 2014 - 13:03:34 CDT)
- number of water molecules within 5 angstroms of the ligand (Mon May 05 2014 - 03:47:17 CDT)
- writing out a new dcd file (Tue Apr 29 2014 - 06:07:48 CDT)
- SHAKE or RATTLE algorithm (Fri Apr 04 2014 - 15:08:04 CDT)
- generatei psf file for a dimer protein (Tue Apr 01 2014 - 08:24:33 CDT)
- removing water from dcd file (Tue Mar 18 2014 - 08:01:41 CDT)
- centering problem in salvation box (Fri Jan 10 2014 - 12:01:22 CST)
- changing chain id and pdb generating (Thu Dec 12 2013 - 03:06:36 CST)
- generated pdb file via vmd (Wed Dec 11 2013 - 04:26:39 CST)
- pre residues and ligands interaction (Thu Nov 21 2013 - 06:48:15 CST)
- MM-PBSA calculation (Wed Nov 06 2013 - 02:56:43 CST)
- genetaring psf file for HEME ( hemoglobin) (Tue Nov 05 2013 - 03:15:07 CST)
- generate parameter and topology file (Mon Nov 04 2013 - 13:51:29 CST)
- Cluster plug (Tue Oct 22 2013 - 15:39:48 CDT)
- loading trajectory (Tue Oct 22 2013 - 04:24:26 CDT)
- embed a protein that includes a ligand into the membrane (Thu Oct 10 2013 - 12:38:11 CDT)
- viewing bond between two hydrogens on a water molecule (Mon Oct 07 2013 - 06:23:19 CDT)
- Re: Box boundaries displaying (Tue Jul 02 2013 - 02:14:36 CDT)
- Re: Change in color of residue (Fri Jun 28 2013 - 13:09:32 CDT)
- Re: multiseq (Fri Jun 21 2013 - 08:24:23 CDT)
- multiseq (Fri Jun 21 2013 - 03:13:06 CDT)
- membrane protein embedding (Wed Mar 13 2013 - 14:32:57 CDT)
- Re: problem with g(r) (Sun Feb 10 2013 - 03:51:47 CST)
- RDF (Fri Nov 30 2012 - 12:34:13 CST)
- Generating PSF for 1JNO.pdb chain A (Tue Jul 24 2012 - 06:57:42 CDT)
- dump to vmd (Sun Jun 24 2012 - 04:19:57 CDT)
ramin_ekh_at_REMOVE_yahoo.com
- Space between protein and simulaton cell boundaries (Sun May 11 2014 - 09:30:33 CDT)
Ramon Crehuet
- Slower FPS in dual monitor systems? (Thu Jan 27 2011 - 07:24:03 CST)
- Re: installation (Fri Feb 13 2009 - 05:08:51 CST)
- Re: VMD window transparent in Opensuse 11.1 ATI system (Tue Jan 27 2009 - 11:35:15 CST)
- VMD window transparent in Opensuse 11.1 ATI system (Tue Jan 20 2009 - 06:09:27 CST)
- tcl syntax problem (Wed Jul 27 2005 - 11:18:53 CDT)
- python 2.3 (Tue Apr 20 2004 - 11:39:32 CDT)
Ramon Garduno-Juarez
- Re: Problems with APBS calculations (Fri May 20 2011 - 12:18:48 CDT)
- Problems with APBS calculations (Thu May 19 2011 - 20:51:53 CDT)
Ramon GuixÃ
- Re: Regarding membrane thickness (Tue Apr 11 2017 - 03:59:52 CDT)
- Re: vicinity analysis (Fri Mar 31 2017 - 09:06:56 CDT)
- Re: vicinity analysis (Fri Mar 31 2017 - 05:05:50 CDT)
- Re: vicinity analysis (Fri Mar 31 2017 - 03:14:11 CDT)
- Re: video streaming (Thu Mar 30 2017 - 17:41:52 CDT)
- Re: video streaming (Thu Mar 30 2017 - 17:36:14 CDT)
- Re: video streaming (Thu Mar 30 2017 - 06:25:44 CDT)
- Re: video streaming (Thu Mar 30 2017 - 05:23:31 CDT)
- video streaming (Wed Mar 29 2017 - 05:02:37 CDT)
Ramon Mendoza Uriarte
- Re: Why do the coordinates of my atoms change when writing to a pdb file? (Sun Mar 21 2021 - 15:58:22 CDT)
- Re: Why do the coordinates of my atoms change when writing to a pdb file? (Sun Mar 21 2021 - 00:57:03 CDT)
- Why do the coordinates of my atoms change when writing to a pdb file? (Sat Mar 20 2021 - 23:15:56 CDT)
Ramon Rocha
- VMD on laptop with ATI Radeon 3650 (Mon Jul 20 2009 - 16:00:40 CDT)
rams rams
- connectivity problem (Wed Jan 09 2008 - 08:57:48 CST)
Ramya Gamini
- Re: namd-l: wrapping problem (Wed Dec 01 2010 - 13:45:25 CST)
- Re: namd-l: wrapping problem (Wed Dec 01 2010 - 11:37:26 CST)
- Re: RDF calculation (Mon Oct 25 2010 - 11:44:58 CDT)
- Re: Align membrane (Fri Oct 16 2009 - 15:02:57 CDT)
- Re: segid WT100 is longer than 4 characters allowed by psf format (Wed Sep 16 2009 - 08:01:57 CDT)
- Re: regarding positioning of protein molecule (Thu Jun 25 2009 - 01:48:07 CDT)
- Re: adding lipid bilayers (Fri Mar 06 2009 - 02:06:17 CST)
- Re: Hydrophobicity Scale (Thu Mar 05 2009 - 20:36:34 CST)
- Re: Hydrophobicity Scale (Thu Mar 05 2009 - 20:20:42 CST)
- Re: changing bond color (Tue Jan 06 2009 - 12:27:22 CST)
- Re: algorithm for finding center of mass of the side chains in the protein (Fri Aug 29 2008 - 14:28:15 CDT)
Ramya Narasimhan
- phi-psi plot (Mon Mar 28 2011 - 05:29:01 CDT)
- to block the information appearing during the run (Thu Mar 17 2011 - 06:14:24 CDT)
- Re: error in the conversion of dcd to pdb files (Sun Jan 02 2011 - 23:50:43 CST)
- error in the conversion of dcd to pdb files (Fri Dec 31 2010 - 04:11:06 CST)
- Re: problem regarding the MC trajectory (Sun Dec 19 2010 - 23:40:19 CST)
- problem regarding the MC trajectory (Wed Dec 15 2010 - 00:41:46 CST)
- Re: Problem finding center of mass for all the frames (Wed Dec 10 2008 - 04:45:35 CST)
- Re: Problem finding center of mass for all the frames (Wed Dec 10 2008 - 04:26:16 CST)
- Problem finding center of mass for all the frames (Wed Dec 10 2008 - 01:31:38 CST)
- Re: To find the residues on each side of the protein (Wed Dec 03 2008 - 22:36:40 CST)
- To find the residues on each side of the protein (Wed Dec 03 2008 - 02:42:33 CST)
- ramaplot (Fri Mar 14 2008 - 00:46:30 CDT)
Ran Friedman
- Re: PC-gamess (Tue Feb 20 2007 - 11:24:32 CST)
- Re: PC-gamess (Tue Feb 20 2007 - 08:33:27 CST)
- Re: Delete frames in a script (Wed Jan 31 2007 - 03:33:36 CST)
- Re: Delete frames in a script (Tue Jan 30 2007 - 10:20:35 CST)
- Delete frames in a script (Tue Jan 30 2007 - 06:12:14 CST)
- Re: Installing VMD 1.8.5 pon ubuntu linux (Tue Dec 05 2006 - 09:32:07 CST)
- [Fwd: Re: Installing VMD 1.8.5 pon ubuntu linux] (Mon Dec 04 2006 - 12:58:06 CST)
- Re: Installing VMD 1.8.5 pon ubuntu linux (Mon Dec 04 2006 - 03:24:43 CST)
- Installing VMD 1.8.5 pon ubuntu linux (Fri Dec 01 2006 - 07:04:02 CST)
- IED (Thu Oct 12 2006 - 08:23:42 CDT)
- Re: cavity/pocket representation (Thu May 04 2006 - 03:17:24 CDT)
- Re: Protein volume and cavityes (Wed Dec 07 2005 - 11:44:25 CST)
- Re: CUBIC box of system (Thu Jun 03 2004 - 14:56:23 CDT)
- Re: VDW radii in input files (Wed Oct 08 2003 - 03:13:43 CDT)
- VDW radii in input files (Tue Oct 07 2003 - 10:47:50 CDT)
- VDW radii (Thu Oct 03 2002 - 09:33:30 CDT)
- Q: Compiling VMD on IRIX 6.5 (Mon Jul 01 2002 - 09:07:30 CDT)
Ranabir Majumder
- Re: Fwd: Problem with QwikMD analysis (Wed Mar 03 2021 - 07:14:13 CST)
- Fwd: Problem with QwikMD analysis (Mon Mar 01 2021 - 13:29:03 CST)
Randall Hall
- isosurface question (Mon Jun 28 2004 - 10:14:20 CDT)
- animating an iso-surface (Wed May 26 2004 - 13:18:03 CDT)
- animation question (Thu Mar 27 2003 - 12:37:35 CST)
Randell Lund
- April promo on w4tches (Mon Mar 31 2008 - 22:03:54 CDT)
Rangeen Othman
- Re: Problem with merging structures!( psfgen) Warning: failed to set coordinate for atom AU0 AU:1 A) (Thu Nov 27 2014 - 18:17:54 CST)
- Re: Problem with merging structures!( psfgen) Warning: failed to set coordinate for atom AU0 AU:1 A) (Thu Nov 27 2014 - 06:29:08 CST)
- Re: Problem with merging structures!( psfgen) Warning: failed to set coordinate for atom AU0 AU:1 A) (Wed Nov 26 2014 - 15:32:49 CST)
- Re: Problem with merging structures!( psfgen) Warning: failed to set coordinate for atom AU0 AU:1 A) (Wed Nov 26 2014 - 12:15:03 CST)
- Fwd: Problem with merging structures!( psfgen) Warning: failed to set coordinate for atom AU0 AU:1 A) (Wed Nov 26 2014 - 11:09:20 CST)
- Problem with merging structures!( psfgen) Warning: failed to set coordinate for atom AU0 AU:1 A) (Wed Nov 26 2014 - 09:36:57 CST)
- Problem with merging structures!( psfgen) Warning: failed to set coordinate for atom AU0 AU:1 A) (Wed Nov 26 2014 - 09:20:10 CST)
- (no subject) (Fri Oct 24 2014 - 06:39:03 CDT)
- calculate structure of protein (Fri Oct 03 2014 - 06:45:21 CDT)
- Problem with RBCG tutorial! (Wed Aug 06 2014 - 06:30:20 CDT)
- Problem with RBCG tutorial! (Wed Aug 06 2014 - 05:21:51 CDT)
Ranyere Deyler
- Re: MSD calculation from VMD RMSD plugin. (Wed Mar 16 2011 - 14:33:58 CDT)
- Re: MSD calculation from VMD RMSD plugin. (Wed Mar 16 2011 - 14:12:45 CDT)
- MSD calculation from VMD RMSD plugin. (Wed Mar 16 2011 - 09:24:54 CDT)
- Can paratools really parametrize a structure? Is it really finished? (Mon Feb 28 2011 - 10:55:21 CST)
- Paratool`s error reading single point calculation. (Fri Feb 25 2011 - 13:24:42 CST)
- Re: generating PSF file for a small molecule (Sun May 23 2010 - 15:52:11 CDT)
- Re: Generating nanotubes psf file (Mon Apr 05 2010 - 15:47:24 CDT)
- Re: Generating nanotubes psf file (Mon Apr 05 2010 - 14:06:38 CDT)
- Re: Generating nanotubes psf file (Mon Apr 05 2010 - 11:33:46 CDT)
- Generating nanotubes psf file (Mon Apr 05 2010 - 08:58:55 CDT)
- Problem generating psf file in psfgen (Wed Dec 16 2009 - 23:24:58 CST)
- solvating diferent regions in VMD (Mon Dec 14 2009 - 17:07:38 CST)
Rasoul Nasiri
- Re: constructing a .tpr (Tue Dec 24 2013 - 11:42:25 CST)
- constructing a .tpr (Tue Dec 24 2013 - 02:30:03 CST)
- Reading trajectories from FMO-MD run (Wed Sep 19 2012 - 05:00:20 CDT)
rasti
- problem with ptch ... (Mon Aug 26 2013 - 15:23:34 CDT)
- problem with building psf file (Sun Aug 25 2013 - 14:52:40 CDT)
- problem with using parameterization tool of VMD (Thu Aug 22 2013 - 04:07:36 CDT)
rasti_at_ut.ac.ir
- calculating total energy (Sun Sep 15 2013 - 03:17:42 CDT)
- making patch (Tue Aug 27 2013 - 18:41:06 CDT)
Rathinavelan, Thenmalarchelvi
- Ramachandran Map of 2 pdbs (Fri Sep 08 2006 - 12:43:32 CDT)
Raul Araya
- Multiseq unusable on M1 Mac (Fri Oct 01 2021 - 07:55:09 CDT)
- Issues with multiseq (Fri Sep 10 2021 - 14:16:46 CDT)
- high-dpi monitor issue (Fri Aug 20 2021 - 15:19:42 CDT)
- Flipping vector in orient (Tue Jan 19 2021 - 09:21:39 CST)
- vector flips (Mon Jan 11 2021 - 15:56:27 CST)
- Joining fragments (Mon Oct 14 2019 - 07:51:30 CDT)
- How to display a selection from the Tk console (Tue Feb 12 2013 - 08:59:33 CST)
- vmd 1.9.2a11macx86_64 on OSX 10.8 (Wed Dec 19 2012 - 07:28:33 CST)
- pore radius measurement (Fri Jun 29 2012 - 13:50:00 CDT)
- difference in angles and dihedral between psf files (Thu Jun 14 2012 - 10:02:58 CDT)
- RMSF and bigdcd (Mon May 21 2012 - 09:39:45 CDT)
- units on the volmap tool (Sat Sep 17 2011 - 00:26:04 CDT)
- converting .dx volumetric data to 2D isocontour (Thu Jul 28 2011 - 12:31:37 CDT)
- charge information for the PMEpot plugin (Wed Jun 01 2011 - 11:48:07 CDT)
- measuring the orientation of a small a-helix (Wed Apr 06 2011 - 16:23:29 CDT)
- electrostatic potential maps. (Wed Apr 06 2011 - 13:13:58 CDT)
- Select non-redundant set using struture Qr not working (Sun Oct 17 2010 - 18:52:00 CDT)
- POPC from charmm27 to charmm36 (Fri Aug 20 2010 - 18:43:00 CDT)
- VMD cuda (Mon Jul 12 2010 - 15:59:19 CDT)
- order parameters for long lipids (Tue Oct 27 2009 - 08:47:38 CDT)
- density profiles (Wed Apr 22 2009 - 11:24:31 CDT)
- Parametrization of hydrogen sulfide (Fri Jul 18 2008 - 17:54:45 CDT)
- catDCD (Mon Apr 14 2008 - 12:01:41 CDT)
- some questions about the RDF plugin (Mon Apr 07 2008 - 15:23:32 CDT)
- Atom names, RES-IDS...!!! (Fri Jun 01 2007 - 23:55:33 CDT)
- pqr files---- (Tue May 29 2007 - 16:46:49 CDT)
- colomb map in volmap tool (Mon May 28 2007 - 17:03:10 CDT)
Raul Araya Secchi
- selecting frames from trajectory (Wed May 03 2006 - 16:19:21 CDT)
- dummy atoms and FEP (Thu Apr 06 2006 - 11:32:32 CDT)
- minimize during FEP & OS-FEP (Fri Mar 24 2006 - 10:49:09 CST)
raunest
- VolMap. mass weighted densities (Tue Jul 24 2012 - 04:05:43 CDT)
- Re: DX potential files (Tue Jul 24 2012 - 03:35:37 CDT)
Ravinder Abrol
- atomselect across two different molids (Thu Mar 27 2014 - 15:15:42 CDT)
- Re: trace to newcartoon inconsistent display problem (Fri Oct 06 2006 - 17:57:57 CDT)
- trace to newcartoon inconsistent display problem (Thu Oct 05 2006 - 15:20:28 CDT)
- animated gif option in VMD for Windows. (Thu Aug 24 2006 - 14:14:58 CDT)
- Re: making movie with move on each frame... (Thu Apr 13 2006 - 14:07:31 CDT)
- Re: making movie with move on each frame... (Thu Apr 13 2006 - 06:32:50 CDT)
- making movie with move on each frame... (Fri Apr 07 2006 - 21:26:52 CDT)
- problem with APBS pqr generation... (Mon Jan 23 2006 - 20:26:17 CST)
- Re: POPC lipid parameters reference (Mon Jan 02 2006 - 18:46:45 CST)
- POPC lipid parameters reference (Wed Dec 28 2005 - 15:47:31 CST)
- Re: writepsf error... (Thu Oct 27 2005 - 16:33:25 CDT)
- writepsf error... (Thu Oct 27 2005 - 06:07:50 CDT)
- Re: dynamically changing label... (Mon Oct 10 2005 - 16:12:52 CDT)
- dynamically changing label... (Thu Oct 06 2005 - 02:27:26 CDT)
Raviteja Kurapati
- which water models are inbult in namd? can I use SPCE if yes how? (Wed Nov 16 2016 - 06:18:33 CST)
- exact number of solvent molecule in simulation box (Tue Nov 15 2016 - 08:20:00 CST)
- Re: problem with molfacture plugin 1.3 (Thu Oct 20 2016 - 14:30:00 CDT)
- Re: problem with molfacture plugin 1.3 (Thu Oct 20 2016 - 13:29:37 CDT)
- problem with molfacture plugin 1.3 (Thu Oct 20 2016 - 07:27:34 CDT)
Ravithree Senanayake
- namdenergy plugin energy values (Tue May 14 2024 - 12:48:23 CDT)
Rawan Al Nsour
- Patch to connect monomers code (Sun May 04 2014 - 12:15:12 CDT)
- Amorphous Structure code or builder for non-programmer (Mon Mar 18 2013 - 15:20:05 CDT)
- Amorphous Structure code or builder (Thu Feb 28 2013 - 14:47:14 CST)
- Measuring the order parameter (Tue Feb 19 2013 - 11:59:31 CST)
Ray, William
- RE: Tcl Scripting Question (Tue May 04 2021 - 18:15:24 CDT)
- RE: unable to install VMD on OSX (Wed Apr 04 2018 - 14:19:30 CDT)
- Setting up a Phantom Omni for use with VMD on CentOS 6 (Thu Nov 29 2012 - 12:22:23 CST)
Raymond C. Fort Jr.
- Writing pdb files for trajectory frames (Wed Sep 29 2004 - 15:18:41 CDT)
- Box of non-polar solvent (Fri Jul 16 2004 - 09:17:23 CDT)
- Problem Fixed (Wed Oct 08 2003 - 09:26:51 CDT)
- More Script Problems (Tue Aug 26 2003 - 09:12:25 CDT)
- Using Solvate Script (Mon Aug 25 2003 - 13:30:31 CDT)
Raymond de Vries
- Re: vrml2 export without PROTO? (Tue Feb 08 2005 - 10:59:26 CST)
- Re: vrml2 export without PROTO? (Tue Feb 08 2005 - 04:43:40 CST)
- vrml2 export without PROTO? (Mon Feb 07 2005 - 04:45:09 CST)
rebeca
- Re: VMD and Amber coordinates (Tue Feb 16 2010 - 16:44:13 CST)
- Re: VMD and Amber coordinates (Tue Feb 16 2010 - 13:35:07 CST)
- VMD and Amber coordinates (Tue Feb 16 2010 - 12:31:52 CST)
Rebeca García Fandiño
- RE: rotate a selection of a molecule and write rotated coordinates (Wed Feb 20 2013 - 04:07:55 CST)
- RE: rotate a selection of a molecule and write rotated coordinates (Wed Feb 20 2013 - 03:38:02 CST)
- rotate a selection of a molecule and write rotated coordinates (Tue Feb 19 2013 - 08:45:30 CST)
- RE: print numerical values in a Ramachandran plot (Wed Dec 01 2010 - 09:56:45 CST)
- print numerical values in a Ramachandran plot (Tue Nov 30 2010 - 17:01:12 CST)
rebeca_at_mmb.pcb.ub.es
- ionize with VMD a TOP file (Fri Aug 01 2008 - 07:14:40 CDT)
Rebecca Alexander
- solvate error (Thu Nov 19 2009 - 11:48:42 CST)
Rebecca Taylor
- Re: ribbon rendering errors (Mon Jan 12 2015 - 14:47:28 CST)
- Re: ribbon rendering errors (Mon Dec 29 2014 - 11:51:38 CST)
- Re: ribbon rendering errors (Mon Dec 29 2014 - 11:08:21 CST)
- ribbon rendering errors (Thu Dec 25 2014 - 23:15:15 CST)
Recep adýyaman
- Matal binding protein prediction 3d (Tue Apr 15 2014 - 03:49:01 CDT)
Regina Politi
- Re: namd-l: How to play molecule trajectory with VMD? (Sun Apr 27 2008 - 07:15:22 CDT)
- problem while running VMD (Thu Apr 24 2008 - 03:30:19 CDT)
Reid Van Lehn
- Re: Trouble compiling from source - Mac OS X (Sun Jun 06 2010 - 14:53:58 CDT)
- Re: Trouble compiling from source - Mac OS X (Fri Jun 04 2010 - 23:36:13 CDT)
- Re: Trouble compiling from source - Mac OS X (Fri Jun 04 2010 - 23:11:38 CDT)
- Trouble compiling from source - Mac OS X (Fri Jun 04 2010 - 11:36:54 CDT)
- Rotating user-defined graphics? (Fri Feb 26 2010 - 12:24:43 CST)
Reinhard Klement
- Saving two molecules into one PDB file (Fri Aug 16 2002 - 09:41:54 CDT)
- Default parameters for image renderers (Wed Jun 05 2002 - 04:20:15 CDT)
- Volumetric Data Formats for VMD (Thu Jan 24 2002 - 09:02:33 CST)
Reinke.Patrick_at_mh-hannover.de
- Wrong net charge after patch (Sat Dec 21 2019 - 12:26:37 CST)
- Acetylation AutoPSF (Mon Aug 26 2019 - 10:13:01 CDT)
Rejwan
- remove my email from mailing list (Wed Jan 27 2021 - 22:06:53 CST)
- writing PDB (Thu Oct 24 2013 - 15:49:20 CDT)
- cannot find PSF and PDB (Sun Sep 15 2013 - 13:04:14 CDT)
- POPC membrane in Leap, Amber Format (Mon Jun 17 2013 - 10:34:32 CDT)
- Re: color problem with tachyon (Wed Mar 13 2013 - 11:37:43 CDT)
- color problem with tachyon (Tue Mar 12 2013 - 10:36:40 CDT)
Remya Ann
- Re: Colors in VMd graphics (Sun Oct 18 2020 - 05:37:25 CDT)
- Re: Colors in VMd graphics (Sun Oct 18 2020 - 02:36:33 CDT)
- Colors in VMd graphics (Sat Oct 17 2020 - 13:46:52 CDT)
- command line options for video in vmd (Mon Aug 24 2020 - 02:05:49 CDT)
- How to add bond between atoms of same same or type in every molecule (Tue Nov 27 2018 - 07:14:59 CST)
- Re: How to change the coordinates of the dummy atoms in readvarxyz (Fri May 04 2018 - 11:15:01 CDT)
- How to change the coordinates of the dummy atoms in readvarxyz (Fri May 04 2018 - 10:55:35 CDT)
- Re: VMD not starting after nvidia update (Thu Aug 24 2017 - 03:29:44 CDT)
- VMD not starting after nvidia update (Wed Aug 23 2017 - 05:52:36 CDT)
- Re: Re: About snapshot rendering in VMD-1.9.2 (Wed Jul 13 2016 - 02:09:17 CDT)
- Re: About snapshot rendering in VMD-1.9.2 (Tue Jul 12 2016 - 12:22:08 CDT)
- Installing VMD-1.9.2 in Ubuntu 16.04-32bit (Mon Jul 04 2016 - 01:39:17 CDT)
- Rendering usong Tachyon with Tcl scripting (Tue May 10 2016 - 07:29:02 CDT)
ren
- Re: Problem loading pdb file on VMD (Wed May 09 2007 - 04:46:42 CDT)
- Problem loading pdb file on VMD (Wed May 09 2007 - 02:10:48 CDT)
Renata KWIECIEN
- Inorganic Builder Plugin (Wed Jul 09 2008 - 02:56:17 CDT)
Rene
- animate with varying atom numbers (Fri Jun 09 2006 - 12:53:59 CDT)
Rene Prieto
- Missing angles and dihedrals (Mon Jul 21 2008 - 18:25:52 CDT)
Rene Salmon
- OpenGL problem (Tue Mar 06 2007 - 16:03:19 CST)
- Re: vmd core dump on IRIX (Tue Mar 06 2007 - 10:18:18 CST)
- vmd core dump on IRIX (Mon Mar 05 2007 - 16:16:01 CST)
RenÃ© Hafner TUK
- Re: vmd mpi parallel rendering with SLURM (Sun Apr 09 2023 - 10:02:02 CDT)
- vmd mpi parallel rendering with SLURM (Thu Mar 30 2023 - 02:28:18 CDT)
- Re: GPU-accelerated MSD calculation (Fri Jun 10 2022 - 01:47:58 CDT)
- Re: Fwd: pbc wrap issue (Tue Jan 25 2022 - 01:25:13 CST)
- Re: Hydrogen mass repartition PSFGen2.0 (Sat Aug 07 2021 - 18:53:39 CDT)
- Re: Hydrogen mass repartition PSFGen2.0 (Sat Aug 07 2021 - 15:21:21 CDT)
- Re: Hydrogen mass repartition PSFGen2.0 (Sat Aug 07 2021 - 14:14:49 CDT)
- Re: Hydrogen mass repartition PSFGen2.0 (Sat Aug 07 2021 - 04:20:23 CDT)
- Re: Tcl Scripting Question (Tue May 04 2021 - 13:57:07 CDT)
- Re: VMD Compilation with LEPTON & C++11 to support COLVARS "customFunction" WORKS now --- FLTK issue now (Sat Mar 06 2021 - 16:20:35 CST)
- Re: VMD Compilation with LEPTON & C++11 to support COLVARS "customFunction" WORKS now --- FLTK issue now (Sat Mar 06 2021 - 15:21:00 CST)
- Re: VMD Compilation with LEPTON & C++11 to support COLVARS "customFunction" WORKS now --- FLTK issue now (Sat Mar 06 2021 - 10:14:12 CST)
- VMD Compilation with LEPTON & C++11 to support COLVARS "customFunction" (Thu Mar 04 2021 - 14:21:27 CST)
- Re: PBC Wrapping (Sun Oct 25 2020 - 06:13:12 CDT)
- Re: PBC Wrapping (Fri Oct 23 2020 - 04:15:15 CDT)
- Re: PBC Wrapping (Fri Oct 23 2020 - 03:25:46 CDT)
- Re: VMD charmm paramters files: par_all36m_prot.prm (Wed May 27 2020 - 01:34:51 CDT)
- VMD charmm paramters files: par_all36m_prot.prm (Tue May 26 2020 - 06:48:44 CDT)
René Genz
- Re: Fedora 20 x86_64 + ibus + sazanami fonts + GNOME => VMD 1.9.1 crashes (Mon Mar 10 2014 - 14:07:40 CDT)
- Re: Fedora 20 x86_64 + ibus + sazanami fonts + GNOME => VMD 1.9.1 crashes (Mon Mar 10 2014 - 14:15:23 CDT)
- Fedora 20 x86_64 + ibus + sazanami fonts + GNOME => VMD 1.9.1 crashes (Sun Mar 09 2014 - 08:51:55 CDT)
Research Jubilant
- mutating a residue (Wed May 14 2014 - 22:28:39 CDT)
- selecting every nth residue in a protein (Thu Mar 27 2014 - 15:29:06 CDT)
- Re: Re: namd-l: wrapping option in namd (Wed Mar 19 2014 - 22:38:16 CDT)
- wrapping option in namd (Wed Mar 19 2014 - 21:34:57 CDT)
- deleting trajectory paths (Wed Feb 12 2014 - 19:31:53 CST)
- Calculating density for a molecule (Fri Feb 07 2014 - 11:36:41 CST)
- Hbonds color in VMD (Fri Sep 13 2013 - 12:38:17 CDT)
- Re: FATAL ERROR: UNKNOWN PARAMETER IN CHARMM PARAMETER FILE toppar_water_ions.str LINE=*set nat ?NATC* (Thu Apr 18 2013 - 13:03:53 CDT)
- Re: FATAL ERROR: UNKNOWN PARAMETER IN CHARMM PARAMETER FILE toppar_water_ions.str LINE=*set nat ?NATC* (Wed Apr 17 2013 - 18:48:41 CDT)
- Re: FATAL ERROR: UNKNOWN PARAMETER IN CHARMM PARAMETER FILE toppar_water_ions.str LINE=*set nat ?NATC* (Wed Apr 17 2013 - 16:54:08 CDT)
- FATAL ERROR: UNKNOWN PARAMETER IN CHARMM PARAMETER FILE toppar_water_ions.str LINE=*set nat ?NATC* (Wed Apr 17 2013 - 12:51:08 CDT)
- making the Orient plugin available in VMD (Tue Mar 26 2013 - 17:30:20 CDT)
Reuter Nathalie
- NAMD problem (ReceiveDatagram: recv: Resource temporarily unavailable:) (Wed Dec 12 2001 - 11:20:53 CST)
- 'wrap' any kind of solvent (Mon Dec 03 2001 - 03:20:45 CST)
Revthi Sanker
- Re: create psf file without hydrogens (Fri Nov 21 2014 - 03:23:41 CST)
- create psf file without hydrogens (Thu Nov 20 2014 - 12:26:13 CST)
- Fwd: Compute angle between 2 principal axis (Sat Jun 21 2014 - 00:07:50 CDT)
- Compute angle between 2 principal axis (Tue Jun 17 2014 - 00:57:58 CDT)
- substrate moving out of the box (Mon Jun 09 2014 - 06:31:11 CDT)
- porcupine plot (Wed Feb 05 2014 - 08:05:55 CST)
- volume analysis in vmd (Wed Oct 30 2013 - 03:44:54 CDT)
- Re: autoionize error in vmd (Fri Jul 26 2013 - 09:53:30 CDT)
- auto ionise error (Sat Jun 29 2013 - 07:53:03 CDT)
Rex Palmer
- showing the backbone trace of a cyclic peptide (Thu Aug 26 2010 - 14:45:33 CDT)
- BB Trace (Thu Aug 26 2010 - 14:49:39 CDT)
- VMD (Thu Mar 08 2007 - 05:29:14 CST)
Reza Esmaeeli
- macOS Catalina (Sun Oct 06 2019 - 11:09:24 CDT)
Reza Khalkhali
- molefacture selection (Tue Jul 24 2012 - 07:44:50 CDT)
- Re: panel missing! (Thu May 17 2012 - 03:51:38 CDT)
- panel missing! (Wed May 16 2012 - 10:49:51 CDT)
Reza Md.
- file format of VMD (Tue May 28 2013 - 09:19:19 CDT)
Reza Namakian
- Missing Bond at Periodic Boundary (Mon May 01 2023 - 09:04:06 CDT)
Reza Salari
- Re: Rotating a non-coordinate file (Wed Jun 22 2011 - 12:50:10 CDT)
- Rotating a non-coordinate file (Wed Jun 22 2011 - 04:45:53 CDT)
Reza Shakouri
- Re: vmd console problem (Sat Feb 06 2016 - 05:29:06 CST)
- vmd console problem (Fri Feb 05 2016 - 14:31:04 CST)
- which version!? (Tue Jan 19 2016 - 09:29:36 CST)
reza vatan
- Visualizing volumetric data only for the small portion of a system (Sat Apr 22 2017 - 18:03:21 CDT)
- Asking VMD to show bonds between periodic images (Thu Mar 03 2016 - 00:40:07 CST)
- Re: Showing atom index in vmd (Wed Jan 20 2016 - 20:18:42 CST)
- Showing atom index in vmd (Wed Jan 20 2016 - 16:28:36 CST)
Ricard Argelaguet
- Calculating RMSF for a lot of trajectories (Thu May 29 2014 - 11:22:18 CDT)
Ricardo Czekster
- Help using trajectory ca-distance script (Fri Jan 07 2005 - 11:30:47 CST)
Ricardo O. S. Soares
- Re: Display APBS on Solvent Accessible Surface (Thu Jan 16 2014 - 07:55:14 CST)
- Re: Display APBS on Solvent Accessible Surface (Fri Jan 10 2014 - 08:42:05 CST)
- Display APBS on Solvent Accessible Surface (Thu Jan 09 2014 - 15:12:41 CST)
Ricardo Oliveira dos Santos Soares
- Re: APBS plugin, created file pot-PE0.dx (Tue May 24 2011 - 13:39:56 CDT)
- APBS plugin, created file pot-PE0.dx (Mon May 23 2011 - 14:55:00 CDT)
Ricardo Soares
- Script for Lipid Order Parameter (Wed Jun 27 2012 - 13:58:58 CDT)
- Membrane and box with PBC (Thu Feb 16 2012 - 12:28:06 CST)
- Re: Save pdb with original numbering (Tue Nov 29 2011 - 18:58:56 CST)
- Re: Save pdb with original numbering (Tue Nov 29 2011 - 13:25:16 CST)
- Save pdb with original numbering (Tue Nov 29 2011 - 05:47:33 CST)
Riccardo Innocenti Malini
- Visualizing volume slice from PME electrostatics (Thu Apr 03 2014 - 03:40:28 CDT)
Rich Cook
- Re: Re: VMD CVS Request for Richard Cook (Fri Jan 22 2010 - 18:15:43 CST)
- Re: Re: VMD CVS Request for Richard Cook (Wed Jan 20 2010 - 17:38:13 CST)
- Re: Re: VMD CVS Request for Richard Cook (Thu Jan 14 2010 - 19:03:21 CST)
- Re: Re: VMD CVS Request for Richard Cook (Thu Jan 14 2010 - 15:02:33 CST)
- Re: Re: VMD CVS Request for Richard Cook (Mon Jan 11 2010 - 19:24:16 CST)
- Re: Re: VMD CVS Request for Richard Cook (Thu Dec 17 2009 - 20:08:08 CST)
- Re: Re: VMD CVS Request for Richard Cook (Thu Dec 17 2009 - 19:35:12 CST)
- Re: Re: VMD CVS Request for Richard Cook (Thu Dec 17 2009 - 19:17:47 CST)
- Re: Re: VMD CVS Request for Richard Cook (Thu Dec 17 2009 - 18:05:34 CST)
- Re: VMD CVS Request for Richard Cook (Thu Dec 17 2009 - 16:45:07 CST)
- Re: Request for information (Thu Dec 17 2009 - 13:58:45 CST)
- Re: Issues with flickering display using VMD 1.8.7 displaying over X11 to remote Mac (Thu Dec 17 2009 - 12:52:54 CST)
- Re: VMD on AIX --- successful build, failed execution (Wed Dec 16 2009 - 14:07:52 CST)
- VMD on AIX --- successful build, failed execution (Tue Dec 15 2009 - 16:26:00 CST)
- Issues with flickering display using VMD 1.8.7 displaying over X11 to remote Mac (Tue Dec 15 2009 - 15:03:07 CST)
- Re: building VMD is tricky -please help (Wed Dec 02 2009 - 15:14:03 CST)
- Re: building VMD is tricky -please help (Wed Dec 02 2009 - 13:26:42 CST)
- Re: building VMD is tricky -please help (Tue Dec 01 2009 - 17:50:48 CST)
- Re: building VMD is tricky -please help (Tue Dec 01 2009 - 13:59:29 CST)
- building VMD is tricky -please help (Mon Nov 30 2009 - 17:49:23 CST)
Richard Wood
- RE: Custom Water Box (Wed Jul 27 2016 - 14:17:39 CDT)
- RE: System requirement for MD 10ns (Tue Jun 28 2016 - 08:19:59 CDT)
- RE: Can't read DCD files generated using NAMD. (Tue Jun 21 2016 - 06:12:17 CDT)
- RE: Can't read DCD files generated using NAMD. (Mon Jun 20 2016 - 07:47:38 CDT)
- RE: Can't read DCD files generated using NAMD. (Sun Jun 19 2016 - 08:42:21 CDT)
- RE: Can't read DCD files generated using NAMD. (Sat Jun 18 2016 - 09:20:09 CDT)
- RE: Can't read DCD files generated using NAMD. (Fri Jun 17 2016 - 05:51:42 CDT)
- RE: Can't read DCD files generated using NAMD. (Thu Jun 16 2016 - 19:17:04 CDT)
- RE: Can't read DCD files generated using NAMD. (Thu Jun 16 2016 - 16:53:11 CDT)
- Can't read DCD files generated using NAMD. (Thu Jun 16 2016 - 11:12:53 CDT)
- RE: a question about g(r) (Thu Mar 03 2016 - 09:35:00 CST)
- a question about g(r) (Thu Mar 03 2016 - 09:04:07 CST)
- RE: pdb was not generated (Thu Jan 14 2016 - 15:25:28 CST)
- RE: Unable to access config file (Fri Dec 11 2015 - 11:32:04 CST)
- RE: Unable to access config file (Fri Dec 11 2015 - 08:51:37 CST)
- RE: Topology for drugs to do MD after docking (Thu Oct 22 2015 - 11:08:44 CDT)
- RE: Namd Plot Plugin (Thu Aug 20 2015 - 12:35:54 CDT)
- RE: reading in trajectory file causes VMD to crash (Mon Jul 06 2015 - 20:56:05 CDT)
- RE: reading in trajectory file causes VMD to crash (Mon Jul 06 2015 - 20:14:20 CDT)
- reading in trajectory file causes VMD to crash (Mon Jul 06 2015 - 19:52:11 CDT)
- RE: fftk bonded and dihedral optimization question (Fri Mar 20 2015 - 14:29:57 CDT)
- RE: fftk bonded and dihedral optimization question (Fri Mar 20 2015 - 13:06:15 CDT)
- RE: fftk bonded and dihedral optimization question (Fri Mar 20 2015 - 12:50:25 CDT)
- RE: Putting different peptide chains (spaced apart) in a single .xbgf file (Sun Feb 08 2015 - 19:11:52 CST)
- RE: Re: FW: atomselection by wildcard and distance exclusion (Tue Jan 13 2015 - 11:05:22 CST)
- RE: Density of water box in solvate 1.5 plugin ~ 0.9 g/cc (Fri Dec 05 2014 - 08:58:47 CST)
- RE: A box of amino acids (Mon Nov 24 2014 - 12:48:33 CST)
- RE: making psf files (Thu Oct 02 2014 - 13:03:28 CDT)
- RE: Reg: Peptide dimer (Wed Oct 01 2014 - 05:54:59 CDT)
- RE: Making trajectory movie last longer. (Wed Sep 03 2014 - 10:42:24 CDT)
- RE: membrane lipid involvement of cholesterol (Sat Jul 26 2014 - 09:07:57 CDT)
- RE: membrane lipid involvement of cholesterol (Sat Jul 26 2014 - 06:26:59 CDT)
- RE: pdb animation (Thu Jul 10 2014 - 08:31:54 CDT)
- membrane generation question (Tue Jun 03 2014 - 11:35:35 CDT)
Richard Casey
- vmd movies in powerpoint (Sun May 20 2007 - 06:01:02 CDT)
Richard Cook
- Re: Re: Experience with Asus Netbook (Wed Sep 29 2010 - 16:50:52 CDT)
- Re: VMD XRequest errors (Thu Aug 26 2010 - 17:17:22 CDT)
- Re: VMD XRequest errors (Wed Jul 28 2010 - 21:25:21 CDT)
- Re: VMD XRequest errors (Wed Jul 28 2010 - 20:15:01 CDT)
- Re: VMD XRequest errors (Wed Jul 28 2010 - 16:39:08 CDT)
- VMD XRequest errors (Fri Jul 23 2010 - 18:47:49 CDT)
Richard Daigle
- Re: Solvation energies using implicit ligand sampling (Mon May 04 2009 - 14:06:22 CDT)
- Solvation energies using implicit ligand sampling (Mon May 04 2009 - 12:21:41 CDT)
Richard Law
- Re: namd-l: too large an area/lipid in POPE bilayers using membrane plugin (Mon Feb 05 2007 - 12:49:07 CST)
Richard Overstreet
- vmd linking error (Fri Jul 29 2016 - 11:53:57 CDT)
Richard Stone
- One of a kind replicas (Thu May 01 2008 - 11:18:31 CDT)
Richard Swenson
- RE: catDCD (Mon Apr 14 2008 - 13:28:19 CDT)
- RE: replication of bilayer (Fri Jan 04 2008 - 17:07:16 CST)
- RE: merging two pdb files (Fri Nov 09 2007 - 09:20:55 CST)
- RE: VMD analysis using NAMD plot (Wed Aug 29 2007 - 10:40:28 CDT)
- RE: VMD analysis using NAMD plot (Wed Aug 29 2007 - 10:42:59 CDT)
- Re: Nearest neighbor selection (Tue Jun 12 2007 - 15:23:31 CDT)
- Nearest neighbor selection (Mon Jun 11 2007 - 10:23:57 CDT)
- Order Parameter Script for changing bilayer normal (Fri Jun 01 2007 - 09:21:07 CDT)
- lipid Scd order parameter for a large bilayer (1440 lipids) with a changing bilayer normal (ie. bilayer undulations) (Wed May 30 2007 - 14:15:13 CDT)
Richard Wood
- Aligning structures (Thu Mar 09 2006 - 21:20:45 CST)
ridaka jannat
- Re: ssrestraints errors (Wed Aug 28 2019 - 12:56:51 CDT)
- ssrestraints errors (Wed Aug 28 2019 - 12:01:28 CDT)
Rima Chaudhuri
- Re: Missing atom error while atoms exist in pdb (Thu Jul 06 2006 - 11:46:46 CDT)
- Missing atom error while atoms exist in pdb (Thu Jul 06 2006 - 11:05:50 CDT)
- pdb file reading error (Wed Jul 05 2006 - 12:16:59 CDT)
- breaking the DCD file (Sun Apr 16 2006 - 16:01:52 CDT)
- error in psfgen file (Thu Mar 23 2006 - 20:20:10 CST)
Rinky Parakra
- RMSF_Calculation_Error_Using script (Mon May 21 2018 - 19:32:48 CDT)
Rita Cassia
- Configuration file (Tue Mar 06 2007 - 06:37:47 CST)
- Number of Frames in VMD (Fri Feb 23 2007 - 07:48:39 CST)
- history in tcl/tk script (Fri Jan 26 2007 - 06:22:32 CST)
- pdb file (Thu Dec 21 2006 - 05:53:15 CST)
Ritu Arora
- Re: how does contactFreq.tcl work? (Mon Oct 26 2020 - 15:52:33 CDT)
- Coarse graining disordered protein (Wed Aug 12 2020 - 12:34:41 CDT)
- FF parameters for EtSNO (Mon Jul 06 2020 - 11:34:50 CDT)
riya doreen
- building loops (Tue Jan 13 2009 - 18:53:09 CST)
Rizal Sinaga
- fftk Improper fitting (Thu Feb 02 2023 - 18:12:52 CST)
Rob
- (no subject) (Sun Apr 21 2013 - 06:10:17 CDT)
- Re: plugin for Abinit output files (Sun Sep 26 2010 - 23:45:15 CDT)
- Re: plugin for Abinit output files (Sun Sep 26 2010 - 23:36:52 CDT)
- plugin for Abinit output files (Sat Aug 28 2010 - 03:22:05 CDT)
- Re: LANG setting needs to be solved in next release.... (Thu May 20 2010 - 02:16:43 CDT)
- LANG setting needs to be solved in next release.... (Tue May 18 2010 - 19:33:06 CDT)
- Re: VMD plugin: filenames supposed to have dot in it?!?! (Thu Dec 17 2009 - 18:12:46 CST)
- VMD plugin: filenames supposed to have dot in it?!?! (Wed Dec 16 2009 - 01:07:20 CST)
- VMD plugin for abinit (Tue Dec 15 2009 - 21:47:08 CST)
- File owner/group settings after installing precompiled VMD. (Mon Dec 14 2009 - 21:13:23 CST)
- Re: vmd 1.8.7 on Intel 64 bit: segmentation fault (Sun Dec 13 2009 - 18:33:35 CST)
- Re: vmd 1.8.7 on Intel 64 bit: segmentation fault (Fri Dec 11 2009 - 08:53:35 CST)
- Re: vmd 1.8.7 on Intel 64 bit: segmentation fault" (Wed Dec 09 2009 - 22:24:16 CST)
- Re: vmd 1.8.7 on Intel 64 bit: segmentation fault (Tue Dec 08 2009 - 08:05:26 CST)
- Re: vmd 1.8.7 on Intel 64 bit: segmentation fault (however: 1.8.6 works!) (Tue Dec 08 2009 - 01:03:29 CST)
- vmd 1.8.7 on Intel 64 bit: segmentation fault (Mon Dec 07 2009 - 21:25:11 CST)
- Segmentation fault on linux Fedora 11 (Sun Sep 13 2009 - 19:16:28 CDT)
- Plugins: plz add one more conversion to unit_conversion.h (Sun Jun 21 2009 - 21:00:57 CDT)
- "Re: ABINIT plugin ready for testing: can read GEO and DEN files. (Thu Jun 18 2009 - 02:27:08 CDT)
- Re: ABINIT plugin ready for testing: can read GEO and DEN files. (Wed Jun 17 2009 - 10:59:23 CDT)
- Re: ABINIT plugin ready for testing: can read GEO and DEN files. (Tue Jun 16 2009 - 21:23:22 CDT)
- Re: ABINIT plugin ready for testing: can read GEO and DEN files. (Tue Jun 16 2009 - 03:27:28 CDT)
- "Save coordinates..." silently overwrites existing files... (Mon Jun 15 2009 - 10:25:10 CDT)
- ABINIT plugin ready for testing: can read GEO and DEN files. (Mon Jun 15 2009 - 01:32:28 CDT)
- plugin: can I load volumetric data as frames (i.e. timesteps)? (Wed Jun 10 2009 - 03:11:34 CDT)
- Re: abinit plugin for VMD not yet tried? (Mon May 25 2009 - 02:04:57 CDT)
- Plugin: molfile_plugin_t filename_extension; problem and bug... (Sun May 24 2009 - 22:39:33 CDT)
- Re: abinit plugin for VMD not yet tried? (Sun May 24 2009 - 04:31:17 CDT)
- "Determine file type" list is far too long... (Sun May 24 2009 - 04:45:30 CDT)
- abinit plugin for VMD not yet tried? (Fri May 22 2009 - 02:08:15 CDT)
- Dynamic 'Determine file type' list in main menu !?! (Fri Apr 27 2007 - 01:14:37 CDT)
- Re: New Molecule (or Load Data) resets viewpoint of Display. Why? (Tue Mar 06 2007 - 03:28:56 CST)
- New Molecule (or Load Data) resets viewpoint of Display. Why? (Sun Mar 04 2007 - 21:27:14 CST)
- Re: Add transparent plane to molecular (Tue Jan 30 2007 - 09:05:36 CST)
- Re: Add transparent plane to molecular structure (Tue Jan 30 2007 - 03:12:21 CST)
- Add transparent plane to molecular structure (Mon Jan 29 2007 - 20:57:38 CST)
- How to change title of display window? (Wed Jan 17 2007 - 01:13:23 CST)
- VMD forks to background; can I disable this? (Wed Jan 17 2007 - 00:33:27 CST)
- Re: Volumetric data: Periodic expansion does not work; why? (Tue Oct 17 2006 - 21:02:42 CDT)
- Re: Volumetric data: Periodic expansion does not work; why? (Tue Oct 17 2006 - 02:17:26 CDT)
- Volumetric data: Periodic expansion does not work; why? (Thu Oct 12 2006 - 23:24:26 CDT)
- Re: 1.8.5: VASP plugin not correct (Mon Sep 25 2006 - 17:57:22 CDT)
- Re: 1.8.5: VASP plugin not correct (Mon Sep 25 2006 - 17:55:02 CDT)
- Re: 1.8.5: VASP plugin not correct (Mon Sep 25 2006 - 11:17:10 CDT)
- Re: 1.8.5: VASP plugin not correct (Mon Sep 25 2006 - 07:33:43 CDT)
- Re: 1.8.5: VASP plugin not correct (Mon Sep 25 2006 - 05:45:15 CDT)
- 1.8.5: VASP plugin not correct (Thu Sep 21 2006 - 22:15:06 CDT)
- Precompiled 1.8.5 for Linux-IA64 installs with wrong flags in lib directory? (Wed Sep 20 2006 - 23:53:31 CDT)
- Multiple data files on command line does not seem to work (Mon May 15 2006 - 22:36:09 CDT)
rob zehr
- trouble with autopsf (Sat Oct 22 2005 - 08:27:12 CDT)
Robabeh Moosavi
- a problem in visualizing dump files with vmd (Tue Feb 23 2010 - 05:43:46 CST)
robert
- International opportunity (Fri Feb 06 2009 - 11:25:07 CST)
robert austin
- Re: 1.3b2 (Sun Mar 21 1999 - 16:31:34 CST)
Robert Brunner
- Re: question about the inorganic builder (Tue Mar 01 2011 - 14:15:25 CST)
- Re: RGB values... (Fri Jul 02 2010 - 11:07:06 CDT)
- Re: merge structure: error processing angles (Mon Apr 26 2010 - 19:12:07 CDT)
- Re: merge structure: error processing angles (Mon Apr 26 2010 - 18:32:44 CDT)
- Re: MergeStructs Plugin in text mode (Fri Mar 12 2010 - 11:51:54 CST)
- Re: conflict between VMD and Netbeans IDE on MacOSX (Wed Jan 06 2010 - 11:18:11 CST)
- Re: using VMD 1.8.7 on a Mac (Tue Aug 25 2009 - 12:00:11 CDT)
- Re: Mac and cmd line (Mon Aug 24 2009 - 15:02:20 CDT)
- Re: Memory Problem with tcl/tk script...(2) (Wed Jun 03 2009 - 13:48:49 CDT)
- Re: General question about the memory usage of VMD (Mon Nov 17 2008 - 14:42:45 CST)
- Re: Sequentially numbering atom names in pdb file (Wed Nov 05 2008 - 16:02:54 CST)
- Re: Solvation Box (Tue Sep 23 2008 - 11:32:42 CDT)
- Re: How to use Inorganic Builder (Fri Sep 12 2008 - 10:19:45 CDT)
- Re: Inorganic Builder Plugin (Thu Aug 21 2008 - 08:31:19 CDT)
- Re: Inorganic Builder Plugin (Wed Jul 09 2008 - 10:38:27 CDT)
- Re: Batch mode on Mac OS 10.5.3 (Tue Jun 03 2008 - 12:34:02 CDT)
- Re: Simple TCL/Tk question (Fri Jun 08 2007 - 14:55:20 CDT)
- Re: release memory in TCL (Thu Jun 07 2007 - 14:32:44 CDT)
- Re: How to make bold font? (Thu Jun 01 2006 - 23:04:12 CDT)
- Re: Problem with VMD 1.8.4 on Mac OS X 10.4.6 PPC (Tue Apr 25 2006 - 13:07:00 CDT)
- Re: stereo on MacG5 with Nvidia GeForce FX 5200 (Wed Mar 29 2006 - 16:44:12 CST)
- Re: tcl/python and readline not working (Thu Oct 27 2005 - 11:09:25 CDT)
- New BioCoRE server released (Wed Aug 17 2005 - 11:59:52 CDT)
- Re: more precision in inverse trig functions (Wed Aug 03 2005 - 09:22:21 CDT)
- Re: problems to launch VMD 1.83 in MAC os x tiger (Fri Jul 08 2005 - 15:17:02 CDT)
- Re: VMD does not run on MacOS X 10.4 Tiger (Mon May 16 2005 - 22:11:18 CDT)
- Re: VMD 1.8.2 and 1.8.3 fail on MacOS X after upgrade to 10.3.8 (Wed Mar 02 2005 - 10:36:54 CST)
- Re: JMV (Wed Mar 31 2004 - 16:36:17 CST)
- Re: vmdmovie in OS X.3 (Mon Nov 24 2003 - 19:26:44 CST)
- Re: vmdmovie in OS X.3 (Mon Nov 24 2003 - 19:15:34 CST)
- Re: saving a tiff file (Mon Dec 16 2002 - 20:01:02 CST)
- BioCoRE Release: New Features (Mon Dec 16 2002 - 17:04:02 CST)
- JMV Molecular Viewer Support within BioCoRE (Wed Jul 03 2002 - 16:19:02 CDT)
- ANNOUNCEMENT: BioCoRe (Fri Mar 03 2000 - 10:22:28 CST)
Robert Campbell
- Re: accessing VMD help (Fri Oct 31 2003 - 09:51:53 CST)
- Re: How to improve the running of VMD with data on remote servers (Thu Oct 30 2003 - 11:37:37 CST)
- Re: cartoon representation (Fri Nov 15 2002 - 09:58:02 CST)
- Re: Secondary structure (Fri Aug 23 2002 - 12:13:44 CDT)
Robert Chan-Jobe
- Using writelammpsdata in 1.9.4 (Tue Mar 02 2021 - 19:11:58 CST)
Robert Coridan
- Re: Rdf from a specific point (Fri Feb 01 2008 - 11:48:19 CST)
- Rdf from a specific point (Fri Feb 01 2008 - 06:12:42 CST)
- Re: Error message disappears before I can read it! (Thu Jun 02 2005 - 13:51:29 CDT)
- Error message disappears before I can read it! (Thu Jun 02 2005 - 11:21:35 CDT)
Robert Dagil
- SV: Authentication error VMD-xplor (Fri Mar 18 2011 - 10:13:23 CDT)
- Authentication error VMD-xplor (Fri Mar 18 2011 - 07:46:07 CDT)
Robert Elder
- Suggested fix for 'restore_reps' command (Fri Jun 02 2017 - 14:12:43 CDT)
Robert Fenwick
- Re: catDCD (Wed Aug 27 2008 - 12:16:14 CDT)
- catDCD (Wed Aug 27 2008 - 08:01:38 CDT)
Robert fiske
- question on spin density (Wed Jan 24 2007 - 14:00:32 CST)
Robert Hoy
- manually defining bonds, setting atom colors (Thu Sep 14 2006 - 16:10:52 CDT)
Robert Johnson
- AutoIMD with Periodic Boundary Conditions (Tue Jun 18 2013 - 11:43:13 CDT)
- Re: Displaying Flat Cross-Sections Using Surface Representation (Thu Mar 28 2013 - 12:35:10 CDT)
- Re: Displaying Flat Cross-Sections Using Surface Representation (Thu Feb 28 2013 - 16:29:40 CST)
- Displaying Flat Cross-Sections Using Surface Representation (Tue Feb 26 2013 - 11:59:28 CST)
- Re: Quick Surf Representation Getting Cutoff when Rendering with Tachyon (Tue May 29 2012 - 16:11:59 CDT)
- Quick Surf Representation Getting Cutoff when Rendering with Tachyon (Tue May 29 2012 - 14:11:52 CDT)
- Using two color scales in one scene (Thu Oct 13 2011 - 14:23:02 CDT)
Robert Kretschmer
- md simulation of a protein and a ligand (Mon Dec 18 2006 - 12:55:20 CST)
- Re: Shutter glasses on VMD (Tue Nov 28 2006 - 01:51:31 CST)
- Re: Shutter glasses on VMD (Sat Nov 25 2006 - 15:07:10 CST)
Robert Matthew Fesinmeyer
- SMP, coord transform, cpu usage (Wed Oct 03 2001 - 17:42:01 CDT)
Robert Meklemburg
- problems displaying newcartoon representation (Thu Nov 12 2009 - 11:17:19 CST)
Robert Milius
- vmd and color (Thu Apr 22 1999 - 15:56:17 CDT)
- vmd, linux & dri (Fri Jan 12 2001 - 16:41:52 CST)
- msms 2.5 and vmd? (Thu Sep 14 2000 - 13:09:41 CDT)
- msms & vmd (Fri Feb 18 2000 - 11:51:29 CST)
Robert Mullen
- VMD exits immediately after starting on Windows xp (Sun Feb 22 2009 - 17:35:46 CST)
Robert Nairn
- How to calculate head group and acyl chain contact (separately) within 5 Anstrom of a particular protein residue? (Wed Jan 10 2018 - 08:20:14 CST)
Robert Selwyne
- DOWSER: child process exited abnormally (Thu Apr 26 2007 - 06:57:03 CDT)
- Calculating RMSF plots without using scripts!!! (Mon Jun 05 2006 - 03:36:54 CDT)
- Global Command to load 200 pdb files, without using script files (Fri Jun 02 2006 - 08:47:35 CDT)
Robert Wohlhueter
- vmd-1.9.3 problem with nvidia driver 375 (Sat Jun 10 2017 - 21:06:04 CDT)
- errors starting vmd 1.9.3 (Sun Jun 04 2017 - 12:44:43 CDT)
- Re: vmd-1.9.1 broken after upgrade to Ubuntu 13.10 (Sun Dec 08 2013 - 12:00:24 CST)
- Re: vmd-1.9.1 broken after upgrade to Ubuntu 13.10 (Wed Nov 27 2013 - 10:00:38 CST)
- Re: vmd-1.9.1 broken after upgrade to Ubuntu 13.10 (Wed Nov 27 2013 - 09:12:57 CST)
- vmd-1.9.1 broken after upgrade to Ubuntu 13.10 (Tue Nov 26 2013 - 16:15:53 CST)
- bad window parameter -- SOLVED (Tue May 10 2011 - 10:16:48 CDT)
- bad window parameter (Tue May 10 2011 - 09:27:34 CDT)
- Re: upgrading vmd's nvidia component (Thu Aug 05 2010 - 17:01:20 CDT)
- using tcl variables in representation gui (Wed Jul 14 2010 - 09:22:09 CDT)
- running namd2 on Mac PPC cluster (Sun Feb 14 2010 - 13:13:16 CST)
- ntermolecular atomselection (Thu Jul 26 2007 - 00:27:38 CDT)
Roberto Gaspari
- 3d pdf (Sun Jun 30 2013 - 14:47:25 CDT)
- Re: vmd crashes during gromacs trr loading (Thu Nov 08 2012 - 05:11:19 CST)
- vmd crashes during gromacs trr loading (Wed Nov 07 2012 - 02:05:11 CST)
- Movie of a xyz trajectory (Wed Nov 26 2008 - 03:09:43 CST)
Roberto Guerra
- Re: bug in xsfplugin [patch included] (Thu Apr 11 2013 - 11:50:36 CDT)
- bug in xsfplugin [patch included] (Sat Mar 30 2013 - 19:55:43 CDT)
Robin Betz
- Re: Using python interpreter in VMD (Tue Jan 28 2025 - 00:30:47 CST)
- Re: Using python interpreter in VMD (Wed Jan 22 2025 - 22:33:00 CST)
- Re: Visual Help (Sun Apr 11 2021 - 23:18:38 CDT)
- Re: Glu-Lys Isopeptide Bond Parameters? (Wed Oct 07 2020 - 18:26:41 CDT)
- Re: VMD rendering colors (Fri Feb 14 2020 - 13:36:23 CST)
- Re: stuttering movies with snapshot (Wed Jan 22 2020 - 13:51:57 CST)
- Re: How the Within Command Works (Thu Aug 08 2019 - 12:41:10 CDT)
- Re: Source code for ringsize? (Fri Mar 15 2019 - 16:04:23 CDT)
- Re: Re: FFTK Possible Bug (Sat Mar 02 2019 - 23:15:39 CST)
- Re: gopython with python3 (Thu Nov 22 2018 - 20:33:50 CST)
- Re: New Cartoon and Simulation Question (Wed Jul 18 2018 - 20:14:47 CDT)
- Re: rst7 as input file bug (Thu May 17 2018 - 19:45:20 CDT)
- Re: How to hide water in mdcrd file? (Thu Mar 08 2018 - 14:21:11 CST)
- Re: vmd smooth trajectory distorted molecule (Wed Aug 09 2017 - 14:01:11 CDT)
- Re: color bar problem in VMD (Thu Jun 29 2017 - 16:16:04 CDT)
- Re: memory sharing in VMD (Fri Feb 10 2017 - 17:25:01 CST)
Robin Bush
- Re: RMSD of identical pdbs not zero (Wed Sep 14 2005 - 07:50:56 CDT)
- RMSD of identical pdbs not zero (Fri Sep 09 2005 - 12:57:24 CDT)
Robin L Hayes
- povray problem: degenerate cylinder revisited (Fri Aug 10 2007 - 17:22:37 CDT)
- Does volume coloring require GLSL rendering? (Mon Oct 02 2006 - 19:26:24 CDT)
Robin Varghese
- Re: Pot.dx files (Sat Feb 26 2011 - 17:18:56 CST)
- Re: Pot.dx files (Sat Feb 26 2011 - 17:37:37 CST)
- pot.dx file question (Sat Feb 26 2011 - 15:42:04 CST)
- pot.dx question (Sat Feb 26 2011 - 15:43:35 CST)
- Pot.dx files (Sat Feb 26 2011 - 15:02:14 CST)
Robison, Keith
- RE: Multiseq refusing to load a structure due to taxonomy problem (Tue Jul 29 2008 - 13:32:19 CDT)
- Multiseq refusing to load a structure due to taxonomy problem (Tue Jul 29 2008 - 08:22:24 CDT)
Rocchia Walter
- problems with hotkeys and "user add key" command (Mon Apr 05 2010 - 16:31:03 CDT)
rocfo
- periodic images of molecule containing custom graphics (Wed Nov 07 2012 - 05:31:46 CST)
rodolfo gonzalez
- Re: fftk-charges (Tue Oct 22 2013 - 09:33:02 CDT)
- Re: fftk-charges (Tue Oct 22 2013 - 05:26:31 CDT)
- Re: fftk-charges (Mon Oct 21 2013 - 10:43:01 CDT)
- Re: fftk-charges (Mon Oct 21 2013 - 01:57:55 CDT)
- fftk-charges (Sun Oct 20 2013 - 10:00:50 CDT)
Rodolfo Pereyra
- coloring by gradient (Thu Apr 28 2011 - 15:36:51 CDT)
Rodrigo Silveira
- Re: Problem with vmd and pqr file (Sat Apr 17 2010 - 14:33:58 CDT)
Roessler, Bryan C
- Re: Issues with Tcl script for MD Prep (Wed Jun 19 2019 - 14:19:03 CDT)
Rogan Carr
- Re: (Sun Sep 12 2010 - 18:19:09 CDT)
- Re: PSF Generation (Tue Feb 16 2010 - 09:24:06 CST)
- Re: selecting waters (Mon May 11 2009 - 12:53:28 CDT)
- Re: setbonds (Wed Apr 22 2009 - 11:29:32 CDT)
- Re: Select atoms using coordinates (Wed Apr 22 2009 - 11:30:49 CDT)
- Re: Mol representation using coordinates (Tue Apr 21 2009 - 09:03:35 CDT)
- Re: coloring by atom type (Sat Apr 18 2009 - 16:53:39 CDT)
- Re: Posting messages to VMD-L truncates the empty spaces in lines (Wed Mar 18 2009 - 16:12:37 CDT)
- Re: Per-frame 'graphics'? (Fri Oct 31 2008 - 11:22:55 CDT)
- Re: problem with loading trajectories in timline plugin (Sun Nov 25 2007 - 16:01:54 CST)
Roger A Larson
- Question regarding color schemes on crystals and grain boundaries (Fri Aug 30 2013 - 16:13:13 CDT)
Roger Nadler
- Re: Define "color Element" through rgb values (Wed Mar 21 2012 - 12:20:50 CDT)
- Define "color Element" through rgb values (Mon Mar 19 2012 - 11:47:14 CDT)
Rogers Swai
- Re: finding number of atoms within a radius (Mon Sep 07 2020 - 04:56:37 CDT)
Rohan Mehta
- Re: Which function for animate speed (Fri Jun 27 2014 - 05:39:53 CDT)
- Re: running a C code in VMD (Thu Jun 26 2014 - 23:18:36 CDT)
- running a C code in VMD (Thu Jun 26 2014 - 04:38:40 CDT)
rohan uttarwar
- Use of RBCG to convert multiple frames from atomistic trajectory to Coarse grained (Tue Nov 01 2011 - 16:17:08 CDT)
Rohit Goswami
- Re: PME Electrostatics Error (Fri Jun 19 2015 - 12:22:06 CDT)
- Re: PME Electrostatics Error (Fri Jun 19 2015 - 09:08:50 CDT)
- Re: PME Electrostatics Error (Fri Jun 19 2015 - 09:23:27 CDT)
- PME Electrostatics Error (Fri Jun 19 2015 - 05:36:35 CDT)
Roland Schmucki
- VMD and IED on Windows XP (Thu Feb 05 2009 - 20:57:34 CST)
- VMD Images and Movies Tutorial: Working With Trajectories (Thu Sep 13 2007 - 03:32:05 CDT)
- GLSL rendering mode is NOT available (Mon Sep 10 2007 - 07:04:48 CDT)
- VMD acts too slow (Tue Aug 07 2007 - 20:38:49 CDT)
Roland Schulz
- Re: GLXBadLargeRequest and BadLength messages (Thu Sep 23 2010 - 23:13:03 CDT)
- Re: GPL compatible PluginMgr/vmddlopen (Wed Jul 08 2009 - 09:56:08 CDT)
- Re: GPL compatible PluginMgr/vmddlopen (Mon Jul 06 2009 - 04:19:52 CDT)
- GPL compatible PluginMgr/vmddlopen (Sat Jul 04 2009 - 08:13:37 CDT)
- Flow Fields (Tue Feb 10 2009 - 16:04:23 CST)
Rolando Carlson
- Get one of these awesome replicas (Sun May 04 2008 - 12:10:27 CDT)
Roman Petrenko
- Re: Extract specific frames from trajectory (Thu Apr 01 2010 - 17:19:17 CDT)
- Re: VMD water protein anlysis (Mon Feb 22 2010 - 17:28:19 CST)
- Re: Retrieving an atom and its coordinates (Sat Feb 13 2010 - 20:14:34 CST)
- Re: CG Builder (Mon Nov 09 2009 - 15:01:26 CST)
- Re: radius of gyration units (Tue Nov 03 2009 - 16:18:24 CST)
- Re: radius of gyration units (Tue Nov 03 2009 - 15:59:54 CST)
- Re: Unable to find Stride output file: /usr/tmp/... (Tue Oct 27 2009 - 15:13:10 CDT)
- Re: pbwithin and within differences (Tue Oct 27 2009 - 09:09:36 CDT)
- vmd mailing list (Thu Oct 15 2009 - 17:14:10 CDT)
- Re: (Wed Sep 09 2009 - 14:09:35 CDT)
- Re: time-averaged RMSD per residue (Sun Jul 26 2009 - 05:39:19 CDT)
- order parameter from trajectory (Fri Jul 24 2009 - 17:08:50 CDT)
- Re: time-averaged RMSD per residue (Fri Jul 24 2009 - 11:15:02 CDT)
- Re: time-averaged RMSD per residue (Fri Jul 24 2009 - 09:00:08 CDT)
- stereo anaglyph (Thu Jul 23 2009 - 16:16:07 CDT)
- Re: Can bonds radius be controlled by tcl command? (Wed May 13 2009 - 17:09:09 CDT)
- Re: Searching for Number of Resname (Thu Mar 26 2009 - 15:28:00 CDT)
- proline trans to cis (Thu Feb 26 2009 - 19:20:07 CST)
- vmd intel compiler prebuild for 64 bit (Thu Feb 19 2009 - 19:29:09 CST)
- Re: vmd with cuda1.0 (Mon Feb 16 2009 - 22:07:30 CST)
- Re: vmd with cuda1.0 (Mon Feb 16 2009 - 22:25:44 CST)
- vmd with cuda1.0 (Mon Feb 16 2009 - 21:47:16 CST)
- Re: Fwd: Tcl script (Tue Jan 20 2009 - 06:24:37 CST)
- Re: Large dcd file (Tue Jan 06 2009 - 17:25:03 CST)
- total number of donors and acceptors (Wed Nov 26 2008 - 18:27:16 CST)
- entropy calculations (Fri Nov 21 2008 - 15:23:07 CST)
- entropy calculations (Fri Nov 21 2008 - 15:16:40 CST)
- fasta2pdb (Mon Nov 10 2008 - 14:33:24 CST)
- Re: rotation around phi/psi (Sun Sep 21 2008 - 14:46:00 CDT)
- rotation around phi/psi (Fri Sep 19 2008 - 21:05:24 CDT)
- Re: Alias histidine residue (Sat Sep 13 2008 - 22:04:46 CDT)
- Re: Alias histidine residue (Sat Sep 13 2008 - 22:07:46 CDT)
- Re: psfgen - loss of disulfide bonds (Thu Sep 11 2008 - 22:50:34 CDT)
- renumbering residues (Wed Aug 13 2008 - 13:50:44 CDT)
- label all residues (Wed Aug 13 2008 - 10:09:17 CDT)
- Re: protein-water hydrogen bonds (Tue Aug 12 2008 - 10:52:32 CDT)
- protein-water hydrogen bonds (Tue Aug 12 2008 - 10:05:46 CDT)
- backbone dihedral angles over trajectory (Fri Aug 08 2008 - 17:05:59 CDT)
- Re: How to disable automatic view rotations? (Wed Jul 30 2008 - 15:37:41 CDT)
- How to disable automatic view rotations? (Wed Jul 30 2008 - 13:08:31 CDT)
- Re: tcl script problem with "atomselect' combined with "measure fit ...order" (Tue Jul 29 2008 - 15:26:13 CDT)
- Re: periodic boundary conditions (yes, i read the tutorials) (Mon Jul 28 2008 - 19:50:12 CDT)
- periodic boundary conditions (yes, i read the tutorials) (Mon Jul 28 2008 - 19:46:09 CDT)
- Re: solvation and box size (Mon Jul 28 2008 - 06:52:08 CDT)
- Re: translation/transformation (Sun Jul 27 2008 - 04:09:35 CDT)
- Re: how to create dityrosine links (Sun Jul 27 2008 - 04:14:20 CDT)
- translation/transformation (Sat Jul 26 2008 - 23:31:36 CDT)
- how to create dityrosine links (Sat Jul 26 2008 - 17:47:52 CDT)
Roman Shevchuk
- Problem with psfgen and Drude Polarizable Force Field (Wed Jul 04 2012 - 06:42:06 CDT)
Romaric David
- Re: Vmd 1.8.1 or 1.8.2 on Linux not starting text interpreter (Fri Jun 18 2004 - 02:13:23 CDT)
- Re: Vmd 1.8.1 or 1.8.2 on Linux not starting text interpreter (Thu Jun 17 2004 - 11:17:43 CDT)
- Re: Vmd 1.8.1 or 1.8.2 on Linux not starting text interpreter (Wed Jun 16 2004 - 11:56:18 CDT)
- Vmd 1.8.1 or 1.8.2 on Linux not starting text interpreter (Wed Jun 16 2004 - 05:02:23 CDT)
- "Distributed Cavelib" VMD port (Fri Sep 12 2003 - 09:01:33 CDT)
- Re: Problem with Vmd on SGI + Cavelib (Wed Jul 16 2003 - 08:22:29 CDT)
- Re: Problem with Vmd on SGI + Cavelib (Sat Jul 12 2003 - 06:20:52 CDT)
- Problem with Vmd on SGI + Cavelib (Fri Jul 11 2003 - 06:37:10 CDT)
Ronald Cohen
- Re: VMD reads vasp files with variable cells incorrectly (Sun Aug 04 2024 - 18:10:38 CDT)
- Re: VMD reads vasp files with variable cells incorrectly (Fri Aug 02 2024 - 13:58:51 CDT)
- Re: VMD reads vasp files with variable cells incorrectly (Fri Aug 02 2024 - 12:07:35 CDT)
- Re: VMD reads vasp files with variable cells incorrectly (Wed Jul 31 2024 - 11:24:09 CDT)
- VMD reads vasp files with variable cells incorrectly (Mon Jul 29 2024 - 14:06:41 CDT)
- Re: pbc get -all fails (Tue Jul 16 2024 - 09:04:29 CDT)
- pbc get -all fails (Tue Jul 16 2024 - 08:47:25 CDT)
Ronald Salesky
- recognizing TCL variables in a matrix argument (Thu Apr 15 2010 - 16:06:56 CDT)
- Re: Generating nanotubes psf file (Mon Apr 05 2010 - 14:33:44 CDT)
- properly applying patches to create DPPC (Wed Mar 10 2010 - 18:33:59 CST)
- psfgen generates 0 atom .psf file (Fri Feb 12 2010 - 19:41:10 CST)
- Re: autopsf needs at least one atom error (Sun Jan 24 2010 - 14:09:57 CST)
- autopsf needs at least one atom error (Sun Jan 24 2010 - 12:43:51 CST)
- autopsf generator need at least one atom error (Sun Jan 24 2010 - 12:29:12 CST)
- NAMD can't malloc() error (Mon Oct 19 2009 - 12:44:55 CDT)
- Re: Rx for VMD crashing PC? (Fri Oct 02 2009 - 11:42:51 CDT)
- Rx for VMD crashing PC? (Thu Oct 01 2009 - 21:57:00 CDT)
- psf for CNT? (Wed Sep 09 2009 - 09:55:05 CDT)
Roni Saiba
- Re: VMD 1.9.4 NAMDEnergy plugin query (Mon Sep 30 2024 - 23:39:10 CDT)
- VMD 1.9.4 NAMDEnergy plugin query (Thu Sep 26 2024 - 22:56:50 CDT)
- Re: Working with trajectory and updating frames dependents on current frame (Thu Jul 18 2024 - 14:26:32 CDT)
- Re: NUMLP NUMLPH section eliminated by VMD 1.9.4a57 (Mon May 20 2024 - 22:22:06 CDT)
- Re: mol addfile (Fri Apr 19 2024 - 22:05:43 CDT)
- Visualization of new bonds created in LAMMPS simulation (Thu Dec 21 2023 - 01:05:23 CST)
- Re: SASA Cutoff Value for Residues on Protein Surface (Tue Nov 21 2023 - 22:02:41 CST)
- Re: Different results in using GUI or script Timelime (Mon Jun 13 2022 - 02:06:32 CDT)
- Re: Script Modification to Print Phi and Psi Angles (Tue Jun 07 2022 - 02:08:34 CDT)
- Re: Measure helicity at each frame (Sat Jun 19 2021 - 11:21:25 CDT)
- Measure helicity at each frame (Fri Jun 18 2021 - 21:09:24 CDT)
Ronit Sarangi
- How to use QMtool to extract internal coordinates (Mon Dec 02 2024 - 12:21:57 CST)
RonitS Chem
- Re: Calculating mean square displacement and removing PBC (Thu Oct 22 2020 - 14:33:57 CDT)
- Re: Calculating mean square displacement and removing PBC (Thu Oct 22 2020 - 14:16:06 CDT)
- Calculating mean square displacement and removing PBC (Thu Oct 22 2020 - 13:09:34 CDT)
root
- FYI:Re: CCL:md rookie update (fwd) (Thu Jan 08 1998 - 12:44:37 CST)
- FYI:CCL:md rookie update (fwd) (Thu Jan 08 1998 - 12:42:37 CST)
- FYI:Re: CCL:md rookie update (fwd) (Thu Jan 08 1998 - 12:41:23 CST)
- FYI:Re: CCL:md rookie update (fwd) (Thu Jan 08 1998 - 12:41:39 CST)
- other-endian dcd problem also when trajectory obtained over network? (Mon Dec 29 1997 - 09:19:31 CST)
- Re: unable to animate alanine.dcd (Mon Dec 08 1997 - 03:41:44 CST)
- Re: unable to animate alanine.dcd (Sat Dec 06 1997 - 08:08:16 CST)
- unable to animate alanine.dcd (Sat Dec 06 1997 - 07:26:43 CST)
- Re: molecular representation: new lead generation software (Fri Dec 05 1997 - 05:08:29 CST)
- Re: molecular representation: new lead generation software (Tue Dec 02 1997 - 06:18:33 CST)
- FIX:Re: difficulties with starting vmd (fwd) (Mon Dec 01 1997 - 09:25:02 CST)
- difficulties with starting vmd (Sat Nov 29 1997 - 07:38:28 CST)
Roozbeh
- Re: Problem to launch vmd1.9.4 (v2022-04-27) in wsl linux (Tue Mar 26 2024 - 05:09:21 CDT)
- Problem to launch vmd1.9.4 (v2022-04-27) in wsl linux (Fri Mar 22 2024 - 20:17:28 CDT)
Ropon-Palacios G.
- Umbrella sampling windows run (Wed Sep 15 2021 - 17:39:31 CDT)
- Re: Umbrella sampling windows (Sat Sep 04 2021 - 22:05:10 CDT)
- Re: Umbrella sampling windows (Sat Sep 04 2021 - 16:24:03 CDT)
- Umbrella sampling windows (Sat Sep 04 2021 - 13:19:49 CDT)
- Re: VMD Error: vecsub: two vectors don't have the same size (Thu Aug 26 2021 - 19:45:47 CDT)
- Asymmetric concentration gradient (Mon Aug 23 2021 - 21:08:19 CDT)
- Glycosphingolipids structure (Tue Aug 17 2021 - 15:42:38 CDT)
- Print array (Mon Aug 09 2021 - 17:54:01 CDT)
- Re: Write umbrella windows (Mon Aug 09 2021 - 10:58:46 CDT)
- Write umbrella windows (Sun Aug 08 2021 - 23:31:54 CDT)
- Re: Hydrogen mass repartition PSFGen2.0 (Sat Aug 07 2021 - 19:35:14 CDT)
- Re: Hydrogen mass repartition PSFGen2.0 (Sat Aug 07 2021 - 18:20:43 CDT)
- Re: Hydrogen mass repartition PSFGen2.0 (Sat Aug 07 2021 - 15:20:53 CDT)
- Re: Hydrogen mass repartition PSFGen2.0 (Sat Aug 07 2021 - 14:57:32 CDT)
- Re: Hydrogen mass repartition PSFGen2.0 (Sat Aug 07 2021 - 13:52:04 CDT)
- Hydrogen mass repartition PSFGen2.0 (Fri Aug 06 2021 - 13:52:10 CDT)
- Re: Unwrap for diffusion phenomena? (Tue Jul 13 2021 - 15:53:39 CDT)
- Re: Unwrap for diffusion phenomena? (Tue Jul 13 2021 - 15:36:43 CDT)
- Unwrap for diffusion phenomena? (Tue Jul 13 2021 - 14:01:04 CDT)
- Jarzynski analysis (Sun Jun 13 2021 - 22:26:03 CDT)
- Re: Found bad contact (Thu Jun 10 2021 - 10:23:46 CDT)
- Found bad contact (Thu Jun 10 2021 - 10:19:13 CDT)
ROPÃ“N-PALACIOS G.
- Select waters inside cylinder (Tue Mar 21 2023 - 16:25:47 CDT)
ROPÃ“N-PALACIOS G. G.
- Re: <<measure command>> (Sat Sep 23 2023 - 09:16:15 CDT)
RopÃ³n-Palacios G.
- Re: Re: <<cionize on macOS error>> (Mon Sep 25 2023 - 17:23:40 CDT)
- Re: Re: <<cionize on macOS error>> (Mon Sep 25 2023 - 17:32:31 CDT)
- Re: Re: <<cionize on macOS error>> (Mon Sep 25 2023 - 16:24:51 CDT)
- Re: Re: <<cionize on macOS error>> (Mon Sep 25 2023 - 15:59:39 CDT)
- Re: <<cionize on macOS error>> (Mon Sep 25 2023 - 14:52:05 CDT)
- <<measure command>> (Thu Sep 21 2023 - 16:21:11 CDT)
ROPÓN-PALACIOS G. G.
- <<cionize on macOS error>> (Sun Sep 24 2023 - 06:57:26 CDT)
Rosanne Zeiler
- turning on the tcl/tk console in .vmdrc (Tue Sep 14 2010 - 06:18:13 CDT)
Rose, Stuart Wallace
- QwikMD - psfgen: patch and autogenerate (Thu May 03 2018 - 11:50:07 CDT)
- RE: VMD stops furing loading of DCD trajectory (Fri Mar 02 2018 - 17:26:51 CST)
- VMD stops furing loading of DCD trajectory (Fri Mar 02 2018 - 16:07:07 CST)
- RE: mdff: tutorial (Mon Jan 04 2016 - 21:07:11 CST)
- RE: mdff: tutorial (Wed Dec 30 2015 - 13:18:03 CST)
- RE: mdff: tutorial (Wed Dec 30 2015 - 12:11:49 CST)
- mdff: tutorial (Wed Dec 30 2015 - 09:55:01 CST)
- Cardiolipin residue names changed by vmd (Tue Aug 05 2014 - 19:30:02 CDT)
Roshan Shrestha
- Re: VMD always open from home folder in Mac (Thu Nov 21 2024 - 08:57:23 CST)
- VMD always open from home folder in Mac (Wed Nov 20 2024 - 11:40:19 CST)
- Formatting of text in label (Fri Apr 21 2023 - 09:14:41 CDT)
- Re: Re: Visualisation of CG bonds (Mon Jun 27 2022 - 08:47:31 CDT)
- Re: running TCL script (Tue Sep 14 2021 - 05:35:25 CDT)
- Re: confusing about the residue number (Wed Dec 09 2020 - 23:18:50 CST)
- Re: Translation Script (Thu Nov 12 2020 - 01:10:58 CST)
- Re: VMD clustering of conformations (Sat Nov 07 2020 - 05:37:31 CST)
- Selection by Atom Number or Fragments (Sat Jan 18 2020 - 02:55:47 CST)
- catdcd error (Sat Jun 15 2019 - 04:02:46 CDT)
- PDB manipulation options (Wed May 29 2019 - 12:41:37 CDT)
- Check if the lysine residues are deprotonated or not inside the membrane ? (Fri May 24 2019 - 08:55:40 CDT)
- Re: Query regarding H-bond (Sat Apr 27 2019 - 08:45:33 CDT)
- Conversion from gromacs trr trajectory into charmm trajectory (Mon Jan 28 2019 - 23:14:21 CST)
- Re: diffusion coefficient tool (Wed May 16 2018 - 06:21:40 CDT)
- Rotate a specific residue and save the coordinates in VMD (Tue Jan 16 2018 - 22:25:01 CST)
- View sidechains in VMD (Mon Jan 15 2018 - 22:51:22 CST)
- contact map in Rainbow scale (Fri Jan 12 2018 - 11:55:56 CST)
- Save contact map data in other formats besides postscript (Wed Dec 20 2017 - 17:20:23 CST)
- Contact map using VMD Contact Map Plugin (Tue Dec 19 2017 - 20:49:22 CST)
- Study the hydrogen bond in VMD (Sat Sep 02 2017 - 06:19:11 CDT)
- Re: autoionize not neutralizing the system (Sun Aug 06 2017 - 11:50:49 CDT)
- Viewing single lipid layer in vmd (Mon Jul 31 2017 - 03:42:05 CDT)
- Extract coordinates from a pdb file (Mon Jun 12 2017 - 04:19:00 CDT)
- Finding .vmdrc in LINUX(UBUNTU) (Sat Apr 29 2017 - 01:31:54 CDT)
- Points of interaction in DNA linked proteins (Thu Dec 08 2016 - 20:46:04 CST)
- Size of POPC membrane (Fri Oct 07 2016 - 04:27:11 CDT)
- POPC membrane equilibration (Mon Oct 03 2016 - 08:11:23 CDT)
- Unable to create psf (Sat May 07 2016 - 09:43:03 CDT)
Roshan Tasgaonkar
- (no subject) (Mon Mar 15 2010 - 18:07:34 CDT)
- (no subject) (Wed Mar 10 2010 - 22:55:31 CST)
- (no subject) (Mon Mar 08 2010 - 12:21:08 CST)
- (no subject) (Tue Sep 08 2009 - 20:48:01 CDT)
Ross Gunderson
- OpenGL acceleration from eGPU? (Thu Apr 18 2019 - 10:08:22 CDT)
Ross J. Toedte
- stripping off oxygen groups (Thu Feb 12 2004 - 14:31:39 CST)
- keyframe animations (Tue Sep 23 2003 - 07:04:25 CDT)
- animation with PDBs (Thu Nov 07 2002 - 10:10:09 CST)
- VMD 1.7.1 (Thu May 09 2002 - 13:57:02 CDT)
Ross Williams
- Setting graphical representations from the command line (Fri Apr 10 2020 - 14:36:07 CDT)
rossi_at_york.cuny.edu
- Re: Corrupt cpmd-vmd.pdf File? (Mon Aug 20 2007 - 20:03:02 CDT)
- Corrupt cpmd-vmd.pdf File? (Fri Aug 03 2007 - 05:46:07 CDT)
- Corrupt cpmd-vmd.pdf File? (Fri Aug 03 2007 - 05:42:54 CDT)
- Re: Problem with Reading Binary ccp4 File Generated by CHARMM (Thu Apr 05 2007 - 18:56:08 CDT)
- Problem with Reading Binary ccp4 File Generated by CHARMM (Thu Apr 05 2007 - 11:32:02 CDT)
- Use VMD Graphics Primitives to Construct Stilized Cyclodextrins (Thu Nov 17 2005 - 16:31:01 CST)
- Use VMD Primitives to Construct Stilized Cyclodextrins (Thu Nov 17 2005 - 07:14:02 CST)
- Re: makefile not generated from configure (Thu Aug 19 2004 - 14:12:29 CDT)
- makefile not generated from configure (Wed Aug 18 2004 - 19:05:15 CDT)
Royce Rosa
- Inexpensive Louis Vuitton bags (Sat Apr 12 2008 - 18:57:58 CDT)
rschurhammer_at_chimie.u-strasbg.fr
- VMD and CPMD (Wed Jan 26 2005 - 04:47:23 CST)
Rubner, Oliver
- 3D hardware (Wed Oct 17 2018 - 03:52:54 CDT)
Ruchi Sachdeva
- psfgen: auto none not working (Mon Jun 15 2009 - 03:57:25 CDT)
- error while generating a tetramer using transformation matrix (Wed Jun 27 2007 - 01:15:28 CDT)
Rudesh Toofanny
- Measuring distances between two sets of atoms in a dcd file (Tue Oct 28 2003 - 10:32:51 CST)
Rudra Banerjee
- Re: atom type (Thu Oct 02 2008 - 22:57:47 CDT)
- Re: atom type (Thu Oct 02 2008 - 12:14:25 CDT)
- atom type (Tue Sep 30 2008 - 23:28:58 CDT)
- water box (Tue Sep 30 2008 - 03:48:37 CDT)
- Re: psf file generation: once again (Wed Sep 24 2008 - 23:42:22 CDT)
- psf file generation: once again (Wed Sep 24 2008 - 22:45:49 CDT)
- Re: psf file generation: once again (Wed Sep 24 2008 - 23:11:04 CDT)
- Re: namd-l: solvate a molecule (Tue Sep 23 2008 - 22:32:53 CDT)
- Re: solvate a molecule (Mon Sep 22 2008 - 23:52:34 CDT)
- Re: solvate a molecule (Sat Sep 20 2008 - 09:47:50 CDT)
- solvate a molecule (Sat Sep 20 2008 - 01:08:03 CDT)
- Re: psfgen problem (Thu Sep 18 2008 - 21:48:08 CDT)
- Re: psfgen problem (Thu Sep 18 2008 - 09:34:14 CDT)
- Re: problem with psf file generation (Thu Sep 18 2008 - 03:29:07 CDT)
- psfgen problem (Thu Sep 18 2008 - 01:45:55 CDT)
- problem with psf file generation (Thu Sep 18 2008 - 01:12:44 CDT)
- generate psf structure (Sat Sep 06 2008 - 04:15:25 CDT)
- diffusion coefficient from rmsd (Wed Aug 27 2008 - 21:55:28 CDT)
- Re: g(r) (Thu Jul 31 2008 - 00:46:01 CDT)
- g(r) (Wed Jul 30 2008 - 12:13:40 CDT)
- solvating protein, fixed residue (Mon Jul 28 2008 - 13:01:56 CDT)
- water box...density!!! (Mon Jul 28 2008 - 05:02:55 CDT)
Rudy Puckett
- Hot replica watches from 2008 (Sun Apr 27 2008 - 14:53:15 CDT)
Rudy Richardson
- Re: Running VMD 1.9.4alpha on newer GPUs that require CUDA 11+ and OptiX 7+ (Wed Feb 01 2023 - 15:59:36 CST)
- Re: Running VMD 1.9.4alpha on newer GPUs that require CUDA 11+ and OptiX 7+ (Tue Jan 31 2023 - 10:22:04 CST)
- Change Font on VMD Main Window -- Linux (Thu Jan 07 2021 - 14:42:13 CST)
Ruggero Cortini
- Re: tkcon cursors not working (Tue Jan 31 2017 - 09:41:50 CST)
- tkcon cursors not working (Wed May 25 2016 - 03:36:47 CDT)
Ruijie Darius Teo
- Re: Couldn't read internal coordinate table and list index out of range (Tue Feb 23 2021 - 20:23:57 CST)
- Re: Couldn't read internal coordinate table and list index out of range (Tue Feb 23 2021 - 19:24:42 CST)
- Couldn't read internal coordinate table and list index out of range (Tue Feb 23 2021 - 13:58:49 CST)
ruiyan
- simulation box moves in VMD when read lammps trajectory (Mon Jul 10 2017 - 17:34:40 CDT)
- Re: Re: problem of displaying simulation box (Fri Jun 16 2017 - 12:21:42 CDT)
- problem of displaying simulation box (Fri Jun 16 2017 - 10:04:30 CDT)
Rukman Hertadi
- new color scale (Tue May 06 2003 - 00:44:46 CDT)
- Movie Script (Wed Apr 23 2003 - 04:27:43 CDT)
- Color code (Thu Mar 20 2003 - 01:42:37 CST)
- SASA (Fri Jan 31 2003 - 03:59:16 CST)
- cylindrical water (Fri Jan 24 2003 - 04:22:28 CST)
- creating spherical water droplet (Thu Dec 26 2002 - 19:41:52 CST)
Runak R
- save the secondary structure and rmsd (Fri Oct 08 2021 - 10:18:17 CDT)
- Question about secondary structure analysis (Mon Sep 13 2021 - 11:36:43 CDT)
Rune Thomas Kidmose
- Namdinator - a web service for automatic MDFF simulations (Mon Feb 18 2019 - 13:22:17 CST)
- Re: AutoPSF error with glycana (end of segment error) (Tue Oct 23 2018 - 10:21:44 CDT)
- Sv: AutoPSF error with glycana (end of segment error) (Mon Oct 22 2018 - 15:45:04 CDT)
- MDFF Check CCC problem (Thu Aug 30 2018 - 03:13:28 CDT)
- Sv: problem with mol IDs when running script from same VMD session. (Sun Jun 03 2018 - 14:33:45 CDT)
- problem with mol IDs when running script from same VMD session. (Sun Jun 03 2018 - 14:02:31 CDT)
- Changing isosurface wireframe thickness when rendering with TachyonL (Wed Mar 21 2018 - 07:39:19 CDT)
- Re: MDFF multiple PDB and PSF (Mon Mar 12 2018 - 11:49:41 CDT)
- MDFF multiple PDB and PSF (Mon Mar 12 2018 - 09:14:32 CDT)
- Sv: TachyonL-optix rendering question (Wed Mar 07 2018 - 12:59:54 CST)
- TachyonL-optix rendering question (Wed Mar 07 2018 - 09:49:40 CST)
- Sv: Sv: MDFF rotation (Wed Feb 28 2018 - 13:43:33 CST)
- Sv: MDFF rotation (Mon Feb 26 2018 - 08:12:57 CST)
- MDFF rotation (Mon Feb 26 2018 - 03:48:08 CST)
- Re: AW: Obtaining VMD view matrices for tcl script (Mon Feb 19 2018 - 04:15:43 CST)
- Obtaining VMD view matrices for tcl script (Mon Feb 19 2018 - 01:18:59 CST)
- Sv: MDFF Check -ccc in different VMD versions (Wed Jan 17 2018 - 14:36:12 CST)
- Re: Tachyon OptiX vs OSPRay for isosurface and clipping control (Mon Oct 02 2017 - 06:14:05 CDT)
- Tachyon OptiX vs OSPRay for isosurface and clipping control (Sun Oct 01 2017 - 14:20:13 CDT)
- MDFF Check -ccc in different VMD versions (Fri Sep 15 2017 - 05:36:46 CDT)
Rupashree Shyama Ray
- H-bond analysis (Wed Jun 29 2011 - 09:15:50 CDT)
- rdf for specific group of atoms (Wed Jun 15 2011 - 08:29:29 CDT)
Russell Poyner
- Problem with VMD on linux with Xig solved (Wed Jul 24 2002 - 13:18:43 CDT)
- Re: Problem installing on linux (Fri Jul 12 2002 - 12:43:03 CDT)
- Problem installing on linux (Thu Jul 11 2002 - 16:16:18 CDT)
Russell, John Thomas
- how to download & install QMTool plugin (Wed Apr 14 2010 - 09:33:33 CDT)
rwiese_at_unr.edu
- Re: Membrane plugin error? (Wed Jun 08 2005 - 14:04:49 CDT)
- Membrane plugin error? (Wed Jun 08 2005 - 12:37:14 CDT)
Ryan Golhar
- RE: GLXBadLargeRequest (Thu Jul 29 2004 - 14:20:06 CDT)
- GLXBadLargeRequest (Thu Jul 29 2004 - 13:52:35 CDT)
- Compiling VMD (Wed Jul 28 2004 - 21:20:12 CDT)
Ryan Hoffman
- RE: Issues with tachyon internal renderer (Fri Jan 03 2014 - 16:32:14 CST)
- RE: Issues with tachyon internal renderer (Fri Jan 03 2014 - 16:07:52 CST)
- 'percent' symbol syntax in .conf file? (Sat Dec 21 2013 - 09:49:40 CST)
Ryan McGreevy
- Re: Decrease in CC during MDFF (Fri Sep 20 2019 - 07:34:34 CDT)
- Re: ssrestraints errors (Wed Aug 28 2019 - 13:18:08 CDT)
- Re: ssrestraints errors (Wed Aug 28 2019 - 12:50:35 CDT)
- Re: Local isosurface (Mon Jul 29 2019 - 14:34:30 CDT)
- Re: volutil option (Mon May 20 2019 - 08:36:26 CDT)
- Re: Move volumetric data with their associated PDB (Tue Feb 19 2019 - 13:17:05 CST)
- Re: Move volumetric data with their associated PDB (Tue Feb 19 2019 - 12:33:06 CST)
- Re: Error: invalid command name "voltool" (Tue Feb 19 2019 - 10:57:35 CST)
- Re: MDFF through VMD Error FATAL ERROR: DIDN'T FIND vdW PARAMETER FOR ATOM TYPE OT (Fri Dec 21 2018 - 10:44:42 CST)
- Re: MDFF Check CCC problem (Fri Aug 31 2018 - 15:57:15 CDT)
- Re: MDFF Check CCC problem (Thu Aug 30 2018 - 10:20:49 CDT)
- Re: problem with mol IDs when running script from same VMD session. (Sun Jun 03 2018 - 14:40:31 CDT)
- Re: MDFF multiple PDB and PSF (Mon Mar 12 2018 - 11:35:40 CDT)
- Re: Sv: MDFF rotation (Wed Feb 28 2018 - 13:58:48 CST)
- Re: MDFF rotation (Mon Feb 26 2018 - 12:58:53 CST)
- Re: MDFF rotation (Mon Feb 26 2018 - 07:47:24 CST)
- Re: OS X Connection between VMD and AutoIMD (Fri Feb 09 2018 - 09:27:03 CST)
- Re: MDFF Check -ccc in different VMD versions (Wed Jan 17 2018 - 14:49:09 CST)
- Re: MDFF Check -ccc in different VMD versions (Fri Sep 15 2017 - 08:56:03 CDT)
- Re: MDFF time line ccc score (Wed May 24 2017 - 12:21:17 CDT)
- Re: MDFF time line ccc score (Wed May 24 2017 - 11:07:44 CDT)
- Re: MDFF time line ccc score (Wed May 24 2017 - 10:03:52 CDT)
- Re: MDFF time line ccc score (Wed May 24 2017 - 10:11:47 CDT)
- Re: MDFF time line ccc score (Wed May 24 2017 - 09:16:19 CDT)
- Re: convert .mrc map to .dx format (Fri Mar 03 2017 - 10:08:58 CST)
- Re: MDFF using Martini (Mon Oct 24 2016 - 16:58:47 CDT)
- Re: Simulations cutting out due to per-atom velocity (Thu Oct 06 2016 - 15:08:44 CDT)
- Re: Save work in the middle of chirality correction (Fri Sep 30 2016 - 11:39:04 CDT)
- Re: how to analyze fitting structure into density map (Thu Mar 03 2016 - 13:36:28 CST)
- Re: how to analyze fitting structure into density map (Wed Mar 02 2016 - 18:51:04 CST)
- Re: how to analyze fitting structure into density map (Tue Mar 01 2016 - 23:28:07 CST)
- Re: how to analyze fitting structure into density map (Tue Mar 01 2016 - 11:09:45 CST)
- Re: mdff: tutorial (Tue Jan 05 2016 - 00:47:27 CST)
- Re: mdff: tutorial (Wed Dec 30 2015 - 12:35:30 CST)
- Re: mdff: tutorial (Wed Dec 30 2015 - 10:51:33 CST)
- Re: extract certain part of atoms into separate file (Thu Nov 19 2015 - 08:41:56 CST)
- Re: extract certain part of atoms into separate file (Wed Nov 18 2015 - 10:26:45 CST)
- Re: Re: Problem with assignation of secondary structure in VMD (Wed Sep 09 2015 - 10:37:09 CDT)
- Re: why vmd cannot load situs type file in MDFF? (Wed Aug 12 2015 - 10:28:57 CDT)
- Re: About mdffi cc (Thu Aug 06 2015 - 16:22:17 CDT)
- Re: vmd error xMDFF (Thu Jun 25 2015 - 17:14:58 CDT)
- Re: vmd error xMDFF (Thu Jun 25 2015 - 16:29:42 CDT)
- Re: Why the 4ake-target_autopsf.situs can not be generated in MDFF tutorial? (Fri May 29 2015 - 14:18:19 CDT)
- Re: Setting up a truncation cutoff fro volumetric data (Tue Apr 28 2015 - 10:06:28 CDT)
- Re: Align a trajectory (Thu Mar 19 2015 - 10:29:00 CDT)
- Re: MDFF plugin calculating ccc (Mon Feb 23 2015 - 10:50:26 CST)
- Re: MDFF plugin calculating ccc (Tue Feb 17 2015 - 11:24:58 CST)
- Re: MDFF plugin calculating ccc (Tue Feb 17 2015 - 10:19:48 CST)
- Re: Cross-correlation coefficient calculated MDFF package (Mon Feb 09 2015 - 10:36:55 CST)
- Re: converting a .cif file into a vmd readable format, how? (Thu Oct 23 2014 - 12:45:44 CDT)
- Re: converting a .cif file into a vmd readable format, how? (Thu Oct 23 2014 - 13:01:11 CDT)
- Re: MDFF simulations (Tue Aug 12 2014 - 11:31:31 CDT)
- Re: MDFF simulations (Tue Aug 12 2014 - 10:17:34 CDT)
- Re: MDFF simulations (Mon Aug 11 2014 - 21:09:34 CDT)
- Re: MDFF simulations (Mon Aug 11 2014 - 12:24:26 CDT)
- Re: MDFF for multiple subunits (Wed Jul 23 2014 - 14:37:01 CDT)
- Re: MDFF for multiple subunits (Mon Jul 21 2014 - 14:49:55 CDT)
- Re: Multiple proteins in MDFF? (Wed Mar 26 2014 - 11:25:55 CDT)
- Re: strange problems adding extra bonds to interactive simulations (Thu Jan 16 2014 - 13:22:47 CST)
- Re: strange problems adding extra bonds to interactive simulations (Fri Jan 10 2014 - 10:06:47 CST)
- Re: Display CCP4 density map around selection only (Sun Aug 04 2013 - 20:14:57 CDT)
- Re: Problems with MDFF tutorial (Thu Jun 27 2013 - 12:41:52 CDT)
- Re: Problems with MDFF tutorial (Wed Jun 26 2013 - 11:00:40 CDT)
- Re: MDFF difficulties with mdff sim command (Wed May 29 2013 - 14:32:53 CDT)
- Re: MDFF difficulties with mdff sim command (Fri May 24 2013 - 15:10:27 CDT)
- Re: MDFF difficulties with mdff sim command (Fri May 24 2013 - 14:37:23 CDT)
Ryan P Steele
- Re: VMD and latest XQuartz update (Mon Mar 20 2017 - 23:20:27 CDT)
Ryan P. Steele
- Re: VMD and latest XQuartz update (Thu Mar 16 2017 - 15:28:19 CDT)
- VMD and latest XQuartz update (Thu Mar 16 2017 - 14:50:53 CDT)
Ryan Pavlovicz
- coloring by atom type (Fri Apr 17 2009 - 15:53:29 CDT)
- drawing lines (Tue Nov 25 2008 - 12:38:31 CST)
- velocity calculations (Wed Oct 15 2008 - 10:18:50 CDT)
- Re: loading python (Thu Oct 09 2008 - 22:10:44 CDT)
- loading python (Thu Oct 09 2008 - 15:21:15 CDT)
Ryan Woltz
- change order of atoms in save trajectory from input (Tue Apr 01 2025 - 16:15:12 CDT)
- Re: pbc box unwrapping/wrapping error infinite bond angles/box sides (Mon Aug 12 2024 - 14:42:56 CDT)
- pbc box unwrapping/wrapping error infinite bond angles/box sides (Fri Aug 09 2024 - 17:58:42 CDT)
- Re: loading multiple pdbs as frames and the filenames (Wed Jun 26 2024 - 18:41:17 CDT)
- Re: loading multiple pdbs as frames and the filenames (Wed Jun 26 2024 - 18:29:44 CDT)
- loading multiple pdbs as frames and the filenames (Wed Jun 26 2024 - 13:03:11 CDT)
- Re: saving a PDB in a different order than it was loaded (Fri May 03 2024 - 11:21:01 CDT)
- saving a PDB in a different order than it was loaded (Thu May 02 2024 - 21:30:39 CDT)
- Re: bash calling multiple python scripts that open vmd pauses (Sat Jan 21 2023 - 21:47:48 CST)
- Re: bash calling multiple python scripts that open vmd pauses (Sat Jan 21 2023 - 17:26:02 CST)
- bash calling multiple python scripts that open vmd pauses (Sat Jan 21 2023 - 04:30:13 CST)
- tcl measure bond length script (Tue Sep 13 2022 - 17:25:08 CDT)
- protein residue not being recognized as protein (Fri Jun 17 2022 - 17:12:28 CDT)
- Re: protein and lipid jumping (Sun Oct 24 2021 - 13:47:18 CDT)
- Re: protein and lipid jumping (Sat Oct 23 2021 - 01:01:48 CDT)
- Re: protein and lipid jumping (Fri Oct 22 2021 - 23:34:08 CDT)
- Re: protein and lipid jumping (Fri Oct 22 2021 - 21:57:27 CDT)
- protein and lipid jumping (Fri Oct 22 2021 - 15:05:58 CDT)
- Re: partially loading all dcd files using animatedcds X_ChangeProperty: BadValue (Fri Oct 22 2021 - 14:41:40 CDT)
- partially loading all dcd files using animatedcds X_ChangeProperty: BadValue (Sun Oct 10 2021 - 10:27:00 CDT)
s lal badshah
- installation on suse linux 10.3 (Wed Dec 26 2007 - 23:28:27 CST)
S. Jamal Rahi
- VMD Mutator, which side chain rotamer? (Wed Jul 02 2008 - 07:30:32 CDT)
- VMD Mutator, which side chain rotamer? (Wed Jul 02 2008 - 07:20:52 CDT)
S.G.Falkovich
- change color from script (Wed Oct 13 2004 - 04:27:06 CDT)
- problem with memory (Tue Sep 07 2004 - 04:58:35 CDT)
s.hogg_at_ic.ac.uk
- Surface plots (Tue Jan 20 1998 - 10:50:04 CST)
- VMD on a DEC? (Wed Jan 14 1998 - 07:15:56 CST)
- Latest Linux News? (Fri Jul 04 1997 - 13:58:40 CDT)
S.K. Ghosh
- Re: measure forces applied in VMD (Tue Jul 08 2008 - 20:11:19 CDT)
- measure forces applied on VMD (Mon Jul 07 2008 - 16:18:17 CDT)
- Error using namdstat.tcl script (Mon Jun 30 2008 - 10:51:20 CDT)
- Making a water-only sphere (Mon Jun 23 2008 - 14:21:08 CDT)
- On solvate plugin (Mon Jun 23 2008 - 07:22:06 CDT)
- On solvate plugin (Mon Jun 23 2008 - 07:23:00 CDT)
- save NAMD plot as a picture (Thu Jun 19 2008 - 14:00:30 CDT)
- Using NAMD Energy Plugin (Tue May 20 2008 - 07:18:35 CDT)
- creating psf from pgn (Tue Apr 29 2008 - 13:42:45 CDT)
s.schweizer_at_dkfz-heidelberg.de
- aligning one molecule (Wed Feb 14 2007 - 08:47:41 CST)
s104fendy
- Need help about hbond and saltbridge (Fri May 18 2007 - 03:07:05 CDT)
saam
- Re: Reading output of quantum packages and plotting orbitals (Fri Oct 23 2009 - 10:21:07 CDT)
- Re: Reading output of quantum packages and plotting orbitals (Fri Oct 23 2009 - 08:39:32 CDT)
- Re: viewing MOs (Fri Aug 28 2009 - 15:37:59 CDT)
- Need GAMESS logfiles for testing VMD's new QM interface (Thu Jul 09 2009 - 11:58:08 CDT)
- Re: Paratool:Problems to load Hessian for charge distribution (Sat May 09 2009 - 08:06:00 CDT)
- Re: Solvation energies using implicit ligand sampling (Mon May 04 2009 - 14:31:31 CDT)
- Re: about paratool (Tue Mar 11 2008 - 11:56:45 CDT)
Sabine Leroch
- Paratool:Problems to load Hessian for charge distribution (Fri May 08 2009 - 11:12:05 CDT)
Sabine Reisser
- Surface won't close (Mon Feb 18 2013 - 09:45:38 CST)
- Re: Licorice in transparent surface visualisation (Fri Feb 15 2013 - 09:58:06 CST)
- Licorice in transparent surface visualisation (Fri Feb 15 2013 - 08:57:40 CST)
- Full-Screen display (Tue Dec 04 2012 - 06:54:47 CST)
- Get objects from precompiled VMD? (Thu Sep 27 2012 - 04:32:01 CDT)
- Printing accessible hydrophobic surface area (Mon Sep 24 2012 - 09:41:04 CDT)
- Re: APBS location in vmdrc ? (Mon Sep 24 2012 - 09:14:11 CDT)
- APBS location in vmdrc ? (Mon Sep 17 2012 - 10:51:52 CDT)
Sabuj Pattanayek
- Re: TXT program editor (Thu Aug 28 2008 - 17:03:11 CDT)
- Re: vmd/vista32b/zalman M220 stereo? (Fri Jun 20 2008 - 19:18:59 CDT)
- RealD (Stereographics) E2SGI emitter on Quadro 3450? (Fri Aug 18 2006 - 20:25:24 CDT)
- Re: Feature request: output to Blender 3D modelling software (Tue Jul 11 2006 - 13:19:33 CDT)
- Re: ati interlace mode (Thu May 18 2006 - 20:54:06 CDT)
- Re: ati interlace mode (Wed May 17 2006 - 16:44:11 CDT)
- Re: ati interlace mode (Mon May 15 2006 - 17:00:20 CDT)
- Re: vmd-1.8.4b10/Linux amd64 only libstdc++.so.6 dependancy (Thu Feb 09 2006 - 13:58:18 CST)
- Re: crash on ubuntu linux (Sun Sep 04 2005 - 13:32:25 CDT)
- Re: Intersurf & MAC OSX 10.3 (Tue Aug 23 2005 - 19:40:30 CDT)
- Re: VMD fails to run (Mon Aug 22 2005 - 11:17:58 CDT)
- Re: [PyMOL] nVidia Driver 7664 for Linux (Thu Jun 02 2005 - 13:57:54 CDT)
- Re: Re: fglrx driver workaround? (Tue May 17 2005 - 14:15:47 CDT)
- Re: VMD crash on athlon64 with licorice representation (Thu May 12 2005 - 18:08:43 CDT)
- Re: VMD crash on athlon64 with licorice representation (Thu May 12 2005 - 13:21:48 CDT)
- Re: VMD crash on athlon64 with licorice representation (Wed May 11 2005 - 18:18:06 CDT)
- Re: console in vmd-1.8.3 amd64 is blank (like white text on white background) so I can't see any output messages (Thu Apr 21 2005 - 17:46:59 CDT)
- Re: console in vmd-1.8.3 amd64 is blank (like white text on white background) so I can't see any output messages (Thu Apr 21 2005 - 17:32:55 CDT)
- console in vmd-1.8.3 amd64 is blank (like white text on white background) so I can't see any output messages (Thu Apr 21 2005 - 17:19:57 CDT)
- Re: Choice of a Linux machine for VMD and high-end computing (Wed Apr 06 2005 - 15:39:19 CDT)
- Re: [PyMOL] NVidia [7174] Drivers & Nuccyl (Fri Apr 01 2005 - 14:24:34 CST)
- Re: vmd and Re: [PyMOL] pymol crashes with new [7167] nvidia driver (Tue Mar 29 2005 - 11:55:03 CST)
- Re: vmd and Re: [PyMOL] pymol crashes with new [7167] nvidia driver (Tue Mar 29 2005 - 11:11:54 CST)
- Re: vmd and Re: [PyMOL] pymol crashes with new [7167] nvidia driver (Sat Mar 26 2005 - 16:45:31 CST)
- vmd and Re: [PyMOL] pymol crashes with new [7167] nvidia driver (Sat Mar 26 2005 - 16:42:42 CST)
- Re: init.tcl startup problem with vmd 1.8.3 (but 1.8.2 works) (Wed Mar 09 2005 - 13:12:33 CST)
- Re: init.tcl startup problem with vmd 1.8.3 (but 1.8.2 works) (Wed Mar 09 2005 - 12:53:36 CST)
- init.tcl startup problem with vmd 1.8.3 (but 1.8.2 works) (Wed Mar 09 2005 - 12:41:13 CST)
- Re: nvidia quadro, linux_x86, and performance difference w/nvidia drivers 1.0.5336 vs anything newer or older on VMD 1.8.2 (Tue Jan 04 2005 - 18:17:30 CST)
- Re: nvidia quadro, linux_x86, and performance difference w/nvidia drivers 1.0.5336 vs anything newer or older on VMD 1.8.2 (Tue Jan 04 2005 - 17:28:46 CST)
- nvidia quadro, linux_x86, and performance difference w/nvidia drivers 1.0.5336 vs anything newer or older on VMD 1.8.2 (Tue Jan 04 2005 - 16:06:39 CST)
Sacerdoti, Federico
- VMD performance bottlenecks (Tue Jun 27 2006 - 09:24:16 CDT)
- RE: python Numeric library problem (Wed Apr 05 2006 - 20:16:44 CDT)
- python Numeric library problem (Tue Apr 04 2006 - 11:11:16 CDT)
Sachin Natesh
- Lipid Bilayer Shearing (Tue Aug 16 2016 - 12:01:15 CDT)
- Image Flags (Thu Jun 30 2016 - 20:36:07 CDT)
Sadegh Faramarzi Ganjabad
- Re: RMSD of lipid molecules (Fri Apr 27 2018 - 12:25:06 CDT)
- Re: RMSD of lipid molecules (Fri Apr 27 2018 - 11:38:34 CDT)
- RMSD of lipid molecules (Thu Apr 26 2018 - 23:30:21 CDT)
- different hydrogen bond results for the same system (Tue Jun 06 2017 - 14:42:33 CDT)
- different hydrogen bond results for the same system (Mon Jun 05 2017 - 15:27:57 CDT)
- Re: hbonds with noncommon atom names (Thu Mar 02 2017 - 15:03:49 CST)
- Re: hbonds with noncommon atom names (Tue Feb 28 2017 - 18:34:33 CST)
- hbonds with noncommon atom names (Thu Feb 23 2017 - 23:52:24 CST)
- Modifying vmd permeation.tcl script (Wed Apr 13 2016 - 01:21:48 CDT)
- Radial distribution function from center of mass (Tue Mar 22 2016 - 11:35:24 CDT)
- Re: Units of moments of inertia (Fri Mar 18 2016 - 14:00:43 CDT)
- Units of moments of inertia (Mon Mar 14 2016 - 17:43:06 CDT)
- How to delete unwanted atoms from PSF (Tue May 20 2014 - 22:40:59 CDT)
sadia tanweer
- how to create psf of cyclodextrin in vmd (Fri Jun 19 2015 - 03:19:01 CDT)
saeed
- Re: Compile VMD (Thu Mar 06 2014 - 06:37:06 CST)
- Compile VMD (Wed Mar 05 2014 - 09:52:59 CST)
saeed amini
- dihedral angles of nonpolar hydrogen in FFTK (Sun Jun 18 2017 - 07:37:51 CDT)
- minimizing each structure of a DCD file (Sun Jan 22 2017 - 06:43:24 CST)
- psf for a DNA chain (Wed Jan 18 2017 - 06:44:21 CST)
- Contacts among two sets of atoms (Mon Jan 02 2017 - 10:19:08 CST)
SaeeD PourasaD
- H.bond - VMD (Fri Jun 05 2015 - 01:04:40 CDT)
safron saif
- about psf file generation (Mon Aug 01 2011 - 07:22:08 CDT)
- File as video (Tue Jul 05 2011 - 00:02:36 CDT)
- About psf file (Wed Jun 29 2011 - 04:02:57 CDT)
- request to know about bonds in between carbon atoms in carbon nanotubes (Fri Apr 29 2011 - 03:54:53 CDT)
Sahithya Iyer
- making a movie of multiple molecules (Wed Apr 18 2018 - 08:50:54 CDT)
Sahu, Subin
- Re: hbonds vs measure hbonds (Thu Apr 28 2016 - 07:15:32 CDT)
- hbonds vs measure hbonds (Wed Apr 27 2016 - 11:05:04 CDT)
Saikat Pal
- Color change in VMD (Wed Jul 27 2022 - 10:33:12 CDT)
- Atom selection with asterisk atom name (Wed May 26 2021 - 02:00:59 CDT)
- finding number of atoms within a radius (Mon Sep 07 2020 - 00:54:08 CDT)
- Restrain a molecule in movie (Mon Jan 20 2020 - 08:56:30 CST)
- perform hbond analysis in the terminal (Sat Sep 07 2019 - 02:30:43 CDT)
- clustering tool is not working (Tue Aug 27 2019 - 00:38:21 CDT)
- VMD installation (Fri May 24 2019 - 06:55:34 CDT)
- Query regarding H-bond (Sat Apr 27 2019 - 08:06:19 CDT)
- calculate the percentage of beta-sheet and alpha helix with time evolution (Wed Apr 03 2019 - 00:24:11 CDT)
- Query regarding contact map (Sat Feb 23 2019 - 00:18:40 CST)
- Query regarding contact map (Wed Feb 20 2019 - 22:56:10 CST)
- Regarding image quality in vmd (Mon Feb 18 2019 - 04:35:08 CST)
- Query for the VolMap plugin (Thu Mar 15 2018 - 07:16:49 CDT)
- intel_do_flush_locked failed: Cannot allocate memory (Sat Sep 09 2017 - 00:07:35 CDT)
- rlwrap: Command not found. (Sat Sep 02 2017 - 01:07:17 CDT)
- install VMD IN parallel (Fri Sep 01 2017 - 05:59:37 CDT)
- convert frames to nano seconds (Wed Aug 16 2017 - 08:31:58 CDT)
Sajad Ahrari
- Vmd vs QUANTA (Tue Jun 14 2011 - 01:46:38 CDT)
- Vmd vs QUANTA (Mon Jun 13 2011 - 23:59:04 CDT)
sajad falsafi
- Re: Free software for building peptide (Wed May 02 2012 - 06:56:14 CDT)
- Re: Secondary structure assignment (Wed Feb 22 2012 - 01:39:07 CST)
- Re: Change coordinates (Thu Nov 24 2011 - 06:51:44 CST)
- Re: rlwrap problem on (Wed Nov 09 2011 - 02:53:43 CST)
- Re: average pdb from dcd file (Thu Oct 27 2011 - 11:40:38 CDT)
- Fw: angle calculation trajectory (Wed Oct 19 2011 - 01:11:39 CDT)
- Re: hbond analysis (Fri Oct 14 2011 - 08:06:08 CDT)
- Re: namd-l: SASA of PBD files (Sat Sep 03 2011 - 14:38:17 CDT)
- Re: package require help (Fri Aug 12 2011 - 04:05:33 CDT)
- Re: vmd (Sat Aug 06 2011 - 05:55:14 CDT)
- Re: about psf file generation (Tue Aug 02 2011 - 02:12:54 CDT)
- Re: how to change working directory of VMD? (Tue Jul 19 2011 - 14:02:57 CDT)
- Re: angle between two domains connected at a hinge (Fri Jul 15 2011 - 11:51:28 CDT)
- Re: Distance between atoms in frame (Wed Jul 06 2011 - 05:56:58 CDT)
- Re: File as video (Tue Jul 05 2011 - 03:25:15 CDT)
- Re: parameterization tool (Thu Jun 09 2011 - 11:40:57 CDT)
- Re: how do I show contacts with XXX angstroms between a protein and a ligand? (Tue Jun 07 2011 - 04:55:18 CDT)
- Fw: how do I show contacts with XXX angstroms between a protein and a ligand? (Sun Jun 05 2011 - 08:06:56 CDT)
- Re: how do I show contacts with XXX angstroms between a protein and a ligand? (Sat Jun 04 2011 - 08:26:14 CDT)
- submit VMD_SS script (Fri Jun 03 2011 - 11:35:20 CDT)
- submit VMD_SS script (Fri Jun 03 2011 - 00:59:22 CDT)
Sajeewa Pemasinghe
- Selecting waters between two given distances from a particular point (Fri Oct 19 2012 - 21:13:57 CDT)
Saketh Bharadwaja
- How to create bonds in VMD? (Fri Apr 01 2011 - 11:07:21 CDT)
Sakinah Ellickson
- Generating psf for uranyl ion (Mon Jun 15 2015 - 10:55:08 CDT)
Saladino, Alex
- Lipid Order Parameter (Tue Sep 20 2005 - 16:21:30 CDT)
- Area per lipid (Thu Aug 26 2004 - 11:00:55 CDT)
- HOLE output visualization (Tue Mar 16 2004 - 16:35:12 CST)
- Helical King Angle (Mon Feb 02 2004 - 16:41:45 CST)
- Helical Tilt Angle (Wed Jan 28 2004 - 08:31:56 CST)
- CatDCD Question (Tue Mar 04 2003 - 11:51:10 CST)
Sale, Kenneth L
- (no subject) (Mon Jul 18 2005 - 14:48:01 CDT)
sally cii
- Re: how to wrap trajectory into truncated octahedral box (Thu Jul 26 2007 - 07:03:51 CDT)
- Re: how to save a list in a file (Tue Jul 17 2007 - 11:58:39 CDT)
- Re: how to save a list in a file (Tue Jul 17 2007 - 09:09:45 CDT)
- Re: how to save a list in a file (Mon Jul 16 2007 - 07:12:14 CDT)
- how to save a list in a file (Fri Jul 13 2007 - 12:02:02 CDT)
- Re: atomselect (Tue Jul 10 2007 - 06:05:51 CDT)
- Re: atomselect (Tue Jul 10 2007 - 05:41:42 CDT)
- atomselect (Tue Jul 10 2007 - 03:03:23 CDT)
Sally Fisher
- Dipole Moment Monitoring (Mon Jun 06 2011 - 21:10:57 CDT)
- Residue Number Assignment by VMD (Fri May 28 2010 - 07:29:55 CDT)
- Residue Ordering in Sequence Viewer/MultiSeq (Wed May 26 2010 - 10:15:20 CDT)
Salomon Turgman Cohen
- Re: How can i connect molecules? (Wed Aug 20 2014 - 13:19:32 CDT)
- Re: not work "selection atoms" for trajectory of dl_poly (Sun Jun 02 2013 - 18:51:48 CDT)
- Re: Detecting Custom "h-bonds" (Thu Apr 25 2013 - 19:02:36 CDT)
- Re: Detecting Custom "h-bonds" (Thu Apr 25 2013 - 19:12:09 CDT)
- Re: Detecting Custom "h-bonds" (Thu Apr 25 2013 - 17:15:20 CDT)
- Re: Detecting Custom "h-bonds" (Thu Apr 25 2013 - 17:49:44 CDT)
- Detecting Custom "h-bonds" (Thu Apr 25 2013 - 13:13:57 CDT)
- Re: command line rep creation (Wed Apr 17 2013 - 12:43:08 CDT)
- Tachyon Renderer and Multiple Representations (Fri Mar 08 2013 - 09:27:21 CST)
Salvador H-V
- Re: gofr CUDA in script (Fri Aug 09 2013 - 22:59:27 CDT)
- Re: Calculating rdfs without the VMD gui (Thu Mar 14 2013 - 08:26:32 CDT)
- Re: Calculating rdfs without the VMD gui (Wed Mar 13 2013 - 17:46:25 CDT)
- Re: Calculating rdfs without the VMD gui (Wed Mar 13 2013 - 10:37:39 CDT)
- Calculating rdfs without the VMD gui (Tue Mar 12 2013 - 14:42:57 CDT)
- Problem with orient.tcl (Thu Sep 02 2010 - 12:59:38 CDT)
- pbc wrap (Thu May 27 2010 - 17:35:54 CDT)
- Frames-Movie (Wed May 19 2010 - 11:54:32 CDT)
- solventplugin-Watermodels (Tue Mar 23 2010 - 13:08:13 CDT)
- Installing VMD (Tue Mar 16 2010 - 12:26:08 CDT)
- cluster of particles (Sun Dec 06 2009 - 20:00:39 CST)
Salvatore Guccione
- Re: molecular representation: new lead generation software (Thu Dec 04 1997 - 04:43:51 CST)
- Re: molecular representation: new lead generation software (Wed Dec 03 1997 - 05:19:07 CST)
Salvatore Mario Cosseddu
- Re: catdcd -first (Wed Jul 24 2013 - 05:33:12 CDT)
- Re: psfread error (Thu Feb 14 2013 - 09:28:49 CST)
- Re: Create multiple tcl interpreter child instances within VMD to run several scripts at once (Thu Feb 16 2012 - 12:04:17 CST)
- Re: Create multiple tcl interpreter child instances within VMD to run several scripts at once (Thu Feb 16 2012 - 11:49:55 CST)
- Create multiple tcl interpreter child instances within VMD to run several scripts at once (Thu Feb 16 2012 - 11:23:15 CST)
- Re: Stand-alone VMD ? (Mon Feb 13 2012 - 08:03:43 CST)
- Re: change of font (Fri Feb 10 2012 - 09:12:46 CST)
- Re: Stand-alone VMD ? (Fri Feb 10 2012 - 08:49:55 CST)
- Re: Source Command (Thu Feb 09 2012 - 13:42:10 CST)
- Re: vmd-l DynamicBond between two given type of atoms (Mon Dec 19 2011 - 15:16:03 CST)
- Re: vmd-l DynamicBond between two given type of atoms (Mon Dec 19 2011 - 14:27:53 CST)
- vmd-l DynamicBond between two given type of atoms (Mon Dec 19 2011 - 10:44:17 CST)
- Re: Selecting multiple ranges (Fri Jun 10 2011 - 11:20:21 CDT)
- Re: tips for an annoying aliasing task? (Fri May 27 2011 - 04:20:55 CDT)
- Re: run and close vmd with bash script? (Wed May 18 2011 - 11:21:35 CDT)
- Re: run and close vmd with bash script? (Wed May 18 2011 - 10:10:22 CDT)
- Re: hi to all (Tue May 17 2011 - 15:06:51 CDT)
- Re: removing all water molecules (Thu Jan 27 2011 - 10:27:32 CST)
- Re: removing all water molecules (Thu Jan 27 2011 - 09:14:40 CST)
- Formats supported by animate write file_type (Thu Jan 20 2011 - 10:19:42 CST)
Sam Ansari
- (no subject) (Tue Jun 06 2006 - 06:13:16 CDT)
- Using Python (Fri Feb 22 2002 - 07:59:02 CST)
Sam Fredrick
- Index extractor Python Code (Wed Apr 03 2024 - 19:47:55 CDT)
Sam Wallace
- 64 bit windows VMD (Mon Jul 27 2015 - 03:06:40 CDT)
- Script to impose coordinates from separate file onto equivalent selection of atoms (Thu Mar 26 2015 - 07:21:43 CDT)
- Re: Possible handle leak in 'measure gofr' VMD 1.9.1 Windows (no cuda) (Fri Sep 21 2012 - 19:14:00 CDT)
- re: RDF COM (Tue Aug 28 2012 - 01:35:19 CDT)
- Re: Possible handle leak in 'measure gofr' VMD 1.9.1 Windows (no cuda) (Tue Aug 28 2012 - 00:54:21 CDT)
- Re: Possible handle leak in 'measure gofr' VMD 1.9.1 Windows (no cuda) (Sun Aug 26 2012 - 21:27:07 CDT)
- Re: Possible handle leak in 'measure gofr' VMD 1.9.1 Windows (no cuda) (Sun Aug 26 2012 - 09:33:24 CDT)
- Re: Possible handle leak in 'measure gofr' VMD 1.9.1 Windows (no cuda) (Sun Aug 26 2012 - 09:02:36 CDT)
- Possible handle leak in 'measure gofr' VMD 1.9.1 Windows (no cuda) (Sun Aug 26 2012 - 06:52:39 CDT)
- Re: Adding an atom to existing trajectory (to enable RDF from centre of mass of a selection) (Sun Nov 13 2011 - 04:58:37 CST)
- Adding an atom to existing trajectory (to enable RDF from centre of mass of a selection) (Wed Nov 09 2011 - 16:38:39 CST)
- Using VMD/NAMD to construct Cyclodextrins using Chamm topologies (Sun Jun 12 2011 - 21:34:17 CDT)
Samapika Sahu (P20CY011)
- Visualizing elastic network proteins (Mon Sep 16 2024 - 13:49:31 CDT)
Samartha G. Anekal
- xyz files and VMD 1.8.2 (Wed Feb 11 2004 - 12:32:22 CST)
Samir Unni
- Re: Creating a VMD movie from a Tcl script (Mon Jul 21 2008 - 15:18:22 CDT)
- Re: Creating a VMD movie from a Tcl script (Mon Jul 21 2008 - 12:22:20 CDT)
- Re: Creating a VMD movie from a Tcl script (Mon Jul 21 2008 - 12:16:53 CDT)
- Re: Creating a VMD movie from a Tcl script (Mon Jul 21 2008 - 11:35:51 CDT)
- Re: Creating a VMD movie from a Tcl script (Mon Jul 21 2008 - 07:57:59 CDT)
- Re: Creating a VMD movie from a Tcl script (Thu Jul 17 2008 - 21:18:24 CDT)
- Creating a VMD movie from a Tcl script (Wed Jul 16 2008 - 09:32:37 CDT)
Sampath, Janani
- VMD 1.9.1 and OS X 10.10 - display freezes (Tue Jul 07 2015 - 13:38:55 CDT)
Sampo Karkola
- select atoms between molecules (Wed Jan 02 2008 - 06:13:39 CST)
- Re: vmd files between linux and windows (Mon Oct 01 2007 - 01:51:11 CDT)
- vmd files between linux and windows (Thu Sep 27 2007 - 07:52:16 CDT)
Samuel Bowerman
- Re: backbone selection failing (Thu Apr 21 2016 - 13:45:53 CDT)
- Re: Showing atom index in vmd (Wed Jan 20 2016 - 16:54:23 CST)
Samuel C Flores
- RE: Poor man's stereolithography (Thu Nov 30 2006 - 12:37:04 CST)
- ZN2 vs MG? (Wed Nov 29 2006 - 12:27:50 CST)
- RE: radius of the curvature (Wed Nov 29 2006 - 12:16:50 CST)
- RE: pdbalias not working (Wed Jun 21 2006 - 14:12:41 CDT)
- pdbalias not working (Thu Jun 15 2006 - 21:42:06 CDT)
Samuel Canner
- VMD Install (Mon Feb 14 2022 - 16:44:00 CST)
- Periodic image (Wed Oct 16 2019 - 23:17:13 CDT)
Samuel Coulbourn Flores
- slowing down movie maker (Wed Feb 17 2010 - 20:20:16 CST)
- Graphical Representations doesn't recognize chain ID z (Wed Dec 16 2009 - 09:59:47 CST)
- Re: selecting ribose atoms? (Fri May 01 2009 - 19:59:48 CDT)
- selecting ribose atoms? (Fri May 01 2009 - 18:47:46 CDT)
- Re: Movie Maker skipping (Tue Apr 01 2008 - 13:25:08 CDT)
- Movie Maker skipping (Tue Apr 01 2008 - 12:38:47 CDT)
- changing dihedral angles in molefacture (Mon Nov 05 2007 - 02:42:48 CST)
Samuel Coulbourn Flores èŠ±å±±
- Re: namd-l: display all frames simultaneously (Fri Apr 17 2009 - 11:35:11 CDT)
- display all frames simultaneously (Thu Apr 16 2009 - 21:35:59 CDT)
- Re: Display issue on VMD for Linux (Thu Mar 12 2009 - 16:54:11 CDT)
- Display issue on VMD for Linux (Wed Mar 04 2009 - 19:43:59 CST)
- contactmap for RNA (Wed Jan 28 2009 - 16:44:43 CST)
- Re: NewCartoons / STRIDE problem (Fri May 16 2008 - 16:06:17 CDT)
- NewCartoons / STRIDE problem (Sat May 10 2008 - 18:16:21 CDT)
Samuel Flores
- easy way to adjust dihedral angles? (Thu Nov 01 2007 - 13:58:13 CDT)
- Re: rna topology and parameters for rna (Mon Oct 29 2007 - 01:14:01 CDT)
- rna topology and parameters for rna (Sun Oct 28 2007 - 03:23:39 CDT)
- NAMD trajectories in VMD (Fri Oct 26 2007 - 11:51:26 CDT)
- JMV (Sat May 12 2007 - 19:31:09 CDT)
- never mind .. got it (Thu May 25 2006 - 21:02:47 CDT)
- number of frames in pdb file? (Thu May 25 2006 - 20:08:23 CDT)
- RE: rmsf (Thu May 25 2006 - 20:02:44 CDT)
- Axel RE: high resolution images (Fri May 19 2006 - 15:15:12 CDT)
- high resolution images (Thu May 11 2006 - 17:41:12 CDT)
- viewing heteroatoms? (Thu May 04 2006 - 20:05:26 CDT)
- RE: visualizing biological molecule? (Thu May 04 2006 - 20:00:28 CDT)
- RE: visualizing biological molecule? (Thu May 04 2006 - 19:47:43 CDT)
- visualizing biological molecule? (Wed May 03 2006 - 21:54:45 CDT)
- extract euler angles from transformation matrix? (Tue Dec 13 2005 - 15:43:03 CST)
- visualizing charmm trajectories? (Wed Nov 30 2005 - 17:37:16 CST)
- problem with writepdb (Mon Oct 24 2005 - 07:00:04 CDT)
- problem with writepdb (Mon Oct 17 2005 - 19:16:33 CDT)
- poorly get coordinates (Thu Oct 13 2005 - 13:17:42 CDT)
- puzzling writepdb error (Wed Oct 12 2005 - 16:12:26 CDT)
- RE: VMD removing slightly misplaced atoms (Tue Oct 04 2005 - 19:47:06 CDT)
- RE: VMD removing slightly misplaced atoms (Tue Oct 04 2005 - 18:32:25 CDT)
- VMD removing slightly misplaced atoms (Tue Oct 04 2005 - 14:03:46 CDT)
- passing parameters to a tcl script (Sat Oct 01 2005 - 11:42:51 CDT)
- tcl command to save structure to file? (Wed Sep 28 2005 - 14:05:20 CDT)
- more precision in inverse trig functions (Tue Aug 02 2005 - 23:11:38 CDT)
- RE: weird atomselect problem (Mon Aug 01 2005 - 11:48:07 CDT)
- weird atomselect problem (Sun Jul 31 2005 - 19:37:36 CDT)
- rotate atomic coordinates? (Sun Jul 31 2005 - 14:58:36 CDT)
- trig functions in vmd (Sat Jul 30 2005 - 20:08:16 CDT)
- RE: CMYK images (Sat Jul 30 2005 - 16:42:40 CDT)
- size of output graphics (Fri Jun 17 2005 - 11:41:37 CDT)
- render question (Fri Jun 17 2005 - 10:43:49 CDT)
Samuel Jobbins
- Fw: Fw: Colour coordinating atoms in a trajectory by Coordination Number (Mon Mar 30 2015 - 11:28:54 CDT)
- Fw: Colour coordinating atoms in a trajectory by Coordination Number (Mon Mar 30 2015 - 10:13:00 CDT)
- Colour coordinating atoms in a trajectory by Coordination Number (Thu Mar 26 2015 - 10:57:51 CDT)
Samuel Schlachter
- iOS support? (Tue Jul 24 2012 - 09:59:51 CDT)
Samuele Salis
- Re: Which function for animate speed (Fri Jun 27 2014 - 13:29:14 CDT)
- Which function for animate speed (Fri Jun 27 2014 - 04:38:36 CDT)
Samy Hamdouche
- Server for structural models of the unfolded state of proteins (Fri Feb 25 2011 - 19:03:15 CST)
san kumar
- regarding cionize (Fri May 17 2019 - 09:56:50 CDT)
- regarding capsid inner volume (Tue Apr 30 2019 - 16:24:23 CDT)
- regarding radius of a 3D sphere (Tue Jan 29 2019 - 11:55:01 CST)
Sandeep Gupta
- Re: compiling vmd with g++-4.6 on ubuntu (Thu Sep 20 2012 - 23:07:40 CDT)
- Re: compiling vmd with g++-4.6 on ubuntu (Wed Sep 19 2012 - 12:37:04 CDT)
- Re: compiling vmd with g++-4.6 on ubuntu (Wed Sep 19 2012 - 11:45:46 CDT)
- compiling vmd with g++-4.6 on ubuntu (Wed Sep 19 2012 - 06:45:55 CDT)
Sandeep Kumar Reddy
- Update atom labels each frame (Wed Dec 19 2012 - 00:42:18 CST)
Sandeep Prakash
- bonds forming during simulation (Mon Jun 26 2006 - 12:59:50 CDT)
Sandip Mondal
- Re: vmd tcl script writing issue (Wed Apr 18 2018 - 13:18:42 CDT)
- vmd tcl script writing issue (Wed Apr 18 2018 - 09:29:43 CDT)
- Re: Parallelization to an axis (Mon Mar 26 2018 - 01:26:23 CDT)
- Re: Parallelization to an axis (Sat Mar 24 2018 - 00:04:49 CDT)
- Re: Parallelization to an axis (Fri Mar 23 2018 - 12:42:45 CDT)
- Re: Parallelization to an axis (Fri Mar 23 2018 - 12:44:13 CDT)
- Parallelization to an axis (Fri Mar 23 2018 - 09:31:48 CDT)
Sandra Bennun Serrano
- question about visualization (Tue Aug 29 2006 - 12:44:58 CDT)
Sandra Rennebaum
- Problem with 'unwrap' (Mon Aug 23 2010 - 03:44:34 CDT)
Sandro Canavezzi de Abreu
- Re: wavefront and VMD (Mon Nov 17 2008 - 11:44:29 CST)
- Re: wavefront and VMD (Mon Nov 17 2008 - 07:58:08 CST)
- wavefront and VMD (Wed Nov 12 2008 - 14:07:36 CST)
Sandy Anderson
- 0ne of a kind repl1cas (Thu Apr 03 2008 - 08:19:31 CDT)
Sanghamitra Debroy
- Re: Error while merging structures (Sun May 24 2015 - 07:18:42 CDT)
- Error while merging structures (Sat May 23 2015 - 04:10:08 CDT)
Sanghyun Park
- Re: helical construction (Mon Dec 10 2007 - 13:05:40 CST)
- Re: how to remove chain id ? (Sat Oct 20 2007 - 14:39:03 CDT)
- Re: how to remove chain id ? (Sat Oct 20 2007 - 11:42:45 CDT)
- how to remove chain id ? (Fri Oct 19 2007 - 21:57:10 CDT)
Sangita Kachhap
- calculation of rotation angle (Tue Mar 21 2023 - 13:05:05 CDT)
- to use tcl script in command line (Thu Dec 08 2011 - 04:14:59 CST)
- APBS installation problem (Wed Jun 22 2011 - 12:44:34 CDT)
- APBS installation problem (Wed Jun 22 2011 - 11:23:19 CDT)
- indentified particular water molecule (Thu May 19 2011 - 07:24:03 CDT)
Sangkha Borah
- Atom Selection based on angular criterion (Thu Sep 01 2016 - 03:10:37 CDT)
- Script runs slow afterwards (Thu Aug 04 2016 - 00:56:43 CDT)
- printing out trajectories with some random indices of atoms renamed frame by frame (Fri Mar 04 2016 - 13:55:43 CST)
- Fwd: distance using pbc (Tue Mar 01 2016 - 10:18:58 CST)
Sangwoo Shim
- Re: Can't compile VMD 1.8.3: Tachyon 0.97 needed (Fri Mar 18 2005 - 03:49:33 CST)
- Can't compile VMD 1.8.3: Tachyon 0.97 needed (Thu Feb 17 2005 - 01:54:04 CST)
Sanim Rahman
- Issue viewing GRO file in VMD (Fri Feb 24 2017 - 17:44:31 CST)
Sanjay Kumar Paul
- Error in porcupine plot (Thu Aug 31 2023 - 04:06:46 CDT)
Sanjeev
- Re: Re: Re: Scripting problem with h-bond listing (Mon Mar 19 2007 - 04:36:05 CDT)
- Re: Re: Scripting problem with h-bond listing (Sun Mar 18 2007 - 14:16:42 CDT)
- Scripting problem with h-bond listing (Sun Mar 18 2007 - 01:30:53 CDT)
Sanjeev B.S.
- MD: Water network analysis + visualization (Fri Dec 17 2004 - 12:21:33 CST)
- Selection of atoms and bond specific to MD snapshot (Sat Nov 06 2004 - 10:58:40 CST)
- Re: only show some HBonds (Sat Oct 02 2004 - 00:20:11 CDT)
- Re: movie showing loop movement (Wed Jul 28 2004 - 03:20:43 CDT)
- Re: Dynamic selection of residues in a trajectory (Wed May 19 2004 - 08:53:36 CDT)
- Dynamic selection of residues in a trajectory (Wed May 19 2004 - 04:34:24 CDT)
- Re: Non-serious query (Thu Mar 04 2004 - 00:11:31 CST)
- Re: Non-serious query (Wed Mar 03 2004 - 11:29:29 CST)
- Non-serious query (Wed Mar 03 2004 - 09:54:34 CST)
- Recognition of backbone in 5'-end (Fri Jan 30 2004 - 05:40:46 CST)
- Re: coloring waters (Thu Jun 19 2003 - 14:55:14 CDT)
- Re: MSMS and VMD: vertices discripancy (Tue Jun 17 2003 - 13:18:44 CDT)
- Re: MSMS and VMD: vertices discripancy (Tue Jun 17 2003 - 12:24:00 CDT)
- MSMS and VMD: vertices discripancy (Sat Jun 14 2003 - 14:32:38 CDT)
- stereo glasses and VMD (Thu Jun 12 2003 - 12:47:56 CDT)
- Trasperent images (Mon Mar 10 2003 - 22:18:43 CST)
- Re: Making VMD movies (Mon Feb 10 2003 - 00:34:58 CST)
- Re: Making VMD movies (Sun Feb 09 2003 - 23:41:57 CST)
- Making VMD movies (Sun Feb 09 2003 - 23:06:00 CST)
- SCRIPT directory... (Wed Jan 15 2003 - 11:46:56 CST)
- speed prob (Tue Nov 26 2002 - 03:14:14 CST)
- beta version (Tue Nov 26 2002 - 01:35:28 CST)
- Re: carnal output trajectory (Wed Oct 30 2002 - 07:50:45 CST)
- index (Fri Aug 09 2002 - 02:28:45 CDT)
- Adding labels, etc. (Sun Jul 14 2002 - 05:40:26 CDT)
- Unable to generate surface (Sun Jun 23 2002 - 21:40:32 CDT)
- vdw radii (Thu Jun 13 2002 - 04:51:42 CDT)
- Re: How to plot the data created by VMD analysis script - difference_matrix? (Mon Apr 22 2002 - 21:34:51 CDT)
- Graphics card & Accelerator (Fri Apr 19 2002 - 02:58:22 CDT)
- smooth movie (Sat Mar 16 2002 - 11:24:39 CST)
- boolean operators in graphics (Thu Mar 14 2002 - 22:11:11 CST)
- 2 questions (Mon Jan 07 2002 - 02:43:18 CST)
- Pictures (Fri Dec 21 2001 - 10:55:12 CST)
- Re: Superimposing two frames (Mon Oct 22 2001 - 13:05:20 CDT)
- Superimposing two frames (Mon Oct 22 2001 - 01:54:50 CDT)
sanjeev_at_mbu.iisc.ernet.in
- Re: MD: Water network analysis + visualization (Tue Mar 22 2005 - 08:02:07 CST)
Sanjib Chowdhury
- RE: VMD TkConsole command (Thu Jan 08 2015 - 15:22:31 CST)
- RE: VMD TkConsole command (Thu Jan 08 2015 - 10:27:51 CST)
- VMD TkConsole command (Wed Jan 07 2015 - 18:53:29 CST)
- RE: Bond order cut-off value (Fri Jan 17 2014 - 13:01:42 CST)
- RE: Bond order cut-off value (Fri Jan 17 2014 - 11:16:41 CST)
- Bond order cut-off value (Thu Jan 16 2014 - 16:53:54 CST)
sankari thirumal
- sun server with graphics card (Wed Jul 27 2005 - 23:24:29 CDT)
- geometric location of amino acids in proteins (Wed Jul 06 2005 - 00:04:10 CDT)
- how to study the effect of mutation in vmd (Sun May 29 2005 - 23:15:33 CDT)
Santanu Chatterjee
- Generatin PSF for alkanes (Sat Nov 10 2007 - 22:38:55 CST)
- Problem generating PSF file for decalanine...any help? (Wed Sep 19 2007 - 18:24:38 CDT)
- Problem generating PSF file for decalanine...any help? (Wed Sep 19 2007 - 18:20:58 CDT)
Santanu Santra
- Re: time dependent plot for stride output file (Tue Sep 28 2021 - 00:37:42 CDT)
- time dependent plot for stride output file (Sat Sep 25 2021 - 09:22:02 CDT)
Santhosh Ranga
- query on centering the pbc and cut the shell (Thu Oct 17 2019 - 08:28:53 CDT)
- query on how to allow the protein to interact with the water molecules (Sun Oct 06 2019 - 23:45:36 CDT)
santhu kumar
- Re: what's the Letter in figure caption meaning of TIME-LINE 2nd structure present? (Mon May 07 2012 - 11:10:40 CDT)
SAPAY Nicolas 232321
- RE : Get the camera position (Thu Dec 01 2011 - 04:22:34 CST)
- Get the camera position (Wed Nov 30 2011 - 10:20:52 CST)
Sara baretller
- Re: Vmd Problem (Thu Aug 11 2011 - 16:42:32 CDT)
- Vmd Problem (Thu Aug 11 2011 - 15:49:08 CDT)
- Re: Understand a script (Tue Jul 26 2011 - 12:49:41 CDT)
- Understand a script (Mon Jul 25 2011 - 08:35:51 CDT)
- Re: Re: Problem with for loop. (Fri Jul 08 2011 - 15:09:16 CDT)
- Re: Re: Problem with for loop. (Fri Jul 08 2011 - 10:19:50 CDT)
- Re: Problem with for loop. (Fri Jul 08 2011 - 09:52:16 CDT)
- Re: Re: Problem with for loop. (Thu Jul 07 2011 - 16:13:03 CDT)
- Re: Re: Problem with for loop. (Thu Jul 07 2011 - 08:08:42 CDT)
- Re: Problem with for loop. (Wed Jul 06 2011 - 10:04:01 CDT)
- Problem with for loop. (Wed Jul 06 2011 - 09:38:20 CDT)
- Re: Problem with loop. it s not going to the next peptide (Fri Jul 01 2011 - 16:35:28 CDT)
- Problem with loop. it s not going to the next peptide (Fri Jul 01 2011 - 13:13:14 CDT)
Sara Biocomputation
- Re: best fit lines through two selections per each molecule ( I have 80 molecules) and the angle with another vector for each molecule (Mon Jun 27 2011 - 10:44:48 CDT)
- best fit lines through two selections per each molecule ( I have 80 molecules) and the angle with another vector for each molecule (Mon Jun 27 2011 - 10:39:30 CDT)
Sara Nichols
- Re: running plugin from the command line (Thu Apr 28 2011 - 11:28:43 CDT)
- running plugin from the command line (Wed Apr 27 2011 - 14:49:33 CDT)
Sarah Fowler
- Is it possible to use VMD to plot RDFs where the cell volume/parameter changes at each time step? (Wed Oct 23 2019 - 11:25:03 CDT)
sarah k
- Re: external field application (Mon Jan 02 2012 - 06:22:10 CST)
- external field application (Sun Jan 01 2012 - 03:57:21 CST)
- blank output (Sun Nov 06 2011 - 09:34:39 CST)
- Re: cropping the missing residues from other PDB file (Mon Jun 13 2011 - 10:19:05 CDT)
- Re: simulation in Nitrogen box (Sun Jun 12 2011 - 05:57:46 CDT)
- simulation in Nitrogen box (Sat Jun 11 2011 - 09:12:39 CDT)
- RDF calculation (Mon Oct 25 2010 - 10:21:40 CDT)
- Re: namd gui problem (Fri May 14 2010 - 00:16:34 CDT)
- namd gui problem (Tue May 11 2010 - 02:29:02 CDT)
- Re: can't find file (Sun Apr 04 2010 - 12:02:56 CDT)
- can't find file (Mon Mar 29 2010 - 02:46:20 CDT)
- Re: paratool - parameter generation from gaussian log files (Mon Dec 14 2009 - 23:37:02 CST)
- Re: paratool - parameter generation from gaussian log files (Fri Dec 11 2009 - 01:32:10 CST)
- Re: paratool - parameter generation from gaussian log files (Thu Dec 10 2009 - 00:07:06 CST)
- destroyed molecule (Sat Nov 21 2009 - 06:57:32 CST)
- paratool problem (Wed Nov 18 2009 - 23:43:52 CST)
- parent molecule (Fri Nov 13 2009 - 23:59:28 CST)
- Re: rmsd calculation and plot (Tue Nov 10 2009 - 23:20:06 CST)
- paratool and fatal error (Tue Nov 10 2009 - 23:27:33 CST)
- Re: VMD autopsfgen and Mg2+ (Wed Nov 04 2009 - 23:47:20 CST)
- rmsd calculation and plot (Tue Nov 03 2009 - 23:18:29 CST)
- unparameterized residue (Sun Oct 25 2009 - 02:24:21 CDT)
Sarah MohammadiNejad
- Re: combine .pdb files to make movie (Fri Jul 19 2013 - 07:53:01 CDT)
- combine .pdb files to make movie (Fri Jul 19 2013 - 06:35:57 CDT)
Sarah Richards
- Secondary Structure Issue (Fri Jul 06 2012 - 08:16:04 CDT)
saravana prakash
- vmd in fedora core 5 (Sun Jun 04 2006 - 07:39:16 CDT)
Sardiu, Mihaela (NIH/NLM/NCBI)
- (no subject) (Wed Jun 30 2004 - 17:28:42 CDT)
- (no subject) (Wed Jun 30 2004 - 17:08:09 CDT)
Sarfraz Ahmad
- focusing on a residue (Thu Nov 21 2024 - 08:05:48 CST)
Sarthak Mohanty
- Error in Molefacture 2.0: Unable to write PSF and PDB files (Mon Feb 26 2024 - 02:19:07 CST)
- Uninstalling VMD (Mon Feb 06 2023 - 01:40:43 CST)
- Error in merging two PSFs and PDBs using a TCL script (Fri Dec 16 2022 - 11:59:06 CST)
Sascha Tayefeh
- [bigdcd.tcl] How to stream output to file (Thu Mar 03 2005 - 04:20:38 CST)
Sasha Buzko
- Re: NAMD setup for organic compounds (Thu Jul 09 2009 - 19:17:09 CDT)
- NAMD setup for organic compounds (Thu Jul 09 2009 - 11:46:48 CDT)
- Re: autopfs: unknown atom type error when processing ATP (Sat May 02 2009 - 14:17:25 CDT)
- Re: autopfs: unknown atom type error when processing ATP (Fri May 01 2009 - 11:39:11 CDT)
- Re: autopfs: unknown atom type error when processing ATP (Thu Apr 30 2009 - 16:38:51 CDT)
- autopfs: unknown atom type error when processing ATP (Thu Apr 30 2009 - 16:13:41 CDT)
Sasha Perkins
- psfgen generating incorrect dihedrals (Thu Nov 08 2012 - 16:40:39 CST)
Sasthi Charan Mandal
- Fwd: hydrogen bond calculations (Sun Mar 17 2019 - 03:58:09 CDT)
- hydrogen bond calculations (Sun Mar 17 2019 - 02:07:16 CDT)
- Re: Problem of saving .trj file in vmd (Tue Oct 30 2018 - 10:01:08 CDT)
- Problem of saving .trj file in vmd (Sat Oct 27 2018 - 08:00:43 CDT)
- Re: problem of calculating hydrogen bonds (Sun Sep 09 2018 - 08:44:18 CDT)
- Re: problem of calculating hydrogen bonds (Sun Sep 09 2018 - 02:33:25 CDT)
- problem of calculating hydrogen bonds (Sat Sep 08 2018 - 02:19:13 CDT)
- Re: request for provide a script of rmsf (Wed Aug 29 2018 - 11:45:47 CDT)
- Re: request for provide a script of rmsf (Thu Aug 02 2018 - 00:17:46 CDT)
- Re: request for provide a script of rmsf (Wed Aug 01 2018 - 09:53:16 CDT)
- Re: request for provide a script of rmsf (Wed Aug 01 2018 - 03:17:04 CDT)
- request for provide a script of rmsf (Tue Jul 31 2018 - 10:21:20 CDT)
- request for provide a script of rmsf (Mon Jul 30 2018 - 04:24:22 CDT)
Sathyapriya R
- Problem rendering NewCartoon (Fri Nov 17 2006 - 12:03:52 CST)
satya kumar
- Structural Change of DNA (Mon Nov 19 2012 - 17:50:42 CST)
- Visualizing DNA Damage (Fri Oct 05 2012 - 14:40:05 CDT)
- Re: Problem with Reading GROMACS file in VMD (Fri Jul 27 2012 - 14:11:29 CDT)
- Re: Problem with Reading GROMACS file in VMD (Tue Jul 24 2012 - 11:46:07 CDT)
- Re: Problem with Reading GROMACS file in VMD (Tue Jul 24 2012 - 10:11:19 CDT)
- Re: Problem with Reading GROMACS file in VMD (Tue Jul 24 2012 - 07:21:24 CDT)
- Re: Problem with Reading GROMACS file in VMD (Tue Jul 24 2012 - 06:49:55 CDT)
- Re: Problem with Reading GROMACS file in VMD (Mon Jul 23 2012 - 12:24:20 CDT)
- Problem with Reading GROMACS file in VMD (Sun Jul 22 2012 - 22:06:42 CDT)
- Re: Distance constraints (Mon Jul 09 2012 - 15:35:44 CDT)
- Re: Distance constraints (Mon Jul 09 2012 - 14:30:27 CDT)
- Re: Distance constraints (Mon Jul 09 2012 - 10:16:58 CDT)
- Re: Distance constraints (Mon Jul 09 2012 - 08:15:51 CDT)
- Distance constraints (Fri Jul 06 2012 - 18:34:20 CDT)
Satyaki Chatterjee
- Attaching NBD label to residues mutated to cysteine in VMD (Sat Jul 08 2017 - 11:41:45 CDT)
Satyan Sharma
- Re: Color Coding by Residue Type (Tue Jul 26 2022 - 04:46:49 CDT)
- Electrostatic Potential membrane pores (Tue Mar 30 2021 - 03:52:44 CDT)
- VMD intallation (Mon Jan 07 2008 - 12:52:39 CST)
Satyavani Vemparala
- VECSUB function (Tue Mar 30 2004 - 16:44:03 CST)
- Solvate Package (Wed Mar 10 2004 - 18:23:33 CST)
- unusual bonds (Sat Mar 06 2004 - 04:31:27 CST)
- waters within hydrophobic pore of protein (Sun Feb 29 2004 - 10:45:49 CST)
- Re: repitition of residue numbers in LIPIDS (Tue Feb 17 2004 - 16:48:51 CST)
- adding waters only in top of lipid (Tue Feb 17 2004 - 12:15:55 CST)
- repitition of residue numbers in LIPIDS (Mon Feb 16 2004 - 15:18:49 CST)
- removing residues/fragments from the system (Sat Feb 14 2004 - 21:00:02 CST)
- solvating lipid bilayers (Wed Feb 11 2004 - 20:30:38 CST)
Saumik Sen
- Re: Overlap of volume maps in VMD (Tue Dec 10 2019 - 06:11:29 CST)
- Re: Overlap of volume maps in VMD (Mon Dec 02 2019 - 07:42:15 CST)
- Re: Overlap of volume maps in VMD (Wed Nov 27 2019 - 14:45:34 CST)
- Overlap of volume maps in VMD (Thu Nov 21 2019 - 05:39:16 CST)
- Regarding generating force field (Wed Oct 21 2015 - 01:50:33 CDT)
- Re: Regarding generating psf file (Thu Oct 15 2015 - 08:41:39 CDT)
- Regarding generating psf file (Thu Oct 15 2015 - 03:49:50 CDT)
Saumyak Mukherjee
- Re: Rendering structures with Hydrogen Bonds using Tachyon (Mon Sep 12 2022 - 02:25:16 CDT)
- Rendering structures with Hydrogen Bonds using Tachyon (Fri Sep 09 2022 - 08:18:21 CDT)
Saurav Goel
- VMD- Ra Measurement (Sun May 01 2011 - 19:43:28 CDT)
Scazzocchio, Claudio
- Re: Multiseq doesn't work on mac (Sat Jul 02 2022 - 01:04:02 CDT)
- Re: Problerm with STAMP (Fri Jul 22 2016 - 02:22:27 CDT)
- Problerm with STAMP (Sun Jul 17 2016 - 11:46:54 CDT)
- Re: multiseq doesn't work (Tue Apr 19 2016 - 03:06:21 CDT)
- Re: problems with ligands (Thu Apr 14 2016 - 06:12:42 CDT)
- problems with ligands (Thu Apr 14 2016 - 05:29:16 CDT)
Schmidt, Mike
- Selections based on "bonded to" (Fri Oct 23 2009 - 10:56:00 CDT)
Schreiner Eduard
- Re: psfgen for protein-RNA complex (Tue Mar 02 2010 - 11:17:42 CST)
- Re: Retrieving an atom and its coordinates (Sat Feb 13 2010 - 16:35:39 CST)
- Re: how to label the distances using tk console mode (Tue Dec 15 2009 - 20:40:02 CST)
- Re: Nucleic acid topology file for PSF generation (Thu Dec 03 2009 - 23:01:58 CST)
- Re: Disulfude bonds (Tue Oct 13 2009 - 01:12:23 CDT)
- Re: Breaking a trajectory into separate files with tcl (Sun Oct 04 2009 - 22:06:21 CDT)
- Re: Question about PSF generation (Sun Sep 20 2009 - 12:04:52 CDT)
- Re: superimposing proteins with non-similar coordinates (Wed Aug 26 2009 - 16:33:39 CDT)
- Re: rotating ligand (Wed Aug 26 2009 - 15:07:49 CDT)
- Re: selection for polar hydrogens only (Tue Aug 25 2009 - 22:50:43 CDT)
- Re: near clip (Wed Mar 25 2009 - 23:53:49 CDT)
- Re: delete residues from trajectory (Sun Mar 01 2009 - 01:14:53 CST)
- Re: How to get rid of default patch for NTER and CTER (Sun Jan 18 2009 - 19:11:32 CST)
- Re: loosing color when rendering molecular surface in VMD (Wed Jan 14 2009 - 20:58:22 CST)
- Re: Problem finding center of mass for all the frames (Wed Dec 10 2008 - 01:52:29 CST)
- Re: prepare initial structure (Mon Dec 01 2008 - 14:16:48 CST)
- Re: Camera in VMD!!! (Sat Oct 25 2008 - 00:18:58 CDT)
- Re: Problem in text mode (Thu Oct 16 2008 - 01:47:48 CDT)
- Re: Problem in text mode (Thu Oct 16 2008 - 00:41:25 CDT)
- Re: translation/transformation (Sun Jul 27 2008 - 02:16:58 CDT)
- Re: translation/transformation (Sun Jul 27 2008 - 01:52:20 CDT)
- Re: vecsub command (Tue Jul 22 2008 - 11:40:13 CDT)
- Re: Selecting the sides of a benzene ring (Tue Jul 22 2008 - 11:01:39 CDT)
- Re: Missing angles and dihedrals (Mon Jul 21 2008 - 19:04:44 CDT)
- Re: Selecting atoms that have real SASA greater than 0, Not using "Surface" (Sun Jul 20 2008 - 22:03:40 CDT)
schwarz
- How to visualize only parts of a molecular surface (Wed Oct 08 2008 - 08:11:47 CDT)
schwarz_at_titus.u-strasbg.fr
- Povray render cuts litorice,bond,cpk representations (Thu Oct 09 2008 - 05:14:20 CDT)
SciFarma
- molecular representation: new lead generation software (Tue Dec 02 1997 - 02:53:25 CST)
SCIPIONI Roberto
- VMD on Linux Suse (Wed Dec 19 2007 - 01:21:21 CST)
- VMD on Linux Suse (Wed Dec 19 2007 - 01:26:44 CST)
scopio
- Can vmd select residues in radius of 3.5 to a specific residue? (Fri Mar 18 2005 - 05:52:43 CST)
Scott Pendley
- How does VMD predict alpha helices (Tue Sep 28 2004 - 12:18:11 CDT)
Scott Stagg
- periodic woes (Thu Sep 11 2003 - 15:07:33 CDT)
- Can't import python math module (Fri Mar 21 2003 - 10:16:14 CST)
Scott Thibault
- Helix display (Wed Oct 26 2005 - 09:55:10 CDT)
- Zooming with Tcl? (Thu Sep 15 2005 - 08:31:08 CDT)
Scott W. Sides
- Re: VMD and GRASP Qu.II (Thu Jun 15 2000 - 10:14:14 CDT)
- Please unsubscribe me from VMD mailing list (Wed Jun 14 2000 - 11:39:20 CDT)
Sean Seyler
- Re: Getting VMD to talk to VRPN on Windows 7 (Wed Jul 29 2015 - 18:23:35 CDT)
- Getting VMD to talk to VRPN on Windows 7 (Thu Jun 18 2015 - 16:48:48 CDT)
Sean T Kigerl
- creating a modified pdb/psf file (Tue Aug 14 2012 - 00:43:26 CDT)
- attaching an arbitrary surface molecule to a nanopore (Tue Jul 24 2012 - 14:25:06 CDT)
Sebastian Maximilian Wilhelm
- Question about SASA (Thu Apr 14 2011 - 10:31:34 CDT)
- Question about vdW-area (Wed Mar 16 2011 - 12:40:43 CDT)
- measure energy elect vs. NAMDenergy (Tue Mar 08 2011 - 05:21:10 CST)
- package psfgen: Failed to set coordinates for C3 (Fri Feb 25 2011 - 05:30:45 CST)
Sebastian Reiter
- Re: Fwd: Fwd: Fwd: Electrostatic potential maps (Wed May 27 2020 - 09:36:37 CDT)
- Re: Fwd: Fwd: Electrostatic potential maps (Mon May 25 2020 - 09:56:00 CDT)
- Re: Fwd: Fwd: Electrostatic potential maps (Mon May 25 2020 - 06:35:18 CDT)
- Re: Fwd: Electrostatic potential maps (Mon May 25 2020 - 04:10:18 CDT)
- Re: stuttering movies with snapshot (Thu Jan 23 2020 - 10:03:06 CST)
- stuttering movies with snapshot (Wed Jan 22 2020 - 12:03:31 CST)
- Re: Problem with cionize (Wed Aug 02 2017 - 14:58:58 CDT)
- Re: Problem with cionize (Wed Aug 02 2017 - 06:00:46 CDT)
- Problem with cionize (Tue Aug 01 2017 - 14:57:23 CDT)
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- Re: VMD 1.9.3 omnidirectional rendering (Wed Aug 24 2016 - 15:48:59 CDT)
- Re: VMD 1.9.3 omnidirectional rendering (Tue Aug 23 2016 - 14:22:59 CDT)
- Re: VMD 1.9.3 omnidirectional rendering (Mon Aug 15 2016 - 14:59:40 CDT)
- VMD 1.9.3 omnidirectional rendering (Fri Aug 12 2016 - 10:18:04 CDT)
- Re: VMD 1.9.3 (Tue Jun 28 2016 - 15:33:26 CDT)
- VMD 1.9.3 (Tue Jun 28 2016 - 12:07:28 CDT)
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Sebastian Stolzenberg
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- Solvate Plugin: Why "Rotate to minimize volume" along 2 instead of 3 axes? (Mon Sep 22 2014 - 09:59:35 CDT)
- Re: Lipid Order Parameter (Sat Nov 07 2009 - 16:49:42 CST)
- Re: Lipid Order Parameter (Sat Nov 07 2009 - 16:48:29 CST)
- Paratool: QMTool::bondlist error message (Fri Sep 25 2009 - 21:53:27 CDT)
- Re: rotate dihedral angle (Wed Sep 16 2009 - 14:21:00 CDT)
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- namdenergy: how set "runextcommand"? (Sat Mar 28 2009 - 18:59:33 CDT)
- Re: 4x4 trafo matrices to get "homo-two-protein-complex" (Mon Jan 12 2009 - 12:42:00 CST)
- Re: 4x4 trafo matrices to get "homo-two-protein-complex" (Mon Jan 12 2009 - 12:09:50 CST)
- 4x4 trafo matrices to get "homo-two-protein-complex" (Sun Jan 11 2009 - 22:58:47 CST)
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Sebastian Wilhelm
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SebastiÃ¡n GutiÃ©rrez
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- Re: How to make the script that shows simulation time on a movie work (Thu May 26 2016 - 13:36:40 CDT)
- Re: AW: how to make the structures in the movie look better (Mon Oct 20 2014 - 15:10:32 CDT)
Sebastián Gutiérrez
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- Re: Building unit cell from asymmetric unit (Thu Jul 05 2012 - 11:33:43 CDT)
- Building unit cell from asymmetric unit (Wed Jul 04 2012 - 17:16:32 CDT)
- Re: Building a membrane (Wed Jul 04 2012 - 17:40:32 CDT)
- Re: Building a membrane (Tue Jul 03 2012 - 11:31:41 CDT)
- Re: Turning Label Info output off in vmd console (Fri Aug 19 2011 - 15:21:02 CDT)
- Turning Label Info output off in vmd console (Thu Aug 18 2011 - 18:14:06 CDT)
- Molefacture "namehead" error (Mon Apr 27 2009 - 16:43:10 CDT)
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- How to find distance between n-terminal c-alpha and c-terminal c-alpha. (Wed May 20 2015 - 05:29:47 CDT)
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Sefcikova, Jana
- RE: restarting calculations anytime within Equilibration and MD simulations steps in QwikMD (Tue Apr 30 2024 - 17:41:39 CDT)
- RE: restarting calculations anytime within Equilibration and MD simulations steps in QwikMD (Tue Apr 30 2024 - 16:05:52 CDT)
- restarting calculations anytime within Equilibration and MD simulations steps in QwikMD (Tue Apr 30 2024 - 12:58:34 CDT)
Seibold, Stephen
- RE: Selecting multiple ranges (Fri Jun 10 2011 - 10:05:21 CDT)
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Seibold, Steve Allan
- Movie Maker in VMD (Thu Jun 18 2020 - 10:38:50 CDT)
- RE: Parsing error in TkConsole (Wed Jan 02 2019 - 15:03:47 CST)
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Seiichiro Tanizaki
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Sekwan Oh
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Semeraro, B David
- RE: cant find output file from tachyon render. (Thu Mar 27 2014 - 15:55:28 CDT)
- RE: cant find output file from tachyon render. (Thu Mar 27 2014 - 14:56:12 CDT)
- RE: cant find output file from tachyon render. (Thu Mar 27 2014 - 14:30:05 CDT)
- RE: cant find output file from tachyon render. (Thu Mar 27 2014 - 12:07:45 CDT)
- cant find output file from tachyon render. (Thu Mar 27 2014 - 08:50:56 CDT)
Semorale
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- HOLE PROGRAM (Wed Aug 27 2008 - 18:23:10 CDT)
- RMSD SCRIPT (Fri Aug 15 2008 - 05:12:11 CDT)
- catDCD- convert DCD format (Tue Aug 12 2008 - 16:10:27 CDT)
SENTHIL KUMAR
- RMSD calc (Thu Mar 20 2008 - 01:11:02 CDT)
- H2 bond distances calculation n displaying image (Thu Mar 06 2008 - 22:07:18 CST)
Seojin You
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SeongJun Heo
- Using multiple CPUS (Mon Jul 09 2007 - 14:20:14 CDT)
Sergei Izrailev
- Re: vmd and color (Fri Apr 23 1999 - 10:50:40 CDT)
- VMD 1.2b2 is now available!!! (Tue May 12 1998 - 18:29:10 CDT)
- new version of VMD (Thu Apr 30 1998 - 18:59:15 CDT)
- Re: New VMD User's Guide available (Wed Jul 30 1997 - 15:33:32 CDT)
- New VMD User's Guide available (Tue Jul 29 1997 - 13:08:25 CDT)
- [VMDTECH] Working with colors (Tue Jul 01 1997 - 20:21:43 CDT)
- [VMDTECH] Hingefind (Wed Jun 11 1997 - 16:45:17 CDT)
- Re: Sorry! Forgot to include the name of the molecule (Mon Apr 23 2001 - 13:23:21 CDT)
- Re: Selection (Tue Oct 17 2000 - 11:28:18 CDT)
- Re: PDB file output (Tue Jul 25 2000 - 12:26:18 CDT)
Sergey Ivanov
- Re: Fwd: PDB Bonds versus "distance" bonds (Thu Jul 17 2008 - 08:14:39 CDT)
- Fwd: PDB Bonds versus "distance" bonds (Tue Jul 15 2008 - 10:49:43 CDT)
Sergey Krishtal
- problem with generating movie from pdb files (Thu Jan 05 2006 - 04:19:38 CST)
Sergey Mkrtchyan
- Re: visualizing a simple polymer chain via VMD (Thu Jan 17 2008 - 16:31:07 CST)
- Re: visualizing a simple polymer chain via VMD (Thu Jan 17 2008 - 13:25:29 CST)
- Re: visualizing a simple polymer chain via VMD (Wed Jan 16 2008 - 13:53:09 CST)
- Re: visualizing a simple polymer chain via VMD (Wed Jan 16 2008 - 12:39:31 CST)
- visualizing a simple polymer chain via VMD (Wed Jan 16 2008 - 11:48:16 CST)
Sergey Samsonov
- GRID maps visualization problems (Tue Nov 24 2009 - 07:50:51 CST)
- GRID maps visualization problems (Tue Nov 24 2009 - 07:35:51 CST)
Sergio
- Is there any way to diagonalize a 3x3 matrix in VMD,.......... (Wed Jan 09 2008 - 13:18:05 CST)
Sergio Anis
- boubt about consistency of measures (Thu Mar 23 2006 - 08:19:52 CST)
- Re: what is wrong with this script? (Tue Mar 21 2006 - 18:52:51 CST)
- Re: psfgen error: MOLECULE DESTROYED BY FATAL ERROR (Tue Nov 22 2005 - 15:58:42 CST)
- Re: Creating bond between two atoms (Fri Oct 21 2005 - 13:27:36 CDT)
- Re: visualizing an atomselect (Wed Sep 28 2005 - 20:54:35 CDT)
- Re: Re: writing pdb (Fri Sep 16 2005 - 11:20:10 CDT)
- Re: writing pdb (Thu Sep 15 2005 - 21:52:21 CDT)
- Re: writing pdb (Wed Sep 14 2005 - 06:06:48 CDT)
- Re: Re: writing pdb (Tue Sep 13 2005 - 12:26:12 CDT)
- writing pdb (Mon Sep 12 2005 - 22:07:04 CDT)
- script (Tue Sep 06 2005 - 07:11:50 CDT)
Sergio Decherchi
- Re: surface potential on an externally loaded msms surface (Thu Feb 02 2012 - 02:59:49 CST)
- Re: surface potential on an externally loaded msms surface (Sat Jan 28 2012 - 14:22:10 CST)
- Re: surface potential on an externally loaded msms surface (Sat Jan 28 2012 - 05:57:10 CST)
- surface potential on an externally loaded msms surface (Fri Jan 27 2012 - 11:52:12 CST)
- R: I: vmd on windows (Tue Jan 03 2012 - 05:42:56 CST)
- Re: I: vmd on windows (Tue Dec 20 2011 - 16:18:14 CST)
- I: vmd on windows (Tue Dec 20 2011 - 07:48:55 CST)
- vmd on windows (Fri Dec 16 2011 - 09:16:42 CST)
Sergio E. Wong
- missing RMSD tool in extensions menu (Fri Feb 13 2004 - 18:22:42 CST)
Sergio Garay
- Question about Gromacs box size in VMD..... (Thu Jan 03 2008 - 07:27:37 CST)
Sergio Perez
- Problem selecting atoms MacOS VMD 1.9.4a55 for MacOS X, 64-bit Intel x86 (x86_64) (Tue Jan 11 2022 - 10:21:12 CST)
- Re: Problems MacOS Big Sur (Tue Apr 20 2021 - 02:01:26 CDT)
- Re: Problems MacOS Big Sur (Wed Mar 17 2021 - 02:31:34 CDT)
- Problems MacOS Big Sur (Mon Mar 15 2021 - 02:06:51 CDT)
- Problems MacOS Big Sur (Fri Mar 05 2021 - 02:13:18 CST)
Sergio Urahata
- Re: Rendering surfaces from PLT files (Mon Jul 24 2006 - 12:21:32 CDT)
- Re: Rendering surfaces from PLT files (Mon Jul 24 2006 - 11:28:07 CDT)
- Rendering surfaces from PLT files (Sat Jul 22 2006 - 16:50:02 CDT)
- Re: updating display of atoms in contact (Mon Jul 10 2006 - 17:06:30 CDT)
sesha surya vara prasad reddy karri
- (no subject) (Mon Jul 17 2017 - 01:16:48 CDT)
- (no subject) (Mon Jul 17 2017 - 01:10:17 CDT)
Seth Axen
- Re: FFTK dihedrals and problematic intermolecular H-bonds (Sat May 21 2016 - 13:45:08 CDT)
- Re: Parameters for HS(CH2)11NH2 (Sat May 21 2016 - 00:02:24 CDT)
- Re: ffTK fitting dihedrals (Wed May 18 2016 - 14:04:29 CDT)
- ffTK fitting dihedrals (Tue May 17 2016 - 13:23:41 CDT)
Seth Burleigh
- getting python to work (Tue Jun 29 2010 - 11:20:09 CDT)
Seth Tanner
- a detail about PSFGENv1.4 (Wed Feb 02 2011 - 12:49:37 CST)
setyanto md
- solvent radius (Tue Mar 20 2012 - 01:03:29 CDT)
- tutorial on inorganic builder (Tue Mar 13 2012 - 03:56:35 CDT)
Seungho Choe
- Re: a problem on Red Hat Enterprise Linux 5 (Mon Jan 05 2009 - 11:25:16 CST)
- a problem on Red Hat Enterprise Linux 5 (Mon Jan 05 2009 - 10:48:32 CST)
Seweryn Bialasiewicz
- Can VMD build predicted protein structures by homology? (Mon Nov 29 2010 - 21:43:11 CST)
SEZEN VATANSEVER
- Re: FFTK-Opt.Bonded-empty string error_VMD1.9.2Beta (Thu Nov 20 2014 - 06:23:43 CST)
- FFTK-Opt.Bonded-empty string error_VMD1.9.2Beta (Wed Nov 12 2014 - 04:40:59 CST)
sfrickenhaus
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- nonstandard solvate + cyclic peptides in explicit DMSO box + gofr (Thu Jul 26 2007 - 04:45:13 CDT)
Shachi Gosavi
- structural alignment (Thu Oct 27 2005 - 17:01:42 CDT)
Shadi Mirzae
- rmsd (Mon Aug 11 2008 - 13:52:14 CDT)
Shah, Tanooj
- OH- Drude parameters (Mon Jul 03 2023 - 17:09:42 CDT)
SHAHEE ISLAM
- Re: save contact map residue-residue distance plot (Mon Jan 20 2020 - 23:38:19 CST)
- save contact map residue-residue distance plot (Mon Jan 20 2020 - 03:36:22 CST)
- RE: Re: invalid command name "La::mevsvd_br" (Mon May 21 2018 - 09:29:04 CDT)
- Re: invalid command name "La::mevsvd_br" (Fri May 18 2018 - 01:03:50 CDT)
- invalid command name "La::mevsvd_br" (Fri May 18 2018 - 00:43:54 CDT)
- Re: how to merge two pdb in a single file (Fri Mar 16 2018 - 09:26:27 CDT)
- how to merge two pdb in a single file (Fri Mar 16 2018 - 09:20:03 CDT)
- Re: disulfide bonds are not showimg in vmd (Mon Jan 29 2018 - 02:34:29 CST)
- Re: disulfide bonds are not showimg in vmd (Mon Jan 29 2018 - 01:41:15 CST)
- disulfide bonds are not showimg in vmd (Mon Jan 29 2018 - 00:01:25 CST)
- Re: having problem with disulfide bond (Tue Jan 09 2018 - 01:21:24 CST)
- having problem with disulfide bond (Tue Jan 09 2018 - 00:04:01 CST)
Shaherin Basith
- Autoionize error in VMD (Fri Jan 11 2013 - 02:06:22 CST)
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- Modified DNA bases PDB files (Wed Sep 07 2005 - 14:00:54 CDT)
- moving by angle and measuring angle (Wed Aug 17 2005 - 18:01:10 CDT)
- changing occupancy for bunch of PDB file (Fri Jul 08 2005 - 13:48:44 CDT)
- Re: wrong bond and bond breaking (Fri Apr 15 2005 - 13:19:24 CDT)
- Can we fix the position of two atoms while minimization? (Wed Sep 29 2004 - 10:39:50 CDT)
- How to Solvate protiens in any other solvent (Tue Aug 03 2004 - 17:19:53 CDT)
Shailesh Pandey
- Re: running a C code in VMD (Thu Jun 26 2014 - 05:59:44 CDT)
Shalabh Maroo
- Re: VMD Display Error - Detected X11 'Composite' extension (Fri Mar 09 2012 - 10:50:14 CST)
- VMD Display Error - Detected X11 'Composite' extension (Thu Mar 08 2012 - 17:53:05 CST)
Shane O Mahony
- Re: Problem with using FFKT to optimize bonded parameters (Wed Oct 23 2013 - 10:03:37 CDT)
- Problem with using FFKT to optimize bonded parameters (Wed Oct 23 2013 - 09:29:46 CDT)
Shane.OMahony
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- FFTK: Error when optimizing charges (Thu Feb 06 2014 - 08:10:00 CST)
Shang,Emily
- Re: How do I define "collision only" atoms using MSMS? (Thu Aug 20 2020 - 11:03:37 CDT)
- Re: How do I define "collision only" atoms using MSMS? (Thu Aug 20 2020 - 10:12:18 CDT)
- How do I define "collision only" atoms using MSMS? (Wed Aug 19 2020 - 10:24:08 CDT)
- Molecular Surface Restricted (Fri Aug 14 2020 - 19:14:59 CDT)
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- Set minimum distance cutoff for dynamic bonds (Sun Apr 24 2016 - 22:46:44 CDT)
Shantenu Jha
- Re: Test version of VMD 1.8.4 for Linux/IA64 (SGI Prism, Altix, etc..) (Mon Jul 04 2005 - 14:32:24 CDT)
Shantipriya Tenneti
- Reg: General question! (Mon Sep 08 2003 - 11:26:39 CDT)
- Re: Reg: No. of Frames (Mon Jul 28 2003 - 13:04:31 CDT)
- Reg: No. of Frames (Sun Jul 27 2003 - 02:11:09 CDT)
- Reg: BABEL (Sun Jul 13 2003 - 15:30:20 CDT)
- Reg:Babel (Sun Jul 13 2003 - 14:57:10 CDT)
- .XYZ File format (Fri Jun 20 2003 - 18:04:42 CDT)
- New User of VMD (Wed Jun 18 2003 - 12:37:09 CDT)
Shaojie Ma
- Re: Read dcd file error using vmd1.8.5 for windows (Tue Nov 28 2006 - 00:41:53 CST)
- Read dcd file error using vmd1.8.5 for windows (Mon Nov 27 2006 - 21:49:46 CST)
Shaorui Yang
- Re: color atom by stress (Sat May 21 2011 - 21:10:17 CDT)
- color atom by stress (Sat May 21 2011 - 15:23:48 CDT)
Sharav Desai
- Fwd: vmd-1 (Tue Apr 11 2017 - 03:32:09 CDT)
Shari Chin
- Famous repl1ca w4tches r0lex Cartier Bvlgari (Fri Apr 20 2007 - 23:08:24 CDT)
Sharlene Denos
- Re: PBC & Solvate Tool in VMD (Wed Feb 16 2011 - 08:37:30 CST)
- PBC & Solvate Tool in VMD (Wed Feb 16 2011 - 00:03:36 CST)
- PBC Option With Solvate Tool (Tue Feb 15 2011 - 23:31:00 CST)
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Shashidhar Rao
- Re: selection of atoms/residues across multiple molecules... (Mon Feb 01 2016 - 16:27:39 CST)
- Re: selection of atoms/residues across multiple molecules... (Mon Feb 01 2016 - 14:25:15 CST)
- Re: selection of atoms/residues across multiple molecules... (Mon Feb 01 2016 - 10:57:37 CST)
- selection of atoms/residues across multiple molecules... (Fri Jan 29 2016 - 10:45:07 CST)
Shatadal Ghosh
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- VMD and Interactive Essential Dynamics (IED) (Tue Mar 22 2005 - 00:22:05 CST)
Shawn
- Re: cant connect Novint Falcon with VMD (Thu Aug 12 2010 - 15:25:26 CDT)
- Re: cant connect Novint Falcon with VMD (Thu Aug 12 2010 - 14:48:31 CDT)
- Re: cant connect Novint Falcon with VMD (Thu Aug 12 2010 - 14:28:06 CDT)
- cant connect Novint Falcon with VMD (Thu Aug 12 2010 - 13:21:56 CDT)
Shay Amram
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Sheena Singh
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- Re: Rgarding the output for dx file of occupancy(VolMap) (Tue Sep 19 2017 - 10:27:37 CDT)
- Rgarding the output for dx file of occupancy(VolMap) (Mon Sep 18 2017 - 10:38:19 CDT)
Shehan Parmar
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Sheldon Park
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sheldonp_at_sas.upenn.edu
- changing default sec struct colors (Mon Jan 02 2006 - 10:18:21 CST)
- pdb structure off the web (Mon Jan 02 2006 - 10:00:06 CST)
Shen
- Re: question on vmd installation (Wed Apr 05 2006 - 03:51:30 CDT)
- Re: question on vmd installation (Tue Apr 04 2006 - 05:57:12 CDT)
- question on vmd installation (Mon Apr 03 2006 - 13:27:38 CDT)
Sheng, Zi-Zhang
- Re: Problems in setting up low pH systems (Wed Jan 11 2012 - 20:26:49 CST)
- Problems in setting up low pH systems (Wed Jan 11 2012 - 10:03:10 CST)
Shenoy, Sukesh
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- psfgen probs (Tue Aug 22 2006 - 10:03:41 CDT)
- psfgen problems? (Mon Aug 21 2006 - 17:41:52 CDT)
Sherif Arafa
- Problem in VMD Big Sur (Thu Feb 11 2021 - 14:41:37 CST)
Sherman Sherman
- You can s4ve 80% (Wed Apr 02 2008 - 10:10:22 CDT)
Shesh Nath
- Re: DNA hairpin (Sat Aug 20 2011 - 04:41:20 CDT)
- DNA hairpin (Sat Aug 20 2011 - 01:19:04 CDT)
- vmd (Sat Aug 06 2011 - 02:04:59 CDT)
shgnwgn_at_eden.rutgers.edu
- Altering water sphere and charmm type (Mon Jul 25 2005 - 10:50:50 CDT)
- hydrogen bond energy (Tue Jun 28 2005 - 10:50:25 CDT)
- psfgen deleting water molecules (Mon Jun 13 2005 - 09:37:55 CDT)
- memory problem p4_Globmemsize (Wed Jun 08 2005 - 14:50:48 CDT)
Shi, Chuanyin
- Problem when labeling atoms on machine with intel X4500HD integreted graphic card (Thu Feb 12 2009 - 15:25:45 CST)
shiladitya_at_jncasr.ac.in
- Re: trouble with running vmd after installation , machine gets hung (Mon Sep 22 2008 - 18:45:30 CDT)
- Re: trouble with running vmd after installation , machine gets hung (Sat Sep 20 2008 - 23:14:50 CDT)
- trouble with running vmd after installation , machine gets hung (Fri Sep 19 2008 - 04:30:01 CDT)
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- : about complexing protein and ligand! (Sun Jan 11 2009 - 22:40:48 CST)
Shirley Hui
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- IMD Plugin Errors (Sat Feb 21 2004 - 21:18:12 CST)
- Flexible Water molecules (Sat Feb 21 2004 - 17:54:00 CST)
- Solvate (Tue Sep 14 2004 - 08:16:14 CDT)
- Re: VMD: Potential Energy Calculation (Fri May 07 2004 - 09:44:04 CDT)
- VMD: Potential Energy Calculation (Wed May 05 2004 - 23:28:49 CDT)
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- hingefind (Mon Jan 22 2007 - 18:54:11 CST)
- Re: To display only certain regions of the .dx map in VMD (Fri Aug 11 2006 - 09:26:11 CDT)
- To display only certain regions of the .dx map in VMD (Mon Aug 07 2006 - 12:01:05 CDT)
- script for multiple structure superimposition? (Thu May 04 2006 - 16:48:33 CDT)
- Re: VMD scripting (Thank you) (Thu Oct 06 2005 - 15:55:17 CDT)
- VMD scripting (Thu Oct 06 2005 - 14:37:50 CDT)
- structure superimposition (Sat Oct 30 2004 - 23:18:33 CDT)
- Re: Align a PORTION of several structures (Fri Oct 15 2004 - 09:33:00 CDT)
- Align a PORTION of several structures (Wed Oct 13 2004 - 18:05:01 CDT)
- Re: Slow file importing and movie generating in Linux system (Thu Sep 02 2004 - 19:24:33 CDT)
- Re: Slow file importing and movie generating in Linux system (Thu Sep 02 2004 - 10:04:33 CDT)
- Re: Slow file importing and movie generating at Linux system (Thu Sep 02 2004 - 10:14:34 CDT)
- Re: Slow file importing and movie generating at Linux system (Wed Sep 01 2004 - 19:51:22 CDT)
- Slow file importing and movie generating at Linux system (Thu Aug 26 2004 - 12:32:03 CDT)
- to get SURFACE CHARGE DISTRIBUTION of protein (Tue Aug 24 2004 - 13:12:51 CDT)
- Re: get average coord. from .pdb file? (Mon Aug 16 2004 - 19:33:21 CDT)
- Re: Calculate accessible surface area (Mon Aug 16 2004 - 19:35:29 CDT)
- Calculate accessible surface area (Fri Aug 13 2004 - 17:14:33 CDT)
- charge surface area (Fri Aug 13 2004 - 11:48:00 CDT)
- get average coord. from .pdb file? (Fri Aug 13 2004 - 11:43:27 CDT)
- Slow down the update speed in animation (Tue Aug 10 2004 - 17:13:39 CDT)
- Re: Re: to load multiple trajectory files/append dcd to a PSF file? (Tue Aug 10 2004 - 13:50:12 CDT)
- Re: to load multiple trajectory files (Tue Aug 10 2004 - 11:27:01 CDT)
- Re: to load multiple trajectory files (Tue Aug 10 2004 - 10:46:27 CDT)
- Re: VideoMach/personable Label/label by ResName (Mon Aug 09 2004 - 21:03:33 CDT)
- Re: molecular surface/multiple trajectory files/the speed in animation (Mon Aug 09 2004 - 20:51:00 CDT)
- VideoMach/personable Label/label by ResName (Mon Aug 09 2004 - 14:53:32 CDT)
- molecular surface/multiple trajectory files/the speed in animation (Sun Aug 08 2004 - 19:26:56 CDT)
SHIVAM TIWARI
- wrapping atoms along a specific axis with pbctools (Wed Jun 26 2024 - 03:30:19 CDT)
- Re: atomselection near periodic boundaries (Mon Feb 19 2024 - 00:41:43 CST)
- Re: assigning segment id or a unique identity in lammps data file (Thu Jan 04 2024 - 02:26:56 CST)
- assigning segment id or a unique identity in lammps data file (Wed Jan 03 2024 - 11:27:38 CST)
- Re: Issue assigning impropers with topotools (Thu Dec 07 2023 - 09:37:08 CST)
- Issue assigning impropers with topotools (Tue Nov 21 2023 - 00:21:27 CST)
- parameterizing a peptide with a methylated backbone nitrogen (Thu Mar 25 2021 - 04:28:36 CDT)
- attachment file size limit for the mailing list (Thu Mar 25 2021 - 00:19:00 CDT)
- how to search for existing topology (Sun Jan 31 2021 - 06:22:14 CST)
- Re: Update on email sent last week (Mon Jan 11 2021 - 12:48:22 CST)
- Re: CHARMM parameters for ADP-ribosylated arginine? (Wed Dec 30 2020 - 01:15:40 CST)
- Orientational correlation function (Mon Jun 22 2020 - 05:50:10 CDT)
- orientational correlation function for protein (Thu Jun 18 2020 - 06:20:10 CDT)
Shivanand Malaganvi
- Unable to visualize the solid isosurfaces (Tue Sep 12 2017 - 10:46:00 CDT)
- Unable to visualize the solid isosurfaces (Wed Aug 30 2017 - 07:12:33 CDT)
Shivang Agarwal
- Script for Finding Point Group Symmetry of Molecule and Saving the Ideal coordinate (Sat Sep 26 2020 - 00:31:16 CDT)
shixin yang
- How to build a coiled alpha-helix (Tue Apr 02 2013 - 09:23:44 CDT)
shiyong liu
- Kshatresh Dutta, let's connect on LinkedIn (Sat Apr 06 2013 - 00:06:13 CDT)
shiziyuan
- Re: visualize trajectories from lammps parallel results (Thu Jun 17 2010 - 15:44:41 CDT)
- visualize trajectories from lammps parallel results (Tue Jun 15 2010 - 15:44:58 CDT)
shome sankar bhunia
- HOW TO PARAMETRIZE A LIGAND (Thu Apr 28 2011 - 04:53:12 CDT)
- NAMDenergy calculation (Fri Mar 25 2011 - 08:28:50 CDT)
- ANALYZING DESMOND OUTPUT IN VMD (Sun Mar 20 2011 - 03:55:58 CDT)
Shomesankar Bhunia
- SURF error (Wed Mar 12 2014 - 05:17:40 CDT)
- Re: Tachyon generation of dat files only (Thu Nov 14 2013 - 08:43:55 CST)
- Re: Tachyon generation of dat files only (Thu Nov 14 2013 - 08:53:52 CST)
- Tachyon generation of dat files only (Thu Nov 14 2013 - 08:04:40 CST)
- Re: creating high quality movie in VMD (Mon Nov 11 2013 - 07:04:45 CST)
- creating high quality movie in VMD (Sat Nov 09 2013 - 12:57:10 CST)
- VMD_waterbox (Sun Sep 16 2012 - 23:23:59 CDT)
Shore, Jay
- Re: Running VMD from the terminal on MacBook Pro (Wed Nov 03 2010 - 10:52:49 CDT)
- RE: VMD 3D movies rendering (Tue Aug 17 2010 - 13:34:31 CDT)
Shoresh Shafei
- Re: tcl scripting for adding hydrogens to particular atoms in multiple pdb files (Thu Jan 28 2016 - 06:52:10 CST)
- tcl scripting for adding hydrogens to particular atoms in multiple pdb files (Wed Jan 27 2016 - 10:15:58 CST)
Shounak Mukherjee
- Re: Dipole Moment calculation (Tue Dec 08 2020 - 13:13:29 CST)
- Dipole Moment calculation (Wed Dec 02 2020 - 04:16:34 CST)
shourabh rawat
- developing plugins to vmd in python (Tue Jul 03 2007 - 01:12:22 CDT)
SHRAVANI NETHI
- Fw: selection of molecules in dynamic region (Wed Jul 01 2020 - 10:16:11 CDT)
SHRAVANI NETHI .
- pbc wrap for nonbonded group of atoms (Mon May 20 2024 - 06:40:34 CDT)
- Re: Saving updated trajectory coordinates of selected atoms (Mon Nov 16 2020 - 08:04:04 CST)
- Saving updated trajectory coordinates of selected atoms (Mon Nov 16 2020 - 07:07:46 CST)
- unable to access vmd through ssh x11 forward using mobaxterm (Sat Jul 11 2020 - 02:25:29 CDT)
- Fwd: Fw: selection of molecules in dynamic region (Wed Jul 01 2020 - 11:59:23 CDT)
- Fwd: Fw: selection of molecules in dynamic region (Wed Jul 01 2020 - 12:04:05 CDT)
- selection of molecules in dynamic region (Mon Jun 29 2020 - 03:05:10 CDT)
Shuaib Shahid
- finding charges and diameters (Wed Feb 25 2004 - 03:21:52 CST)
- finding charges and diameters (Tue Feb 24 2004 - 11:20:27 CST)
Shubhadip Das
- NAMD energy (Thu Aug 27 2015 - 09:15:34 CDT)
- unable to load cartoon represention of my peptide (Sat Dec 01 2012 - 01:49:23 CST)
Shubham Agarwal
- Re: Qurry Regarding Vizualization of two data sets (Mon Dec 21 2020 - 09:58:35 CST)
- Qurry Regarding Vizualization of two data sets (Thu Dec 17 2020 - 04:38:15 CST)
- Qurry Regarding Vizualization og two data sets (Tue Dec 15 2020 - 09:05:05 CST)
Shubham Mishra
- Re: A nanosphere with mass (Mon Feb 01 2016 - 12:19:37 CST)
- Re: A nanosphere with mass (Mon Feb 01 2016 - 04:32:50 CST)
- A nanosphere with mass (Mon Feb 01 2016 - 02:24:21 CST)
- A nanosphere with mass (Mon Feb 01 2016 - 02:25:09 CST)
- A nanosphere with mass (Mon Feb 01 2016 - 01:29:43 CST)
Shubhangi Gupta
- PorcupinePlot: invalid command name error (Fri Jul 22 2016 - 05:42:57 CDT)
Shulin Zhuang
- how to transform the coordinate of the atom using vmd (Fri Dec 07 2007 - 14:01:51 CST)
- difference for solvating a protein in long box suing or not using Molecule Dimensions (Sun Nov 25 2007 - 16:43:40 CST)
- How to put metal ion into my protein (Wed Oct 03 2007 - 22:29:40 CDT)
- How to solvate a protein in a large water sphere (Fri Aug 31 2007 - 03:44:50 CDT)
- How to calculate the C alpha RMSD from NAMD trajectory (Fri Aug 03 2007 - 02:31:22 CDT)
- Re: calculation of free energy between lipid membrane and protein (Thu Mar 01 2007 - 01:11:10 CST)
- calculation of free energy between lipid membrane and protein (Thu Mar 01 2007 - 00:17:25 CST)
- Re: the python library error in VMD when do IED (Thu Jun 22 2006 - 20:21:03 CDT)
- Re: the python library error in VMD when do IED (Thu Jun 22 2006 - 03:00:53 CDT)
- Re: the python library error in VMD when do IED (Tue Jun 20 2006 - 01:35:20 CDT)
- the python library error in VMD when do IED (Thu Jun 15 2006 - 20:40:23 CDT)
- Re: the python library error in VMD when do IED (Thu Jun 15 2006 - 20:55:56 CDT)
- Re: problem with vmd (Tue Mar 28 2006 - 20:13:46 CST)
- why the same operation vary so large (Mon Mar 27 2006 - 08:31:20 CST)
- about the psfgen of vmd (Tue Mar 21 2006 - 08:46:28 CST)
Shuo Li
- Can you show me an example of the .xyz file that is used to calculate the IR spectrum (Mon Feb 23 2009 - 14:05:15 CST)
Shyam Saladi
- Re: Trouble Recognizing Peptide Sequence (Fri May 16 2014 - 15:47:59 CDT)
- Trouble Recognizing Peptide Sequence (Wed May 07 2014 - 00:45:46 CDT)
shyam sharma
- (no subject) (Sun Jun 17 2018 - 03:24:35 CDT)
- (no subject) (Sat Jun 09 2018 - 12:14:07 CDT)
- Calculation of pair distribution function (Sat Jun 09 2018 - 00:19:21 CDT)
- (no subject) (Fri Mar 09 2018 - 01:15:48 CST)
- (no subject) (Thu Mar 08 2018 - 06:29:59 CST)
shyama Prasad rao
- VMD help - select model (Mon Aug 06 2018 - 01:03:18 CDT)
shyamala
- error - with unknown atom type +CA (Thu Jul 12 2007 - 13:02:04 CDT)
Shyno Mathew
- Re: Re: Qres portion of MultiSeq for vmd 1.9.2 (Fri Apr 15 2016 - 16:07:24 CDT)
- Re: Qres portion of MultiSeq for vmd 1.9.2 (Fri Apr 15 2016 - 14:49:45 CDT)
- Qres portion of MultiSeq for vmd 1.9.2 (Wed Apr 13 2016 - 20:26:51 CDT)
- Re: output of salt bridge plugin (Mon Nov 23 2015 - 11:10:26 CST)
- output of salt bridge plugin (Sun Nov 22 2015 - 22:40:44 CST)
- citing SODIUM program (Sat Jan 04 2014 - 10:45:36 CST)
- Re: Domain Error while using ParseFEP plugin (Mon Dec 09 2013 - 12:23:29 CST)
- Re: Domain Error while using ParseFEP plugin (Mon Dec 09 2013 - 11:01:38 CST)
- Re: Domain Error while using ParseFEP plugin (Sun Dec 08 2013 - 22:40:58 CST)
- Re: Domain Error while using ParseFEP plugin (Wed Dec 04 2013 - 10:41:18 CST)
- Domain Error while using ParseFEP plugin (Mon Dec 02 2013 - 11:42:37 CST)
- using cionize (Tue Mar 12 2013 - 17:44:55 CDT)
- Re: changing font size (Thu Jun 21 2012 - 10:25:04 CDT)
- Re: changing font size (Thu Jun 21 2012 - 10:18:05 CDT)
- changing font size (Tue Jun 19 2012 - 16:44:13 CDT)
- Re: VMD 1.9 installation on linux (Thu Jun 14 2012 - 11:17:52 CDT)
- VMD 1.9 installation on linux (Wed Jun 13 2012 - 08:09:43 CDT)
Sibel Cakan
- Reverse Mapping of RBCG Model (Wed Mar 30 2011 - 07:39:51 CDT)
- CG_MD temperature (Wed Feb 02 2011 - 17:56:12 CST)
- (no subject) (Mon Jan 03 2011 - 04:15:23 CST)
- cg_ionize (Sun Sep 19 2010 - 16:37:15 CDT)
- cg ionization (Sun Sep 19 2010 - 15:28:14 CDT)
- cg ionization (Sun Sep 19 2010 - 15:16:06 CDT)
Sichun Yang
- how to display PDB with MODEL card (Tue Jan 18 2005 - 22:29:20 CST)
- Re: compile catdcd.c (Fri Apr 23 2004 - 19:06:04 CDT)
- compile catdcd.c (Fri Apr 23 2004 - 18:38:56 CDT)
- Hydrogen Bond Energy (Wed Feb 25 2004 - 12:31:45 CST)
- text mode to calculate Internal Energy (Wed Sep 24 2003 - 11:48:34 CDT)
- Re: two molecules (Thu Mar 06 2003 - 14:33:17 CST)
- VMD Representation (addition) (Sun Dec 29 2002 - 15:16:32 CST)
- VMD Representation (Sun Dec 29 2002 - 14:55:12 CST)
- question on prmtop & prmcrd from leap (amber) (Fri Oct 18 2002 - 16:17:46 CDT)
- question on prmtop & prmcrd from leap (amber) (Fri Oct 18 2002 - 16:15:15 CDT)
siddesh southekal
- Re: delete water molecules (Sat Dec 18 2010 - 08:14:25 CST)
- delete water molecules (Fri Dec 17 2010 - 07:18:17 CST)
Siddharth Girdhar
- (no subject) (Thu Jul 20 2017 - 01:42:01 CDT)
Siddharth Subramanian
- Query regarding getting intial configuration of laponite clay!! (Sat Jun 22 2013 - 12:19:33 CDT)
- Query regarding merging structures in vmd!! (Fri Jun 14 2013 - 04:52:55 CDT)
Sidra Rafi
- VMD crashed during reading the trajectory file (Sat Jun 10 2017 - 00:34:34 CDT)
Siegmar Kardinal
- Transparent graphics (Sun Sep 13 1998 - 11:00:44 CDT)
- povray images allways perspective? (Thu Dec 14 2000 - 10:43:39 CST)
Siew Wen Leong
- Rebuilding psf file (Wed Nov 23 2011 - 04:45:38 CST)
siladitya mukherjee
- Re: Units of bond distance in vmd (Thu Nov 08 2012 - 12:22:16 CST)
- Units of bond distance in vmd (Thu Nov 08 2012 - 11:04:06 CST)
- Re: information regarding tcl script for cell volume changing with each frame (Sat Mar 03 2012 - 16:18:07 CST)
- information regarding tcl script for cell volume changing with each frame (Sat Mar 03 2012 - 13:50:09 CST)
- Calculating RDF from xyz file (Thu Mar 01 2012 - 16:38:54 CST)
- convertind dcd to xyz file (Tue Nov 29 2011 - 16:39:22 CST)
- RDF related problems (Sat Sep 24 2011 - 15:17:37 CDT)
- RDF calculation for production steps (Tue Sep 13 2011 - 15:15:53 CDT)
- Re: Movie maker in VMD (Fri Sep 02 2011 - 12:41:02 CDT)
- Re: Movie maker in VMD (Fri Sep 02 2011 - 11:12:21 CDT)
- Re: Movie maker in VMD (Thu Sep 01 2011 - 13:04:58 CDT)
- Movie maker in VMD (Thu Sep 01 2011 - 11:11:15 CDT)
Siladitya Padhi
- Re: FFTK charge optimisation does not converge (Thu May 18 2017 - 21:30:55 CDT)
- FFTK charge optimisation does not converge (Sun May 14 2017 - 15:55:41 CDT)
Silvina Matysiak
- dynamical list of atoms (Wed Sep 06 2006 - 10:02:25 CDT)
silvya
- (no subject) (Thu Apr 10 2003 - 17:55:11 CDT)
simao.pereira_at_di3.units.it
- RE: select grafted chains in nanoparticle (Fri Aug 17 2012 - 14:21:59 CDT)
- RE: multiple residues with same resid and problem with solvation using VMD (Fri Aug 17 2012 - 09:26:43 CDT)
- select grafted chains in nanoparticle (Thu Aug 16 2012 - 11:04:47 CDT)
Simon DÃ¼rr
- Secondary structure not being rendered for 1O82 (Fri Mar 30 2018 - 04:56:50 CDT)
- Re: Cartoon represenation for non-standard residue (Tue Aug 02 2016 - 09:53:50 CDT)
- Cartoon represenation for non-standard residue (Tue Aug 02 2016 - 07:01:01 CDT)
- Re: Selecting atoms of same type in a certain distance (between X and Y angstroms away) (Wed Jun 22 2016 - 08:58:28 CDT)
- Selecting atoms of same type in a certain distance (between X and Y angstroms away) (Wed Jun 22 2016 - 08:42:50 CDT)
- Re: fitting a line to 3D data points (Thu Nov 26 2015 - 08:37:45 CST)
- Re: ILS: Problems with the alignment (Mon Sep 21 2015 - 13:19:10 CDT)
- volutil: -combinepmf - Bug? (Mon Sep 21 2015 - 13:39:30 CDT)
- Align only translation not rotation (Mon Sep 14 2015 - 10:16:08 CDT)
- ILS: Problems with the alignment (Fri Sep 11 2015 - 15:42:26 CDT)
- ILS: clash exclusion distance (Fri Sep 11 2015 - 12:25:46 CDT)
- Re: ILS on GPU Cluster - Exceeded MAX_BINOFFSETS for CUDA kernel (Fri Sep 11 2015 - 09:15:12 CDT)
- ILS on GPU Cluster - Exceeded MAX_BINOFFSETS for CUDA kernel (Wed Sep 02 2015 - 09:42:03 CDT)
Simon Etter
- Re: Segmentation fault (Tue Mar 11 2014 - 11:04:22 CDT)
- Re: Segmentation fault (Tue Mar 11 2014 - 10:21:07 CDT)
- Segmentation fault (Tue Mar 11 2014 - 07:31:17 CDT)
Simon Hogg
- Release Date for v.1.2 ?? (Thu Nov 20 1997 - 17:35:06 CST)
- Problems with vmd under Linux (Thu Jul 31 1997 - 05:53:01 CDT)
- Re: animation (Wed Aug 30 2000 - 19:13:17 CDT)
Simon Latapie
- mol clipplane very slow (Wed Jul 21 2004 - 02:03:44 CDT)
- Isosurface and stepsize (Thu Jul 08 2004 - 04:30:34 CDT)
- Transparency rendering (Fri Jun 25 2004 - 03:28:22 CDT)
- problem with tool command (Wed Jun 16 2004 - 09:38:26 CDT)
- Little problem with VolumeSlice (Thu Jun 03 2004 - 09:16:02 CDT)
simon stockes
- Question about Python and Mac osx (Thu Jan 08 2004 - 17:06:00 CST)
Simon Su
- Re: DLP Stereo and VR toolkit integration with vmd (Wed Sep 16 2009 - 16:29:22 CDT)
- DLP Stereo and VR toolkit integration with vmd (Wed Sep 16 2009 - 16:04:25 CDT)
Simon Wheeler
- RE: Idle script error (Thu Mar 28 2019 - 05:39:37 CDT)
- Idle script error (Mon Mar 25 2019 - 06:07:58 CDT)
simon whitehead
- AMD64 vmd installation problems (Wed May 31 2006 - 04:41:36 CDT)
- cross correlation in VMD (Mon Dec 12 2005 - 12:19:30 CST)
- (no subject) (Tue Jun 14 2005 - 05:34:53 CDT)
- RMSD calculation (Mon Apr 25 2005 - 06:17:35 CDT)
- Opening amber files in VMD (Fri Apr 08 2005 - 10:14:51 CDT)
Simone Gargano
- Issues with urea and autopsf (Tue Aug 29 2023 - 07:17:49 CDT)
Simone Lorenzi
- The usual problem with IED (Mon Oct 17 2005 - 13:28:43 CDT)
Simone Melchionna
- atoms with changing colors (Thu Mar 20 2008 - 16:50:50 CDT)
Simpson, Lisa M
- old VMD post - RE: measuring distances in vmd tkon (Thu Mar 20 2008 - 12:38:36 CDT)
- running ca-dist.tcl (Thu Mar 20 2008 - 08:57:47 CDT)
Simulation Biology
- PBCwrap tools (Sat Jul 09 2011 - 17:48:29 CDT)
Sina Zarepakzad
- Creation of Thin Amorphous SiO2 using Inorganic Builder-VMD (Fri Jul 19 2019 - 07:32:39 CDT)
- Re: Topotools - silicon (110) creation (Sat Mar 30 2019 - 05:10:34 CDT)
- Topotools - silicon (110) creation (Thu Mar 28 2019 - 11:18:43 CDT)
Sinan Arslan
- scan interleaved stereo on Zalman M220W monitor (Tue Jul 14 2009 - 13:11:39 CDT)
Sinclair, Matt
- Reminder: Hands-On Workshop on Computational Biophysics in Auburn, AL (Mon Aug 12 2024 - 13:10:07 CDT)
- Reminder: Hands-On Workshop on Computational Biophysics in Auburn, AL (Mon Apr 29 2024 - 12:39:54 CDT)
- Re: QwikMD - Steered Molecular Dynamics Query (Sun Jul 30 2023 - 13:03:28 CDT)
Sindrila Dutta Banik
- How to constrain a atom (Mon Dec 29 2014 - 10:19:13 CST)
- Problem to generate solvent box (Fri Dec 19 2014 - 06:27:01 CST)
- problem in saving the output (Tue Apr 23 2013 - 02:22:13 CDT)
- average structure generation from trajectory (Thu Apr 11 2013 - 02:00:10 CDT)
- How to generate average structure from trajectory using VMD (Tue Mar 26 2013 - 07:13:00 CDT)
- How to save a snapshot from the trajectory in amber restrt formate (Tue Mar 19 2013 - 02:47:39 CDT)
- problem related to generation of average structure from trajectory (Tue Mar 12 2013 - 14:06:20 CDT)
- Problem related to the save trajectory] (Wed Feb 27 2013 - 00:35:46 CST)
- Can I calculate B-factor using VMD (Tue Feb 26 2013 - 01:19:10 CST)
- Problem related to the save trajectory (Mon Feb 18 2013 - 00:56:07 CST)
Siyoung Kim
- VMD DMS plugin (Mon May 15 2023 - 09:03:32 CDT)
- VMD DMS plugin (Mon May 15 2023 - 09:08:38 CDT)
sjcav_at_aros.net
- problem with bitmap rendering (Wed Jul 03 2002 - 05:35:56 CDT)
- resolution for previous message (Wed Jul 03 2002 - 05:30:00 CDT)
- follow-up to previous message (Sat Jun 29 2002 - 03:56:13 CDT)
- VMD not working anymore (Sat Jun 29 2002 - 01:26:26 CDT)
SKM
- CHGCAR file read in VMD (Wed Jul 31 2024 - 22:06:25 CDT)
- Fwd: bond lengths and angle display (Wed Feb 28 2024 - 21:43:52 CST)
skolev_at_mnet.bg
- How to save coordinates of periodic systems (Wed Feb 20 2013 - 08:31:15 CST)
- Re: Using VMD to plot coordination number of solvated ion v/s time (Fri Mar 02 2012 - 12:33:57 CST)
- Using VMD to plot coordination number of solvated ion v/s time (Fri Mar 02 2012 - 09:33:07 CST)
Sladjana Maric
- Re: APBS plugin (Thu Jun 03 2010 - 11:50:33 CDT)
- APBS plugin (Thu May 27 2010 - 18:16:15 CDT)
SM Bargeen A Turzo
- Atom Selections in QwikMD (Wed Jun 20 2018 - 14:28:03 CDT)
- Re: Resp on VMD (Fri Apr 27 2018 - 11:41:53 CDT)
- Resp on VMD (Mon Apr 23 2018 - 15:46:20 CDT)
- RESP2.4 and FFTK (Mon Apr 23 2018 - 14:22:38 CDT)
- RESP PATH (Mon Apr 23 2018 - 12:49:56 CDT)
- Connecting VMD to a supercomputer center (Thu Mar 29 2018 - 14:04:59 CDT)
- Regarding installation of DruGui (Sat Mar 24 2018 - 06:30:29 CDT)
- Regarding Installation of DruGui (Fri Mar 23 2018 - 23:23:04 CDT)
SMAHANE CHALABI
- parameters file of POPC (Mon Jun 04 2007 - 09:22:30 CDT)
- a gas box (Tue May 15 2007 - 06:10:05 CDT)
- files for air (Fri May 11 2007 - 04:01:27 CDT)
- a air box (Thu May 10 2007 - 08:38:15 CDT)
- a water box containing only the absorbent heads of (Thu May 03 2007 - 03:11:45 CDT)
Smith, Harper
- Re: Index extractor Python Code (Wed Apr 03 2024 - 20:34:25 CDT)
Smith, Harper E.
- Re: Creating Dummy Atoms in VMD Using TCL Script (Fri Oct 27 2023 - 15:40:40 CDT)
- Re: Color change in VMD (Wed Jul 27 2022 - 10:48:58 CDT)
- Re: Visualisation of CG bonds (Sun Jun 26 2022 - 17:49:38 CDT)
- Re: Issue running vmd and tk commands on my computer through script (Wed Feb 02 2022 - 09:55:43 CST)
- Re: Regarding atom index in VMD (Tue Sep 14 2021 - 09:30:53 CDT)
- Re: FFTK kList no such variable (Mon Jul 05 2021 - 11:01:21 CDT)
- Re: Generating parameter files (Wed May 19 2021 - 13:01:13 CDT)
- FFTK: dihedral containing hydrogen? (Tue May 18 2021 - 15:42:21 CDT)
- Re: Angles generated by AutoPSF? (Mon May 17 2021 - 14:57:28 CDT)
- Angles generated by AutoPSF? (Mon May 17 2021 - 12:15:15 CDT)
- Re: Clustering by RMSD (Wed May 12 2021 - 13:27:57 CDT)
- Re: Switching from MP2 in FFTK? (Fri Mar 26 2021 - 13:55:44 CDT)
- Switching from MP2 in FFTK? (Fri Mar 26 2021 - 11:15:10 CDT)
- Error defining "clusters" in NetworkView? (Thu Mar 04 2021 - 18:18:26 CST)
- Re: ffTK torsion scan? (Mon Feb 15 2021 - 15:50:41 CST)
- ffTK torsion scan? (Thu Feb 11 2021 - 18:30:51 CST)
- Re: Deselecting the atoms (Fri Jan 29 2021 - 10:18:48 CST)
- Re: novel residue creation and parameterization (Thu Jan 28 2021 - 14:36:52 CST)
- Re: novel residue creation and parameterization (Wed Jan 27 2021 - 11:42:22 CST)
- CHARMM parameters for ADP-ribosylated arginine? (Tue Dec 29 2020 - 16:03:51 CST)
- Re: Trajectory analysis without loading all frames (Thu Nov 19 2020 - 09:02:54 CST)
- Visualizing forces from .forcedcd files? (Wed Nov 04 2020 - 12:52:17 CST)
- Re: Glu-Lys Isopeptide Bond Parameters? (Thu Oct 08 2020 - 10:04:11 CDT)
- Re: Glu-Lys Isopeptide Bond Parameters? (Wed Oct 07 2020 - 15:28:52 CDT)
- Glu-Lys Isopeptide Bond Parameters? (Wed Oct 07 2020 - 13:44:43 CDT)
- Re: writing a new trajectory with selected atoms (Fri Jul 24 2020 - 01:34:26 CDT)
Smolin, Nikolai
- Re: reading big xtc file (Fri Jan 06 2017 - 09:15:49 CST)
- reading big xtc file (Thu Jan 05 2017 - 15:58:26 CST)
- Re: VMD with 3D TV (Thu Dec 18 2014 - 15:13:43 CST)
- Re: VMD with 3D TV (Wed Dec 17 2014 - 10:34:53 CST)
- VMD with 3D TV (Fri Dec 12 2014 - 10:09:43 CST)
Snehasis Chatterjee
- hydrogen bonding calculation (Thu Jul 02 2020 - 15:54:47 CDT)
- regarding inner volume of a micelle (Tue Oct 15 2019 - 15:38:28 CDT)
snoze pa
- Question related to circular membrane (Thu Aug 15 2013 - 16:26:28 CDT)
- How to split large DCD file (Thu Jan 24 2013 - 10:50:27 CST)
- Re: namd-l: Question regarding FEP parameters (Wed Aug 29 2012 - 13:47:31 CDT)
- Question regarding FEP parameters (Wed Aug 29 2012 - 13:05:15 CDT)
- Regarding saving data (Wed Apr 04 2012 - 12:21:39 CDT)
- Re: LINK or PACTH command in VMD (Wed Sep 14 2011 - 15:56:13 CDT)
- LINK or PACTH command in VMD (Wed Sep 14 2011 - 11:48:53 CDT)
- Re: Distance between atoms in frame (Wed Jul 06 2011 - 09:53:32 CDT)
- Re: Distance between atoms in frame (Tue Jul 05 2011 - 19:12:47 CDT)
- Distance between atoms in frame (Tue Jul 05 2011 - 18:12:31 CDT)
- Re: VMD atom NUMER problem (Wed Jun 29 2011 - 15:24:44 CDT)
- VMD atom NUMER problem (Wed Jun 29 2011 - 15:07:27 CDT)
- Area per lipid (Thu Feb 24 2011 - 12:35:30 CST)
- Re: Re: VMD 1.9 beta 1 posted for download... (Wed Feb 16 2011 - 17:54:39 CST)
- DOPC membrane (Tue Feb 15 2011 - 17:35:24 CST)
- RMSD Question (Sun Nov 28 2010 - 11:08:25 CST)
- VMD water protein anlysis (Mon Feb 22 2010 - 15:39:54 CST)
- Re: CAN'T FIND BOND PARAMETERS FOR BOND C - CPB IN PARAMETER FILES (Sun Feb 14 2010 - 12:47:04 CST)
- Number of H bond formation in VMD (Thu Jan 28 2010 - 17:32:10 CST)
- vmd hbond Calculation (Thu Jan 28 2010 - 11:54:45 CST)
- remove water (Wed Dec 23 2009 - 14:44:45 CST)
- Move molecule to the origin of coordinate system (Wed Nov 25 2009 - 10:49:12 CST)
- Force extension from SMD log file (Thu Aug 20 2009 - 17:25:20 CDT)
- vmd error message in Fedora 11 (Wed Jun 24 2009 - 11:04:15 CDT)
- VMD crash (Thu May 28 2009 - 14:45:10 CDT)
- saving charges (Mon Sep 08 2008 - 12:14:15 CDT)
- question related to rmsd (Mon May 05 2008 - 15:03:07 CDT)
- Example tutorial (Mon Apr 14 2008 - 18:38:03 CDT)
- Re: Link atoms (Thu Jan 10 2008 - 10:45:28 CST)
- Re: Link atoms (Wed Jan 09 2008 - 10:23:31 CST)
- Link atoms (Tue Jan 08 2008 - 18:10:11 CST)
- vmd error message (Fri Jan 04 2008 - 12:59:00 CST)
- Re: Hydrogens in vmd (Thu Jan 03 2008 - 16:19:05 CST)
- Re: Hydrogens in vmd (Thu Jan 03 2008 - 16:15:55 CST)
- Re: Hydrogens in vmd (Thu Jan 03 2008 - 15:53:31 CST)
- Re: Hydrogens in vmd (Thu Jan 03 2008 - 15:30:40 CST)
- Hydrogens in vmd (Thu Jan 03 2008 - 14:08:31 CST)
- vmd QMtool (Thu Dec 20 2007 - 16:53:34 CST)
- parameter tool tutorial (Thu Dec 20 2007 - 17:15:15 CST)
- Re: vmd multiple residue (Wed Jul 25 2007 - 16:29:16 CDT)
- Re: vmd multiple residue (Wed Jul 25 2007 - 16:37:24 CDT)
- vmd residue position (Wed Jul 25 2007 - 14:29:51 CDT)
- Re: vmd residue position (Wed Jul 25 2007 - 14:54:16 CDT)
- vmd multiple residue (Wed Jul 25 2007 - 14:42:05 CDT)
- Re: namd-l: Parameter (Fri Jul 20 2007 - 14:49:18 CDT)
- Autopsf (Fri Jul 20 2007 - 12:42:18 CDT)
- Parameter (Fri Jul 20 2007 - 12:03:12 CDT)
- Re: (Tue Jun 06 2006 - 17:47:34 CDT)
- file bigger than 2GB (Thu Jun 01 2006 - 10:35:04 CDT)
- split (Mon May 22 2006 - 14:43:32 CDT)
- one residue rmsd (Mon May 01 2006 - 17:49:02 CDT)
- Multiple residues at same position (Sun Apr 16 2006 - 02:01:35 CDT)
- Re: namd-l: Generating PSF for 1JNO.pdb chain A (Fri Apr 14 2006 - 11:40:34 CDT)
- Re: latest beta nVidia driver for Windows looks good so far... (Tue Apr 04 2006 - 00:18:22 CDT)
- Re: rmsd-fullthrottle.tcl problem (Thu Mar 30 2006 - 18:27:08 CST)
- Re: isplay script that displays a system in the original pbc cell (Mon Feb 27 2006 - 11:30:08 CST)
- isplay script that displays a system in the original pbc cell (Thu Feb 23 2006 - 13:47:52 CST)
Soeren von Buelow
- Shadows in TachyonLOptiXInternal vs TachyonLOptiXInteractive (Tue Aug 25 2020 - 09:06:03 CDT)
Sofya Lushchekina
- Combination of bigdcd.tcl and topotools plugin (Wed Dec 04 2013 - 10:34:47 CST)
Solen
- Re: variable particle size (Sat Jun 29 2013 - 09:57:20 CDT)
- variable particle size (Thu Jun 13 2013 - 23:01:19 CDT)
sollebac
- Re: "transparent" material not working (Wed May 01 2013 - 13:19:30 CDT)
- Re: transparent option (Fri Mar 29 2013 - 12:23:14 CDT)
- transparent option (Fri Mar 29 2013 - 02:55:20 CDT)
Somnath Dutta
- MDFF through VMD Error FATAL ERROR: DIDN'T FIND vdW PARAMETER FOR ATOM TYPE OT (Fri Dec 21 2018 - 09:39:40 CST)
SONAL GAHLAWAT
- FATAL ERROR: UNABLE TO FIND ANGLE PARAMETERS FOR HB2 CT1 NH3 (ATOMS 1 5 8) (Thu Aug 10 2023 - 13:32:17 CDT)
- Combining multiple psf into one for collagen protein (Mon Apr 17 2023 - 11:42:20 CDT)
Sonibare, Kolawole
- problem with Catdcd (Mon Sep 10 2018 - 14:13:34 CDT)
- Re: Calculating Diffusion Coefficient Using VMD (Tue May 01 2018 - 18:22:52 CDT)
- Re: Calculating Diffusion Coefficient Using VMD (Mon Apr 23 2018 - 13:29:19 CDT)
- Re: Calculating Diffusion Coefficient Using VMD (Mon Apr 23 2018 - 12:22:39 CDT)
- Calculating Diffusion Coefficient Using VMD (Mon Apr 23 2018 - 10:58:56 CDT)
- Calculating Diffusion Coefficient using VMD (Mon Apr 23 2018 - 08:56:34 CDT)
Sonja M. Schwarzl
- drawing bonds with vmd/python interface (Fri Mar 22 2002 - 09:36:46 CST)
SONY kaur
- connect a spring between all the atoms present in pdb structure (Sat Aug 04 2012 - 04:31:42 CDT)
- how to add spring between two atoms (Mon Feb 20 2012 - 13:05:40 CST)
soodabeh ghaffari
- reseting namd library and uploading new topology file (Thu Mar 05 2020 - 09:33:28 CST)
- Re: question about an error in QuickMD (Wed Jan 29 2020 - 16:13:01 CST)
- Re: question about an error in QuickMD (Wed Jan 29 2020 - 16:05:13 CST)
- question about an error in QuickMD (Wed Jan 29 2020 - 15:23:20 CST)
sooraj achar
- Re: VMD Seg fault on startup in Fedora 26 (Sun Sep 03 2017 - 21:39:39 CDT)
- VMD Seg fault on startup in Fedora 26 (Sun Sep 03 2017 - 17:19:26 CDT)
Sophia Hirakis
- Amber rst7 not loading (Wed Jun 20 2018 - 20:25:28 CDT)
Sophie Mader
- AW: Error: not possible to build nodeSelString: () and () (Thu Jun 28 2018 - 07:37:02 CDT)
- Error: not possible to build nodeSelString: () and () (Tue Jun 26 2018 - 04:27:04 CDT)
soroush ziaei
- RE: PSF File (Wed Mar 13 2019 - 12:31:21 CDT)
- RE: FEP tutorial plot error (Thu Jan 17 2019 - 06:57:21 CST)
- RE: h-bond (Sun Dec 23 2018 - 09:51:17 CST)
- h-bond (Sat Dec 22 2018 - 17:04:03 CST)
- creating topology for a unique structure (Sun Nov 04 2018 - 05:49:31 CST)
- error in analyse fep simulation (parse fep) (Fri Oct 19 2018 - 08:54:44 CDT)
- "adding polymer to CNT" (Fri Feb 02 2018 - 07:21:00 CST)
soumadwip ghosh
- (no subject) (Thu Mar 25 2021 - 02:57:21 CDT)
- modify and save updated PSF and CRD files (Wed Mar 24 2021 - 04:02:20 CDT)
- (no subject) (Mon Mar 01 2021 - 03:13:50 CST)
Soumik Ghosh
- Problem with rendering proper colors in linux (Fri Dec 17 2021 - 08:21:25 CST)
- Tachyon sometimes suddenly freezes up when rendering epotential images (Sun Jan 17 2021 - 11:00:56 CST)
- Tachyon freezing up (Tue Sep 08 2020 - 16:02:18 CDT)
- How to get a transparent background with Tachyon (Mon Jul 13 2020 - 02:26:34 CDT)
Soumya Lipsa Rath
- FFTK: Obj value in bond optimization (Wed Mar 02 2016 - 20:36:04 CST)
- Bond Optimization FFTK error (Thu Feb 18 2016 - 18:18:04 CST)
- Re: FFTK Diherdal Scan error (Mon Feb 01 2016 - 20:07:49 CST)
- Re: FFTK Diherdal Scan error (Mon Feb 01 2016 - 18:19:22 CST)
- FFTK Diherdal Scan error (Mon Feb 01 2016 - 00:27:26 CST)
- Unable to re-install vmd (Mon Feb 04 2013 - 00:01:33 CST)
- Problem in loading the trajectories (Thu Jan 31 2013 - 22:35:29 CST)
- superimpose two proteins with different residue numbers (Mon Aug 31 2009 - 02:55:13 CDT)
soumyajyoti haldar
- Re: Drawing Bonds in Periodic structure (Tue Mar 01 2011 - 03:50:36 CST)
- Drawing Bonds in Periodic structure (Mon Feb 28 2011 - 10:07:32 CST)
Sourav Pal
- Addforces (Mon Jul 17 2017 - 01:11:55 CDT)
- HOLE-VMD installation (Tue Jul 04 2017 - 05:31:17 CDT)
Sourav Ray
- Re: Fast PBC wrapping in VMD (Thu Nov 24 2016 - 19:55:32 CST)
- Re: VMD failed after FFTW installation (Wed Jul 13 2016 - 03:49:00 CDT)
- Re: K-means clustering algorithm for multiple frames in C (Sat Jul 02 2016 - 09:45:25 CDT)
- K-means clustering algorithm for multiple frames in C (Thu Jun 30 2016 - 07:54:04 CDT)
- Random placement of molecules within a defined region (Sat May 07 2016 - 11:11:17 CDT)
- Re: Unable to create psf (Sat May 07 2016 - 10:40:24 CDT)
- Wrapping molecules in simulation of an aggregation phenomenon (Fri Apr 01 2016 - 16:28:45 CDT)
- Re: Coarse-graining: Inability to assign charge to C-terminus using fix_martini_psf.tcl (Mon Dec 14 2015 - 18:22:50 CST)
- Coarse-graining: Inability to assign charge to C-terminus using fix_martini_psf.tcl (Mon Dec 14 2015 - 17:51:46 CST)
- Shifting the Geometric Center of entire set of molecules to origin (Wed Nov 04 2015 - 04:33:58 CST)
- Bonds appearing as elongated lines (Wed Sep 16 2015 - 04:34:43 CDT)
- Re: Fwd: Inviting applications for a new PhD program in Quantitative Biosciences at Georgia Tech (Wed Sep 09 2015 - 22:51:54 CDT)
- Re: Modification of terminal N-amino and C-carboxyl of peptide (Fri May 29 2015 - 11:10:47 CDT)
- Modification of terminal N-amino and C-carboxyl of peptide (Thu May 28 2015 - 05:13:17 CDT)
- Re: Protein Builder terminus (Tue May 26 2015 - 11:32:06 CDT)
- Protein Builder terminus (Mon May 25 2015 - 02:02:31 CDT)
- Re: Orienting molecule along principal axes (Wed May 20 2015 - 07:22:56 CDT)
- Re: Orienting molecule along principal axes (Wed May 20 2015 - 04:21:33 CDT)
- Re: Orienting molecule along principal axes (Wed May 20 2015 - 03:59:56 CDT)
- Orienting molecule along principal axes (Wed May 20 2015 - 02:00:55 CDT)
- Re: namd-l: Announcement: 'Hands On' Workshop on Computational Biophysics (Berkeley, CA, Aug 3-7, 2015) (Wed May 20 2015 - 00:33:00 CDT)
- Recent martini top+par+cgc files (Thu Mar 19 2015 - 06:34:03 CDT)
- Coarse-graining a retro protein (Tue Mar 17 2015 - 01:25:46 CDT)
- Re: Extracting coordinates from DCD file to a single PDB file (Tue Feb 17 2015 - 11:22:12 CST)
- Re: Extracting coordinates from DCD file to a single PDB file (Tue Feb 17 2015 - 01:20:27 CST)
- Re: Extracting coordinates from DCD file to a single PDB file (Mon Feb 16 2015 - 04:53:02 CST)
- Re: Extracting coordinates from DCD file to a single PDB file (Mon Feb 16 2015 - 04:36:17 CST)
- Re: Extracting coordinates from DCD file to a single PDB file (Mon Feb 16 2015 - 00:41:26 CST)
- Re: Extracting coordinates from DCD file to a single PDB file (Mon Feb 16 2015 - 00:31:42 CST)
- Re: Extracting coordinates from DCD file to a single PDB file (Sun Feb 15 2015 - 23:21:59 CST)
- Extracting coordinates from DCD file to a single PDB file (Fri Feb 13 2015 - 04:09:36 CST)
- Re: Putting different peptide chains (spaced apart) in a single .xbgf file (Mon Feb 09 2015 - 02:28:54 CST)
- Putting different peptide chains (spaced apart) in a single .xbgf file (Wed Feb 04 2015 - 05:25:19 CST)
- Re-centering protein molecule (Wed Jan 28 2015 - 05:14:56 CST)
Sourmaidou, Damiani
- minimization command (Wed Jan 23 2008 - 12:35:49 CST)
- C NH1 C minimization error (Thu Jan 17 2008 - 06:43:18 CST)
Souvik Sinha
- Re: save contact map residue-residue distance plot (Tue Jan 21 2020 - 00:37:34 CST)
- Re: VMD Tk Console Columns (Thu Oct 11 2018 - 02:54:11 CDT)
- Re: split multi frame pdb (Mon Jul 30 2018 - 04:28:54 CDT)
- Re: split multi frame pdb (Mon Jul 30 2018 - 02:36:23 CDT)
- Re: disulfide bonds are not showimg in vmd (Mon Jan 29 2018 - 02:27:09 CST)
- Re: having problem with disulfide bond (Tue Jan 09 2018 - 02:05:47 CST)
- Re: distance between two groups of atoms (Sat Dec 16 2017 - 04:33:25 CST)
- Optimal path calculation using NetworkView (Mon Aug 14 2017 - 03:59:07 CDT)
spandu K
- Re: OpenGL Display not working (Tue Dec 06 2016 - 22:53:46 CST)
- Re: OpenGL Display not working (Tue Dec 06 2016 - 22:39:31 CST)
- OpenGL Display not working (Tue Dec 06 2016 - 22:02:16 CST)
- OpenGL (Tue Nov 29 2016 - 16:59:42 CST)
- Scale the molecule (Wed Oct 15 2014 - 03:21:57 CDT)
- Get num. of residues (Wed Mar 19 2014 - 01:38:44 CDT)
sperez14_at_us.es
- Userani.tcl script jumps frame after no play (Wed Aug 15 2018 - 09:26:52 CDT)
- labels with sub/superscripts or even symbols (Tue Mar 27 2018 - 01:50:05 CDT)
- Command to save visualization state. (Wed Mar 21 2018 - 05:47:38 CDT)
- polyhedra representation + periodic images (Wed Mar 21 2018 - 05:44:55 CDT)
- Re: Re: problem compiling vmd from source. (Mon Feb 19 2018 - 13:17:11 CST)
- Re: problem compiling vmd from source. (Sun Feb 18 2018 - 14:10:24 CST)
- Can specden produce the autocorrelation and not only the powerspectrum? (Tue Feb 06 2018 - 12:13:34 CST)
- Affordable 3D stereo. (Tue Jan 30 2018 - 06:12:02 CST)
- Changing the format of atom labels from %f.3 to something else (Thu Nov 30 2017 - 04:40:09 CST)
- Changing the format of atom labels from %f.3 to something else (Thu Nov 30 2017 - 02:43:50 CST)
- overriding predifined types for coloring (Wed Jul 12 2017 - 04:10:12 CDT)
spezia_at_caspur.it
- animation (Tue Aug 29 2000 - 09:26:07 CDT)
Spitaleri Andrea
- ugly font in linux/xubuntu-13.10 (Sat Nov 23 2013 - 02:56:18 CST)
- R: R: MM-PBSA calculation (Fri Nov 08 2013 - 04:50:40 CST)
- R: MM-PBSA calculation (Fri Nov 08 2013 - 01:09:33 CST)
spitaleri.andrea_at_hsr.it
- Re: sausage nmr ensemble (Tue Mar 21 2006 - 10:09:48 CST)
- sausage nmr ensemble (Tue Mar 21 2006 - 04:09:48 CST)
- Re: Protein volume and cavityes (Wed Dec 07 2005 - 16:32:33 CST)
- Re: How to rotate a molecule (Sun Oct 30 2005 - 03:12:04 CST)
Sridhar Acharya
- how to load a molecule in pdb format and save in mol2 format in batch mode (Mon Jan 14 2008 - 01:32:33 CST)
Srikanth Dhondi
- visualization problem (Thu Jul 30 2009 - 21:58:27 CDT)
srikasi.qut_at_gmail.com
- 1-Nanotube Zigzag and 2-saving coordinates problem (Tue Feb 07 2023 - 00:00:41 CST)
srinivasa murthy
- Re: water sphere (Tue Oct 07 2003 - 10:14:38 CDT)
- Re: water sphere (Fri Sep 26 2003 - 00:18:41 CDT)
- Re: water sphere (Wed Sep 24 2003 - 08:54:13 CDT)
- water sphere (Tue Sep 23 2003 - 01:40:10 CDT)
Srinivasan Madabushi
- RMSD for non-continous residues (Fri Dec 17 2004 - 18:24:44 CST)
sriteja mantha
- Adding missing residues to a protein (Wed Feb 02 2011 - 23:40:47 CST)
- psfgen plugin (Wed Jun 02 2010 - 05:23:51 CDT)
srtlscao
- Using Magellan Spacemouse with VMD (Mon Nov 25 2002 - 08:38:46 CST)
Sruthi Sudhakar
- Query on networkview plugin (Fri Jul 26 2024 - 07:13:21 CDT)
- Question about NMD file visualization (Sun Feb 26 2023 - 04:18:50 CST)
- Query regarding WISP extension in VMD (Thu Oct 06 2022 - 01:31:58 CDT)
ssaurabh_at_physics.iisc.ernet.in
- Regarding calculating principal Axis Vectors using VMD (Fri Dec 20 2013 - 14:09:28 CST)
sseefeld_at_uwm.edu
- Heme psfgen issue (Fri Aug 25 2006 - 00:33:10 CDT)
- Re: NAMD minimization error (Tue Aug 15 2006 - 10:01:28 CDT)
- Re: NAMD minimization error (Sat Aug 12 2006 - 18:45:17 CDT)
- NAMD minimization error (Sat Aug 12 2006 - 11:50:42 CDT)
sstappa_at_uwm.edu
- Re: water box... (Thu Jul 06 2006 - 19:59:31 CDT)
St. John, Alexander V. (MU-Student)
- Troubles with VMD 1.9.2 recognizing TclTk 8.6 (Wed Jan 07 2015 - 16:34:53 CST)
Stamatia Zavitsanou
- Re: Autopsf CGenFF input (Tue Jul 17 2018 - 10:16:30 CDT)
- Re: Autopsf CGenFF input (Tue Jul 17 2018 - 09:47:20 CDT)
- Re: Autopsf CGenFF input (Tue Jul 17 2018 - 08:56:10 CDT)
- Autopsf CGenFF input (Tue Jul 17 2018 - 03:59:29 CDT)
Stanislav Polonsky
- Re: Problem: VMD 1.8.7 beta 5 does not launch on AIX (Fri Jul 24 2009 - 13:24:45 CDT)
- Problem: VMD 1.8.7 beta 5 does not launch on AIX (Fri Jul 24 2009 - 08:46:05 CDT)
- Re: Problem: volumetric data coloring fails on AIX5_64 with GXT6500 OpenGL renderer (Thu Jul 23 2009 - 16:42:37 CDT)
- Re: Problem: volumetric data coloring fails on AIX5_64 with GXT6500 OpenGL renderer (Thu Jul 23 2009 - 12:21:14 CDT)
- Re: Problem: volumetric data coloring fails on AIX5_64 with GXT6500 OpenGL renderer (Thu Jul 23 2009 - 10:39:36 CDT)
- Re: Problem: volumetric data coloring fails on AIX5_64 with GXT6500 OpenGL renderer (Mon Jul 20 2009 - 16:19:05 CDT)
- Re: Problem: volumetric data coloring fails on AIX5_64 with GXT6500 OpenGL renderer (Mon Jul 20 2009 - 13:16:31 CDT)
- Re: Problem: volumetric data coloring fails on AIX5_64 with GXT6500 OpenGL renderer (Mon Jul 20 2009 - 11:40:40 CDT)
- Problem: volumetric data coloring fails on AIX5_64 with GXT6500 OpenGL renderer (Mon Jul 20 2009 - 11:04:25 CDT)
Stanislaw Bobritsky
- paratool: unable to load optimized geometry (Mon Oct 19 2009 - 03:21:33 CDT)
Stanley Lan
- [selection problem] When I choose all not 'solvent', one residue is gone?v1.8.3 (Fri Oct 28 2005 - 11:47:06 CDT)
- Re: Helix display (Wed Oct 26 2005 - 12:57:08 CDT)
- Cannot load Gromos96 trajectory file (attached) (Mon Oct 17 2005 - 16:26:17 CDT)
- Import gromos output file into VMD without format conversion? (Wed Sep 21 2005 - 09:37:35 CDT)
Stanley, Yemin Shi
- Build a VMD forum? (Wed Mar 19 2008 - 15:49:08 CDT)
- Display bond breaking (Tue Mar 18 2008 - 22:17:50 CDT)
- Could not locate 'dowser' (Program not found message box) (Thu Jan 17 2008 - 07:31:22 CST)
- Video Card for VMD, 2D or 3D (Fri Jan 11 2008 - 18:30:59 CST)
- Pls help, Q abt PDB->PSF (Sat Jan 27 2007 - 21:55:02 CST)
Statics Eng
- incorrect bonds (Tue Feb 14 2017 - 06:01:12 CST)
- Topo file (Tue Feb 07 2017 - 06:39:33 CST)
Stef
- Re: Is it possible to select a sub-trajectory specificities. (Thu Mar 03 2005 - 10:13:28 CST)
- Re: Is it possible to select a sub-trajectory specificities. (Thu Mar 03 2005 - 04:37:05 CST)
- Problem using ied.py (Tue Mar 01 2005 - 08:54:24 CST)
- Is it possible to select a sub-trajectory specificities. (Tue Mar 01 2005 - 08:58:50 CST)
Stefan Boresch
- Re: VMD 1.9.4.a53 crashes on windows 11 (Fri Nov 04 2022 - 02:15:43 CDT)
- Re: Multiseq / stamp alignment on Windows 1.9.4alpha (Thu Dec 02 2021 - 13:55:59 CST)
- Re: Multiseq / stamp alignment on Windows 1.9.4alpha (Thu Dec 02 2021 - 13:05:28 CST)
- Re: Multiseq / stamp alignment on Windows 1.9.4alpha (Thu Dec 02 2021 - 03:49:17 CST)
- Re: Multiseq / stamp alignment on Windows 1.9.4alpha (Wed Dec 01 2021 - 03:23:47 CST)
- Multiseq / stamp alignment on Windows 1.9.4alpha (Tue Nov 30 2021 - 07:45:40 CST)
- Re: Does CHARMM-GUI Drude-Prepper input generator work for MD simulation of carbon nanotubes? (Tue Jul 27 2021 - 02:38:19 CDT)
- Re: VMD 1.9.4a50 64-bit Windows test build posted (Wed May 19 2021 - 03:28:31 CDT)
- Re: VMD junt won't work on Windows (Mon Jan 04 2021 - 04:23:11 CST)
- Re: VMD 1.9.4a50 64-bit Windows test build posted (Wed Dec 16 2020 - 14:16:41 CST)
- Re: VMD 1.9.4a50 64-bit Windows test build posted (Wed Dec 16 2020 - 13:49:53 CST)
- Re: VMD 1.9.4a50 64-bit Windows test build posted (Wed Dec 16 2020 - 10:31:30 CST)
- Re: VMD 1.9.4a50 64-bit Windows test build posted (Wed Dec 16 2020 - 04:44:38 CST)
- Re: VMD 1.9.4a50 64-bit Windows test build posted (Tue Dec 15 2020 - 15:27:01 CST)
- Re: VMD junt won't work on Windows (Tue Dec 15 2020 - 14:16:56 CST)
- Re: VMD 1.9.4a50 64-bit Windows test build posted (Tue Dec 15 2020 - 13:24:22 CST)
- Re: VMD 1.9.4a50 64-bit Windows test build posted (Tue Dec 15 2020 - 10:08:42 CST)
- Re: VMD 1.9.4a50 64-bit Windows test build posted (Tue Dec 15 2020 - 09:33:50 CST)
- Re: VMD 1.9.4a50 64-bit Windows test build posted (Tue Dec 15 2020 - 04:11:28 CST)
- Re: Startup problem on Windows (Fri Nov 20 2020 - 02:17:52 CST)
- Re: Startup problem on Windows (Tue Nov 17 2020 - 14:57:25 CST)
- Startup problem on Windows (Tue Nov 17 2020 - 03:39:20 CST)
- Re: Name / permissions of Optix Diskcache (Thu Dec 12 2019 - 06:37:29 CST)
- Name / permissions of Optix Diskcache (Wed Dec 11 2019 - 01:59:17 CST)
- Re: VMD on a WINDOWS 7 64-bit computer (Wed Mar 27 2019 - 03:01:06 CDT)
- Re: Windows build newer than 1.9.3 (Tue Mar 05 2019 - 02:39:54 CST)
- Windows build newer than 1.9.3 (Mon Mar 04 2019 - 01:54:58 CST)
- Re: PDB loading in old vmd versions (Thu Oct 12 2017 - 01:58:03 CDT)
- Re: PDB loading in old vmd versions (Wed Oct 11 2017 - 14:01:56 CDT)
- Re: PDB loading in old vmd versions (Wed Oct 11 2017 - 03:52:04 CDT)
- PDB loading in old vmd versions (Wed Oct 11 2017 - 01:40:25 CDT)
- Re: qwikmd, some dropdown menus missing (Tue Nov 29 2016 - 03:10:35 CST)
- Re: qwikmd, some dropdown menus missing (Tue Nov 29 2016 - 02:20:31 CST)
- Re: qwikmd, some dropdown menus missing (Mon Nov 28 2016 - 06:31:30 CST)
- qwikmd, some dropdown menus missing (Mon Nov 28 2016 - 04:35:31 CST)
Stefan Doerr
- Re: What does pbc get -now do (Sun Oct 07 2018 - 12:06:37 CDT)
- Re: RTX for raytracing (Thu Sep 27 2018 - 10:24:35 CDT)
- RTX for raytracing (Thu Sep 27 2018 - 05:20:51 CDT)
- Re: psfgen building fails due to locale (Mon Jul 23 2018 - 08:15:25 CDT)
- psfgen building fails due to locale (Mon Jul 23 2018 - 07:28:16 CDT)
- Re: How to copy/paste a membrane patch to create a larger membrane? (Mon Feb 05 2018 - 09:10:55 CST)
- Re: Zoom-to-fit before rendering (Thu Mar 02 2017 - 08:13:37 CST)
- Re: Zoom-to-fit before rendering (Thu Mar 02 2017 - 08:04:36 CST)
- Zoom-to-fit before rendering (Thu Mar 02 2017 - 04:30:10 CST)
- Re: chain identifier change in the pdb files generated by the "solvate" and "Add Ions" plugin (Tue Oct 04 2016 - 09:25:39 CDT)
- Re: Atom names aliased after psfgen (Thu Jul 07 2016 - 05:22:17 CDT)
- Re: Atom names aliased after psfgen (Thu Jul 07 2016 - 05:19:47 CDT)
- Re: backbone selection failing (Fri Apr 22 2016 - 04:34:16 CDT)
- Re: backbone selection failing (Fri Apr 22 2016 - 04:05:10 CDT)
- backbone selection failing (Thu Apr 21 2016 - 11:27:19 CDT)
- Re: Re: psfgen on proteins with multiple chains (Sun Apr 03 2016 - 12:04:32 CDT)
- Re: protein from protein sequence in VMD (Thu Mar 31 2016 - 10:10:54 CDT)
- Re: protein from protein sequence in VMD (Thu Mar 31 2016 - 10:16:11 CDT)
- Re: Adding hydrogens breaks "protein" atomselection and bonds (Wed Mar 16 2016 - 09:27:00 CDT)
- Re: Adding hydrogens breaks "protein" atomselection and bonds (Wed Mar 16 2016 - 09:25:33 CDT)
- Re: Adding hydrogens breaks "protein" atomselection and bonds (Wed Mar 16 2016 - 09:01:22 CDT)
- Adding hydrogens breaks "protein" atomselection and bonds (Wed Mar 16 2016 - 06:25:01 CDT)
- Re: Resid and residue atomselect bug (Thu May 21 2015 - 08:30:17 CDT)
- Re: Resid and residue atomselect bug (Thu May 21 2015 - 08:20:27 CDT)
- Re: AW: Problem with assignation of secondary structure in VMD (Thu May 07 2015 - 04:34:02 CDT)
- Re: Resid and residue atomselect bug (Thu Apr 02 2015 - 09:00:12 CDT)
- Re: Resid and residue atomselect bug (Thu Apr 02 2015 - 08:15:36 CDT)
- Re: Resid and residue atomselect bug (Thu Apr 02 2015 - 08:32:02 CDT)
- Re: Resid and residue atomselect bug (Thu Apr 02 2015 - 07:08:33 CDT)
- Resid and residue atomselect bug (Thu Apr 02 2015 - 03:41:16 CDT)
- Re: Calculating residence time (Thu Apr 02 2015 - 02:37:04 CDT)
- Re: Visualizing H-bonds between two segnames or chains (Wed Mar 25 2015 - 10:57:36 CDT)
- Re: script for displaying multiple frames (Thu Feb 19 2015 - 07:57:12 CST)
- Re: VMD secondary structure Stride bug (Fri Feb 13 2015 - 09:25:12 CST)
- VMD secondary structure Stride bug (Mon Feb 09 2015 - 10:53:10 CST)
Stefan Franzen
- Error in RATTLE algorithm (Mon Nov 19 2012 - 15:38:05 CST)
- Patch for deoxy and dideoxy nucleotides (Mon Feb 13 2012 - 09:31:12 CST)
- Implicit Patch for Nucleic Acids? (Fri Aug 12 2011 - 13:46:24 CDT)
- Asymmetric water molecule (Wed Nov 03 2010 - 02:11:22 CDT)
- load-traj for three dimensions (Fri Oct 01 2010 - 13:35:55 CDT)
- Using RMSD in colvar (Mon May 03 2010 - 08:48:10 CDT)
- Follow-up to PME question (Sun May 02 2010 - 16:54:06 CDT)
- Question Regarding PME Set-up (Sun May 02 2010 - 16:48:20 CDT)
Stefan Gerlach
- Re: Missing main menu (Tue Oct 10 2006 - 04:03:10 CDT)
- Missing main menu (Mon Oct 09 2006 - 13:12:52 CDT)
Stefan Grzybek
- Re: VMD with Babel and chemical2vmd (Tue Apr 22 1997 - 01:31:41 CDT)
Stefan Ivanov
- loading PDBs with multiple states having different numbers of atoms in VMD (Wed Jul 14 2021 - 02:00:24 CDT)
Stefan Kuczera
- Re: vmdrc file not loaded when the filename is a command line argument (Mon Apr 03 2017 - 09:15:22 CDT)
- Re: Commandline file processed before vmdrc read in (Wed Jan 25 2017 - 07:35:34 CST)
- Commandline file processed before vmdrc read in (Tue Jan 24 2017 - 09:47:49 CST)
Stefan Lyne Oliver
- Autopsf Not Generating Atom Numbers Beyond 99999 (Wed Mar 01 2023 - 13:41:26 CST)
- RE: RE: Simple MDFF Tutorial - 1ake does not fit into map (Wed Nov 09 2022 - 18:05:03 CST)
- RE: Simple MDFF Tutorial - 1ake does not fit into map (Fri Nov 04 2022 - 18:52:47 CDT)
- Simple MDFF Tutorial - 1ake does not fit into map (Tue Nov 01 2022 - 22:09:45 CDT)
Stefan Oliver
- Loss of VDW upon rendering with POV3 (Wed Sep 08 2010 - 14:10:34 CDT)
Stefano Guglielmo
- Re: cgenff atom type issue (Sun May 24 2020 - 05:51:55 CDT)
- cgenff atom type issue (Fri May 22 2020 - 11:50:36 CDT)
- splitting pdb (Tue Oct 08 2019 - 10:30:02 CDT)
- Re: water molecules amber force field (Thu Apr 12 2018 - 18:44:28 CDT)
- water molecules amber force field (Thu Apr 12 2018 - 09:03:51 CDT)
- Re: trr generated by catdcd (Tue Feb 21 2017 - 15:36:03 CST)
- trr generated by catdcd (Mon Feb 20 2017 - 19:25:11 CST)
- Re: metadynamics potential vs pmf (Fri Feb 03 2017 - 02:01:33 CST)
- metadynamics potential vs pmf (Tue Jan 31 2017 - 20:02:51 CST)
- Re: colvars module (Mon Jan 30 2017 - 17:26:38 CST)
- Re: colvars module (Mon Jan 30 2017 - 16:05:23 CST)
- Re: colvars module (Mon Jan 30 2017 - 09:06:14 CST)
- colvars module (Sun Jan 29 2017 - 17:40:53 CST)
- orient - winVMD (Sat Jan 07 2017 - 05:33:49 CST)
- Re: Fwd: troubles with openGL (Tue Jul 05 2016 - 13:19:24 CDT)
- Fwd: troubles with openGL (Fri Jun 24 2016 - 03:16:22 CDT)
- troubles with openGL (Thu Jun 23 2016 - 07:08:09 CDT)
- SURF (Wed Jun 15 2016 - 19:42:01 CDT)
- trr generated by catdcd (Sun Jun 05 2016 - 04:17:51 CDT)
- rmsf calculation (Fri Jun 03 2016 - 03:01:50 CDT)
- error loading dcd (Tue Mar 29 2016 - 17:48:41 CDT)
Stefano Meliga
- clusters visualization with colours (Thu Aug 06 2009 - 04:43:05 CDT)
- vmd cannot be launched after successful installation (Wed Jun 10 2009 - 10:58:15 CDT)
- Re: NewCartoon not among Drawing methods (Wed Jun 10 2009 - 10:36:41 CDT)
- Re: NewCartoon not among Drawing methods (Wed Jun 10 2009 - 10:24:26 CDT)
- Re: NewCartoon not among Drawing methods (Wed Jun 10 2009 - 10:04:09 CDT)
- NewCartoon not among Drawing methods (Wed Jun 10 2009 - 08:48:26 CDT)
Stefano Piana
- Re: Re: Display shuts down on startup (Tue Jun 28 2005 - 20:37:15 CDT)
- VMD crash on PDB read (Mon May 02 2005 - 04:38:25 CDT)
- compiling VMD 1.8.3 (Mon May 02 2005 - 05:17:34 CDT)
stefano ricagno
- cartoon representation (Wed Nov 13 2002 - 06:27:33 CST)
Stefano Ugolini
- Re: VMD for Windows with VRPN option (Wed Feb 20 2013 - 09:55:19 CST)
- Re: VMD for Windows with VRPN option (Fri Feb 15 2013 - 10:44:01 CST)
- VMD for Windows with VRPN option (Tue Feb 12 2013 - 08:04:51 CST)
stefdoerr_at_gmail.com
- Re: bond updating in VMD (Sat Aug 19 2017 - 04:41:54 CDT)
Steinar Halldorsson
- Re: AutoPSF error with glycana (end of segment error) (Thu Oct 25 2018 - 07:25:24 CDT)
- Re: AutoPSF error with glycana (end of segment error) (Mon Oct 22 2018 - 10:16:32 CDT)
- AutoPSF error with glycana (end of segment error) (Mon Oct 22 2018 - 08:58:12 CDT)
Stephan Frickenhaus
- IMD per TCL (Tue May 27 2008 - 02:06:34 CDT)
Stephan Grein
- Re: Running TCL scripts (textmode) on a Server (Wed Mar 25 2015 - 10:56:52 CDT)
- Re: Running TCL scripts (textmode) on a Server (Wed Mar 25 2015 - 06:45:04 CDT)
- Running TCL scripts (textmode) on a Server (Wed Mar 25 2015 - 06:00:58 CDT)
Stephane
- Re: VMD freezes KDE under Linux Redhat 7.1 (Thu Oct 25 2001 - 09:16:30 CDT)
stephane acoca
- Loading trajectory into Multiseq (Fri Oct 23 2009 - 18:07:02 CDT)
Stephane Spieser
- dihedral angles (Wed Apr 22 1998 - 09:09:34 CDT)
Stephani Macalino
- Re: vmd error time too large/small to represent (Tue Dec 04 2018 - 19:22:44 CST)
- vmd error time too large/small to represent (Mon Dec 03 2018 - 20:49:06 CST)
- IFD complex for solvation (Tue Oct 09 2018 - 02:08:30 CDT)
Stephanie Held
- Re: Return value of a vector (Mon Sep 28 2009 - 09:57:08 CDT)
- Return value of a vector (Mon Sep 28 2009 - 08:39:27 CDT)
Stephanie Teich-McGoldrick
- Re: Interactive MD and Tcl (Thu Nov 07 2013 - 17:12:41 CST)
- Re: User defined command order (Mon Sep 30 2013 - 22:08:53 CDT)
- User defined command order (Fri Sep 27 2013 - 19:42:43 CDT)
- Re: VMD 1.8.7 and lammpsplugin.so error (Fri Jan 07 2011 - 11:02:33 CST)
- VMD 1.8.7 and lammpsplugin.so error (Wed Jan 05 2011 - 15:14:59 CST)
Stephen Cox
- Re: graphical representations over a number of molecule files (Mon Mar 07 2011 - 13:28:41 CST)
- Re: graphical representations over a number of molecule files (Mon Feb 07 2011 - 04:00:48 CST)
- graphical representations over a number of molecule files (Sun Feb 06 2011 - 14:38:30 CST)
- dynamic atom selection (Tue Nov 09 2010 - 07:11:58 CST)
Stephen Dutz
- RE: average area per lipid (Mon Mar 03 2008 - 16:06:44 CST)
- average area per lipid (Mon Mar 03 2008 - 11:14:11 CST)
Stephen Herbein
- Linking Error on Mac OS X (Mon Sep 24 2012 - 10:45:25 CDT)
Stephen Hicks
- Error in "measure fit" (Sat Oct 11 2008 - 15:05:45 CDT)
Stephen Koch
- Drawing bonds to metals (Tue Apr 08 2003 - 15:37:08 CDT)
- 3D visualization (Thu Dec 20 2001 - 13:39:17 CST)
Stephen M. Dutz
- delatom usage - no such segment? (Sun Dec 09 2007 - 19:05:37 CST)
- psfgen delatom usage (Fri Nov 30 2007 - 15:36:18 CST)
- autoPSF with a POPC membrane (Mon May 07 2007 - 19:37:25 CDT)
- (no subject) (Wed Feb 21 2007 - 15:40:45 CST)
Stephen Montgomery-Smith
- Re: vmd port on FreeBSD (Mon Aug 23 2004 - 09:49:31 CDT)
- vmd port on FreeBSD (Sat Aug 21 2004 - 12:20:52 CDT)
- FreeBSD port (Thu Aug 12 2004 - 23:20:56 CDT)
- Re: Plugins and did I compile VMD correctly? (Thu Aug 12 2004 - 16:51:42 CDT)
- Plugins and did I compile VMD correctly? (Thu Aug 12 2004 - 11:05:49 CDT)
Stephen P. Molar, Ph.D.
- Re: Starting v1.8.4a20 vs. v1.8.2a22 (Sat Oct 22 2005 - 10:02:07 CDT)
- Re: Starting v1.8.4a20 vs. v1.8.2a22 (Thu Oct 20 2005 - 16:12:45 CDT)
- Re: Starting v1.8.4a20 vs. v1.8.2a22 (Thu Oct 20 2005 - 15:05:26 CDT)
- Starting v1.8.4a20 vs. v1.8.2a22 (Thu Oct 20 2005 - 14:07:53 CDT)
Stephen P. Molnar, Ph.D.
- Where is the Tracker Menu (Tue May 13 2003 - 18:46:22 CDT)
Stephen Thomas
- Re: tcl script not executed when submitted using a slurm script (Wed Dec 20 2017 - 09:26:52 CST)
- Re: tcl script not executed when submitted using a slurm script (Wed Dec 20 2017 - 10:14:35 CST)
- Re: tcl script not executed when submitted using a slurm script (Wed Dec 20 2017 - 08:59:11 CST)
- Re: tcl script not executed when submitted using a slurm script (Wed Dec 20 2017 - 08:40:05 CST)
- tcl script not executed when submitted using a slurm script (Tue Dec 19 2017 - 23:55:17 CST)
Stephen Walch
- Fwd: Re: VMD installation on Mac (Mon Dec 05 2005 - 11:04:26 CST)
Sterling Paramore
- Re: namd-l: is possible to remove the waterbox before running VMD (Thu Mar 09 2006 - 11:50:08 CST)
Stern, Julie
- displaying velocity from dlpoly history (Tue Jul 10 2007 - 14:52:37 CDT)
- load state and alignments (Mon Jun 04 2007 - 10:56:36 CDT)
- non-standard residue (Thu May 24 2007 - 21:15:31 CDT)
- unreadable prmtop's and reference memory error? (Thu May 17 2007 - 11:47:04 CDT)
- displaying double, triple bonds (Tue Mar 29 2005 - 14:56:57 CST)
- bond distance across different proteins (Tue Dec 07 2004 - 14:56:59 CST)
- loading limits (Fri Nov 12 2004 - 07:52:24 CST)
- displaying neighboring residues (Wed Sep 22 2004 - 11:54:26 CDT)
Steve Chen
- VMD with stereo on RedHat Linux (Wed Aug 07 2002 - 18:49:27 CDT)
Steve Ding
- help with BIOMT (Thu Aug 11 2005 - 18:10:13 CDT)
Steve Jensen
- Exported POSCAR does not match original (Mon Apr 01 2013 - 17:12:37 CDT)
- Best way for model post processing? (Sun Oct 17 2010 - 23:22:14 CDT)
- Some VMD questions (Tue Jun 30 2009 - 12:27:01 CDT)
Steve Massard
- install plugin: problems with vmd_install_extension (Fri Apr 10 2009 - 04:35:45 CDT)
- VMD atomselect (Thu Apr 02 2009 - 05:57:37 CDT)
Steve Seibold
- rotating ligand (Wed Aug 26 2009 - 14:58:19 CDT)
- Moving Molecule (Mon Aug 24 2009 - 10:37:42 CDT)
- RE: positioning of a compound (Wed Aug 12 2009 - 15:11:00 CDT)
- positioning of a compound (Wed Aug 12 2009 - 14:48:23 CDT)
- (no subject) (Mon Jan 28 2008 - 08:39:37 CST)
Steve Smith
- Re: OSX 10.6 support? (Tue Aug 24 2010 - 10:33:48 CDT)
- Re: OSX 10.6 support? (Tue Aug 24 2010 - 09:39:59 CDT)
- OSX 10.6 support? (Mon Aug 23 2010 - 15:32:05 CDT)
steve_at_beefeater.darkorb.net
- Re: Compiling VMD on IRIX 6.5 redux (Wed Oct 15 2003 - 12:15:07 CDT)
- Compiling VMD on IRIX 6.5 redux (Thu Oct 09 2003 - 11:24:13 CDT)
Steven Cohen
- Re: convert .mrc map to .dx format (Fri Mar 03 2017 - 10:49:47 CST)
- Simulations cutting out due to per-atom velocity (Thu Oct 06 2016 - 14:52:05 CDT)
- Re: Inconsistent frame output with TMD simulations (Wed Jul 27 2016 - 07:46:38 CDT)
- Inconsistent frame output with TMD simulations (Thu Jul 14 2016 - 15:38:55 CDT)
Steven De Volder
- (no subject) (Mon Apr 29 2019 - 08:57:40 CDT)
Steven F. Killen
- Re: OpenGL library loading (Tue Jan 27 2004 - 16:23:35 CST)
- Re: OpenGL library loading (Tue Jan 27 2004 - 11:26:51 CST)
- OpenGL library loading (Thu Jan 22 2004 - 13:34:26 CST)
Steven Neumann
- ~1,5 million system (Tue Apr 11 2017 - 03:51:17 CDT)
- MDFF using Martini (Thu Oct 20 2016 - 21:07:37 CDT)
- CG definition of POPS (Sun Aug 03 2014 - 23:31:23 CDT)
- select and save every X atom (Tue Jan 21 2014 - 15:01:19 CST)
- Re: how vmd return actual vector for given atom (Tue Apr 23 2013 - 06:43:25 CDT)
- how vmd return actual vector for given atom (Thu Apr 18 2013 - 10:36:50 CDT)
- Save trr using command line (Tue Apr 16 2013 - 05:31:18 CDT)
- rgyr from big DCD (Mon Jan 07 2013 - 05:49:58 CST)
- Coarse Grained - angle/bond parameters (Mon Nov 26 2012 - 10:20:33 CST)
- Re: Solvated outside the box (Mon Oct 01 2012 - 06:29:23 CDT)
- Re: Solvated outside the box (Mon Oct 01 2012 - 05:56:33 CDT)
- Solvated outside the box (Mon Oct 01 2012 - 02:58:44 CDT)
- Protein line chain in water spehere (Mon Sep 10 2012 - 09:45:42 CDT)
- move ligand around the protin (Mon Oct 31 2011 - 10:46:07 CDT)
Steven S Plotkin
- Re: Running VMD from the terminal on MacBook Pro (Wed Nov 03 2010 - 11:30:51 CDT)
- Running VMD from the terminal on MacBook Pro (Wed Nov 03 2010 - 08:25:15 CDT)
Steven W
- which model in pdb vill VMD present? (Wed Jan 07 2009 - 12:21:59 CST)
Steven Wang
- VMD 1.9.4a31 segmentation fault on OpenSUSE 15.1 (Tue Jul 16 2019 - 14:43:55 CDT)
Steven(Yuhang) Wang
- Re: mol pdbload failing (Wed Jul 26 2017 - 20:50:37 CDT)
- Re: autoionize plugin parsing error (vmd 1.9.3 ) (Fri Jan 06 2017 - 11:12:14 CST)
- Re: autoionize plugin parsing error (vmd 1.9.3 ) (Wed Jan 04 2017 - 22:41:02 CST)
- Re: autoionize plugin parsing error (vmd 1.9.3 ) (Wed Jan 04 2017 - 20:20:33 CST)
- Re: autoionize plugin parsing error (vmd 1.9.3 ) (Wed Jan 04 2017 - 20:10:38 CST)
- Re: autoionize plugin parsing error (vmd 1.9.3 ) (Wed Jan 04 2017 - 20:08:33 CST)
Stewart Dickson
- VMD-1.8.2 OpenGL Shader Extns. and Chromium (Wed May 19 2004 - 15:44:24 CDT)
- RE: Using VMD with Chromium (Wed May 19 2004 - 11:22:54 CDT)
- Compile from Source Crashes 5/11/04 (Tue May 11 2004 - 09:51:09 CDT)
sting
- How to add ions to a system with non-water solvents (Thu May 09 2019 - 21:22:55 CDT)
sting
- Re:Re: How to add ions to a system with non-water solvents (Mon May 13 2019 - 07:37:46 CDT)
Stipe MustaÄ‡
- Re: Using python interpreter in VMD (Tue Jan 28 2025 - 08:10:58 CST)
- Re: Using python interpreter in VMD (Mon Jan 27 2025 - 05:09:49 CST)
- Re: Using python interpreter in VMD (Wed Jan 22 2025 - 12:46:33 CST)
- Using python interpreter in VMD (Mon Jan 20 2025 - 13:18:41 CST)
Stober, Spencer T
- RE: VMD 1.9.2 b1 OptiX Tachyon Error (Fri Sep 26 2014 - 12:12:14 CDT)
- RE: VMD 1.9.2 b1 OptiX Tachyon Error (Fri Sep 26 2014 - 10:35:07 CDT)
- VMD 1.9.2 b1 OptiX Tachyon Error (Fri Sep 26 2014 - 09:40:07 CDT)
Stock, Mark
- FW: Feature request: read environment to set FreeVR lib, include paths (Fri Feb 13 2015 - 12:07:56 CST)
- Feature request: read environment to set FreeVR lib, include paths (Thu Feb 12 2015 - 17:54:02 CST)
Stojanoski, Vlatko
- Re: CHARMM parameters for iodide and bromide (Sat Oct 24 2015 - 09:37:45 CDT)
- CHARMM parameters for iodide and bromide (Fri Oct 23 2015 - 12:10:58 CDT)
- Re: Plot of distance between two atoms vs frame number (Tue Aug 18 2015 - 15:21:10 CDT)
- Plot of distance between two atoms vs frame number (Tue Aug 18 2015 - 12:35:48 CDT)
Storr, Mark
- MSD (Wed May 29 2002 - 10:43:53 CDT)
- Metal_Envornment Script (Fri May 24 2002 - 11:38:00 CDT)
- Babel and Windows (Tue May 21 2002 - 08:22:37 CDT)
- Write DCD (Tue May 14 2002 - 09:51:06 CDT)
- RE: Animating Trajectories/NAMD Output files (Wed May 08 2002 - 11:16:23 CDT)
- Animating Trajectories/NAMD Output files (Tue May 07 2002 - 13:06:43 CDT)
- RDFs etc (Mon May 06 2002 - 11:18:54 CDT)
Strahs, Dr. Daniel Bernard
- Re: Concatenate DCD Files with Different Numbers of Atoms (Sat Jul 01 2023 - 21:40:55 CDT)
- Two questions: reordering molecule IDs and deleting frames with TCL commands (Sat Mar 11 2023 - 17:03:09 CST)
- VMD disables audio? (Wed Oct 05 2022 - 11:50:17 CDT)
- compiling VMD 1.9.3 under Ubuntu 22.04LTS: modern C library issues (Sat Jul 30 2022 - 14:04:38 CDT)
- Re: NYT article on SARS-CoV-2 aerosol+virion simulations w/ NAMD+VMD (Thu Dec 02 2021 - 09:49:34 CST)
- Re: how to draw boxes with semi-transparent sides (Sun Jun 02 2019 - 19:13:53 CDT)
- Re: vmd smooth trajectory distorted molecule (Wed Aug 09 2017 - 10:27:39 CDT)
- Re: vmd1.9.23 rlwrap: No match (Sat Dec 17 2016 - 19:06:14 CST)
- Re: Fwd: vmd1.9.23 rlwrap: No match (Sat Dec 17 2016 - 17:28:33 CST)
- Re: Fwd: vmd1.9.23 rlwrap: No match (Sat Dec 17 2016 - 15:23:08 CST)
- Re: CatDCD refuses to work (mac) (Fri Jun 10 2016 - 23:20:51 CDT)
- RE: How to populate lib/ directory when compiling (Sat Apr 04 2015 - 10:52:45 CDT)
- RE: compiling VMD -- confused failure (Mon Aug 26 2013 - 22:03:56 CDT)
Streiff, John H.
- adding bonds between segments (Tue Feb 17 2004 - 14:20:24 CST)
- RE:removing residues/fragments from the system (Tue Feb 17 2004 - 10:15:37 CST)
- duplicate atom coordinates in PDB files (Mon Feb 16 2004 - 11:57:51 CST)
Streutker, J
- drawing helices from partial aminoacids (Thu Dec 07 2006 - 04:40:24 CST)
Stuart Murdock
- vmdmovie command line (Wed Jan 26 2005 - 16:42:11 CST)
studier_at_life.illinois.edu
- (no subject) (Sat Sep 27 2008 - 16:22:10 CDT)
Stéphane
- Re: Display problem (Tue Dec 04 2001 - 10:26:23 CST)
- Display problem (Wed Nov 28 2001 - 05:52:41 CST)
Stéphane Pezennec
- Re: Incorrect results from 'measure dipole -masscenter' (Thu Feb 24 2011 - 03:05:22 CST)
- Re: Incorrect results from 'measure dipole -masscenter' (Wed Feb 23 2011 - 10:30:36 CST)
- Incorrect results from 'measure dipole -masscenter' (Wed Feb 23 2011 - 07:24:02 CST)
- dipole / move (align) (Fri Feb 11 2011 - 08:25:43 CST)
Stéphane Teletchéa
- Re: question (Fri Apr 21 2006 - 03:54:28 CDT)
- Re: vmd-1.8.4b10/Linux amd64 only libstdc++.so.6 dependancy (Mon Feb 13 2006 - 04:13:25 CST)
- Re: vmd-1.8.4b10/Linux amd64 only libstdc++.so.6 dependancy (Fri Feb 10 2006 - 08:18:21 CST)
- Re: How to display text on helices ? (Wed Jan 11 2006 - 02:49:16 CST)
- Re: High CPU usage with vmd-1.8.4b6 (99.9 %CPU ...) while using the FPS indicator (Tue Jan 10 2006 - 10:08:22 CST)
- High CPU usage with vmd-1.8.4b6 (99.9 %CPU ...) while using the FPS indicator (Tue Jan 10 2006 - 09:37:04 CST)
- Re: How to display text on helices ? (Tue Jan 10 2006 - 08:47:37 CST)
- How to display text on helices ? (Mon Jan 09 2006 - 11:45:17 CST)
- Re: Video card compatibility (Wed Dec 21 2005 - 07:56:24 CST)
- Re: RMSD problem on 1.8.4a22 (Linux OpenGL) (Thu Dec 15 2005 - 11:59:52 CST)
- Re: RMSD problem on 1.8.4a22 (Linux OpenGL) (Thu Dec 15 2005 - 03:54:08 CST)
- RMSD problem on 1.8.4a22 (Linux OpenGL) (Wed Dec 14 2005 - 06:05:11 CST)
- Re: mpeg movie from trajectory (Wed Nov 13 2002 - 06:21:04 CST)
- Labels 'springs' in labels form (Wed Nov 06 2002 - 07:44:24 CST)
- A vmd bug 1.8a28 (Thu Oct 31 2002 - 08:01:34 CST)
- Re: carnal output trajectory (Wed Oct 30 2002 - 07:50:19 CST)
- Unable to use short loabels (Wed Oct 30 2002 - 03:50:01 CST)
- Re: positioning a protein with trans etc. (Wed Oct 30 2002 - 02:26:36 CST)
- Feature request for vmd 1.8 (Mon Oct 28 2002 - 04:10:55 CST)
- Re: Antialiasing ? (Thu Oct 24 2002 - 02:16:35 CDT)
- Re: multiple structure PDB files (Wed Sep 25 2002 - 03:17:31 CDT)
- Save state miss some parameters ! (Tue Sep 24 2002 - 06:55:50 CDT)
- Re: CDROM/Windows/Linux (Fri Sep 20 2002 - 04:24:12 CDT)
- Is vmd working in float environment ? (Tue Sep 17 2002 - 08:20:13 CDT)
- 2D projection (Thu Jul 25 2002 - 08:12:15 CDT)
- No sequence tool for DNA (Mon Jul 22 2002 - 04:53:57 CDT)
- Not able to read a restart file from AMBER (Mon Jul 15 2002 - 06:17:26 CDT)
- Compressed files (Thu Jul 11 2002 - 03:17:41 CDT)
- Re: problem with amber 6 restart files (parm and rst) (Tue Jun 04 2002 - 06:39:20 CDT)
- Re: about graphics accelaration (Wed May 15 2002 - 10:47:04 CDT)
- Re: Graphics card & Accelerator (Fri Apr 19 2002 - 06:15:18 CDT)
- Re: about graphics accelaration (Mon Apr 15 2002 - 03:22:03 CDT)
- Re: Geforce 3 DRI crashes (Wed Apr 10 2002 - 04:10:21 CDT)
- Re: Removing perspective projection at startup (Fri Mar 01 2002 - 03:12:43 CST)
- Removing perspective projection at startup (Thu Feb 28 2002 - 07:11:37 CST)
- vmdmovie (Thu Jan 24 2002 - 11:47:23 CST)
Stéphane Téletchéa
- Displaying the periodic box ... (Thu May 24 2007 - 09:54:25 CDT)
- Re: How to align a protein normal to lipid bilayer (Mon May 07 2007 - 03:44:36 CDT)
Subbarao Kanchi
- Re: regarding the coordinate transformation on a curved surface to plane surface (Wed Jan 09 2019 - 02:30:46 CST)
- regarding the coordinate transformation on a curved surface to plane surface (Tue Jan 08 2019 - 18:01:28 CST)
- Re: concatenate two pdb files? (Wed Mar 30 2016 - 23:51:00 CDT)
- Re: substrate moving out of the box (Mon Jun 09 2014 - 07:28:40 CDT)
- Re: rlwrap: No match. (Mon Mar 03 2014 - 08:24:55 CST)
- rlwrap: No match. (Mon Mar 03 2014 - 07:34:17 CST)
- Re: VMD text mode commands (Wed Jan 22 2014 - 15:08:26 CST)
- Re: VMD text mode commands (Wed Jan 22 2014 - 14:21:08 CST)
- VMD text mode commands (Wed Jan 22 2014 - 13:29:55 CST)
- Re: error in merging two structures (Thu Jun 13 2013 - 11:24:21 CDT)
Subbusinger N
- Fwd: dcd file uploading problem (Thu Dec 05 2013 - 21:59:32 CST)
- Rmsd (Thu Nov 07 2013 - 00:25:37 CST)
Subha Kalyaanamoorthy
- MacOS VMD1.9.4.a55 crashes- malloc: can't allocate region (Mon Oct 30 2023 - 11:01:09 CDT)
- MacOS VMD1.9.4.a55 crashes- malloc: can't allocate region (Wed Nov 09 2022 - 11:36:29 CST)
subhasish chatterjee
- Re: Re: namd-l: Nanopore simulation (Wed Feb 21 2007 - 22:58:18 CST)
- Re: Re: namd-l: Nanopore simulation (Wed Feb 21 2007 - 00:00:07 CST)
- Re: Re: namd-l: Nanopore simulation (Tue Feb 20 2007 - 23:54:32 CST)
- Nanopore simulation (Tue Feb 20 2007 - 21:58:54 CST)
Subhasish Mallick
- Regarding Periodic MSM calculation (Wed Feb 02 2022 - 02:08:16 CST)
Subramanian Vaitheeswaran
- Multiple incompatible definitions warning (Thu Nov 06 2008 - 11:25:01 CST)
- Sequentially numbering atom names in pdb file (Wed Nov 05 2008 - 14:29:24 CST)
- pbctools usage (Wed Oct 08 2008 - 08:21:10 CDT)
- Re: contour plots (Thu Jul 10 2008 - 10:02:58 CDT)
- Re: namd-l: Energy plot script (Thu May 15 2008 - 07:28:20 CDT)
- Displaying nearest images using PBCTools (Tue Apr 08 2008 - 15:49:03 CDT)
- molecule orientation in saved state (Wed Mar 14 2007 - 12:21:53 CDT)
- Locating channel using hole (Tue Mar 06 2007 - 12:11:23 CST)
subramanian vidhyasankar
- Mail about TCL script (Sun Sep 23 2018 - 06:36:17 CDT)
- mail about renumbering of residues (Sat Sep 22 2018 - 08:08:18 CDT)
- reg membrane hydration using tcl script of vmd (Sat Sep 22 2018 - 08:14:09 CDT)
- reg compilation of vmd 1.9.3 (Sun Jul 29 2018 - 08:38:56 CDT)
- Mail reg compilation of vmd 1.9.3 plugin (Sat Jul 28 2018 - 03:10:19 CDT)
- maiil about installation of vmd1.9.3 from source code (Fri Jul 13 2018 - 09:47:28 CDT)
- mail about installation of vmd 1.9 in cluster (Mon Jun 18 2018 - 02:20:09 CDT)
- mail about visualization state (Fri Apr 29 2016 - 03:20:03 CDT)
Subrata Paul
- very high vdw and electrostatic energy for bulk urea molecules (Tue May 19 2015 - 01:04:43 CDT)
- dielectric constant for ELEC energy in VMD namdenergy tool (Tue Apr 28 2015 - 05:03:37 CDT)
- Re: namdenergy pluding error (Mon Mar 30 2015 - 13:39:02 CDT)
- namdenergy pluding error (Mon Mar 30 2015 - 00:26:54 CDT)
- namdenergy (Wed Mar 25 2015 - 13:21:07 CDT)
- sugar cluster analysis (Sat Nov 02 2013 - 00:14:14 CDT)
- How to calculate tetrahedral order parameter ? (Sat Oct 05 2013 - 00:07:03 CDT)
- water cluster analysis? (Sun Sep 22 2013 - 08:50:33 CDT)
- tetrahedral order parameter (Tue Sep 10 2013 - 01:12:51 CDT)
- water cluster size analysis (Fri Sep 06 2013 - 07:14:47 CDT)
- calculation of angular distribution function (Thu Sep 05 2013 - 09:32:12 CDT)
- hbond (Sat Jun 09 2012 - 06:27:34 CDT)
- hbonds vs time (Thu May 31 2012 - 10:40:13 CDT)
- vmd-density-profile (Sat Jan 07 2012 - 07:11:26 CST)
- Fwd: calculation hydrogen bond. (Thu Oct 20 2011 - 22:57:17 CDT)
- calculation hydrogen bond. (Thu Oct 20 2011 - 02:19:04 CDT)
- hbond analysis (Fri Oct 14 2011 - 04:11:46 CDT)
- Fwd: hbond analysis (Wed Aug 03 2011 - 07:41:05 CDT)
Suchetana Gupta
- How to read netcdf files on Windows version of VMD? (Mon Mar 14 2022 - 00:08:49 CDT)
- Re: Change of colour for bond distance (Fri Sep 13 2019 - 09:07:05 CDT)
- Change of colour for bond distance (Fri Sep 13 2019 - 00:26:30 CDT)
Suckjoon JUN
- Re: VMD does not run on MacOS X 10.4 Tiger (Tue May 17 2005 - 03:03:54 CDT)
- VMD does not run on MacOS X 10.4 Tiger (Mon May 16 2005 - 19:09:51 CDT)
- Re: makemovie errors (povray) -- VMD 1.8.3 on MacOS 10.3.8 (Fri Apr 08 2005 - 04:17:52 CDT)
- makemovie errors (povray) -- VMD 1.8.3 on MacOS 10.3.8 (Thu Apr 07 2005 - 15:00:51 CDT)
Sudipta Sinha
- Take a look at jaxtr! (Sun Feb 08 2009 - 22:20:40 CST)
- problem with namdstats.tcl (Sun Jun 15 2008 - 01:51:11 CDT)
Sue Legge
- solvation and box size (Mon Jul 28 2008 - 01:25:43 CDT)
Sujata Roy
- Re: VMD 1.9.2 beta 2 posted for download... (Tue Dec 23 2014 - 05:41:12 CST)
- Re: Problem with 'measure energy elect' command in VMD (Sun Dec 07 2014 - 22:26:43 CST)
- Problem with 'measure energy elect' command in VMD (Thu Dec 04 2014 - 23:17:53 CST)
Sujata Sovani
- Rotating and saving coordinates of a copy of molecule alongwith original molecule (Thu Mar 31 2011 - 13:18:54 CDT)
- Bug in VMD? (Thu Mar 03 2011 - 12:15:16 CST)
- Weird bonds in water box/sphere (Fri Sep 24 2010 - 18:51:27 CDT)
- Best way to bond peptides (Wed Sep 01 2010 - 18:30:08 CDT)
- Best way to join two PDB fragments by a peptide bond (Wed Sep 01 2010 - 17:36:46 CDT)
- Modifying amino acid to a non-standard amino acid using VMD (proline to hydroxyproline) (Thu Jul 08 2010 - 19:05:55 CDT)
- How to select a hetatom while get rid of N-term ACE in atomselect (Tue Sep 08 2009 - 17:47:43 CDT)
Suleman Ansari (P19PH004)
- Re: how to control "offset" and "midpoint" of color scale simultaneously using tk-console (Thu Dec 07 2023 - 10:53:27 CST)
- how to control "offset" and "midpoint" of color scale simultaneously using tk-console (Fri Dec 01 2023 - 00:54:05 CST)
Suman Chakrabarty
- Re: Installation problem on MacOS Monterey (Sun Sep 11 2022 - 22:19:30 CDT)
- Installation problem on MacOS Monterey (Sun Sep 11 2022 - 12:16:22 CDT)
- Re: How to compute excluded volume using volmap? (Sun May 24 2009 - 14:12:06 CDT)
- VMD crashes in VolumeSlice representation (Sun May 24 2009 - 13:09:10 CDT)
- Re: How to compute excluded volume using volmap? (Tue May 12 2009 - 16:33:11 CDT)
- Re: How to compute excluded volume using volmap? (Tue May 12 2009 - 07:53:12 CDT)
- How to compute excluded volume using volmap? (Sat May 09 2009 - 14:46:31 CDT)
- Re: helicity score? (Thu Feb 19 2009 - 12:27:25 CST)
- Progress Bar for the Elapsed Time: rendering problem (Thu Feb 05 2009 - 16:42:20 CST)
- Re: velocity calculations (Wed Oct 15 2008 - 15:40:04 CDT)
- How to specify color based on dihedral angle? (Mon Oct 13 2008 - 13:09:53 CDT)
- Re: Is position dependent color possible? (Tue Sep 02 2008 - 14:02:55 CDT)
- Is position dependent color possible? (Tue Sep 02 2008 - 12:17:59 CDT)
- Re: Is position dependent color possible? (Tue Sep 02 2008 - 13:27:02 CDT)
- Re: TXT program editor (Fri Aug 29 2008 - 08:38:29 CDT)
- Visualizing trajectory with changing atoms (Tue Mar 04 2008 - 15:19:58 CST)
Sumit Kumar
- Re: movie making in vmd (Mon Aug 26 2013 - 15:16:13 CDT)
- Animations using VMD: (Mon Aug 05 2013 - 19:00:03 CDT)
sumit nagar
- Crack generation in Grapehene sheet (Tue Dec 19 2017 - 03:56:32 CST)
- Re: Using python interpreter with VMD (Mon Dec 18 2017 - 23:58:00 CST)
- Using python interpreter with VMD (Mon Dec 18 2017 - 23:46:43 CST)
Sun Yicheng
- how to load an external file to user field (Thu Oct 01 2009 - 10:28:39 CDT)
- user field (Mon Sep 28 2009 - 08:36:34 CDT)
Sunando Datta
- Help in VMD (Wed Apr 21 2004 - 22:04:07 CDT)
Sundararajan Natarajan
- Re: generate nanotube other than CNT (Mon Apr 15 2013 - 04:50:46 CDT)
- Re: generate nanotube other than CNT (Mon Apr 15 2013 - 04:02:27 CDT)
- Re: generate nanotube other than CNT (Tue Apr 02 2013 - 14:06:48 CDT)
- generate nanotube other than CNT (Tue Apr 02 2013 - 06:26:43 CDT)
Sung M Hong
- How to address two different geometries for same atom in PDB? (Fri Oct 25 2013 - 19:17:49 CDT)
Sunidhi IIITD
- How to download high-quality images from MEMBPLUGIN -> "Membrane thickness map" (Sat May 09 2020 - 06:58:21 CDT)
Sunidhi Lenka
- mac OS Bigsur version 11.6 intel netcdf extension (Fri Oct 15 2021 - 13:47:32 CDT)
Sunita Patel
- Re: Native contacts tcl script crashed (Thu Feb 18 2021 - 23:07:53 CST)
- Re: Native contacts tcl script crashed (Thu Feb 18 2021 - 00:36:29 CST)
- Native contacts tcl script crashed (Tue Feb 16 2021 - 05:01:30 CST)
- How to generate a PDB file of the protein containing one phosphoserine (Sat Dec 21 2013 - 06:42:12 CST)
- retrieving atom indexes from measure contacts (Tue Jan 05 2010 - 19:56:22 CST)
- How to align two peptide molecules (Fri Nov 03 2006 - 10:14:20 CST)
- slowing the movie animation (Sun Feb 13 2005 - 09:52:50 CST)
- Changing the label for resname (Mon Aug 09 2004 - 09:44:03 CDT)
Sunjoo Lee
- Re: Bond representation of coarse grained molecules (Wed Oct 07 2009 - 12:17:12 CDT)
- drawing bond for coarse grained model (Thu Jul 23 2009 - 13:25:46 CDT)
sunnytov
- RE: Re: problems about atoms display in certain region (Thu Jul 18 2013 - 01:07:21 CDT)
sunyeping
- The Fe2+ parameter for NAMD simulation (Tue Sep 15 2020 - 23:08:25 CDT)
- Problem with visualization of structure in amber coordinate format (Mon Jun 03 2019 - 23:32:30 CDT)
- parameter file for dUTP (Thu May 30 2019 - 08:03:03 CDT)
- build virus envelope (Thu Apr 12 2018 - 23:34:06 CDT)
- Re: Usage of the Orient package (Tue Mar 07 2017 - 19:49:31 CST)
- Usage of the Orient package (Mon Mar 06 2017 - 21:32:25 CST)
- chain seprating and jumping because of periodic bound (Sat Feb 11 2017 - 13:45:42 CST)
- How to set the representations in batch in VMD? (Sat Feb 11 2017 - 13:06:18 CST)
- Re: Re: vmd cannot display part of the protein in gromacs gro/trr file format (Sat Feb 11 2017 - 07:23:39 CST)
- Re: vmd cannot display part of the protein in gromacs gro/trr file format (Sun Feb 05 2017 - 08:16:49 CST)
- vmd cannot display part of the protein in gromacs gro/trr file format (Fri Feb 03 2017 - 02:44:20 CST)
- Re: AW: why vmd cannot load the dcd trajectory? (Tue Jan 10 2017 - 04:47:42 CST)
- Re: AW: why vmd cannot load the dcd trajectory? (Tue Jan 10 2017 - 04:25:41 CST)
- Re: AW: why vmd cannot load the dcd trajectory? (Tue Jan 10 2017 - 03:03:47 CST)
- why vmd cannot load the dcd trajectory? (Tue Jan 10 2017 - 01:06:08 CST)
- pbc unwrap doesn't work (Sun Jan 08 2017 - 07:44:14 CST)
- Re: chain identifier change in the pdb files generated by the "solvate" and "Add Ions" plugin (Mon Oct 10 2016 - 21:04:45 CDT)
- calculate the angle between two principal axes from two selecton (Thu Sep 29 2016 - 04:49:57 CDT)
- Re: mkdir command in vmd (Tue Sep 27 2016 - 22:05:23 CDT)
- chain identifier change in the pdb files generated by the "solvate" and "Add Ions" plugin (Mon Sep 26 2016 - 21:46:54 CDT)
- mkdir command in vmd (Sun Sep 25 2016 - 21:02:17 CDT)
- Re: AW: AW: AW: How to smooth atom labels in a MD trajectory? (Mon Aug 22 2016 - 09:12:01 CDT)
- Re: AW: How to smooth atom labels in a MD trajectory? (Mon Aug 22 2016 - 07:17:19 CDT)
- how to change the color of all the C atoms in the newly created copy of representation (Fri Aug 19 2016 - 07:54:55 CDT)
- how to explore the frame number in clustering analysis by the clustering plugin (Thu Jul 07 2016 - 03:54:16 CDT)
- how to plot multiple namd log files using NAMD plot (Wed Jun 01 2016 - 22:07:54 CDT)
- How to make the script that shows simulation time on a movie work (Thu May 26 2016 - 11:08:23 CDT)
- some vmd mail list webpage cannot be accessed (Wed May 25 2016 - 02:19:57 CDT)
- periodical boundary condition associated chain seperating? (Thu May 12 2016 - 04:02:24 CDT)
- multiseq doesn't work (Mon Apr 18 2016 - 21:21:55 CDT)
- Re: Attractive or repulsive with Namd Energy? (Tue Nov 24 2015 - 22:55:06 CST)
- Attractive or repulsive with Namd Energy? (Sun Nov 22 2015 - 20:15:06 CST)
- what is difference between "TOTAL", â€œTOTAL2" and "POTENTIAL" in the VMD plugin NAMD Plot? (Mon Nov 09 2015 - 02:22:23 CST)
- Re: Problems with vmd plugin namdenergy output (Wed Nov 04 2015 - 05:11:10 CST)
- Re: Problems with vmd plugin namdenergy output (Mon Nov 02 2015 - 05:54:58 CST)
- Problems with vmd plugin namdenergy output (Mon Nov 02 2015 - 03:06:32 CST)
- Re: AW: how to measure the thickness of the water shell (Tue Oct 27 2015 - 09:11:59 CDT)
- how to measure the thickness of the water shell (Tue Oct 27 2015 - 00:50:48 CDT)
- Re: VMD crash when opening (Tue Sep 29 2015 - 11:39:27 CDT)
- VMD crash when opening (Tue Sep 29 2015 - 11:22:46 CDT)
- Re: Re: Why can VMD not be opened? (Tue Sep 29 2015 - 09:40:21 CDT)
- Re: Why can VMD not be opened? (Sun Sep 27 2015 - 13:03:32 CDT)
- Why can VMD not be opened? (Sun Sep 27 2015 - 12:07:50 CDT)
- Re: How to close the box of situs electron density map? (Sun Sep 06 2015 - 03:36:54 CDT)
- How to close the box of situs electron density map? (Mon Aug 31 2015 - 22:18:55 CDT)
- why mdff griddx command cannot generate .dx file (Fri Aug 28 2015 - 03:46:48 CDT)
- Python.h error when compile VMD-1.9.2 (Tue Aug 18 2015 - 21:26:54 CDT)
- why vmd cannot load situs type file in MDFF? (Tue Aug 11 2015 - 10:19:53 CDT)
- Why the 4ake-target_autopsf.situs can not be generated in MDFF tutorial? (Mon May 11 2015 - 02:33:43 CDT)
- where are the files provided with MDFF TUTORIAL? (Sun May 10 2015 - 22:12:03 CDT)
- Re: AW: The quality of movie made by VMD (Wed Jan 21 2015 - 08:30:19 CST)
- The quality of movie made by VMD (Sun Jan 18 2015 - 21:45:31 CST)
- Re: AW: the usage of measure bond (Mon Jan 05 2015 - 01:31:39 CST)
- show water around a residue for all the frames of the MD trajectory (Sat Jan 03 2015 - 09:13:16 CST)
- REï¼š a script to count the frames in which some water molecules interact with selected protein atoms (Tue Dec 30 2014 - 19:13:35 CST)
- a script to count the frames in which some water molecules interact with selected protein atoms (Tue Dec 30 2014 - 00:39:04 CST)
- ç”å¤ï¼š the usage of measure bond (Mon Dec 29 2014 - 20:01:36 CST)
- the usage of measure bond (Mon Dec 29 2014 - 01:23:18 CST)
- ç”å¤ï¼š non-bonded interactions (Thu Dec 25 2014 - 03:46:36 CST)
- velocity or force of water molecules (Sun Nov 23 2014 - 19:29:50 CST)
- install the third part plugins (Wed Oct 29 2014 - 12:26:59 CDT)
- reï¼šç”å¤ï¼š c_top2psf.pl (Sun Aug 31 2014 - 10:33:48 CDT)
- entropy calculation by g_anaeig (Sat Aug 30 2014 - 10:19:03 CDT)
- c_top2psf.pl (Sat Aug 30 2014 - 10:14:02 CDT)
- how to bind peripheral membrane protein to the membrane (Tue Aug 19 2014 - 23:24:14 CDT)
- Reï¼š display water (Sun Aug 03 2014 - 20:41:20 CDT)
- display water (Sun Aug 03 2014 - 02:06:44 CDT)
- salt bridge (Wed Jul 02 2014 - 09:18:47 CDT)
- salt bridge (Wed Jul 02 2014 - 08:41:15 CDT)
- REï¼š select all residues in a molecule (Mon Jun 30 2014 - 02:10:45 CDT)
- select all residues in a molecule (Sat Jun 28 2014 - 21:45:16 CDT)
- analyzing gromacs trajectories with VMD (Sat Jun 07 2014 - 04:47:59 CDT)
- REï¼š REï¼š proper enviroment for the VMD namdenergy plugin (Mon May 19 2014 - 16:40:05 CDT)
- REï¼š REï¼š proper enviroment for the VMD namdenergy plugin (Mon May 19 2014 - 16:39:49 CDT)
- REï¼š proper enviroment for the VMD namdenergy plugin (Sun May 18 2014 - 12:00:10 CDT)
- proper enviroment for the VMD namdenergy plugin (Sun May 18 2014 - 00:30:00 CDT)
- select two segment in structure (Thu May 08 2014 - 11:36:28 CDT)
- get resname from resid (Tue Apr 15 2014 - 04:18:38 CDT)
- REï¼š Re: REï¼š visualize gromacs trajectory in vmd (Mon Apr 07 2014 - 06:52:55 CDT)
- REï¼š visualize gromacs trajectory in vmd (Wed Apr 02 2014 - 10:40:07 CDT)
- visualize gromacs trajectory in vmd (Tue Apr 01 2014 - 10:43:41 CDT)
- REï¼š removing water from dcd file (Tue Mar 18 2014 - 08:13:31 CDT)
- REï¼š Re: REï¼š hydrogen bond cutoff value (Tue Dec 03 2013 - 06:57:20 CST)
- REï¼š hydrogen bond cutoff value (Tue Dec 03 2013 - 01:45:26 CST)
- hydrogen bond cutoff value (Mon Dec 02 2013 - 21:37:00 CST)
- The radius of sphere representing an atom shown as vdw (Sun Nov 03 2013 - 19:58:02 CST)
- create and operate a point in space (Wed Oct 09 2013 - 05:15:44 CDT)
- RE: get resisue names from atom index number (Mon Sep 30 2013 - 02:56:04 CDT)
- get resisue names from atom index number (Sun Sep 29 2013 - 01:33:09 CDT)
- searching for contact atomh (Wed Sep 11 2013 - 01:35:13 CDT)
- how to use measure cluster and clustering plugin of VMD? (Fri Aug 16 2013 - 01:39:39 CDT)
Super Sayan
- Re: problem with vmd (Thu Mar 30 2006 - 01:09:20 CST)
- Re: problem with vmd (Wed Mar 29 2006 - 11:49:12 CST)
- Re: problem with vmd (Wed Mar 29 2006 - 00:41:43 CST)
superdirac
- Re: Re: Re: vmd does not run on the VNC client (Thu Aug 25 2011 - 22:54:48 CDT)
- Re: Re: vmd does not run on the VNC client (Thu Aug 25 2011 - 22:33:55 CDT)
- Fw: Re: a problem about multiplot (Wed Jan 26 2011 - 21:43:38 CST)
- Re: a problem about multiplot (Wed Jan 26 2011 - 21:09:38 CST)
- a problem about multiplot (Wed Jan 26 2011 - 20:01:18 CST)
surendra jain
- Unable to view protein as cartoon or trace or tube (Fri Apr 29 2016 - 21:34:47 CDT)
- Building a membrane from a individual surfactant molecule (Mon Nov 08 2010 - 06:27:02 CST)
- Re: Where to download Hbond plugin (Sun Oct 31 2010 - 03:27:16 CDT)
- Where to download Hbond plugin (Sat Oct 30 2010 - 07:52:15 CDT)
- namd-I : Constraint failure in RATTLE algorithm for atom 268 (Thu Oct 28 2010 - 23:39:30 CDT)
- PCA analysis of NAMD dcd files (Tue Oct 19 2010 - 04:58:47 CDT)
Surendra Kumar Jain
- How to make Porcupine plots in VMD (Tue Feb 16 2010 - 13:28:07 CST)
Surendra Negi
- Error psfgen (Thu Oct 28 2004 - 20:07:14 CDT)
Suresh
- Re: line (Wed Dec 04 2013 - 03:52:50 CST)
- Re: embed a protein that includes a ligand into the membrane (Thu Oct 10 2013 - 23:36:02 CDT)
- Re: problem with using parameterization tool of VMD (Thu Aug 22 2013 - 08:39:06 CDT)
- Re: visualizing certain sanpshots on top of each other (Mon Dec 10 2012 - 22:27:04 CST)
- Re: Heat mapper (Thu Oct 04 2012 - 22:53:22 CDT)
- Re: CHARMM36 topology files, AutoPSF and DNA (Fri Aug 17 2012 - 23:30:41 CDT)
- Re: Distance constraints (Fri Jul 06 2012 - 23:33:01 CDT)
Suresh Ghimire
- diffusion coefficient tool (Wed May 16 2018 - 02:32:55 CDT)
- salvation of heavy water (Mon Feb 19 2018 - 09:12:33 CST)
- Vmd coefficient tool (Thu Jan 25 2018 - 03:39:56 CST)
- MSD for water inside CNT (Tue Jan 23 2018 - 02:28:15 CST)
- Parameter and topology (Wed Jan 17 2018 - 23:59:37 CST)
- (no subject) (Sat Jan 06 2018 - 06:06:46 CST)
- (no subject) (Sat Jan 06 2018 - 05:49:07 CST)
- (no subject) (Sun Dec 31 2017 - 21:52:35 CST)
- Re: (Mon Dec 25 2017 - 22:29:46 CST)
- (no subject) (Sun Dec 17 2017 - 06:57:45 CST)
- Re: FFTK, regarding (Sun Dec 17 2017 - 01:34:20 CST)
Surjit Dixit
- Re: CDROM/Windows/Linux (Fri Sep 20 2002 - 07:29:47 CDT)
- CDROM/Windows/Linux (Thu Sep 19 2002 - 14:35:46 CDT)
- Re: SPACEBALLS .. in Europe ? (Thu Aug 22 2002 - 08:02:47 CDT)
- File Selector in VMD1.6a1 (Wed Sep 13 2000 - 12:03:45 CDT)
- viewing CHARMM trajectory (Mon Sep 11 2000 - 13:54:16 CDT)
surya narayanan
- VMD Energy analysis (Tue Mar 31 2020 - 16:45:40 CDT)
surya narayanan chandrasekaran
- SMD specifying atom selection (Wed Jan 01 2020 - 22:57:48 CST)
- Re: vmd moveby command inside loop (Fri Jul 12 2019 - 01:35:08 CDT)
- vmd moveby command inside loop (Thu Jul 11 2019 - 05:36:07 CDT)
- reg: PHI HEOM tool (Tue Jun 11 2019 - 05:12:30 CDT)
- Re: FEP tutorial plot error (Thu Jan 17 2019 - 23:07:35 CST)
- FEP tutorial plot error (Wed Jan 16 2019 - 07:00:25 CST)
- Re: REG building non standard solvent simulation box. (Thu Nov 29 2018 - 06:08:46 CST)
- REG building non standard solvent simulation box. (Wed Nov 28 2018 - 03:27:16 CST)
- Building amino acid simulation box. (Thu Nov 01 2018 - 23:45:39 CDT)
- Re: REG: adding hydrogens using TCL (Fri Sep 25 2015 - 15:34:23 CDT)
- REG: adding hydrogens using TCL (Fri Sep 25 2015 - 11:11:41 CDT)
- reg list of non standard residues. (Sat Apr 11 2015 - 16:57:05 CDT)
- reg extracting coordinates for first water shell. (Tue Feb 11 2014 - 06:52:31 CST)
- ehrenfest dynamics (Fri Sep 20 2013 - 04:58:06 CDT)
- regd arrangment of atom types in psf and par from fftk (Sun Sep 15 2013 - 13:27:53 CDT)
- reg FFTK (Tue Sep 10 2013 - 14:12:27 CDT)
- Re: reg FFTK BOND opt (Tue Sep 03 2013 - 11:54:26 CDT)
- reg FFTK BOND opt (Mon Aug 26 2013 - 10:16:02 CDT)
- cmd line FFK (Fri Aug 09 2013 - 08:00:12 CDT)
- Regarding FFTK option (Mon Aug 05 2013 - 12:06:32 CDT)
- bypassing MolFrac step (Wed Jul 31 2013 - 05:50:57 CDT)
- regarding FFTK improper angle (Mon Jul 22 2013 - 11:08:37 CDT)
- reg interaction energy (Tue Jul 02 2013 - 11:08:33 CDT)
- Re: regarding FFTK (Thu Jun 27 2013 - 04:13:00 CDT)
- Re: regarding FFTK (Wed Jun 12 2013 - 11:11:36 CDT)
- Re: regarding FFTK (Mon Jun 10 2013 - 15:55:19 CDT)
- Re: regarding FFTK (Thu May 30 2013 - 14:43:57 CDT)
- Re: regarding FFTK (Thu May 30 2013 - 13:20:02 CDT)
- Fwd: regarding FFTK (Thu May 30 2013 - 09:26:58 CDT)
- Re: regarding FFTK (Thu May 30 2013 - 06:11:28 CDT)
- regarding FFTK (Mon May 27 2013 - 11:02:39 CDT)
Susan Langston
- Stylish repl1ca w4tches from famous brands (Tue Sep 04 2007 - 03:16:35 CDT)
Susana Tomasio
- Re: Linkage problem when compiling fortran bindings for VMD molfile plugins (Fri Mar 18 2011 - 11:21:56 CDT)
- Re: Linkage problem when compiling fortran bindings for VMD molfile plugins (Fri Mar 18 2011 - 08:55:33 CDT)
- Re: Linkage problem when compiling fortran bindings for VMD molfile plugins (Mon Mar 14 2011 - 16:49:11 CDT)
- Re: Linkage problem when compiling fortran bindings for VMD molfile plugins (Mon Mar 14 2011 - 16:04:51 CDT)
- Linkage problem when compiling fortran bindings for VMD molfile plugins (Mon Mar 14 2011 - 11:52:49 CDT)
- Re: Compiling Fortran bindings for the VMD molfile plugins (Wed Mar 02 2011 - 10:14:31 CST)
- Re: Compiling Fortran bindings for the VMD molfile plugins (Wed Mar 02 2011 - 09:40:13 CST)
- Re: Compiling Fortran bindings for the VMD molfile plugins (Tue Mar 01 2011 - 11:50:03 CST)
- Re: Compiling Fortran bindings for the VMD molfile plugins (Tue Mar 01 2011 - 10:53:49 CST)
- Re: Compiling Fortran bindings for the VMD molfile plugins (Tue Mar 01 2011 - 10:34:35 CST)
- Compiling Fortran bindings for the VMD molfile plugins (Tue Mar 01 2011 - 10:16:18 CST)
Susanna Crowe
- Re: Your Pharm4cy 0rder #530152 (Tue Aug 28 2007 - 05:22:21 CDT)
Sushil Mishra
- Re: how to make default background color to white (Wed Mar 09 2011 - 01:03:47 CST)
- how to make default background color to white (Tue Mar 08 2011 - 09:11:33 CST)
Suu Kyi, Myat Noe
- alpha-quartz with hydrogen bond (Tue May 29 2018 - 10:46:49 CDT)
Suzanne Brewerton
- VMD and Situs (Thu Jun 05 2003 - 04:53:33 CDT)
- RE: Situs (Thu Jun 05 2003 - 03:44:51 CDT)
- Situs (Wed Jun 04 2003 - 09:22:23 CDT)
suzie.k.hight.1
- coloring by charge (Wed Oct 29 2003 - 00:26:42 CST)
- numerical output for SURF? (Wed Sep 10 2003 - 13:24:15 CDT)
Swamy Sumanth
- Request for atom sequence followed by topo tools (Mon Dec 14 2015 - 23:59:25 CST)
SWAPNA
- porcupine plot (Mon Mar 31 2008 - 01:06:36 CDT)
Swarna Patra
- To create Tetramer (Mon Feb 04 2008 - 16:42:52 CST)
- temp autocorrelation (Fri Jul 21 2006 - 00:56:37 CDT)
- dmpc membrane (Mon Jul 04 2005 - 20:17:43 CDT)
- density (Sun Apr 10 2005 - 20:25:43 CDT)
- water inside the protein (Wed Mar 30 2005 - 18:16:47 CST)
- mmtools (Thu Feb 17 2005 - 23:32:55 CST)
- constraints (Thu Jan 20 2005 - 20:49:49 CST)
- PBS script for LINUX cluster (Sun Jan 16 2005 - 20:03:04 CST)
- pmf calculation (Mon Jan 10 2005 - 19:29:24 CST)
Sweta Iyer
- Rotation about one axis (Wed Dec 08 2010 - 19:43:55 CST)
- Translating protein along one coordinate (Tue Dec 07 2010 - 23:18:41 CST)
Syed Tarique Moin
- Fwd: Re: Paratool in VMD (Tue Dec 04 2007 - 05:18:08 CST)
- Paratools (Tue Nov 27 2007 - 03:06:27 CST)
- (no subject) (Mon Nov 26 2007 - 06:25:08 CST)
SYEDA SABIHA SULTANA LUBNA .
- Water molecule ID in Hydrogen bond plugin (Mon Feb 28 2022 - 03:38:01 CST)
- Cluster analysis (Mon Nov 08 2021 - 04:49:50 CST)
- Re: Error reading fep.tcl file in namd (Sat Oct 30 2021 - 01:58:38 CDT)
- Error reading fep.tcl file in namd (Fri Oct 29 2021 - 06:52:39 CDT)
- Mutated model development in VMD (Thu Aug 19 2021 - 06:34:02 CDT)
- Understanding the positional difference of all atoms between two frames (Tue Aug 17 2021 - 03:02:23 CDT)
Sylvain EDALEINE
- Screen corruption (Wed Dec 15 2004 - 04:16:22 CST)
- problem Nvidia and vmd (Mon Dec 06 2004 - 11:02:14 CST)
- Quadro 750 XGL problem (Mon Sep 20 2004 - 09:38:22 CDT)
syma
- FW: rdf using gui (Tue Mar 27 2007 - 16:49:06 CDT)
- rdf using gui (Tue Mar 27 2007 - 16:18:57 CDT)
- lipid headgroup analysis (Mon Feb 26 2007 - 04:38:35 CST)
- script no reading correct number of frames (Thu Jan 12 2006 - 10:03:02 CST)
- RE: Method to measure DNA perterbation (Wed Nov 16 2005 - 02:28:14 CST)
- help with modifying script (Wed Nov 02 2005 - 11:47:48 CST)
- modifying mk3drame.tcl (Wed Oct 19 2005 - 04:39:12 CDT)
- binning data for each frame and coordinate (Wed Oct 12 2005 - 04:35:45 CDT)
- getting centre of mass of contacts (Mon Oct 10 2005 - 07:13:39 CDT)
- protein-lipids v z coordinate (Tue Aug 23 2005 - 12:06:27 CDT)
Syma Khalid
- vmd in ubuntu on mac mini (Sat Dec 29 2007 - 13:48:45 CST)
- RE: vmd movies in powerpoint (Sun May 20 2007 - 06:22:04 CDT)
- hbonds time series (Thu Mar 03 2005 - 09:33:34 CST)
- RE: measure hbonds (Fri Jan 28 2005 - 07:09:27 CST)
- RE: vmd and hull (Thu Jan 27 2005 - 11:27:03 CST)
- vmd and hull (Thu Jan 27 2005 - 06:36:09 CST)
Sze May Yee
- ffTK Hessian calculation error outputting to Gaussian input (Fri Jan 20 2017 - 05:02:22 CST)
Szymon Zietkiewicz
- An remark on PoV output (Sat May 12 2007 - 06:45:01 CDT)
Sébastien Légaré
- Re: shades of licorice representation (Wed Oct 09 2013 - 23:42:09 CDT)
T K
- Re: Changing bond numbers (Thu Mar 20 2014 - 10:05:53 CDT)
- Changing bond numbers (Sun Mar 09 2014 - 00:52:22 CST)
T Luchko
- Re: making ps files (Fri Apr 09 2004 - 14:57:43 CDT)
T. Chyau Liang, Ph.D.
- Re: Welcome to VMD-L! (Wed Jan 08 1997 - 15:05:28 CST)
t.shivam_at_iitg.ernet.in
- Re: (Wed Apr 11 2018 - 04:01:52 CDT)
- Re: (Mon Mar 12 2018 - 05:57:21 CDT)
- Re: (Fri Mar 09 2018 - 02:04:47 CST)
- metalloprotein simulation (Wed Feb 07 2018 - 10:11:39 CST)
- Re: vector passing through a point and parallel to z axis, TCL code (Thu Jan 04 2018 - 23:28:16 CST)
- Re: creation of psf (Thu Nov 30 2017 - 22:10:49 CST)
- creation of psf (Mon Nov 27 2017 - 02:40:53 CST)
- Re: sqm not active in molefacture (Thu Nov 02 2017 - 10:19:17 CDT)
- sqm not active in molefacture (Thu Nov 02 2017 - 05:26:30 CDT)
- Re: vmd not able to generate new cartoon representation (Wed Sep 20 2017 - 02:37:31 CDT)
- vmd not able to generate new cartoon representation (Fri Sep 15 2017 - 00:46:10 CDT)
- Re: autoionize not neutralizing the system (Sun Aug 06 2017 - 23:14:38 CDT)
- Re: autoionize not neutralizing the system (Sun Aug 06 2017 - 23:07:36 CDT)
- Re: autoionize not neutralizing the system (Sun Aug 06 2017 - 21:30:32 CDT)
- autoionize not neutralizing the system (Sun Aug 06 2017 - 09:51:29 CDT)
- Re: Molecule builder for large number of molecules (Fri Aug 04 2017 - 01:29:09 CDT)
- Molecule builder for large number of molecules (Mon Jul 31 2017 - 07:32:56 CDT)
Tabris Chun Chan
- Re: MD movie making of fluent movements (Fri Nov 04 2016 - 10:55:48 CDT)
Taco de Wolff
- Selecting atoms based on 'type' with LAMMPS + PSF (Mon Mar 28 2011 - 05:02:10 CDT)
- Re: Triclinic boxes in VMD using the LAMMPS file format (Thu Mar 10 2011 - 10:46:09 CST)
- Triclinic boxes in VMD using the LAMMPS file format (Thu Mar 10 2011 - 06:36:22 CST)
TAE BUM LEE
- Re: error in rmsd.tcl for tutorial (Sun Dec 13 2009 - 12:23:03 CST)
- Re: error in rmsd.tcl for tutorial (Thu Dec 10 2009 - 17:42:04 CST)
- error in rmsd.tcl for tutorial (Wed Dec 09 2009 - 16:37:42 CST)
Taeho Kim
- How to measure of radius of molecules? (Mon Apr 10 2006 - 03:29:18 CDT)
- error during creat .psf file (Mon Apr 03 2006 - 03:16:01 CDT)
- Re: POPC lipid parameters reference (Mon Jan 02 2006 - 09:41:55 CST)
- Installation problem. (Sun Dec 04 2005 - 22:31:24 CST)
taeho.kim_at_utoronto.ca
- Re: making movie on Mac OSX (Mon Nov 03 2003 - 21:52:13 CST)
- Re: VMD performance on Mac OSX, 10.2.8 (Wed Oct 15 2003 - 13:58:45 CDT)
- VMD performance on Mac OSX, 10.2.8 (Tue Oct 14 2003 - 13:11:26 CDT)
Tahmina Akter
- Periodic cell has become too small for original patch grid (Tue Jul 19 2016 - 11:38:23 CDT)
- psf file is changed (Sat Jul 09 2016 - 11:15:52 CDT)
- Re: generating autopsf (Wed Jun 29 2016 - 12:07:10 CDT)
- Re: generating autopsf (Wed Jun 29 2016 - 10:30:56 CDT)
- generating autopsf (Tue Jun 28 2016 - 13:07:20 CDT)
Tai Bui
- VMD on Mac OS Catalina (10.15 beta): Bad CPU type in executable (Thu Jun 06 2019 - 08:17:58 CDT)
Tajkhorshid, Emad
- FW: VMD Programmer Position available at TCBG/UIUC (Thu Jul 13 2023 - 09:20:35 CDT)
- Multiple Programmer Positions to develop VMD and NAMD (Sun Sep 11 2022 - 10:15:14 CDT)
Takeru KAMEDA
- Re: Re: psfgen problems of many segment complex (Tue May 28 2019 - 09:51:24 CDT)
- Re: Re: psfgen problems of many segment complex (Tue May 28 2019 - 09:16:46 CDT)
- Re: psfgen problems of many segment complex (Tue May 28 2019 - 08:28:06 CDT)
- Re: psfgen problems of many segment complex (Mon May 27 2019 - 03:19:13 CDT)
- Re: psfgen problems of many segment complex (Fri May 24 2019 - 10:14:43 CDT)
- psfgen problems of many segment complex (Fri May 24 2019 - 00:57:38 CDT)
Tamal Banerjee
- RMSD Calculator (Thu Jun 08 2006 - 08:37:43 CDT)
- Movie for Trajectory analysis (Tue Apr 25 2006 - 00:09:17 CDT)
- Query (Thu Jun 09 2005 - 01:34:58 CDT)
Tamara Rogers
- feature request (Sun Oct 19 2008 - 12:38:18 CDT)
- lammps trajectory (Fri Sep 29 2006 - 04:04:33 CDT)
Tamas Hegedus
- Re: network path analysis (Tue Oct 01 2019 - 12:10:48 CDT)
- subopt/network analysis (Tue Sep 17 2019 - 04:31:40 CDT)
Tamás Borsos
- Headtracking software (Tue Nov 16 2010 - 04:25:04 CST)
TaoJin
- problem with saving changed coordinates in a new state (Wed Nov 28 2007 - 23:14:11 CST)
Tara Sprules
- RMS fits (Wed Oct 16 2002 - 17:34:09 CDT)
Tatyana I. Igumenova
- Povray & color gradients (Wed Nov 24 2004 - 11:28:45 CST)
Tatyana Kuznetsova
- Re: DCD file format (Fri Sep 16 2005 - 05:58:44 CDT)
- DCD file format (Wed Sep 14 2005 - 09:09:06 CDT)
- Selection basing on the number of hydrogen bonds (Thu Jun 09 2005 - 02:30:14 CDT)
- trajectory_path (Fri May 30 2003 - 09:25:51 CDT)
Tatyana Sysoeva
- Problem of installing VMD 1.8.3 on Fedora14 (Sun Jul 17 2011 - 15:42:28 CDT)
tatyana_at_fi.uib.no
- Re: dihedral angles for a lot of identical molecules (Thu Jun 17 2004 - 04:32:29 CDT)
tatyanasysoeva_at_gmail.com
- Re: vmd-l digest V1 #4449 (Tue Oct 12 2021 - 19:48:30 CDT)
Taufik Al-Sarraj
- Re: Add a surface to a pdb file (Wed May 05 2010 - 18:53:30 CDT)
- DNA form (Thu Feb 11 2010 - 12:42:19 CST)
- double bonds (Wed Sep 23 2009 - 13:13:12 CDT)
- double bonds (Wed Sep 23 2009 - 12:22:27 CDT)
- label options (Thu Sep 17 2009 - 13:46:29 CDT)
- Re: superimpose two proteins (Mon Mar 16 2009 - 18:09:38 CDT)
- Re: (Mon Mar 16 2009 - 17:01:26 CDT)
- superimpose two proteins (Mon Mar 16 2009 - 15:39:26 CDT)
- turn off the 'are you sure you want to quit' sound (Fri Jan 30 2009 - 15:49:32 CST)
- measure the distance between center of molecules (Tue Dec 23 2008 - 11:06:22 CST)
- Re: vmd on fedora (Tue Dec 09 2008 - 10:25:37 CST)
- vmd on fedora (Mon Dec 08 2008 - 16:57:24 CST)
Tauna Rignall
- I am sorry (Wed Nov 12 2003 - 11:25:31 CST)
- Re: POV-Ray (Tue Nov 11 2003 - 11:19:33 CST)
- POV-Ray (Fri Nov 07 2003 - 14:42:13 CST)
Tawhid Ezaz
- ~Tawhid Ezaz~ (Mon Mar 11 2013 - 14:57:41 CDT)
- vasp POSCAR plugin (Tue Sep 14 2010 - 17:36:00 CDT)
- two coloring method (Fri Sep 03 2010 - 17:18:38 CDT)
- BMP snapshot (Thu May 07 2009 - 14:04:58 CDT)
- color update for xyz trajectory (Thu Mar 12 2009 - 14:52:14 CDT)
TCBG Workshop
- In-Residence Training at the Theoretical & Computational Biophysics Group, July 16-27, 2012 (Mon Apr 30 2012 - 17:02:14 CDT)
- "Hands-On" Workshop on Computational Biophysics, July 6-10 and August 10-14, 2009 (Thu Feb 05 2009 - 15:52:29 CST)
TCBG Workshops
- "Hands-On" Workshop on Computational Biophysics, November 1-5, 2010 & November 29-December 3, 2010 in Urbana, IL (Thu Aug 12 2010 - 17:10:53 CDT)
- Workshop on GPU Programming for Molecular Modeling, August 6-8, 2010, at the Beckman Institute in Urbana, Illinois (Fri Jun 11 2010 - 17:28:26 CDT)
tcickovs_at_nd.edu
- gopython (Fri Sep 23 2005 - 10:36:36 CDT)
tclick_at_nctu.edu.tw
- NAMD and FFTK on a Mac (Fri Jun 01 2018 - 07:24:41 CDT)
Teich-McGoldrick, Stephanie
- Re: [EXTERNAL] Re: ERROR) Unable to change color name (Fri Sep 14 2012 - 20:01:04 CDT)
- Re: [EXTERNAL] Re: ERROR) Unable to change color name (Fri Sep 14 2012 - 16:51:36 CDT)
- ERROR) Unable to change color name (Fri Sep 14 2012 - 16:40:04 CDT)
Teletchéa Stéphane
- I've tried latest vmd but still problems with mdcrd/crd/rst parser (Fri Feb 27 2004 - 12:19:56 CST)
- AMBER (old ?) nucleic acids names not recognised (Fri Nov 21 2003 - 03:57:04 CST)
- Re: Naming in XmGrace (Thu Nov 20 2003 - 11:16:41 CST)
- Re: Naming in XmGrace (Thu Nov 20 2003 - 06:53:21 CST)
- Re: Naming in XmGrace (Thu Nov 20 2003 - 02:54:12 CST)
- Re: Naming in XmGrace (Wed Nov 19 2003 - 11:01:41 CST)
- Re: Naming in XmGrace (Tue Nov 18 2003 - 10:39:08 CST)
- Naming in XmGrace (Tue Nov 18 2003 - 07:03:10 CST)
- Re: VMD and Mandrake Linux 9.1 (Fri Nov 07 2003 - 06:08:23 CST)
- Re: Amber prmtop/inpcrd files (Thu Jul 31 2003 - 15:44:32 CDT)
- Re: Amber prmtop/inpcrd files (Thu Jul 31 2003 - 12:49:27 CDT)
- Re: Some improvements for 1.8.2 (Fri Jul 25 2003 - 21:06:37 CDT)
- Some improvements for 1.8.2 (Fri Jul 25 2003 - 19:55:17 CDT)
- Re: Visualizing CURVES output (Fri Jun 20 2003 - 06:36:12 CDT)
- Re: helix axis for A-RNA (Tue Jun 10 2003 - 08:11:35 CDT)
- Re: VMD Error! (Tue Jun 10 2003 - 02:06:50 CDT)
- Re: VMD Error! (Tue Jun 10 2003 - 01:40:55 CDT)
Terry Jordan
- Re: Does Vmd support GUI and rendering separate (Thu Oct 27 2005 - 09:26:10 CDT)
- Does Vmd support GUI and rendering separate (Tue Oct 25 2005 - 14:26:06 CDT)
Tessa Young
- Re: Can Catdcd Write Out Periodic Cell Size Information? (Tue Nov 29 2011 - 23:06:25 CST)
- Can Catdcd Write Out Periodic Cell Size Information? (Mon Nov 28 2011 - 01:20:31 CST)
THANH NGUYEN
- Re: Generate a PSF file for small, simple molecules (Thu Mar 31 2011 - 17:46:44 CDT)
- Generate a PSF file for small, simple molecules (Mon Mar 28 2011 - 19:11:42 CDT)
ThatMind TV
- Water atoms' explosion out of solvate box in my RBCG simulation on NAMD (Mon Oct 23 2017 - 05:53:23 CDT)
The Cromicus Productions
- VMD - Measure water flow (Wed Nov 28 2018 - 11:41:40 CST)
- Re: [VMD] Cannot find "cionize" plugin (Mon Aug 13 2018 - 00:03:23 CDT)
- Re: [VMD] Cannot find "cionize" plugin (Fri Aug 10 2018 - 02:35:45 CDT)
- [VMD] Cannot find "cionize" plugin (Fri Aug 10 2018 - 02:07:11 CDT)
- Re: [VMD-NAMD] Question about Dipole of DNA / Dipole Moment Watcher Plugin (Sun Mar 25 2018 - 20:31:45 CDT)
- [VMD-NAMD] Question about Dipole of DNA / Dipole Moment Watcher Plugin (Thu Mar 22 2018 - 18:17:30 CDT)
- [VMD] Measure distance between two selections (Sat May 13 2017 - 17:33:14 CDT)
- [VMD] Power-spectrum calculation (Tue Dec 27 2016 - 03:12:38 CST)
- [VMD] Obtaining phonon spectrum of DNA (Sat Dec 17 2016 - 00:00:44 CST)
The Post Office
- Mail System Error - Returned Mail (Wed Jun 20 2007 - 12:17:09 CDT)
theblueone_at_web.de
- Aw: Re: VMD crashes on Macbook with Intel Graphics (Fri Feb 23 2018 - 07:23:58 CST)
- VMD crashes on Macbook with Intel Graphics (Wed Feb 21 2018 - 02:27:47 CST)
thereal sisterdot
- Re: NewRibbons/NewCartoon problem due to missing CUDA ? (Thu Feb 02 2012 - 05:49:34 CST)
- how to fix structural alignment pdbs (Tue Jan 31 2012 - 03:04:52 CST)
- NewRibbons/NewCartoon problem due to missing CUDA ? (Mon Jan 30 2012 - 05:27:33 CST)
Thereza Soares
- load multiple CRD trajectories into a PDB file (Thu Feb 23 2006 - 11:26:14 CST)
thiagorrg UFC
- Re: How to copy/paste a membrane patch to create a larger membrane? (Mon Feb 05 2018 - 12:34:43 CST)
- How to copy/paste a membrane patch to create a larger membrane? (Mon Feb 05 2018 - 08:34:15 CST)
Thiau Fu Ang
- Re: Error when opening the VMD.exe (Window 8) (Wed Nov 27 2013 - 01:36:58 CST)
- Re: Error when opening the VMD.exe (Window 8) (Fri Nov 15 2013 - 23:43:51 CST)
- Error when opening the VMD.exe (Window 8) (Thu Nov 14 2013 - 22:51:06 CST)
Thibault TUBIANA
- VMD 1.9.4a57 on Linux ? (Fri Jul 22 2022 - 09:08:56 CDT)
Thierry Oscar Wambo
- TclBC of an asymmetric system (Wed Apr 22 2015 - 12:56:27 CDT)
- Problem with TIP3 angles during phosphorylation (Fri Sep 26 2014 - 08:04:18 CDT)
- Re: Resname CHARMM to NAMD (Tue Sep 23 2014 - 10:57:53 CDT)
- Resname CHARMM to NAMD (Mon Sep 22 2014 - 22:58:32 CDT)
thiru pathi
- Re: stereo anaglyph rendering (Sun Jul 10 2011 - 07:18:29 CDT)
- stereo anaglyph rendering (Sun Jul 10 2011 - 01:47:59 CDT)
Thomas Albers
- Ramachandran plot question (Mon Nov 18 2013 - 11:47:07 CST)
- Re: Problem with autoionize plugin and long atomtypes (Wed Aug 07 2013 - 14:24:22 CDT)
- Re: Problem with autoionize plugin and long atomtypes (Mon Jul 29 2013 - 15:22:49 CDT)
- Re: Problem with autoionize plugin and long atomtypes (Mon Jul 29 2013 - 10:47:11 CDT)
- Problem with autoionize plugin and long atomtypes (Sat Jul 27 2013 - 16:37:19 CDT)
Thomas Aldershof
- Re: Changing atom colouring by a non-standard property (Tue Jul 26 2016 - 23:10:44 CDT)
- Changing atom colouring by a non-standard property (Wed Jul 20 2016 - 01:36:21 CDT)
Thomas Bishop
- Re: convertind dcd to xyz file (Mon Dec 05 2011 - 08:54:11 CST)
- VMD and R (Mon Nov 21 2011 - 14:42:44 CST)
- haptic devices VMD/NAMD/IMD (Mon Oct 31 2011 - 15:52:48 CDT)
- Re: GPU choice for large systems (Wed Oct 05 2011 - 14:28:45 CDT)
- Re: VMD meets Andy Warhol/Campbell's Soup on display wall (Thu Sep 29 2011 - 08:15:59 CDT)
- VMD meets Andy Warhol/Campbell's Soup on display wall (Wed Sep 28 2011 - 18:43:14 CDT)
Thomas C Bishop
- haptic/force feedback devices and 3D viz (Wed Apr 10 2019 - 14:52:26 CDT)
- Re: mol add url (Tue Dec 22 2015 - 23:58:30 CST)
- mol add url (Fri Dec 18 2015 - 16:41:24 CST)
- VMD in hubzero (Mon Sep 14 2015 - 15:40:26 CDT)
- Re: slice image (Tue Dec 17 2013 - 20:24:26 CST)
- Re: RMSD Trajectory Tool (Wed Jun 02 2010 - 09:24:13 CDT)
Thomas C. Bishop
- PSFGEN 1.6.4 autogenerate PATCH keyword not available (Mon Apr 23 2018 - 19:57:47 CDT)
- remote visualization (Wed Feb 22 2017 - 17:38:45 CST)
- Remembering Klaus Schulten (Tue Nov 01 2016 - 09:33:31 CDT)
- cpptraj-nastruct + VMD (Wed May 25 2016 - 18:30:18 CDT)
- recovery -e file name w/in vmd (Fri Jul 10 2015 - 16:05:26 CDT)
- Re: AW: Sodium within distance (Wed Jul 08 2015 - 09:51:10 CDT)
- Re: playing legos with peptide segments (Wed Jun 03 2015 - 13:55:43 CDT)
- Re: within command (Fri Jan 23 2015 - 15:57:04 CST)
- within command (Fri Jan 23 2015 - 13:04:10 CST)
- Re: Build a customized alpha helix using Molefacture by command (Tue Jan 13 2015 - 10:36:11 CST)
- Re: mol new [from memory] SOLVED (Mon Aug 11 2014 - 12:39:26 CDT)
- mol new [from memory] (Mon Aug 11 2014 - 11:59:51 CDT)
- Re: AW: obtain a list of residue numbers (Tue Jul 08 2014 - 09:59:41 CDT)
- windows usage question (Tue Nov 19 2013 - 12:26:47 CST)
- Re: Measuring angle between two domains? (Thu Oct 03 2013 - 12:42:02 CDT)
- Re: Fwd: APBS on each frame -> ON FLY ANALYSIS (Fri Aug 09 2013 - 09:30:32 CDT)
- Re: load speed of dcds (Wed Jun 26 2013 - 11:19:15 CDT)
- Re: load speed of dcds (Tue Jun 25 2013 - 17:09:01 CDT)
- load speed of dcds (Tue Jun 25 2013 - 12:22:23 CDT)
- Re: Quick wrapping (Thu Apr 04 2013 - 07:37:44 CDT)
- Re: phantom omni linux install: Phantom OMNI HOWTO (Wed Mar 20 2013 - 12:52:17 CDT)
- phantom omni linux install (Tue Mar 19 2013 - 11:28:14 CDT)
- Re: measure fit rotation matrix convention (Tue Feb 26 2013 - 09:08:35 CST)
- max mice for IMD (Tue Oct 09 2012 - 16:16:18 CDT)
- Re: Largest published IMD (interactive simulation) examples? (Tue Sep 04 2012 - 13:19:51 CDT)
- Re: FW: difficulty in viewing AMBER mdcrd files (Wed Jul 25 2012 - 11:40:35 CDT)
- Re: FW: difficulty in viewing AMBER mdcrd files (Tue Jul 24 2012 - 15:24:15 CDT)
- Re: IMD selections (Mon Jul 16 2012 - 13:16:32 CDT)
- IMD selections (Mon Jul 16 2012 - 10:25:05 CDT)
- Re: difficulty in viewing AMBER mdcrd files (Sat Jul 07 2012 - 09:56:37 CDT)
- Re: Python script to fix autoionize issues related to long atom type names (Wed Jun 27 2012 - 08:24:30 CDT)
- Re: how to use the AutoIMD "Tool control" panel. (Mon Apr 30 2012 - 13:52:14 CDT)
- Re: Experience with Asus Netbook (Tue Sep 28 2010 - 14:20:46 CDT)
- Re: VMD and named pipes (Fri Sep 03 2010 - 13:18:17 CDT)
- VMD and named pipes (Thu Sep 02 2010 - 14:28:55 CDT)
- Re: trajectory sort by RMSD or other (Tue Jul 20 2010 - 16:51:17 CDT)
- trajectory sort by RMSD or other (Tue Jul 20 2010 - 12:17:14 CDT)
- Re: possible chain select bug on RCSB ".ent" files (Mon Jul 05 2010 - 10:08:27 CDT)
- possible chain select bug on RCSB ".ent" files (Mon Jul 05 2010 - 09:30:09 CDT)
- Re: Residue Number Assignment by VMD: RESID vs RESIDUE (Fri May 28 2010 - 10:47:05 CDT)
- was: Selecting Cl- Na; now: redefining key words in VMD (Wed Mar 17 2010 - 16:38:25 CDT)
- Re: Selecting AMBER ions Cl- and Na+ using VMD (Wed Mar 17 2010 - 09:22:57 CDT)
- Re: Reading new amber prmtop formats. (Wed Sep 16 2009 - 15:37:17 CDT)
- Re: VMD on Suse 11.1 w/ NVIDIA dies. (Thu Sep 10 2009 - 17:44:05 CDT)
- Re: VMD on Suse 11.1 w/ NVIDIA dies. (Thu Sep 10 2009 - 16:53:19 CDT)
- Re: VMD on Suse 11.1 w/ NVIDIA dies. (Tue Sep 08 2009 - 16:55:55 CDT)
- Re: Disable the set output (Thu Jul 23 2009 - 09:52:15 CDT)
- Re: Re: could not visualize DCD file downloaded from VMD website (Thu Jul 23 2009 - 09:21:20 CDT)
- Re: make movie w/ VMD in SUSE environment (Thu Jul 16 2009 - 11:14:15 CDT)
- make movie w/ VMD in SUSE environment (Thu Jul 16 2009 - 10:55:57 CDT)
- vmd 1.8.7 not spawn new console: feature,bug, or just different? (Wed Jun 24 2009 - 15:08:07 CDT)
- namdplot 1.0 (Wed Jun 10 2009 - 22:14:11 CDT)
- statistics in VMD (Thu May 28 2009 - 19:18:17 CDT)
- namdenergy missing for -dispdev none (vmd 1.8.6) (Fri May 15 2009 - 12:37:13 CDT)
- vdna 2.0 for VMD (Tue May 12 2009 - 15:08:26 CDT)
- Re: helix axes (Tue Mar 31 2009 - 12:15:00 CDT)
- Re: helix axes (Tue Mar 31 2009 - 10:08:51 CDT)
- Re: helix axes (Tue Mar 31 2009 - 09:44:21 CDT)
- Re: namd-l: Re: Loading .vel file in VMD (Fri Nov 21 2008 - 09:11:42 CST)
- Re: VMD crashes on displaying NewRibbons or New Cartoon (Thu Nov 13 2008 - 08:20:50 CST)
- Re: extraction of bound water molecules in a trajectory (Thu Oct 23 2008 - 08:46:59 CDT)
- a common list problem (Fri May 02 2008 - 10:28:30 CDT)
- Re: how to identify DNA-protein interaction interface (Thu Apr 24 2008 - 09:40:50 CDT)
- vmd snapshots without display (Fri Feb 22 2008 - 10:59:50 CST)
- defining bonds (Thu Feb 21 2008 - 14:47:15 CST)
- Re: display of periodic DCD information/PBCTOOL (Fri Feb 15 2008 - 11:44:24 CST)
- display of periodic DCD information (Thu Feb 14 2008 - 14:15:15 CST)
- Re: rmsd different from rmsd implemented in VMD (Thu Feb 14 2008 - 08:19:08 CST)
- variables from VMD to psfgen (Mon Feb 11 2008 - 17:28:12 CST)
- Re: Can VMD visualize forces? (Fri Jan 25 2008 - 09:44:29 CST)
- Re: gui RMSD vs text RMSD calcs differ b/c ddiff backbone atom definitions (Mon Nov 19 2007 - 10:27:02 CST)
- gui RMSD vs text RMSD calcs differ b/c ddiff backbone atom definitions (Fri Nov 16 2007 - 17:12:27 CST)
- Re: cloning a molecule (Mon Nov 05 2007 - 21:27:01 CST)
- Re: atomselection in order (Mon Aug 27 2007 - 09:34:15 CDT)
- VMD w/ amber parm7, segnames/chains etc... (Wed Aug 22 2007 - 09:30:57 CDT)
- Adding Salt to a system (Thu May 19 2005 - 10:09:26 CDT)
Thomas Caulfield
- removing structures from a psf&pdb (Fri Aug 25 2006 - 15:58:40 CDT)
- segment name limit with solvate and psfgen (Sat Aug 19 2006 - 22:35:55 CDT)
Thomas Christott
- RE: Mutator plugin error (Mon Jul 29 2013 - 02:47:01 CDT)
- Mutator plugin error (Tue Jul 23 2013 - 05:54:51 CDT)
Thomas Ehmer
- RE: stereo mode problems with vmd on IRIX6.2 (Mon Dec 29 1997 - 07:34:06 CST)
Thomas Evangelidis
- zoom and focus on on a selection (Tue Mar 14 2017 - 07:35:00 CDT)
- Re: how to measure the distance of two atoms in 1000 conformations? (Mon Nov 19 2012 - 09:04:07 CST)
- Re: VMD (and NAMD) fail to read simple AMBER prmtop file (and it's not the SCEE and SCNB flags) (Mon Oct 22 2012 - 06:15:49 CDT)
- Re: Free software for building peptide (Wed May 02 2012 - 04:01:09 CDT)
- Re: Average pocket size? (Wed Apr 18 2012 - 13:51:11 CDT)
- positively charged portion of the protein surface (Thu Mar 08 2012 - 06:23:20 CST)
- Re: tcl script (Fri Nov 25 2011 - 13:51:07 CST)
- how to wrap a protein with periodic waters (Fri Aug 12 2011 - 10:19:47 CDT)
- Re: water molecules around proteins (Sat Sep 19 2009 - 09:04:36 CDT)
- Re: algorithm for command *within* (Fri Jul 17 2009 - 03:30:45 CDT)
- HETATM records are written as ATOM (Wed Jul 15 2009 - 16:58:27 CDT)
- Re: transformation matrix (Thu Jun 18 2009 - 15:34:51 CDT)
- Re: transformation matrix (Thu Jun 18 2009 - 15:36:13 CDT)
- transformation matrix (Thu Jun 18 2009 - 02:55:52 CDT)
- Re: adding atoms to empty molecules (Tue Jun 02 2009 - 15:57:56 CDT)
- adding atoms to empty molecules (Mon Jun 01 2009 - 13:47:07 CDT)
- Re: VMD 1.8.7 beta 3 posted for download... (Wed May 20 2009 - 23:20:38 CDT)
- calculate charges of the binding site residues with psfgen (Sat May 09 2009 - 22:54:16 CDT)
- calculate charges of the binding site residues with psfgen (Wed May 06 2009 - 20:19:54 CDT)
- how to block psfgen warning messages (Wed Mar 25 2009 - 16:11:12 CDT)
- rlwrap bug in Ubuntu (Sun Mar 15 2009 - 01:11:30 CDT)
- problem while integrating bigdcd into a namespace (Fri Feb 27 2009 - 16:19:03 CST)
- "pbcwithin" keyword (Thu Feb 19 2009 - 09:29:37 CST)
- concatenate protein and 2 ligand files (Sat Feb 07 2009 - 11:02:30 CST)
- scriptable way to add hydrogens (Sat Jan 31 2009 - 16:25:16 CST)
- Re: how to set color parameters differently for different molecules (Thu Jan 29 2009 - 19:08:08 CST)
- Re: how to set color parameters differently for different molecules (Thu Jan 29 2009 - 15:34:31 CST)
- how to set color parameters differently for different molecules (Sun Jan 25 2009 - 12:09:10 CST)
- Re: I need a bid trajectory please!!! (Fri Dec 26 2008 - 16:01:33 CST)
- I need a bid trajectory please!!! (Thu Dec 25 2008 - 16:54:44 CST)
- difficulties referencing a variable within a namespace (Sun Dec 21 2008 - 21:00:38 CST)
- how to run catdcd from within a proc (Mon Nov 17 2008 - 10:42:44 CST)
- Re: Selecting water molecules within 5 ang in a trajectory( generated by amber). (Wed Dec 26 2007 - 09:49:31 CST)
- Re: Water within the minmax of protein (Fri Nov 30 2007 - 09:14:11 CST)
- Re: Water within the minmax of protein (Thu Nov 29 2007 - 18:50:42 CST)
- Re: analysing big trajectories (Tue Nov 20 2007 - 18:09:26 CST)
Thomas Freeman
- Re: Mutator Plugin Patching (Thu Mar 03 2011 - 12:21:01 CST)
- Mutator Plugin Patching (Wed Mar 02 2011 - 15:27:21 CST)
Thomas Griffiths
- Re: VMD and latest XQuartz update (Tue Apr 11 2017 - 02:07:46 CDT)
- Re: VMD and latest XQuartz update (Mon Apr 10 2017 - 01:03:46 CDT)
- Re: Using pbc wrap with bigdcd (Fri Sep 16 2016 - 23:28:34 CDT)
- Using pbc wrap with bigdcd (Thu Sep 15 2016 - 20:56:49 CDT)
Thomas Hedegaard Pedersen
- 3D/stereo hardware recommendations wanted!!! (Fri Jan 14 2005 - 02:41:13 CST)
- Dihedral angle calculation! (Wed Jun 04 2003 - 10:58:36 CDT)
- Memory problems using the "move" command inside a loop! (Wed Apr 30 2003 - 09:28:01 CDT)
Thomas Lemmin
- Re: Problem with vmd and ssh -X (Fri Oct 23 2009 - 07:22:28 CDT)
- Re: Problem with vmd and ssh -X (Thu Oct 22 2009 - 06:39:16 CDT)
- Problem with vmd and ssh -X (Thu Oct 22 2009 - 02:51:44 CDT)
- Re: Re: crystal eyes vmd (Tue Jun 09 2009 - 08:06:30 CDT)
- Re: Re: crystal eyes vmd (Mon Jun 08 2009 - 09:33:07 CDT)
- Re: Re: crystal eyes vmd (Mon Jun 08 2009 - 08:54:04 CDT)
- Re: crystal eyes vmd (Mon Jun 08 2009 - 08:21:48 CDT)
- crystal eyes vmd (Mon Jun 08 2009 - 08:16:22 CDT)
Thomas Schmidt
- (no subject) (Wed Jun 12 2013 - 15:37:37 CDT)
- protein order parameter (Wed Jun 12 2013 - 15:39:01 CDT)
Thomas Sexton
- Labels for part of a trajectory (Thu Sep 25 2014 - 10:28:10 CDT)
Thomas Sommerfeld
- Re: colormaps available for color by volume (Fri Sep 20 2019 - 15:01:11 CDT)
- colormaps available for color by volume (Thu Sep 19 2019 - 09:26:14 CDT)
Thomas Steinbrecher
- Text command for isosurface (Wed Nov 03 2010 - 01:51:37 CDT)
- Viewing changing beta along a trajectory (Tue Mar 09 2010 - 10:26:16 CST)
- Cant start IED (Tue Dec 01 2009 - 05:00:15 CST)
Thomas Zauner
- Sphere representaion with radius from pdb field "occupancy" or "temp. fac" (Wed May 13 2009 - 05:08:50 CDT)
ThuZar Lwin
- how to visualize Charmm generated files (Wed Jun 06 2007 - 16:38:54 CDT)
Thyagarajan, Raghuram
- Generating Images for Several Structures (Thu Feb 06 2020 - 14:08:34 CST)
tiago sobreira
- Res: Res: webpdb load problem (Mon Apr 18 2011 - 10:00:13 CDT)
- webpdb load problem (Tue Apr 12 2011 - 13:48:29 CDT)
Tianhua Feng
- Re: BUG REPORT: Malfunctioning of VMD with Yosemite/ Follow up (Fri Jul 17 2015 - 16:45:38 CDT)
Tibbitt, Jeffrey A.
- keyboard-mouse-controlled view for VMDMovie plugin (Tue Mar 09 2010 - 10:27:36 CST)
- 3D Connexion - Space Navigator (OSX drivers) (Tue Mar 02 2010 - 20:24:34 CST)
- RE: dcd format (Wed Oct 22 2008 - 11:56:30 CDT)
Tiglath Moradkhan
- Question about NAMD configuration files (Fri Jan 15 2021 - 18:37:04 CST)
- Re: Problem with running NAMD configuration file (Mon Jan 11 2021 - 13:43:00 CST)
- Update on email sent last week (Mon Jan 11 2021 - 12:00:46 CST)
- Problem with running NAMD configuration file (Fri Jan 08 2021 - 18:07:43 CST)
- Re: Problem with following NAMD tutorial (Fri Jan 08 2021 - 11:54:58 CST)
- Re: Problem with following NAMD tutorial (Thu Jan 07 2021 - 23:56:24 CST)
- Re: Problem with following NAMD tutorial (Thu Jan 07 2021 - 20:50:52 CST)
- Problem with following NAMD tutorial (Thu Jan 07 2021 - 19:17:22 CST)
- Running equilibration MD simulation (Tue Jan 05 2021 - 15:06:41 CST)
- Random deletions of molecules (Wed Dec 30 2020 - 16:22:15 CST)
- Identifying salt bridges between chains (Wed Dec 16 2020 - 14:32:10 CST)
- VMD aborts when setting up MD simulation (Mon Dec 14 2020 - 12:36:01 CST)
- Problem resolved (Wed Dec 09 2020 - 15:33:42 CST)
- My Protein is a homology model (Wed Dec 09 2020 - 13:32:18 CST)
- VMD version (Wed Dec 09 2020 - 12:25:44 CST)
- Ongoing problem with QwickMD plugin (Wed Dec 09 2020 - 12:09:04 CST)
- Problems with QwickMD plugin (Tue Dec 08 2020 - 16:23:48 CST)
Tim Carpenter
- Re: Discrepancy between colours when coloured by timestep and Tachyon rendered (Thu Jun 19 2008 - 13:52:30 CDT)
- Discrepancy between colours when coloured by timestep and Tachyon rendered (Thu Jun 19 2008 - 12:48:40 CDT)
Tim Freeman
- Re: OpenGL, rendering spheres (Thu Jul 20 2000 - 07:40:33 CDT)
- Spheres with OpenGL (was Re: linux graphics adapters?) (Sun Jul 16 2000 - 12:05:02 CDT)
Tim Isgro
- Re: Include HETATM into *.psf file (Wed May 05 2004 - 17:24:12 CDT)
- Re: How to save trajectory using Tcl commands? (Thu Apr 15 2004 - 17:54:15 CDT)
- Re: How to save trajectory using Tcl commands? (Wed Apr 14 2004 - 22:49:55 CDT)
- Re: attempting to source a script (Thu Feb 12 2004 - 13:58:28 CST)
- Re: attempting to source a script (Wed Feb 11 2004 - 18:50:04 CST)
- Re: rmsd from VMD (Mon Nov 24 2003 - 15:46:21 CST)
Tim Lo
- Re: (Fri Dec 29 2017 - 20:38:47 CST)
- Re: (Fri Jul 21 2017 - 20:29:08 CDT)
- Re: (Fri Jul 21 2017 - 20:19:32 CDT)
- Re: Polymer helix wrapping on the outer surface of carbon nanotube (Fri Jan 13 2017 - 20:38:12 CST)
- Re: Shifting the Geometric Center of entire set of molecules to origin (Fri Nov 06 2015 - 22:38:19 CST)
- Re: multiple parameterized ligands (Fri Oct 02 2015 - 21:35:39 CDT)
- Re: Set "center" in script (Sat Aug 29 2015 - 01:58:43 CDT)
- Re: reading in trajectory file causes VMD to crash (Fri Jul 10 2015 - 22:08:19 CDT)
- Re: Adding groups (Wed Apr 08 2015 - 09:34:22 CDT)
- Re: fftk bonded and dihedral optimization question (Fri Mar 20 2015 - 10:36:27 CDT)
- Re: Fwd: namd-l: Why RDF increases as r increase instead of constant (Tue Nov 04 2014 - 20:48:32 CST)
- Re: Fwd: namd-l: Why RDF increases as r increase instead of constant (Sun Nov 02 2014 - 19:19:57 CST)
- Re: Reg: Peptide dimer (Wed Oct 01 2014 - 06:49:33 CDT)
- Re: Carbon Nanotube Interaction with Protein Simulation NAMD VMD (Thu Sep 18 2014 - 20:19:10 CDT)
- Re: issue(s) with ffTK of vmd-1.9.2a35 (Tue Feb 25 2014 - 19:38:52 CST)
- Re: AW: namd-l: Solvation in non standard solvent (Fri Feb 14 2014 - 09:23:50 CST)
- Re: triple bond parametrization (Fri Feb 07 2014 - 19:30:54 CST)
- triple bond parametrization (Fri Jan 31 2014 - 20:11:55 CST)
Tim Meyer
- memory leak 1.8.7 and 1.9b1 (Mon Feb 21 2011 - 09:13:18 CST)
- VMDMODULATERIBBON or sausage representation (Tue Jul 01 2008 - 13:38:28 CDT)
- center scaling and rotation (Thu Jun 21 2007 - 09:35:40 CDT)
- EIGENVECTOR ANALYSIS (Tue Oct 24 2006 - 08:25:47 CDT)
- update of atom selection at each step for trajectories (Wed Oct 18 2006 - 11:21:36 CDT)
Tim Moore
- Re: coloring different polymers with different (random) colors (Mon Jul 10 2017 - 08:44:41 CDT)
- Default XML format (Wed Dec 05 2012 - 09:55:15 CST)
Tim Skirvin
- Free Linux Cluster-Building Workshop - 30 Nov 2006 - 01 Dec 2006 (Mon Oct 16 2006 - 12:34:13 CDT)
- Free Cluster-Building Workshops - 16-17 Mar 2006, 20-21 Apr 2006 (Mon Feb 13 2006 - 13:33:09 CST)
Tim Travers
- Re: Quick TCl scripting question (Wed Sep 21 2011 - 23:57:14 CDT)
- Re: How can I draw secondary structures if I only have the carbon alpha coordinates (Thu Aug 18 2011 - 12:26:14 CDT)
- Re: capping or patching protein ends (Thu Mar 03 2011 - 15:13:33 CST)
- Re: capping or patching protein ends (Thu Mar 03 2011 - 11:39:11 CST)
- Re: turning on the tcl/tk console in .vmdrc (Tue Sep 14 2010 - 07:45:14 CDT)
- Re: Structure won't move after loading trajectory (Mon Aug 23 2010 - 23:26:00 CDT)
- Re: Problem with display on Intel graphics card (Wed May 26 2010 - 16:25:03 CDT)
- Re: Problem with display on Intel graphics card (Wed May 26 2010 - 16:27:01 CDT)
- Problem with display on Intel graphics card (Tue May 25 2010 - 17:29:09 CDT)
Tim Werner
- import QM single point calculation (Wed Jun 11 2008 - 04:27:02 CDT)
Timm Essigke
- Surface slices (Tue May 08 2001 - 07:44:28 CDT)
- Bug in VMD-1.6 (linux, GL) (Mon Mar 05 2001 - 16:21:53 CST)
- Stereoscopic rendering on Linux (Wed Feb 21 2001 - 10:41:56 CST)
- Re: RMSD calculation/fit doesn't work? (Tue Aug 15 2000 - 07:47:51 CDT)
- Bond information (Fri Aug 04 2000 - 11:09:44 CDT)
- RMSD calculation/fit doesn't work? (Thu Aug 03 2000 - 13:17:18 CDT)
- DCD command-line options (Tue Jun 27 2000 - 11:55:16 CDT)
- Remote Control (Mon Feb 21 2000 - 12:12:44 CST)
- Setting colors (Thu Feb 17 2000 - 16:04:33 CST)
- Stereo on SGI Indigo2? - Linux? (Sat Jan 15 2000 - 10:11:49 CST)
Timothy Click
- Re: NAMD and FFTK on a Mac (Wed Jun 06 2018 - 01:29:02 CDT)
- Re: NAMD and FFTK on a Mac (Tue Jun 05 2018 - 21:38:29 CDT)
Timothy Driscoll
- Re: Helix display (Wed Oct 26 2005 - 17:52:39 CDT)
Timothy Leong
- Fixing Memory Overflow Issue with LJ Parameter Assignment (Wed Jan 20 2021 - 12:23:53 CST)
- Moving Graphics Primitives to Front/Back (Tue Jan 12 2021 - 09:18:16 CST)
Timothy W Suen
- Bond Lengths (Fri Jun 20 2003 - 08:54:25 CDT)
Ting Wang
- Re: Centering GPCR onto Lipid Bilayer (Tue Sep 19 2006 - 13:28:40 CDT)
- Re: DPPC Bilayer Size (Thu Sep 14 2006 - 17:27:55 CDT)
- Re: protein in membrane (Tue Sep 12 2006 - 16:03:43 CDT)
- Re: protein in membrane (Tue Sep 12 2006 - 13:58:07 CDT)
- updating display of atoms in contact (Mon Jul 10 2006 - 16:39:59 CDT)
- residue list of within ? distance (Thu Jul 06 2006 - 16:46:44 CDT)
- user-defined movie (Wed Jun 14 2006 - 16:44:22 CDT)
- RMSD of not fitted region (Mon Jun 12 2006 - 19:24:02 CDT)
- Re: bug in membrane plugin (Wed May 17 2006 - 13:52:21 CDT)
- psfgen for lipid (Thu May 11 2006 - 15:09:07 CDT)
- bug in membrane plugin (Thu May 11 2006 - 13:47:11 CDT)
- output secondary structure assignment into a file (Tue Aug 09 2005 - 03:50:11 CDT)
tinifcarter_at_gmail.com
- General question about the memory usage of VMD (Mon Nov 17 2008 - 11:48:00 CST)
TIS SARL
- TIS SARL promotions AVRIL N°1 (Fri Apr 13 2001 - 01:09:39 CDT)
Tisha Engle
- You and a Rolex watch (Wed Apr 16 2008 - 05:16:24 CDT)
tiziano gallo cassarino
- GTP topology file (Fri Mar 20 2009 - 08:54:12 CDT)
Tjaart de Beer
- Error loading .cor files from CHARMM using dcd (Fri Jan 30 2004 - 06:58:22 CST)
tnels_at_sfu.ca
- STRIDE for a trajectory in text mode (Fri Sep 29 2006 - 15:29:02 CDT)
- problem using saltbr plugin in text mode (Wed Sep 27 2006 - 13:33:43 CDT)
- problem with tcl script in text mode (Wed Sep 20 2006 - 12:47:01 CDT)
- problem with tcl script in text mode (Wed Sep 20 2006 - 12:14:08 CDT)
- problem with -args in text mode (Fri Sep 15 2006 - 19:38:07 CDT)
- no subject (Fri Sep 15 2006 - 20:18:21 CDT)
Tobias Mandrup Johansen
- Mac OS X -dispdev options (Thu Sep 25 2003 - 04:12:27 CDT)
- Yes Another HPUX problem (Thu Sep 19 2002 - 10:04:42 CDT)
- Re: VMD 1.7.1 on HPUX in text mode (Wed Sep 18 2002 - 02:38:57 CDT)
- VMD 1.7.1 on HPUX in text mode (Tue Sep 17 2002 - 08:57:27 CDT)
- VMD 1.7.1 on HPUX (Thu Sep 05 2002 - 05:41:31 CDT)
Todd J. Furlong
- Re: transparency (Mon May 13 2002 - 11:20:57 CDT)
- Re: compilation error (Fri May 10 2002 - 10:13:56 CDT)
- Reading GOLD .sdf output files (Tue Apr 30 2002 - 09:09:03 CDT)
- VMD 1.7.1 in CAVE? (Fri Apr 12 2002 - 07:57:05 CDT)
- Fixing CAVE Functionality (Tue Apr 09 2002 - 10:27:49 CDT)
Tolga Akiner
- Installation (Thu Mar 07 2013 - 10:17:37 CST)
tolga.akiner
- Re: Installation (Fri Mar 08 2013 - 01:11:10 CST)
Tom
- Re: Issue sending forces to atoms with IMD and LAMMPS (Fri May 31 2024 - 15:29:37 CDT)
- Issue sending forces to atoms with IMD and LAMMPS (Fri May 31 2024 - 12:55:12 CDT)
Tom Bartl
- Re: 32bit memory problems on Mac OS (Thu Mar 28 2019 - 12:11:05 CDT)
- Re: 32bit memory problems on Mac OS (Mon Mar 18 2019 - 09:50:54 CDT)
- 32bit memory problems on Mac OS (Sat Mar 16 2019 - 14:10:48 CDT)
Tom Haxton
- installing netpbm (Wed Nov 06 2013 - 16:34:18 CST)
tom keyes
- Re: opening VMD on OSX (Sat Jun 19 2004 - 16:30:47 CDT)
- opening VMD on OSX (Thu Jun 17 2004 - 13:32:48 CDT)
- Re: MacOS native version resource attach info... (Tue Jun 25 2002 - 10:44:22 CDT)
- Re: more animating trajectories (Sun Nov 04 2001 - 09:02:35 CST)
- more animating trajectories (Wed Oct 31 2001 - 17:24:04 CST)
- more animation (Sun Oct 07 2001 - 17:17:23 CDT)
- Re: new user animation question (Thu Oct 04 2001 - 13:01:01 CDT)
- Re: new user animation question (Thu Oct 04 2001 - 09:44:41 CDT)
- new user animation question (Wed Oct 03 2001 - 16:37:49 CDT)
Tom King
- problem vmd python (Wed Jun 06 2012 - 08:20:09 CDT)
Tom Pollard
- VMD 1.2 port to MkLinux/LinuxPPC (Mon Aug 10 1998 - 01:00:23 CDT)
Tom.Verhelst_at_ucb.com
- RE: Render as Object or 3DS file (Tue Mar 03 2015 - 11:13:25 CST)
- Render as Object or 3DS file (Mon Mar 02 2015 - 06:01:09 CST)
Tomek Wlodarski
- slice image (Tue Dec 17 2013 - 11:09:38 CST)
- Re: Multiseq question (Tue Nov 24 2009 - 05:17:59 CST)
- Re: Multiseq question (Mon Nov 23 2009 - 05:43:14 CST)
- Multiseq question (Sat Nov 14 2009 - 08:02:43 CST)
- Molscripts (Tue Jun 16 2009 - 08:54:22 CDT)
- Re: merging atomselection (Wed Mar 25 2009 - 17:56:49 CDT)
- Re: fitting structure to map generated by Volmap (Wed Oct 22 2008 - 04:56:03 CDT)
- Re: fitting structure to map generated by Volmap (Tue Oct 21 2008 - 15:30:46 CDT)
- Re: fitting structure to map generated by Volmap (Tue Oct 21 2008 - 14:46:15 CDT)
- fitting structure to map generated by Volmap (Tue Oct 21 2008 - 07:55:09 CDT)
- Re: Problems after installation (ubuntu 8.04) (Fri Oct 03 2008 - 16:23:41 CDT)
- Problems after installation (ubuntu 8.04) (Fri Oct 03 2008 - 07:23:25 CDT)
Tommy Wang
- charmm vs amber (Mon Jul 29 2002 - 07:01:07 CDT)
- compilation problem using vmd1.8 alpha (Thu May 30 2002 - 19:52:15 CDT)
- my solution to the freezing problem. (Wed May 15 2002 - 20:32:30 CDT)
- compilation error (Fri May 10 2002 - 07:52:24 CDT)
Tomo Hayashi
- Re: VMD does not start on Mac OS 10.3.8 (problem was solved) (Sat Mar 19 2005 - 20:38:24 CST)
- Re: VMD does not start on Mac OS 10.3.8 (Fri Mar 18 2005 - 23:41:48 CST)
- VMD does not start on Mac OS 10.3.8 (Tue Mar 15 2005 - 03:42:51 CST)
Toni Giorgino
- Re: Looking for nice example images for VMD 1.9.1 release page... (Fri Jan 27 2012 - 16:38:04 CST)
- Re: vmd-density-profile (Mon Jan 09 2012 - 05:30:22 CST)
- Re: average structure script (Fri Nov 25 2011 - 11:21:28 CST)
- Re: Fwd: Re: namd-l: How to evaluate the area per lipid and thickness of the lipid bilayer in a membrane-protein system? (Thu Aug 25 2011 - 07:24:55 CDT)
- Re: align axes (Thu Jun 23 2011 - 14:50:14 CDT)
- Re: per-residue alignment (Fri Dec 10 2010 - 09:05:01 CST)
- Re: movie rendering on MacOS 10.6 (Tue Sep 21 2010 - 07:13:21 CDT)
- Native contacts trajectory tool available (Tue Jul 13 2010 - 14:09:49 CDT)
Tony Myung Keun Cho
- Rendering incompletion during Tachyon rendering (Tue Jul 31 2018 - 19:22:46 CDT)
Tony Sheh
- heuristic bond computation (Thu Feb 07 2008 - 21:58:15 CST)
- VMD 1.8.6, XTC format on Mac OS X 10.5.1 (Sat Jan 26 2008 - 11:56:01 CST)
Torsten Kerber
- isosurface for non-orthorhombic cells (Thu Feb 07 2013 - 08:55:52 CST)
Tory Mohr
- Hot repl1ca w4tches from 2008 Villa (Wed Jul 30 2008 - 21:06:33 CDT)
toshiaki.tomimori_at_uniadex.co.jp
- RE: Multi-core CPU does not work with VMD. (Mon Aug 08 2022 - 02:59:23 CDT)
- Multi-core CPU does not work with VMD. (Wed Aug 03 2022 - 06:10:01 CDT)
Traci Clymer
- generating psf files for bicarbonate (Fri Jun 22 2012 - 09:13:36 CDT)
Tran Trung Tran
- How to select the interacting atoms between two molecules in two different pdb files (Mon Sep 23 2002 - 19:23:46 CDT)
- RE: color by resid (Tue Apr 23 2002 - 18:28:57 CDT)
- color by resid (Mon Apr 22 2002 - 23:31:52 CDT)
Tran, Tran
- Re: Alignment and RMSD calculation (Tue Oct 04 2016 - 11:12:15 CDT)
- Alignment and RMSD calculation (Tue Sep 27 2016 - 20:18:31 CDT)
- Question: VMD sasa calculation of the hydrophobic surface area on segname P2 (Thu Jul 07 2016 - 23:46:37 CDT)
Travis DePuy
- python callbacks (Mon Aug 23 2004 - 16:56:25 CDT)
- Trajectory Files (Fri Aug 06 2004 - 18:03:32 CDT)
- Variable number of atoms in XYZ file format (Tue Aug 03 2004 - 14:43:51 CDT)
- CONECT in pdb files (Fri Jul 02 2004 - 14:45:10 CDT)
- copying parts of an atomselect selection (Tue May 25 2004 - 07:10:54 CDT)
- python disabled (still?) (Tue May 18 2004 - 10:49:17 CDT)
- python disabled (still?) (Tue May 18 2004 - 10:49:17 CDT)
Travis Meyer
- Installing VMD 1.9.3 on Linux - Missing Console (Tue Dec 17 2019 - 15:25:27 CST)
Trifan, Anda
- Re: Part of my molecule isn't rendering in New Cartoon (Sun Sep 25 2022 - 09:03:02 CDT)
- Re: DisRG Plugin Availability (Thu Aug 25 2022 - 11:56:11 CDT)
TRINH Minh Hieu
- .js file format for point cloud data (Wed May 16 2018 - 20:35:56 CDT)
- Test Graphic card performance using VMD as benchmark (Thu Nov 18 2010 - 06:18:04 CST)
- Re: Memory leak with "mol modselect" and index (Sun Oct 17 2010 - 13:43:40 CDT)
- Memory leak with "mol modselect" and index (Sat Oct 16 2010 - 20:11:16 CDT)
- Re: How to stop a script (eg : source myscript.tcl) ? (Tue Oct 12 2010 - 02:20:19 CDT)
- How to stop a script (eg : source myscript.tcl) ? (Mon Oct 11 2010 - 07:34:31 CDT)
- Re: Re: Experience with Asus Netbook (Thu Sep 30 2010 - 01:53:08 CDT)
- Re: Re: Experience with Asus Netbook (Wed Sep 29 2010 - 16:15:18 CDT)
- Re: Experience with Asus Netbook (Wed Sep 29 2010 - 12:59:46 CDT)
- Re: Bugs ? Representation window does not update new material (Fri Oct 23 2009 - 10:52:39 CDT)
- Bugs ? Representation window does not update new material (Fri Oct 23 2009 - 08:57:49 CDT)
- How to display Chain name in Labels (Fri Nov 30 2007 - 07:33:57 CST)
- Command to change background to gradient (Fri Nov 30 2007 - 04:55:27 CST)
Trinh Vo
- Installing VMD on a PC (Wed Jan 24 2007 - 18:58:06 CST)
Tripathi, Ashutosh
- Re: [EXTERNAL] RE: pbctools installation error (Fri Feb 22 2019 - 16:28:37 CST)
- Re: [EXTERNAL] RE: pbctools installation error (Fri Feb 22 2019 - 16:10:30 CST)
- pbctools installation error (Fri Feb 22 2019 - 14:27:40 CST)
tripp_at_fis.unam.mx
- transparency (Fri May 10 2002 - 11:46:01 CDT)
Tristan Bereau
- STRIDE analysis of beta-sheets in VMD (Fri Oct 10 2008 - 15:28:33 CDT)
Tristan Croll
- Obscure bug in RMSD tool (the original) (Thu Jan 21 2016 - 02:41:42 CST)
- Re: Re: -fpascal-strings flag when compiling with TDCONNEXION option (Wed Jan 13 2016 - 13:31:47 CST)
- Re: -fpascal-strings flag when compiling with TDCONNEXION option (Wed Jan 06 2016 - 01:58:40 CST)
- -fpascal-strings flag when compiling with TDCONNEXION option (Wed Jan 06 2016 - 01:50:30 CST)
- Re: alignment of two the same structures (Tue Dec 08 2015 - 00:59:06 CST)
- Re: Measure atom position directly from index (Wed Dec 02 2015 - 20:05:31 CST)
- Measure atom position directly from index (Wed Dec 02 2015 - 19:20:53 CST)
- RE: Stride for large structures (Wed Nov 25 2015 - 16:49:34 CST)
- Stride for large structures (Wed Nov 25 2015 - 02:04:50 CST)
- RE: Re: namd-l: On-the-fly modification of tclforces script? (Sun Nov 15 2015 - 20:22:38 CST)
- Re: Re: namd-l: On-the-fly modification of tclforces script? (Sun Nov 15 2015 - 18:45:43 CST)
- Re: Re: namd-l: On-the-fly modification of tclforces script? (Sun Nov 15 2015 - 04:32:42 CST)
- Re: Re: namd-l: On-the-fly modification of tclforces script? (Fri Nov 13 2015 - 22:55:11 CST)
- Re: Re: namd-l: On-the-fly modification of tclforces script? (Fri Nov 13 2015 - 22:20:15 CST)
- Re: Re: namd-l: On-the-fly modification of tclforces script? (Fri Nov 13 2015 - 21:24:25 CST)
- Re: Re: namd-l: On-the-fly modification of tclforces script? (Fri Nov 13 2015 - 19:28:39 CST)
- Re: namd-l: On-the-fly modification of tclforces script? (Fri Nov 13 2015 - 18:14:28 CST)
- Re: namd-l: On-the-fly modification of tclforces script? (Fri Nov 13 2015 - 16:48:21 CST)
- Re: can I change the axes type to look like something like a graduated coordinate? (Sun Nov 08 2015 - 19:33:17 CST)
- RE: Query for eliminating proteins with unusual amino acids (Thu Nov 05 2015 - 22:37:24 CST)
- RE: Query for eliminating proteins with unusual amino acids (Thu Nov 05 2015 - 16:28:31 CST)
- Re: Shifting the Geometric Center of entire set of molecules to origin (Wed Nov 04 2015 - 05:38:44 CST)
- Re: Tracing on color by properties (Wed Nov 04 2015 - 03:51:42 CST)
- Tracing on color by properties (Wed Nov 04 2015 - 02:54:49 CST)
- Re: fftk using Terachem? (Thu Oct 29 2015 - 18:42:53 CDT)
- fftk using Terachem? (Wed Oct 28 2015 - 20:25:55 CDT)
- RE: Cyclic peptide nanotube psf second mail (Tue Oct 13 2015 - 02:00:43 CDT)
- Re: namd-l: Regarding problem in psfgen of heparin (Tue Oct 06 2015 - 18:44:21 CDT)
- Re: VMD cannot display electron density map (Tue Aug 25 2015 - 03:53:07 CDT)
- Re: Generating PSF for several proteins in one shot (Sat Aug 08 2015 - 23:14:31 CDT)
- Re: Generating PSF for several proteins in one shot (Sat Aug 08 2015 - 04:55:19 CDT)
- Re: Generating PSF for several proteins in one shot (Tue Jul 28 2015 - 01:16:02 CDT)
- Re: Generating PSF for several proteins in one shot (Fri Jul 24 2015 - 18:00:32 CDT)
- Re: (Mon Feb 23 2015 - 17:43:10 CST)
- Re: (Wed Feb 18 2015 - 19:54:09 CST)
- Re: MDFF plugin calculating ccc (Tue Feb 17 2015 - 16:13:02 CST)
- Re: how to select a particular molecule (Thu Feb 12 2015 - 03:23:33 CST)
- Re: Handful of rendering issues (Wed Feb 11 2015 - 15:28:20 CST)
- Re: Handful of rendering issues (Wed Feb 11 2015 - 15:07:43 CST)
- Handful of rendering issues (Wed Feb 11 2015 - 05:15:19 CST)
- GBIS in NAMD 2.10 CUDA with IMD (Wed Feb 11 2015 - 04:18:11 CST)
- Re: Putting different peptide chains (spaced apart) in a single .xbgf file (Sun Feb 08 2015 - 19:30:28 CST)
- Re: Putting different peptide chains (spaced apart) in a single .xbgf file (Sun Feb 08 2015 - 14:57:01 CST)
- Beta testers wanted for modified AutoPSF (Sun Feb 08 2015 - 01:57:33 CST)
- Error in disulfide bond identification in AutoPSF (Tue Jan 20 2015 - 23:15:12 CST)
- Re: Running CUDA on a laptop (Tue Jan 13 2015 - 19:14:31 CST)
- Re: VRPN support for the Windows VMD 1.9.1 (Tue Jan 13 2015 - 18:32:18 CST)
- Running CUDA on a laptop (Tue Jan 13 2015 - 18:29:59 CST)
- RE: How can I get the path of the TOP molecule in the tcl console? (Thu Dec 04 2014 - 22:46:08 CST)
- RE: How to make solid surfaces work with non-orthorhombic cells (Sun Nov 30 2014 - 20:30:50 CST)
- RE: Problem with merging structures!( psfgen) Warning: failed to set coordinate for atom AU0 AU:1 A) (Wed Nov 26 2014 - 16:43:36 CST)
- RE: Protein went out of the Box (Tue Nov 11 2014 - 22:49:27 CST)
- RE: Protein went out of the Box (Tue Nov 11 2014 - 19:28:15 CST)
- RE: Selecting one half of a residue based CG lipid bilayer (Fri Oct 17 2014 - 00:57:34 CDT)
- RE: GTP and GDP parameter files (Wed Oct 15 2014 - 17:45:30 CDT)
- RE: Haptic interface options (Sun Oct 12 2014 - 18:03:46 CDT)
- Re: Error while calculating rotational angle (Fri Oct 10 2014 - 00:38:50 CDT)
- Re: Haptic interface options (Tue Oct 07 2014 - 17:03:22 CDT)
- Re: Haptic interface options (Tue Oct 07 2014 - 14:23:17 CDT)
- Haptic interface options (Mon Oct 06 2014 - 20:00:28 CDT)
- Re: log colorscale (Mon Oct 06 2014 - 03:12:31 CDT)
- RE: merging several pdbs in one file (Tue Sep 23 2014 - 19:13:08 CDT)
- Re: using vmd to apply symmetry operators part 2 (Sat Sep 20 2014 - 03:17:42 CDT)
- RE: VMD 1.9.2 beta 1 posted for download... (Wed Sep 17 2014 - 02:02:55 CDT)
- RE: Fwd: fixed atoms_creating psf with out change in pdb (Sat Sep 06 2014 - 00:10:59 CDT)
- Re: Fwd: fixed atoms_creating psf with out change in pdb (Thu Sep 04 2014 - 07:09:58 CDT)
- Minor bug report in VMD 1.9.1 (Mon Aug 25 2014 - 22:23:37 CDT)
- RE: How does saltbr calculate distance? (Sun Aug 24 2014 - 01:28:22 CDT)
- RE: AW: Tachyon transparency and depth cueing (Thu Aug 21 2014 - 18:33:44 CDT)
- Re: AW: Tachyon transparency and depth cueing (Thu Aug 21 2014 - 05:15:30 CDT)
- Tachyon transparency and depth cueing (Thu Aug 21 2014 - 02:15:24 CDT)
- RE: Ssrestraints error (Sun Aug 17 2014 - 21:50:01 CDT)
- Re: MDFF simulations (Tue Aug 12 2014 - 02:21:59 CDT)
- RE: MDFF simulations (Mon Aug 11 2014 - 20:13:42 CDT)
- Feature suggestion: "glow" representation (Wed Aug 06 2014 - 01:49:00 CDT)
- RE: AutoPSF error (Thu Jul 31 2014 - 20:27:43 CDT)
- Re: tachyon renderer syntax (Sat Jun 28 2014 - 06:28:46 CDT)
- Re: tachyon renderer syntax (Fri Jun 27 2014 - 18:54:57 CDT)
- tachyon renderer syntax (Thu Jun 26 2014 - 23:12:33 CDT)
- Re: Minor bug/annoyance: AutoPSF and acetylated CHARMM glycans (Mon Jun 23 2014 - 15:48:01 CDT)
- Minor bug/annoyance: AutoPSF and acetylated CHARMM glycans (Sat Jun 21 2014 - 19:13:31 CDT)
- RE: rmsdtt, itrajcomp and other plugins open sourced in github (Tue Jun 17 2014 - 01:17:05 CDT)
- Re: psfgen-reading residues above 10 thousand (Fri May 30 2014 - 15:33:52 CDT)
- Re: Feature request: capturing tool location and steering forces in IMD trajectory (Fri May 16 2014 - 16:27:01 CDT)
- RE: multiplying maps in non-orthogonal coordinates (Tue May 13 2014 - 21:26:14 CDT)
- multiplying maps in non-orthogonal coordinates (Tue May 13 2014 - 20:42:57 CDT)
- RE: Trajectory from multiple .gro files (Mon May 12 2014 - 23:56:08 CDT)
- Re: Feature request: capturing tool location and steering forces in IMD trajectory (Mon Apr 07 2014 - 03:29:31 CDT)
- Feature request: capturing tool location and steering forces in IMD trajectory (Mon Apr 07 2014 - 00:45:51 CDT)
- GPU-accelerated ionization (Thu Apr 03 2014 - 20:05:50 CDT)
- RE: AW: TCL scripting question: how to make a list of atomselections persistent? (Fri Mar 28 2014 - 23:19:50 CDT)
- Re: AW: TCL scripting question: how to make a list of atomselections persistent? (Fri Mar 28 2014 - 03:45:22 CDT)
- TCL scripting question: how to make a list of atomselections persistent? (Thu Mar 27 2014 - 19:04:22 CDT)
- Some useful scripts for people using CHARMM-36 glycans (Thu Mar 20 2014 - 01:20:29 CDT)
- Re: psfgen, adding residues with command "residue" (Wed Mar 19 2014 - 21:27:20 CDT)
- Generalisation of chirality plugin to handle chiral bonds spanning residues (Wed Mar 05 2014 - 05:48:46 CST)
- RE: psfgen and unknown residue types (Mon Feb 24 2014 - 19:43:13 CST)
- RE: psfgen and unknown residue types (Sun Feb 23 2014 - 18:13:23 CST)
- RE: psfgen and unknown residue types (Sun Feb 23 2014 - 17:48:04 CST)
- Minor bug: clash between Multiseq representations and AutoIMD (Sat Feb 08 2014 - 18:40:16 CST)
- RE: Adding a keyword to mol addfile (Thu Jan 30 2014 - 15:07:21 CST)
- Adding a keyword to mol addfile (Wed Jan 29 2014 - 22:39:41 CST)
- RE: namd-l: How to solvate a protein using C36 and not C27 (Sat Jan 25 2014 - 23:24:34 CST)
- RE: namd-l: How to solvate a protein using C36 and not C27 (Sat Jan 25 2014 - 23:07:30 CST)
- RE: FATAL ERROR: UNABLE TO FIND DIHEDRAL PARAMETERS FOR NH3 CT1 CT2A CT2 (ATOMS 1 5 7 10) (Fri Jan 24 2014 - 02:49:22 CST)
- misleading documentation for -res switch in MDFF plugin (Mon Jan 20 2014 - 19:50:35 CST)
- RE: strange problems adding extra bonds to interactive simulations (Thu Jan 16 2014 - 14:57:31 CST)
- RE: strange problems adding extra bonds to interactive simulations (Thu Jan 09 2014 - 22:25:24 CST)
- strange problems adding extra bonds to interactive simulations (Thu Jan 09 2014 - 20:03:39 CST)
- RE: BUG Report -> Draw multiple frames (Sun Oct 13 2013 - 18:53:22 CDT)
- Re: psfgen forces to apply terminils to peptide (Thu Oct 10 2013 - 03:49:56 CDT)
- VMD graphical representations: a few bugs (Thu Oct 10 2013 - 00:50:06 CDT)
- Re: VMD freezing up when left alone (Sun Sep 22 2013 - 20:43:05 CDT)
- VMD freezing up when left alone (Sun Sep 22 2013 - 18:34:46 CDT)
- cispeptide and chirality extrab options (Mon Sep 09 2013 - 04:15:06 CDT)
- RE: generation of psf of phenol (Thu Aug 22 2013 - 21:21:03 CDT)
- RE: Problem with autoionize plugin and long atomtypes (Mon Aug 19 2013 - 19:53:11 CDT)
- RE: Re: VRPN driver for Novint Falcon haptic device available - Looking for Testers (Fri Aug 16 2013 - 06:41:17 CDT)
- RE: Problem with autoionize plugin and long atomtypes (Sun Jul 28 2013 - 18:54:19 CDT)
- Re: Re: autoionize error in vmd (Sat Jul 27 2013 - 15:27:25 CDT)
- RE: How can I easily show ball and stick residues across all molecules and representations? (Thu Jul 18 2013 - 20:18:40 CDT)
- RE: Re: VRPN driver for Novint Falcon haptic device available - Looking for Testers (Wed Jul 03 2013 - 23:32:06 CDT)
- RE: secondary structure works on linux, it doesn't work on Mac in certain structures (Wed Jul 03 2013 - 23:50:03 CDT)
- RE: Re: VRPN driver for Novint Falcon haptic device available - Looking for Testers (Wed Jul 03 2013 - 23:46:50 CDT)
- Getting volumetric map from old Insight file into VMD-readable format (Sun Dec 09 2012 - 22:36:44 CST)
- Re: Minor error in VMD PSF parser for atom charges (Mon Jul 30 2012 - 17:32:45 CDT)
- Minor error in VMD PSF parser for atom charges (Sat Jul 28 2012 - 19:53:08 CDT)
- RE: Patching Glu/N-terminus peptide bond type bond (Thu Nov 17 2011 - 01:02:52 CST)
- RE: VMD slows down at multiple windows (Thu Nov 17 2011 - 00:29:45 CST)
- RE: VRPN-ICMS conflict with NVidia driver (Wed Nov 16 2011 - 19:04:38 CST)
- Re: VMD slows down at multiple windows (Wed Nov 16 2011 - 19:26:21 CST)
- RE: VRPN-ICMS conflict with NVidia driver (Tue Nov 01 2011 - 19:28:51 CDT)
- RE: VRPN-ICMS conflict with NVidia driver (Tue Nov 01 2011 - 19:03:55 CDT)
- VRPN-ICMS conflict with NVidia driver (Tue Nov 01 2011 - 02:16:14 CDT)
- Bug in AutoIMD (Sun Dec 05 2010 - 21:44:48 CST)
- Bug in AutoIMD (Sun Dec 05 2010 - 19:42:50 CST)
Trollmann, Marius
- Re: Interactive MD - 3DSystems Touch (Mon Dec 04 2023 - 12:34:51 CST)
- Re: Interactive MD - 3DSystems Touch (Wed Nov 29 2023 - 03:23:23 CST)
- Re: Interactive MD - 3DSystems Touch (Tue Nov 28 2023 - 01:44:48 CST)
- Re: Interactive MD - 3DSystems Touch (Mon Nov 27 2023 - 10:24:50 CST)
- Interactive MD - 3DSystems Touch (Sun Nov 26 2023 - 07:19:56 CST)
- Parametrization of sulfur-containing compound with ffTK (Thu Nov 10 2022 - 10:36:32 CST)
Troy Wymore
- PSC WORKSHOP: COMPUTATIONAL BIOPHYSICS WORKSHOP (Fri Oct 14 2005 - 13:13:15 CDT)
- PSC WORKSHOP: COMPUTATIONAL BIOPHYSICS WORKSHOP (Thu Sep 15 2005 - 11:15:13 CDT)
- Extensions question (Wed Sep 01 2004 - 11:28:31 CDT)
- Re: Problem with stride (Mon Aug 05 2002 - 13:01:58 CDT)
- Problem with stride (Mon Aug 05 2002 - 11:54:21 CDT)
- Resolution of movie? (Tue Mar 26 2002 - 17:02:43 CST)
- VMD/Eye3d/Linux/Nvidia question (Fri Feb 01 2002 - 15:58:56 CST)
- Making movies of trajectories (Thu Aug 23 2001 - 13:14:34 CDT)
- Ca-dist script (Thu Oct 12 2000 - 13:36:59 CDT)
Tru Huynh
- Re: VMD for macOS -- easy install with new code-signed versions (Sat Dec 02 2023 - 11:38:23 CST)
- Re: Install of VMD on amazon linux2 NICE DCV server (Sun Nov 07 2021 - 09:13:46 CST)
- Re: vmd 1.9.3 won't open in mac after catalina update this morning (Tue Oct 08 2019 - 13:28:58 CDT)
- Re: Re: VMD 1.9.1 core dumps (CentOS-5 x86_64) nvidia drivers: 304.64/4x GTX 680 (Thu Dec 13 2012 - 11:41:46 CST)
- Re: Re: VMD 1.9.1 core dumps (CentOS-5 x86_64) nvidia drivers: 304.64/4x GTX 680 (Tue Dec 11 2012 - 05:10:38 CST)
- Re: Re: VMD 1.9.1 core dumps (CentOS-5 x86_64) nvidia drivers: 304.64/4x GTX 680 (Mon Dec 10 2012 - 16:58:57 CST)
- Re: VMD 1.9.1 core dumps (CentOS-5 x86_64) nvidia drivers: 304.64/4x GTX 680 (Mon Dec 10 2012 - 15:46:45 CST)
- Re: Re: VMD 1.9.1 core dumps (CentOS-5 x86_64) nvidia drivers: 304.64/4x GTX 680 (Mon Dec 10 2012 - 14:11:53 CST)
- VMD 1.9.1 core dumps (CentOS-5 x86_64) nvidia drivers: 304.64/4x GTX 680 (Mon Dec 10 2012 - 09:14:43 CST)
- Re: VMD 1.9.1 core dumps (CentOS-5 x86_64) nvidia drivers: 304.64/4x GTX 680 (Mon Dec 10 2012 - 09:19:55 CST)
- Re: vmd 1.9.1 Centos (Mon Jul 30 2012 - 16:58:21 CDT)
- Re: Re : ellipsoidal particles (Mon May 03 2010 - 02:57:21 CDT)
- Re: vmd-1.8.7 building from source ->few plugins "package could not be loaded" (Wed Dec 09 2009 - 13:53:18 CST)
- Re: vmd-1.8.7 building from source ->few plugins "package could not be loaded" (Wed Dec 09 2009 - 13:37:45 CST)
- Re: vmd-1.8.7 building from source ->few plugins "package could not be loaded" (Tue Dec 08 2009 - 14:22:23 CST)
- vmd-1.8.7 building from source ->few plugins "package could not be loaded" (Mon Dec 07 2009 - 09:40:30 CST)
- VMD 1.8.7 amd64 python libs? (Mon Nov 23 2009 - 10:30:17 CST)
- feedback on pc-over-ip technology? (Mon Sep 08 2008 - 10:40:24 CDT)
- Re: vmd-1.8.4b10/Linux amd64 only libstdc++.so.6 dependancy (Thu Feb 09 2006 - 09:13:52 CST)
- vmd-1.8.4b10/Linux amd64 only libstdc++.so.6 dependancy (Tue Feb 07 2006 - 08:16:05 CST)
- Re: Suggested graphic card :: LINUX (Tue Mar 04 2003 - 05:47:59 CST)
Truc Kim
- Re: Rendering .dat files created from Movie Maker using Tachyon (Tue Nov 16 2010 - 22:53:54 CST)
- Rendering .dat files created from Movie Maker using Tachyon (Tue Nov 16 2010 - 06:34:12 CST)
Trung Nguyen Duc
- Creating a fragment of the given protein (Sun Sep 18 2011 - 11:43:18 CDT)
tscheng_at_ic.sunysb.edu
- show hbonds (Thu Oct 16 2003 - 20:37:06 CDT)
- Re: compile VMD on freebsd 4.8 (Fri Jul 25 2003 - 07:56:03 CDT)
- Re: compile VMD on freebsd 4.8 (Thu Jul 24 2003 - 08:00:42 CDT)
tsirk
- LAMMPS visualization (Thu Nov 11 2004 - 15:02:42 CST)
Tsu-Fan Cheng
- stride failed (Wed Feb 07 2007 - 15:23:08 CST)
- an old...old..old..question (Mon Jan 29 2007 - 16:24:16 CST)
- (no subject) (Wed Sep 17 2003 - 22:02:23 CDT)
- vmd 1.8.2b3 (September 16, 2003) on freebsd (Tue Sep 16 2003 - 22:00:19 CDT)
- Re: compile VMD on freebsd 4.8 (Wed Jul 23 2003 - 14:43:26 CDT)
- compile VMD on freebsd 4.8 (Wed Jul 23 2003 - 14:23:12 CDT)
Tu.Le_at_csiro.au
- Generate psf file for cyclic peptide (Mon May 02 2011 - 22:33:01 CDT)
TUBIANA Thibault CNRS
- Center camera rotation on a molid (Thu Mar 02 2017 - 04:00:03 CST)
- VMD and VRPN (7.33) connection - LINUX (Mon Jun 29 2015 - 10:09:52 CDT)
Turgay Cakmak
- trajector@VMD (Fri Feb 17 2012 - 08:54:15 CST)
Turman, Cheri M
- RE: rmsd-fullthrottle.tcl problem (Wed Mar 29 2006 - 20:25:40 CST)
- rmsd-fullthrottle.tcl problem (Wed Mar 29 2006 - 19:34:29 CST)
- rendering problems (Tue Oct 11 2005 - 11:51:37 CDT)
- visualizing an atomselect (Wed Sep 28 2005 - 17:25:32 CDT)
Tvedt, Nathan
- error during membrane mixing: can't read "toplist": no such variable (Fri Mar 29 2024 - 14:03:14 CDT)
Tye Dwight Martin
- SBCG Bond/Angle Parameter Extraction Files (Fri Jun 15 2012 - 17:28:59 CDT)
Tyler Heibeck
- Re: Work around and problem with 1.7 for MacOS X (Wed Aug 08 2001 - 11:30:20 CDT)
- Work around and problem with 1.7 for MacOS X (Mon Aug 06 2001 - 15:17:57 CDT)
Tyler Luchko
- Re: ACTC Triangle Consolidation (Fri Dec 12 2003 - 12:24:06 CST)
- ACTC Triangle Consolidation (Thu Dec 11 2003 - 16:37:33 CST)
- stride error (Mon Dec 08 2003 - 12:36:03 CST)
- MSMS probe radius and CHARMM VDW radii (Sun Nov 23 2003 - 16:18:10 CST)
- Feature request: PBC from CHARMM DCD files (Thu Oct 02 2003 - 13:08:27 CDT)
- cartoon representation (Fri May 30 2003 - 15:21:40 CDT)
- surface problems (Mon Dec 16 2002 - 18:48:45 CST)
Tyler Smith
- Re: Issues with tachyon internal renderer (Tue Jan 14 2014 - 16:01:41 CST)
- Re: Issues with tachyon internal renderer (Fri Jan 03 2014 - 19:02:57 CST)
- Re: Issues with tachyon internal renderer (Fri Jan 03 2014 - 18:43:13 CST)
- Issues with tachyon internal renderer (Fri Jan 03 2014 - 14:19:36 CST)
- issues rendering images (Mon Nov 18 2013 - 18:40:48 CST)
Tyler Westland
- ReadVarXYZ and measure gofr (Fri Feb 24 2017 - 14:47:15 CST)
- Re: Setting Default Colors in vmdrc (Tue Sep 20 2016 - 15:45:15 CDT)
- Setting Default Colors in vmdrc (Thu Sep 08 2016 - 10:17:53 CDT)
tyrrell t
- Does VMD 1.8.6 support SMP under IRIX? (Fri Jul 25 2014 - 22:25:46 CDT)
TZU-LAN YEH
- Re: How to select water near a certain residue if it is outside of the water box? (Sat May 13 2006 - 11:04:20 CDT)
- How to select water near a certain residue if it is outside of the water box? (Wed May 10 2006 - 00:11:26 CDT)
Töre Han Balta
- Re: Tachyon render problem (Sun Dec 11 2011 - 18:24:40 CST)
- Tachyon render problem (Fri Dec 09 2011 - 02:45:09 CST)
- Re: Coloring particular atom with particular index (Thu Dec 08 2011 - 16:15:26 CST)
- Coloring particular atom with particular index (Wed Dec 07 2011 - 11:51:00 CST)
Uday Chippada
- how to represent H-bonds between chain A and chain B using VMD (Tue Jan 04 2005 - 17:02:42 CST)
- Re: Move molecule (Thu Nov 18 2004 - 14:53:49 CST)
- Hydrogen bond representation and cut off distance (Thu Sep 23 2004 - 13:53:51 CDT)
Uday K. Chippada
- Re: RE: Counting number of hydrogen bonds in the representation (Wed Sep 15 2004 - 13:21:59 CDT)
- Counting number of hydrogen bonds in the representation (Tue Sep 14 2004 - 16:38:20 CDT)
Udaya Dahal
- Re: Incorrect charge in VMD from PSF? (Mon Feb 25 2019 - 16:28:18 CST)
- Incorrect charge in VMD from PSF? (Mon Feb 25 2019 - 11:57:47 CST)
- Re: RMSD of lipid molecules (Fri Apr 27 2018 - 09:21:39 CDT)
- Re: Text mode data extraction without trajectory update (Sun Mar 18 2018 - 09:44:33 CDT)
- Text mode data extraction without trajectory update (Sun Mar 18 2018 - 01:31:36 CDT)
- Re: Using variables inside Atomselect (Tue Feb 07 2017 - 08:41:46 CST)
- Using variables inside Atomselect (Tue Feb 07 2017 - 07:20:08 CST)
Udeshini Manatunga
- Re: visualizing bonds in lammps output reaxff (Fri May 08 2020 - 21:09:01 CDT)
- visualizing bonds in lammps output reaxff (Fri May 08 2020 - 03:46:25 CDT)
Udit Aswal
- Re: (Thu Apr 06 2017 - 00:54:35 CDT)
- Re: vicinity analysis (Fri Mar 31 2017 - 06:49:36 CDT)
- Re: vicinity analysis (Fri Mar 31 2017 - 04:32:20 CDT)
- vicinity analysis (Fri Mar 31 2017 - 02:03:59 CDT)
- (no subject) (Fri Mar 31 2017 - 01:37:54 CDT)
udit0000_at_gmail.com
- (no subject) (Wed Apr 05 2017 - 09:36:00 CDT)
- (no subject) (Tue Apr 04 2017 - 23:33:52 CDT)
Ugur Akgun
- CGTools Plugin (Fri Jan 19 2007 - 13:59:31 CST)
Umesh Ghoshdastider
- questions (Wed Oct 21 2009 - 11:56:24 CDT)
Umut Gerlevik
- Generate QM Region Topology in QwikMD for metal ions to perform QM/MM (Tue Jul 16 2019 - 05:56:15 CDT)
unni kuttan
- creating psf file (Mon Aug 30 2010 - 12:14:15 CDT)
Upadhyay, Him [him.upadhyay_at_ndsu.edu]
- RE: bypassing MolFrac step (Wed Jul 31 2013 - 12:02:36 CDT)
- RE: bypassing MolFrac step (Wed Jul 31 2013 - 11:45:23 CDT)
Upamanyu Ray
- BN nanostructure builder (Thu Nov 14 2013 - 15:54:42 CST)
upayan baul
- Re: to set VMDFORCECPUCOUNT (Sat Sep 21 2013 - 00:27:22 CDT)
- to set VMDFORCECPUCOUNT (Fri Sep 20 2013 - 09:04:30 CDT)
Urahata
- User field (Fri Aug 28 2009 - 10:40:43 CDT)
- Re: tinkerxyz (Tue Aug 25 2009 - 20:58:41 CDT)
- VMD selection options and local density maps (Thu Jul 06 2006 - 14:39:22 CDT)
- VMD selection options and local density maps (Thu Jul 06 2006 - 13:06:53 CDT)
Urquhart, Stephen
- importing deMon2k "molden" files into VMD (Sat Dec 19 2015 - 17:22:27 CST)
Urszula Uciechowska
- ERROR) Tcl startup error: Can't find a usable init.tcl in the following directories: (Wed Feb 15 2012 - 07:59:30 CST)
- installation error (Wed Feb 15 2012 - 03:28:59 CST)
- ERROR) Tcl startup error: Can't find a usable init.tcl in the following directories: (Wed Feb 15 2012 - 01:48:52 CST)
Ushasi Pramanik 1710228
- Charge opt in FFTK (Fri Aug 03 2018 - 05:25:34 CDT)
- Problem with parametrization using ffTK (Thu Jul 12 2018 - 04:58:55 CDT)
- "Prepare Parameterization from CGenFF Program Output" in ffTK (Sun Jul 08 2018 - 23:04:00 CDT)
- Importing .str file generated by ParamChem to molefacture in VMD (Fri Jul 06 2018 - 05:43:07 CDT)
utku.ozkan_at_bilkent.edu.tr
- Re: Topotools "guessangles" not assigning angles (Wed Nov 09 2022 - 04:29:16 CST)
- Topotools "guessangles" not assigning angles (Wed Nov 09 2022 - 00:05:50 CST)
Utpal Sarkar
- How to see the original Origin (0,0,0, coordinate) of a system (Thu Mar 27 2008 - 11:20:03 CDT)
- DLPOLY HISTORY FILE in VMD (Tue Mar 18 2008 - 11:08:29 CDT)
uu zhu
- molecule jumps from one site to the other? (Mon Jul 13 2009 - 21:11:52 CDT)
V. Kumar
- Amber calculated structure(PDB) visualization in pymol vs chimera vs vmd (Wed Dec 02 2015 - 17:16:46 CST)
v.satarifard
- Re: remove vmd in ubuntu (Mon Jul 29 2013 - 09:43:51 CDT)
- Error in merging manipulated graphene sheet (generate with VMD and manipulate with Hyperchem) with protein (Sun Jul 28 2013 - 03:22:20 CDT)
- remove vmd in ubuntu (Sun Jul 28 2013 - 02:52:17 CDT)
Vadim Patsalo
- Associating .crd file extension with COR Plugin (Tue Sep 27 2011 - 21:08:31 CDT)
- Associating .crd file extension with COR Plugin. (Tue Sep 27 2011 - 16:58:50 CDT)
Vahdati N.
- IED (Wed Jun 18 2008 - 10:26:37 CDT)
Vaidehi Doke
- Re: Unable to useTachyon-Optix renderer when VMD is installed in Windows Subsystem for Linux (WSL) (Wed Jun 15 2022 - 01:47:03 CDT)
- Unable to useTachyon-Optix renderer when VMD is installed in Windows Subsystem for Linux (WSL) (Wed Jun 08 2022 - 06:56:04 CDT)
Vaidyanathan Sethuraman
- Re: Topotools guessing angle and bond topology from CONNECT info in PDB files (Thu Nov 23 2017 - 02:15:32 CST)
- Topotools guessing angle and bond topology from CONNECT info in PDB files (Tue Nov 21 2017 - 23:40:33 CST)
- Re: Fwd: Topotools to keep atomtypes same (Wed Nov 01 2017 - 22:40:07 CDT)
- Fwd: Topotools to keep atomtypes same (Wed Nov 01 2017 - 16:34:33 CDT)
Valentin Gogonea
- Re: VMD: error in ffTK torsion angle optimization (Tue Aug 04 2020 - 21:17:02 CDT)
- Re: Molefacture does not write bond angles and dihedral angles info in the psf file (Thu Jul 23 2020 - 17:13:01 CDT)
- Molefacture does not write bond angles and dihedral angles info in the psf file (Thu Jul 23 2020 - 16:10:38 CDT)
- VMD: error in ffTK torsion angle optimization (Sun Jul 05 2020 - 10:23:42 CDT)
- Re: Action halted on error in ffTK: The following output QM was not recognized (Tue Jun 09 2020 - 20:05:05 CDT)
- Action halted on error in ffTK: The following output QM was not recognized (Mon Jun 08 2020 - 18:16:55 CDT)
Valentina Erastova
- Re: X11 on Mac 10.8 (Mon Aug 05 2013 - 09:50:05 CDT)
Valere Chen
- can't see all frames in XYZ file (Wed Jun 29 2005 - 14:42:50 CDT)
Valeria Molinero
- Re: rdf for big systems (Tue Aug 12 2008 - 18:35:42 CDT)
- Re: rdf for big systems (Mon Aug 11 2008 - 11:40:45 CDT)
- Re: rdf for big systems (Tue Jul 22 2008 - 18:58:25 CDT)
- rdf for big systems (Tue Jul 22 2008 - 16:23:04 CDT)
valeria.losasso_at_stfc.ac.uk
- RE: vmd1.9.2 alpha on windows/Mac (Mon Mar 18 2013 - 03:32:27 CDT)
- RE: vmd1.9.2 alpha on windows/Mac (Fri Mar 15 2013 - 05:11:23 CDT)
- vmd1.9.2 alpha on windows/Mac (Tue Feb 12 2013 - 10:42:01 CST)
- FW: vmd1.9.2 alpha on windows/Mac (Tue Feb 12 2013 - 10:45:28 CST)
Valerio Sorichetti
- Re: coloring different polymers with different (random) colors (Mon Jul 10 2017 - 10:32:44 CDT)
- Re: coloring different polymers with different (random) colors (Mon Jul 10 2017 - 09:05:57 CDT)
- coloring different polymers with different (random) colors (Mon Jul 10 2017 - 04:13:03 CDT)
Valodymyr Nechyporuk-Zloy
- I can not load mdcrd file after simulation with sander (Tue Jul 06 2004 - 15:44:57 CDT)
Vamsee Voora
- trajectory generation using gaussian cube files (Mon Apr 11 2011 - 15:53:33 CDT)
VandeVondele Joost
- VMD crashes on opening large cube files (Sat May 25 2013 - 11:38:14 CDT)
vaneeta bala
- (no subject) (Fri Jan 20 2012 - 01:11:06 CST)
Vani Krishna
- Normal mode analysis in VMD (Sun Nov 12 2006 - 22:00:20 CST)
- Visualizing Delphi output (Tue Jul 26 2005 - 09:50:41 CDT)
- measuring rotation of protein about an axis (Tue Jul 19 2005 - 10:07:37 CDT)
- unwrapping 'wrapping' DCd files (Fri Jan 21 2005 - 23:44:07 CST)
- VMD plugin: Membrane: POPG (Wed Dec 15 2004 - 20:58:57 CST)
- Solvent accessible area/Radii definition (Thu Dec 09 2004 - 10:20:37 CST)
- Solvent accessible surface area (Wed Dec 08 2004 - 18:07:55 CST)
- Compiling NAMD from SRC: Tungsten@NCSA (Fri Sep 10 2004 - 19:54:55 CDT)
- SMD: Group of atoms COM fixed? (Thu Sep 02 2004 - 20:58:44 CDT)
- Protonated GLU/ASP in PSF generation (Sun Aug 29 2004 - 16:23:00 CDT)
- convert DCD files to GROMACS .XTC format (Sat Aug 28 2004 - 17:43:11 CDT)
- analysis scripts: VMD text /batch mode (Tue Aug 10 2004 - 11:46:12 CDT)
- PBCwrap: wrapping DCD files (Mon Jun 28 2004 - 22:03:45 CDT)
- wrapping DCD files (Mon Jun 28 2004 - 14:25:24 CDT)
- shifting the origin of the box (Mon Jun 28 2004 - 13:38:17 CDT)
- Van der Waal's radii of atoms (Wed Jun 02 2004 - 20:24:47 CDT)
- Pore volume/radius in protein bundles (Thu May 27 2004 - 11:57:34 CDT)
vani panguluri
- calculation of binding energy (Wed Mar 16 2011 - 23:06:45 CDT)
- ERROR (Wed Mar 09 2011 - 00:11:59 CST)
- ERROR while using PSF builder (Mon Feb 07 2011 - 11:29:09 CST)
- apocynin/1k4u (Mon Dec 06 2010 - 13:50:06 CST)
- regarding merging of protein and a ligand (Sat Nov 06 2010 - 15:43:13 CDT)
- Re: Regarding merging of two files (Wed Nov 03 2010 - 13:30:40 CDT)
- Regarding merging of two files (Wed Nov 03 2010 - 12:18:16 CDT)
- Re: CAN ANY ONE HELP ME (Wed Jun 02 2010 - 11:44:33 CDT)
- CAN ANY ONE HELP ME (Wed Jun 02 2010 - 10:09:08 CDT)
Vani Vemparala
- Re: GLSL rendering problems on MAC OS 10.8.5 (Intel Graphics Card) (Sat Oct 12 2013 - 22:43:02 CDT)
- Re: GLSL rendering problems on MAC OS 10.8.5 (Intel Graphics Card) (Fri Oct 11 2013 - 05:24:09 CDT)
- GLSL rendering problems on MAC OS 10.8.5 (Intel Graphics Card) (Thu Oct 03 2013 - 23:30:59 CDT)
Vardan Vardanyan
- Re: fftk, ORCA, Bond and Angle Optimization, error As a subsequent Frequencies calculation has been requested (Thu Aug 15 2024 - 11:11:19 CDT)
- fftk, ORCA, Bond and Angle Optimization, error As a subsequent Frequencies calculation has been requested (Tue Jul 23 2024 - 15:29:09 CDT)
- Re: ffTK Inquiry (Mon Mar 13 2023 - 21:36:38 CDT)
- fftk, charge optimization, fragmentation (Thu Jan 19 2023 - 13:39:33 CST)
varsha gautham
- Tcl script (Wed Jan 21 2009 - 22:45:29 CST)
- Fwd: Tcl script (Tue Jan 20 2009 - 02:11:56 CST)
varun dewaker
- VMD-L Regarding Zinc parameters (Sat May 09 2020 - 12:38:00 CDT)
- Regarding zinc parameters in CHARMM force field (Sat May 09 2020 - 12:40:52 CDT)
- VMD-L Entropy calculation in VMD (Sat May 09 2020 - 12:31:03 CDT)
- entropy calculation (Tue May 05 2020 - 00:33:14 CDT)
- Binding free energy calculations (Sat Mar 24 2018 - 08:12:17 CDT)
Vasiliy S. Znamenskiy
- Re: Python development (Wed Jan 31 2007 - 07:15:13 CST)
Vasiliy Triandafilidi
- Re: XYZ to psf file (Thu Apr 09 2015 - 19:25:44 CDT)
- Re: VMD text mode on MAC OS (Thu Apr 09 2015 - 16:41:13 CDT)
- Re: VMD text mode on MAC OS (Thu Apr 09 2015 - 02:18:46 CDT)
Vasista
- STRIDE breaks after 100,000 protein atoms (Wed Nov 01 2023 - 06:36:38 CDT)
- Unable to rename material (Mon Apr 04 2022 - 05:40:43 CDT)
Vasumathi Velachi
- Re: measure hbonds in VMD tcl script (Fri Sep 19 2014 - 06:10:48 CDT)
- measure hbonds in VMD tcl script (Fri Sep 19 2014 - 04:34:21 CDT)
- RE: Viewing SASA points through draw command-problem (Fri Jun 13 2014 - 04:28:16 CDT)
- Viewing SASA points through draw command-problem (Thu Jun 12 2014 - 11:33:04 CDT)
- Re: psfgen-reading residues above 10 thousand (Fri May 30 2014 - 04:25:01 CDT)
- psfgen-reading residues above 10 thousand (Thu May 29 2014 - 05:13:26 CDT)
Venkata Mandala
- Getting trajectories from DCD files? (Sun Sep 23 2012 - 13:48:30 CDT)
venkataraman kabaleeswaran
- rmsd and angle between the two domains (Tue Apr 12 2005 - 12:31:42 CDT)
Vermaas, Josh
- Re: Error on VMD2 startup: cannot source vmdinit.tcl (Wed Feb 26 2025 - 07:46:18 CST)
- Re: Using tprplugin (Thu Dec 19 2024 - 14:25:08 CST)
- Re: Issue with patching when running mutator in vmd (Mon Dec 16 2024 - 08:50:20 CST)
- Re: Tachyon download is offline (Mon Nov 18 2024 - 08:18:56 CST)
- Re: Select atoms on surface of sphere (Fri Aug 16 2024 - 11:11:34 CDT)
- Re: pbc box unwrapping/wrapping error infinite bond angles/box sides (Mon Aug 12 2024 - 09:42:09 CDT)
- Re: compile vmd-1.9.4a57 source - OptiXRenderer.h:84:10: fatal error: optix_math.h: No such file or directory (Fri Jul 26 2024 - 10:21:01 CDT)
- Re: Compiling CUDAMarchingCubes.cu build error (Wed Jul 24 2024 - 09:57:02 CDT)
- Re: Compiling CUDAMarchingCubes.cu build error (Mon Jul 22 2024 - 20:16:50 CDT)
- Re: Working with trajectory and updating frames dependents on current frame (Thu Jul 18 2024 - 15:56:01 CDT)
- Re: Opening file after i downloaded vmd (Wed Jul 17 2024 - 13:38:59 CDT)
- Re: PBC issue (Tue Jul 16 2024 - 06:18:47 CDT)
- Re: Display both-signed portions of isosurface (Sun Jun 02 2024 - 15:24:39 CDT)
- Re: Re: ffTK HF/6-31G Base Set QM or a Different QM Base Set? (Wed Apr 24 2024 - 08:35:29 CDT)
- Re: Atoms poorly guessed after applying a patch in Psfgen (Wed Mar 27 2024 - 09:51:49 CDT)
- Re: save/load visualization for data file (Mon Mar 18 2024 - 08:32:26 CDT)
- Re: looking for help to solve FATAL ERRORï¼š Didn't find vdw parameter for atom type C11 (Wed Mar 06 2024 - 09:36:55 CST)
- Re: How to access the Lable tab's info of atoms? (Thu Feb 29 2024 - 07:51:51 CST)
- Re: parseFEP and solvate pulgins in VMD 1.9.3 (Mon Feb 05 2024 - 19:27:14 CST)
- Re: ffTK Opt. Charge Run Optimization Error PSF File Problem INQUIRY (Mon Feb 05 2024 - 09:25:25 CST)
- Re: M1 Mac menu issues (Wed Dec 27 2023 - 12:48:58 CST)
- Re: How to evaluate VMD performance properly? (Tue Nov 21 2023 - 09:01:11 CST)
- Re: How to evaluate VMD performance properly? (Mon Nov 20 2023 - 08:57:13 CST)
- Re: Script to Build Cyclic Peptides (Mon Oct 30 2023 - 07:39:24 CDT)
- Re: Script to Build Cyclic Peptides (Fri Oct 27 2023 - 17:15:02 CDT)
- Re: Script to Build Cyclic Peptides (Tue Oct 24 2023 - 08:29:48 CDT)
- Re: ffTK FATAL ERROR: UNABLE TO FIND IMPROPER PARAMETERS Inquiry (Sat Oct 14 2023 - 12:15:04 CDT)
- Re: Total H-bond occupancy analysis (Tue Sep 26 2023 - 08:06:02 CDT)
- Re: Angle between a vector and a plane (Wed Sep 20 2023 - 08:06:25 CDT)
- Re: Angle between a vector and a plane (Wed Sep 20 2023 - 06:54:23 CDT)
- Re: Viewing Van der Waals bonds of a protein ligand in complex inquiry (Mon Sep 11 2023 - 09:00:34 CDT)
- Re: keeping two ligands in a box (Tue Jul 25 2023 - 06:08:36 CDT)
- Re: keeping two ligands in a box (Sun Jul 23 2023 - 16:28:50 CDT)
- Re: keeping two ligands in a box (Sun Jul 23 2023 - 03:45:49 CDT)
- Re: Trajectory Smoothing and length of hydrogen bonds (Thu May 11 2023 - 16:13:12 CDT)
- Re: Random Sudden Increase in RMSD Near End of Simulation (Fri Apr 28 2023 - 04:20:23 CDT)
- Re: Python crash VMD1.9.4 (Fri Apr 14 2023 - 03:57:24 CDT)
- Re: Python crash VMD1.9.4 (Thu Apr 13 2023 - 08:11:14 CDT)
- Re: Python crash VMD1.9.4 (Wed Apr 12 2023 - 09:30:56 CDT)
- Re: Fwd: Problem building vmd with ospray - OSPRayRenderer.h error: â€˜OSPModelâ€™ does not name a typ (Fri Feb 24 2023 - 00:19:28 CST)
- Re: Running VMD 1.9.4alpha on newer GPUs that require CUDA 11+ and OptiX 7+ (Wed Feb 01 2023 - 08:23:56 CST)
- Re: Running VMD 1.9.4alpha on newer GPUs that require CUDA 11+ and OptiX 7+ (Tue Jan 31 2023 - 14:04:57 CST)
- Re: Vmd Hardware Requirements long MD visual/analysis (Mon Jan 16 2023 - 09:22:38 CST)
- Re: << Centering/aligning several molecules >> (Fri Dec 30 2022 - 11:00:34 CST)
- Re: Issue install VMD 1.9.3 Spack (Mon Dec 05 2022 - 10:13:17 CST)
- Re: Ramachandran Dihedral Angles Suspiciously Constant (Mon Sep 26 2022 - 08:30:26 CDT)
- Re: Ramachandran Dihedral Angles Suspiciously Constant (Sun Sep 25 2022 - 13:29:05 CDT)
- Re: Ramachandran Dihedral Angles Suspiciously Constant (Sat Sep 24 2022 - 12:28:36 CDT)
- Re: Part of my molecule isn't rendering in New Cartoon (Sat Sep 24 2022 - 12:25:01 CDT)
- Re: Problem with measure bond command returning -NaN for some frames (Mon Aug 29 2022 - 08:49:37 CDT)
- Re: atomselect for interacting hydroxyl groups (Tue Aug 16 2022 - 12:53:40 CDT)
- Re: MultiSeq QR structure factorization on the command line (Tue Jun 28 2022 - 16:03:06 CDT)
- Re: Re: Visualisation of CG bonds (Mon Jun 27 2022 - 07:52:11 CDT)
- Re: How to reduce the size of a .dcd file? (Thu Jun 16 2022 - 07:57:50 CDT)
- Re: Unable to useTachyon-Optix renderer when VMD is installed in Windows Subsystem for Linux (WSL) (Wed Jun 08 2022 - 08:23:15 CDT)
- Re: Clarification on RMSF Calculation (Mon May 30 2022 - 15:52:12 CDT)
- Re: remove atoms in a geometric shape using VMD (Fri May 06 2022 - 15:44:01 CDT)
- Re: VMD 1.9.4 crashes after running the "Merge Structures" plugin (with psfgen 2.0) (Wed Apr 06 2022 - 08:04:56 CDT)
- Re: VMD 1.9.4 as a Python Module (Thu Mar 10 2022 - 08:50:16 CST)
- Re: Problem w/ DCD Title Block When Saving - Using 'Animate Write' vs Saving Via GUI (Tue Mar 08 2022 - 14:58:18 CST)
- Re: read setting from text file (Tue Mar 01 2022 - 09:08:04 CST)
- Re: command measure inertia (Sat Feb 26 2022 - 11:57:31 CST)
- Re: Protein-ligand interactions (Mon Jan 31 2022 - 14:52:57 CST)
- Re: support for gromacs topology files (Fri Nov 26 2021 - 18:38:58 CST)
- Re: Select a molecule with multiple indexes (Mon Nov 22 2021 - 10:42:48 CST)
- Re: Change Atom serial Atom (Wed Nov 17 2021 - 20:50:42 CST)
- Re: Change Atom serial Atom (Wed Nov 17 2021 - 20:34:02 CST)
- Re: Color Transition in VMD (Sat Nov 06 2021 - 13:22:11 CDT)
- Re: Coloring rings with paperchain (Mon Oct 18 2021 - 19:23:39 CDT)
- Re: Changing residue name for a resid (Sun Sep 19 2021 - 15:10:03 CDT)
- Re: Regarding atom index in VMD (Mon Sep 13 2021 - 15:19:31 CDT)
- Re: Umbrella sampling windows (Sat Sep 04 2021 - 16:10:37 CDT)
- Re: Visualizing segmentation/labeling without python dependency (Thu Sep 02 2021 - 07:46:55 CDT)
- Re: Visualizing segmentation/labeling without python dependency (Wed Sep 01 2021 - 10:51:53 CDT)
- Re: VMD Tachyon Render fails with new material (Mon Aug 23 2021 - 11:47:22 CDT)
- Re: Stripping water from psf (Thu Aug 12 2021 - 14:55:03 CDT)
- Re: Protein Alignment Question (Wed Aug 11 2021 - 09:10:49 CDT)
- Re: Write umbrella windows (Mon Aug 09 2021 - 08:00:36 CDT)
- Re: Could not read file problem (Fri Jul 23 2021 - 08:39:58 CDT)
- Re: Unwrap for diffusion phenomena? (Tue Jul 13 2021 - 15:49:35 CDT)
- Re: Found bad contact (Thu Jun 10 2021 - 10:20:24 CDT)
- Re: loading multiple different topologies into the same "molecule" (Thu Jun 10 2021 - 09:19:11 CDT)
- Re: Atom selection with asterisk atom name (Fri May 28 2021 - 14:03:41 CDT)
- Re: Atom selection with asterisk atom name (Fri May 28 2021 - 10:49:25 CDT)
- Re: Atom selection with asterisk atom name (Wed May 26 2021 - 10:57:06 CDT)
- Re: Angles generated by AutoPSF? (Mon May 17 2021 - 14:23:20 CDT)
- Re: Tcl Scripting Question (Tue May 04 2021 - 14:48:00 CDT)
- Re: Error while compiling vmd: "libmolfile_plugin.h" (Thu Apr 15 2021 - 13:47:19 CDT)
- Re: Re: ethanol solvation box (Wed Apr 14 2021 - 19:38:18 CDT)
- Re: ethanol solvation box (Wed Apr 14 2021 - 18:35:05 CDT)
- Re: Loading files (Wed Apr 07 2021 - 15:23:52 CDT)
- Re: VMD 1.9.4 won't open .crd files (Mon Apr 05 2021 - 18:18:20 CDT)
- Re: VMD 1.9.4 won't open .crd files (Mon Apr 05 2021 - 16:37:56 CDT)
- Re: histidine protonation (Fri Apr 02 2021 - 18:35:53 CDT)
- Re: histidine protonation (Fri Apr 02 2021 - 13:26:13 CDT)
- Re: Render image background-free (Tue Mar 02 2021 - 15:17:59 CST)
- Re: Calculation of residue pair energy values (Mon Feb 15 2021 - 13:51:56 CST)
- Re: how to search for existing topology (Mon Feb 01 2021 - 10:40:27 CST)
- Re: setting coloring and drawing methods (Fri Jan 29 2021 - 09:37:38 CST)
- Re: novel residue creation and parameterization (Wed Jan 27 2021 - 12:01:29 CST)
- Re: Compiling VMD with the TNG plugin (Mon Jan 25 2021 - 13:02:19 CST)
- Re: Tachyon sometimes suddenly freezes up when rendering epotential images (Mon Jan 18 2021 - 08:41:44 CST)
Vermaas, Joshua
- Re: Running RMSF script on compute canada (Fri Dec 13 2019 - 12:34:23 CST)
- RE: Running RMSF script on compute canada (Fri Dec 13 2019 - 11:00:44 CST)
- RE: OPTIX ray tracing option not showing up (Fri Dec 06 2019 - 17:57:25 CST)
- RE: Loading large trajectories using multiple threads/direct calls? (Thu Dec 05 2019 - 12:12:45 CST)
- RE: Cross correlation (Tue Dec 03 2019 - 11:12:45 CST)
- RE: Using bigdcd and .tcl scripts (Wed Nov 27 2019 - 17:19:17 CST)
- RE: add new color index do VMD (Wed Nov 20 2019 - 09:47:04 CST)
- RE: Problem in rendering CG bonds with VMD (Tue Nov 12 2019 - 18:01:55 CST)
- RE: Change color scale data range (Fri Nov 08 2019 - 10:51:39 CST)
- RE: Query on preferred encoder/settings for producing MPEG files (Sun Oct 27 2019 - 13:35:12 CDT)
- RE: Is it possible to use VMD to plot RDFs where the cell volume/parameter changes at each time step? (Wed Oct 23 2019 - 15:19:38 CDT)
- RE: Is it possible to use VMD to plot RDFs where the cell volume/parameter changes at each time step? (Wed Oct 23 2019 - 14:35:24 CDT)
- RE: Is it possible to use VMD to plot RDFs where the cell volume/parameter changes at each time step? (Wed Oct 23 2019 - 13:07:18 CDT)
- RE: Unit for RMSD cut-off in clustering tool (Fri Oct 18 2019 - 14:05:12 CDT)
- RE: SSrestraints (Wed Oct 16 2019 - 14:10:10 CDT)
- RE: Joining fragments (Mon Oct 14 2019 - 09:26:56 CDT)
- RE: NAMD .coor file to pdb, WRITE PDB ERROR. (Wed Oct 09 2019 - 08:51:59 CDT)
- RE: Transform structure to (Tue Oct 08 2019 - 11:29:15 CDT)
- RE: NAMD .coor file to pdb, WRITE PDB ERROR. (Thu Oct 03 2019 - 11:44:50 CDT)
- RE: (Wed Oct 02 2019 - 09:43:30 CDT)
- RE: MultiSeq: STAMP fails (Fri Sep 27 2019 - 13:23:03 CDT)
- RE: Parameterization strategy with fragmentation in fftk (Wed Sep 25 2019 - 09:38:35 CDT)
- RE: Parameterization strategy with fragmentation in fftk (Thu Sep 19 2019 - 11:50:39 CDT)
- RE: correct "origin" in VMD (Mon Sep 16 2019 - 18:17:44 CDT)
- RE: Change of colour for bond distance (Fri Sep 13 2019 - 08:34:51 CDT)
- RE: Tcl foreach/for loop error (Fri Sep 06 2019 - 08:52:22 CDT)
- RE: << Different values of RMSD >> (Thu Aug 29 2019 - 20:25:40 CDT)
- RE: << Different values of RMSD >> (Thu Aug 29 2019 - 17:39:58 CDT)
- RE: << Loading trajectory file in Windows fails >> (Wed Aug 28 2019 - 10:09:27 CDT)
- RE: Extract Most Frequently found structure (Fri Aug 23 2019 - 10:39:59 CDT)
- RE: Atoms on top of each in wrapped trajectory (Thu Aug 15 2019 - 15:56:09 CDT)
- RE: How the Within Command Works (Thu Aug 08 2019 - 12:18:32 CDT)
- RE: Increasing the number of bonds per atom (Fri Jun 28 2019 - 08:13:20 CDT)
- RE: Adaptive real time selection and coloring in default display (Thu Jun 27 2019 - 17:54:01 CDT)
- RE: Adaptive real time selection and coloring in default display (Thu Jun 27 2019 - 12:04:01 CDT)
- RE: Error compiling 1.9.3 with CUDA (Thu Jun 20 2019 - 17:21:51 CDT)
- RE: Error compiling 1.9.3 with CUDA (Thu Jun 20 2019 - 14:40:07 CDT)
- RE: Visualization State Issue With Secondary Structure (Thu Jun 06 2019 - 17:33:14 CDT)
- RE: SASA calculation for sidechains of my peptide residues (Thu Jun 06 2019 - 11:05:15 CDT)
- RE: psfgen problems of many segment complex (Fri May 24 2019 - 07:52:55 CDT)
- RE: Partial rendering of periodic cells` (Wed May 15 2019 - 17:17:20 CDT)
- RE: Re: Defining a layer for a micelle (Wed May 15 2019 - 12:12:22 CDT)
- RE: Defining a layer for a micelle (Wed May 15 2019 - 08:25:45 CDT)
- RE: Defining a layer for a micelle (Mon May 13 2019 - 13:35:32 CDT)
- RE: measure rmsd with non-serial atom ordering between two selections (Tue May 07 2019 - 19:11:08 CDT)
- RE: measure rmsd with non-serial atom ordering between two selections (Tue May 07 2019 - 19:17:57 CDT)
- RE: (Mon Apr 29 2019 - 11:15:05 CDT)
- RE: Query regarding H-bond (Mon Apr 29 2019 - 11:17:35 CDT)
- RE: Track H-bonds at a site in a trajectory (Wed Apr 24 2019 - 15:39:47 CDT)
- RE: namd-l: Umbrella Sampling in PLUMED + NAMD (Mon Apr 22 2019 - 11:50:56 CDT)
- RE: SASA calculation with periodic images (Tue Apr 16 2019 - 12:17:26 CDT)
- RE: Question (Sat Apr 13 2019 - 13:36:35 CDT)
- RE: Tcl (Thu Apr 11 2019 - 19:16:36 CDT)
- RE: VMD OrcaPlugin Bug (Thu Mar 21 2019 - 16:41:52 CDT)
- RE: Source code for ringsize? (Fri Mar 15 2019 - 16:25:45 CDT)
- RE: Fixing coordinates for visualization (Thu Mar 14 2019 - 12:43:48 CDT)
- RE: RTX-accelerated VMD 1.9.4 test build for 64-bit Linux posted... (Mon Mar 11 2019 - 18:15:16 CDT)
- RE: VMD Multiprocessing (Mon Mar 11 2019 - 12:49:28 CDT)
- RE: Re: FFTK Possible Bug (Sun Mar 03 2019 - 05:18:15 CST)
- RE: Centering an atom over the length of a trajectory (Tue Feb 26 2019 - 16:33:31 CST)
- RE: Incorrect charge in VMD from PSF? (Mon Feb 25 2019 - 15:44:31 CST)
- RE: [EXTERNAL] RE: pbctools installation error (Fri Feb 22 2019 - 16:15:14 CST)
- RE: pbctools installation error (Fri Feb 22 2019 - 16:05:03 CST)
- RE: extracting 1-D data from a volumetric file (Thu Feb 21 2019 - 14:22:21 CST)
- RE: Topo tools error in dihedral guess (Wed Feb 20 2019 - 13:50:35 CST)
- RE: Move volumetric data with their associated PDB (Tue Feb 19 2019 - 13:37:20 CST)
- RE: Error: invalid command name "voltool" (Tue Feb 19 2019 - 12:35:31 CST)
- RE: Cannot merge psf and pdb files using psfgen (Wed Feb 13 2019 - 09:55:21 CST)
- RE: Conversion from gromacs trr trajectory into charmm trajectory (Tue Jan 29 2019 - 11:25:50 CST)
- RE: orient package problem (Thu Jan 03 2019 - 12:32:02 CST)
- RE: orient package problem (Wed Jan 02 2019 - 18:33:14 CST)
- RE: Parsing error in TkConsole (Wed Jan 02 2019 - 15:17:33 CST)
- RE: h-bond (Sun Dec 23 2018 - 07:40:26 CST)
- RE: MDFF through VMD Error FATAL ERROR: DIDN'T FIND vdW PARAMETER FOR ATOM TYPE OT (Fri Dec 21 2018 - 11:08:31 CST)
- RE: atom types depend on PSF/PDB reading order (Thu Dec 20 2018 - 08:42:52 CST)
- RE: ring-like structure formation with distance restraints (Wed Dec 19 2018 - 17:27:58 CST)
- RE: ring-like structure formation with distance restraints (Wed Dec 19 2018 - 12:53:31 CST)
- RE: vmd error time too large/small to represent (Tue Dec 04 2018 - 11:42:01 CST)
- RE: mol representation Isosurface - Parameters? (Fri Nov 30 2018 - 13:31:19 CST)
- RE: Creating a pdb of periodic images of a unit cell (Wed Nov 21 2018 - 11:43:43 CST)
- RE: Patching for bond between protein and organic ligand (Mon Nov 12 2018 - 11:28:21 CST)
- RE: how to change material and color of an atom selection in TkConsole (Thu Nov 08 2018 - 18:55:32 CST)
- RE: VMD does not display bonds (Thu Nov 08 2018 - 11:45:59 CST)
- RE: VMD does not display bonds (Wed Nov 07 2018 - 12:09:47 CST)
- RE: Dynamic Bonds Question (Wed Oct 31 2018 - 15:46:23 CDT)
- RE: Dynamic Bonds Question (Wed Oct 31 2018 - 14:20:13 CDT)
- RE: Problem of saving .trj file in vmd (Mon Oct 29 2018 - 09:35:18 CDT)
- RE: Problem of saving .trj file in vmd (Sun Oct 28 2018 - 18:01:29 CDT)
- RE: Unknown atom type CG205 with CGenFF by psfgen (Fri Oct 26 2018 - 12:21:06 CDT)
- RE: Pressure Control (Thu Oct 25 2018 - 18:35:17 CDT)
- RE: Display representations with Tk Console (Thu Oct 11 2018 - 13:53:23 CDT)
- RE: topotools in place of patching (Thu Oct 04 2018 - 14:21:40 CDT)
- RE: Fwd: Diffusion coefficient calculation (Sun Sep 30 2018 - 18:06:15 CDT)
- RE: problem of calculating hydrogen bonds (Sat Sep 08 2018 - 21:45:52 CDT)
- RE: Re: Error at Dihedral Optimization using fftk (Fri Sep 07 2018 - 13:32:40 CDT)
- RE: Plugins show no text (Wed Aug 29 2018 - 15:06:07 CDT)
- RE: Plugins show no text (Wed Aug 29 2018 - 11:11:13 CDT)
- RE: Plugins show no text (Tue Aug 28 2018 - 07:21:00 CDT)
- RE: Solvate Plugin Error - Reg (Mon Aug 27 2018 - 07:56:56 CDT)
- RE: Re: Tachyon with DoF ignores FocalLength (Thu Aug 02 2018 - 09:12:47 CDT)
- RE: Re: Tachyon with DoF ignores FocalLength (Wed Aug 01 2018 - 06:02:13 CDT)
- RE: Solvate plugin Error - reg (Tue Jul 31 2018 - 13:22:47 CDT)
- RE: Farewell VMD (Mon Jul 30 2018 - 12:38:26 CDT)
- RE: Problem with parametrization using ffTK (Fri Jul 13 2018 - 20:43:10 CDT)
- RE: Merge Structures Bug (Mon Jul 09 2018 - 09:35:32 CDT)
- RE: distance-based selections applied to velDCD (Fri Jun 29 2018 - 18:28:58 CDT)
- RE: Different colors of a residue at different frames (Fri Jun 29 2018 - 12:27:47 CDT)
- RE: Different colors of a residue at different frames (Thu Jun 28 2018 - 17:53:00 CDT)
- RE: Easy way to add hydrogens and get their internal coordinates? (Fri Jun 15 2018 - 04:51:49 CDT)
- RE: topotools/topogromacs (Wed Jun 13 2018 - 09:10:27 CDT)
- RE: topotools/topogromacs (Wed Jun 13 2018 - 04:53:57 CDT)
- RE: vmd startup sequence (Fri Jun 08 2018 - 00:06:54 CDT)
- RE: Flipping a molecule around its geometrical center (Tue Jun 05 2018 - 07:55:00 CDT)
- RE: Issue with "measure rmsf" command (Mon Jun 04 2018 - 12:03:22 CDT)
- RE: Issue with "measure rmsf" command (Mon Jun 04 2018 - 11:46:56 CDT)
- RE: Scan Torsions (Wed May 23 2018 - 16:39:44 CDT)
- RE: How can I redefine fragments in VMD (Tue May 22 2018 - 13:40:54 CDT)
- RE: Re: FFTK Tutorial Charge Opt Question (Mon May 21 2018 - 12:05:26 CDT)
- RE: FFTK Tutorial Charge Opt Question (Sat May 19 2018 - 15:26:15 CDT)
- RE: FFTK Tutorial Charge Opt Question (Sat May 19 2018 - 13:43:41 CDT)
- RE: FFTK Charge Optimization (Fri May 18 2018 - 13:25:05 CDT)
- RE: Re: invalid command name "La::mevsvd_br" (Fri May 18 2018 - 07:19:11 CDT)
- RE: .js file format for point cloud data (Thu May 17 2018 - 12:14:24 CDT)
- RE: How can I create the water Solvate in vmd (Wed May 16 2018 - 17:45:13 CDT)
- RE: How can I create the water Solvate in vmd (Tue May 15 2018 - 18:07:47 CDT)
- RE: RMSD Question (Fri May 04 2018 - 18:46:41 CDT)
- RE: CellPack (Thu May 03 2018 - 19:57:08 CDT)
- RE: coloring method User for graphics like tubes? (Mon Apr 30 2018 - 08:06:49 CDT)
- RE: Problem using topo writegmxtop (Wed Apr 25 2018 - 17:11:42 CDT)
- RE: namd-l: Re: PSFGEN 1.6.4 autogenerate PATCH keyword not available (Tue Apr 24 2018 - 12:08:20 CDT)
- RE: namd-l: Re: PSFGEN 1.6.4 autogenerate PATCH keyword not available (Tue Apr 24 2018 - 10:59:35 CDT)
- RE: Problem using topo writegmxtop (Mon Apr 23 2018 - 10:51:27 CDT)
- RE: Problem using topo writegmxtop (Sat Apr 21 2018 - 13:52:20 CDT)
- RE: VMD Install Question (Fri Apr 20 2018 - 14:00:30 CDT)
- RE: Smoothing (Thu Apr 19 2018 - 18:58:57 CDT)
- RE: Smoothing (Thu Apr 19 2018 - 17:39:37 CDT)
- RE: making a movie of multiple molecules (Wed Apr 18 2018 - 11:33:52 CDT)
- RE: water molecules amber force field (Thu Apr 12 2018 - 14:57:32 CDT)
- RE: Change in reaction coordinate value after doing solvation from that of the crystal structure (Thu Apr 12 2018 - 14:55:26 CDT)
- RE: Diffusion Coefficient calculation (Wed Apr 11 2018 - 11:07:32 CDT)
- Re: Coloring of a trajectory with atom types more than 9 (Thu Mar 29 2018 - 12:19:41 CDT)
- Re: Solvent PDB and PSF Files (Thu Mar 29 2018 - 12:28:40 CDT)
- Re: Using radial coloring method from user-defined center (Mon Mar 26 2018 - 13:59:16 CDT)
- Re: Decompose Transformation Matrix to Rotations and Translations along XYZ axes (Fri Mar 23 2018 - 12:24:42 CDT)
- Re: Text mode data extraction without trajectory update (Fri Mar 23 2018 - 12:01:22 CDT)
- Re: Parallelization to an axis (Fri Mar 23 2018 - 12:26:59 CDT)
- Re: non-heme iron coordination with His in NAMD2 (Thu Mar 15 2018 - 12:21:21 CDT)
- Re: Writing all transformed coordinates into single file (Wed Mar 14 2018 - 15:51:06 CDT)
- Re: Membrane tutorial regarding (Wed Mar 14 2018 - 12:00:01 CDT)
- Re: Creating VR-movies with tachyon renderer (Wed Mar 07 2018 - 12:20:30 CST)
- Re: Creating VR-movies with tachyon renderer (Tue Mar 06 2018 - 11:53:35 CST)
- Re: VMD stops furing loading of DCD trajectory (Fri Mar 02 2018 - 18:15:11 CST)
- Re: PSFGEN: Residue addition not working (Fri Mar 02 2018 - 13:55:19 CST)
- Re: Sv: MDFF rotation (Mon Feb 26 2018 - 10:32:33 CST)
- Re: Re: problem compiling vmd from source. (Mon Feb 19 2018 - 14:34:35 CST)
- Re: Re: problem compiling vmd from source. (Sun Feb 18 2018 - 23:41:17 CST)
- Re: Molecule limit (Mon Jan 29 2018 - 19:44:42 CST)
- Re: disulfide bonds are not showimg in vmd (Mon Jan 29 2018 - 13:06:34 CST)
- Re: Colvars module doesn't work (Fri Jan 26 2018 - 17:39:32 CST)
- Re: Colvars module doesn't work (Fri Jan 26 2018 - 15:14:46 CST)
- Re: MSD for water inside CNT (Tue Jan 23 2018 - 11:30:12 CST)
- Re: contact map in Rainbow scale (Fri Jan 12 2018 - 13:10:25 CST)
- Re: selecting residues within 5-10A of another molecule (Wed Jan 10 2018 - 17:02:01 CST)
- Re: How to calculate head group and acyl chain contact (separately) within 5 Anstrom of a particular protein residue? (Wed Jan 10 2018 - 12:31:02 CST)
- Re: (Mon Jan 08 2018 - 11:58:15 CST)
- Re: Improper terms in topology files processed by psfgen (Fri Jan 05 2018 - 12:23:30 CST)
- Re: question about point substitution A$B"*(BU (Tue Jan 02 2018 - 10:48:52 CST)
- Re: Location of measure command script (Wed Dec 20 2017 - 12:23:07 CST)
- Re: Re: Re: How can I measure bond length with $B!H(Bname ** and resid **" in scripts? (Wed Dec 20 2017 - 12:21:47 CST)
- Re: Re: Re: How can I measure bond length with $B!H(Bname ** and resid **" in scripts? (Tue Dec 19 2017 - 12:09:13 CST)
- Re: FFTK, regarding (Mon Dec 18 2017 - 11:34:17 CST)
- Re: Cycling between files using the same output file (Fri Dec 15 2017 - 20:03:57 CST)
- Re: distance between two groups of atoms (Fri Dec 15 2017 - 15:37:27 CST)
- Re: FFTK, regarding (Fri Dec 15 2017 - 12:25:57 CST)
- Re: I would like to get a trajectory file in PDB. Can I use like data frame in VMD? (Wed Dec 13 2017 - 12:24:47 CST)
- Re: creation of psf (Thu Nov 30 2017 - 13:15:38 CST)
- Re: Gas migration pathway (Wed Nov 08 2017 - 14:19:21 CST)
- Re: Order of atom indexes for a Fragment (Mon Nov 06 2017 - 15:49:48 CST)
- Re: Order of atom indexes for a Fragment (Mon Nov 06 2017 - 15:12:53 CST)
- Re: Order of atom indexes for a Fragment (Mon Nov 06 2017 - 14:42:45 CST)
- Re: Order of atom indexes for a Fragment (Mon Nov 06 2017 - 11:39:57 CST)
- Re: Computing atom distances (Sat Nov 04 2017 - 20:30:45 CDT)
- Re: Computing atom distances (Fri Nov 03 2017 - 17:32:09 CDT)
- Re: Computing atom distances (Fri Nov 03 2017 - 16:35:00 CDT)
- Re: Error using psfgen "unknown residue type SOD" (Wed Nov 01 2017 - 11:45:04 CDT)
- Re: Computing atom distances (Tue Oct 31 2017 - 18:03:12 CDT)
- Re: Atoms in rings (Fri Oct 27 2017 - 11:44:43 CDT)
- Re: Moving atoms so that origin is at fixed position with respect to the display (Thu Oct 26 2017 - 12:49:41 CDT)
- Re: problems reading rst file as amber7 restart with VMD 1.9.3 (Fri Oct 20 2017 - 15:14:39 CDT)
- Re: problems reading rst file as amber7 restart with VMD 1.9.3 (Fri Oct 20 2017 - 14:43:09 CDT)
- Re: how to calculate rmsd? (Mon Oct 09 2017 - 10:09:04 CDT)
- Re: an continuous increased pattern for RMSD curve after long run (Fri Oct 06 2017 - 10:58:48 CDT)
- Re: an continuous increased pattern for RMSD curve after long run (Thu Oct 05 2017 - 11:47:11 CDT)
- Re: an continuous increased pattern for RMSD curve after long run (Tue Oct 03 2017 - 14:49:16 CDT)
- Re: Rendering 3D 360 Movies at higher resolution (Mon Oct 02 2017 - 12:22:25 CDT)
- Re: polar hydrogens (Wed Sep 13 2017 - 13:41:30 CDT)
- Re: segname field in pdb files (Tue Sep 12 2017 - 17:00:33 CDT)
- Re: Select Atoms that are bonded to specific atom type (Thu Sep 07 2017 - 16:38:29 CDT)
- Re: electrostatic potential along channel axis (Thu Aug 31 2017 - 11:59:40 CDT)
- Re: Is it possible to use colvars module in VMD python mode? (Sun Aug 27 2017 - 13:39:21 CDT)
- Re: Selection Text for two C atoms with a double bond (Thu Aug 24 2017 - 18:11:13 CDT)
- Re: Selection Text for two C atoms with a double bond (Thu Aug 24 2017 - 18:30:23 CDT)
- Re: TachyonL-OptiX (Mon Aug 21 2017 - 20:18:40 CDT)
- Re: Visualize temperature (Fri Aug 18 2017 - 14:35:14 CDT)
- Re: Building HMMM using patch files (Wed Aug 09 2017 - 18:09:02 CDT)
- Re: Molecule builder for large number of molecules (Fri Aug 04 2017 - 12:05:29 CDT)
- Re: Building HMMM using patch files (Wed Aug 02 2017 - 11:47:10 CDT)
- Re: Molecule builder for large number of molecules (Mon Jul 31 2017 - 12:42:10 CDT)
- Re: Building HMMM using patch files (Mon Jul 31 2017 - 12:57:20 CDT)
- Re: Building HMMM using patch files (Fri Jul 21 2017 - 17:00:38 CDT)
- Re: Building HMMM using patch files (Fri Jul 21 2017 - 16:07:26 CDT)
- Re: Building HMMM using patch files (Thu Jul 20 2017 - 17:18:55 CDT)
- Re: Building HMMM using patch files (Thu Jul 20 2017 - 16:35:15 CDT)
- Re: regarding the python interface of vmd (Tue Jul 11 2017 - 12:50:35 CDT)
- Re: Get empirical formula of fragment (Mon Jul 03 2017 - 13:28:39 CDT)
- Re: dynamic bond making/breaking formats (Fri Jun 30 2017 - 18:04:29 CDT)
- Re: psfgen error with "auto angles dihe patch" (Thu Jun 29 2017 - 16:02:22 CDT)
- Re: color bar problem in VMD (Thu Jun 29 2017 - 14:10:24 CDT)
- Re: convert psf to top with topotools (Wed Jun 21 2017 - 18:02:59 CDT)
- Re: convert psf to top with topotools (Wed Jun 21 2017 - 13:30:42 CDT)
- Re: VMD display problems. (Fri Jun 16 2017 - 13:11:38 CDT)
- Re: vmd-1.9.3 problem with nvidia driver 375 (Mon Jun 12 2017 - 10:36:14 CDT)
- Re: substitute one residue without rebuilding the structure? (Thu May 04 2017 - 18:26:11 CDT)
- Re: Finding .vmdrc in LINUX(UBUNTU) (Mon May 01 2017 - 11:32:53 CDT)
- Re: Behavior of TachyonLOptiXInternal Renderer (Thu Apr 13 2017 - 20:53:52 CDT)
- Re: how to have an array of snapshots in an image file? (Mon Apr 10 2017 - 16:22:12 CDT)
- Re: vmdrc file not loaded when the filename is a command line argument (Sat Apr 01 2017 - 21:30:33 CDT)
- Re: video streaming (Wed Mar 29 2017 - 11:47:52 CDT)
- Re: "spiral cylinders" instead of bonds when rendering with Tachyon? (Thu Mar 23 2017 - 17:32:41 CDT)
- Re: VMD 1.9.3 GLSL rendering not available on Linux cluster Install (Tue Mar 21 2017 - 09:55:47 CDT)
- Re: Importing Surface Mesh into VMD? (Mon Mar 13 2017 - 11:25:21 CDT)
- Re: Problem with N-glycosylation (Wed Mar 08 2017 - 09:54:21 CST)
- Re: Fwd: Termination when using QuickSurf, libGL no version info, and CUDA Error in start up (Wed Mar 01 2017 - 10:35:37 CST)
- Re: trr generated by catdcd (Tue Feb 21 2017 - 11:23:33 CST)
- Re: measure surface usage (Fri Feb 17 2017 - 18:38:01 CST)
- Re: Interacting H-bond between two dimer (Sun Feb 12 2017 - 22:13:45 CST)
- Re: VolMap data format (Fri Feb 10 2017 - 16:36:10 CST)
- Re: VolMap data format (Fri Feb 10 2017 - 15:52:31 CST)
- Re: memory sharing in VMD (Fri Feb 10 2017 - 16:17:49 CST)
- Re: is there any plugin or software to combine PMF trajectory with VMD image? (Wed Feb 08 2017 - 14:28:31 CST)
- Re: memory sharing in VMD (Tue Feb 07 2017 - 15:51:32 CST)
- Re: .gro files written with python script not displayed until strange modification (Thu Feb 02 2017 - 16:40:25 CST)
- Re: RMSF calculation with reference structure update (Thu Feb 02 2017 - 11:03:32 CST)
- Re: charmm36 vs charmm27/22 topology (Mon Jan 30 2017 - 15:13:17 CST)
- Re: charmm36 vs charmm27/22 topology (Mon Jan 30 2017 - 13:49:16 CST)
- Re: Running out of memory due to multiple mol addfile's (?) (Fri Jan 27 2017 - 14:36:34 CST)
- Re: writegmxtop error invalid command name "..." (Tue Jan 17 2017 - 14:07:19 CST)
- Re: reading big xtc file (Thu Jan 05 2017 - 17:14:17 CST)
- Re: Contacts among two sets of atoms (Tue Jan 03 2017 - 10:54:03 CST)
- Re: How to determine periodicity and phase shift for ffTK dihedral parameter optimization? (Sat Dec 24 2016 - 08:40:07 CST)
- Re: How to determine periodicity and phase shift for ffTK dihedral parameter optimization? (Thu Dec 22 2016 - 08:49:59 CST)
- Re: Automate QwikMD? (Tue Dec 20 2016 - 16:43:39 CST)
- Re: (Fri Dec 16 2016 - 12:47:54 CST)
- Re: namd-l: psfgen - pdbalias when using readpsf (Thu Dec 15 2016 - 15:26:11 CST)
- Re: Trying to Use AutoPSF on Hundreds of pdb Files (Fri Dec 09 2016 - 13:30:38 CST)
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- Re: Superimpose Models (Thu Nov 24 2016 - 11:27:49 CST)
- Re: Rendering with Tachyon GPU enabled (TachyonLOptiXInternal) with options (Tue Nov 15 2016 - 13:12:23 CST)
- Re: Location of 'mol bondsrecalc' in source code (Sat Nov 12 2016 - 17:07:03 CST)
- Re: Rendering with Tachyon GPU enabled (TachyonLOptiXInternal) with options (Sat Nov 12 2016 - 16:46:14 CST)
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- Re: helix orientation (Wed Oct 12 2016 - 14:01:53 CDT)
- Re: helix orientation (Wed Oct 12 2016 - 11:28:40 CDT)
- Re: helix orientation (Wed Oct 12 2016 - 10:36:21 CDT)
- Re: POPC membrane equilibration (Mon Oct 03 2016 - 15:00:55 CDT)
- Re: Colouring atoms individually (Fri Sep 30 2016 - 09:53:41 CDT)
- Re: mkdir command in vmd (Mon Sep 26 2016 - 10:51:00 CDT)
- Re: Error of NAMD simulation when the structure including azide (Thu Sep 15 2016 - 11:23:17 CDT)
- Re: generating images without shading (Wed Sep 07 2016 - 13:20:54 CDT)
- Re: generating images without shading (Wed Sep 07 2016 - 12:53:01 CDT)
- Re: How to choose a ligand conformation to generate a CgenFF parameter (Fri Sep 02 2016 - 10:54:00 CDT)
- Re: VMD 1.9.3 omnidirectional rendering (Tue Aug 23 2016 - 15:55:57 CDT)
- Re: representation for multiple molecules (Mon Aug 22 2016 - 11:28:50 CDT)
- Re: Minimization--Number of Timesteps (Sat Aug 13 2016 - 15:37:45 CDT)
- Re: Minimization--Number of Timesteps (Fri Aug 12 2016 - 15:56:20 CDT)
- Re: Minimization--Number of Timesteps (Fri Aug 12 2016 - 14:45:00 CDT)
- Re: Custom Water Box (Fri Aug 12 2016 - 13:43:10 CDT)
- Re: Aligning a dcd file of a protein consisting two chains (Tue Aug 09 2016 - 11:42:07 CDT)
- Re: Water segid split (Thu Aug 04 2016 - 18:11:15 CDT)
- Re: Aligning a dcd file of a protein consisting two chains (Thu Aug 04 2016 - 11:06:56 CDT)
- Re: Aligning a dcd file of a protein consisting two chains (Wed Aug 03 2016 - 13:24:32 CDT)
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Vermaas, Joshua V
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- Re: Clustering MD trajectories (Mon Sep 19 2011 - 14:33:34 CDT)
- Re: Clustering MD trajectories (Fri Sep 16 2011 - 15:42:45 CDT)
- Re: Clustering MD trajectories (Fri Sep 16 2011 - 14:52:47 CDT)
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viktor drobot
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- Re: VMD not reading plain mdcrd trajectories (Wed Sep 25 2019 - 10:16:20 CDT)
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- Re: Incomplete Display (Sat Jun 03 2006 - 10:58:02 CDT)
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- Re: NAMDEnergy fails to locate supporting files (Thu Feb 12 2015 - 03:15:21 CST)
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- Re: NAMDEnergy fails to locate supporting files (Thu Feb 12 2015 - 00:12:36 CST)
- Re: NAMDEnergy fails to locate supporting files (Wed Feb 11 2015 - 03:14:15 CST)
- Re: NAMDEnergy fails to locate supporting files (Wed Feb 11 2015 - 00:55:18 CST)
- Re: NAMDEnergy fails to locate supporting files (Tue Feb 10 2015 - 22:35:48 CST)
- Re: NAMDEnergy fails to locate supporting files (Mon Feb 09 2015 - 07:59:09 CST)
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- Early bird extended! ISQBP2016 meeting - Bergen Norway (Mon Apr 18 2016 - 14:34:56 CDT)
- Re: DNA mutation (Sat Mar 19 2016 - 03:34:16 CDT)
- 2016 ISQBP Meeting: early registration / abstract submission deadline approaching (Thu Mar 17 2016 - 03:48:59 CDT)
- Fwd: ISQBP 2016 meeting - registration opened! (Mon Mar 14 2016 - 03:13:37 CDT)
- Re: tcl8.6 (Thu Mar 03 2016 - 15:01:24 CST)
- Re: VMD stereo NVIDIA 3D vision with Composite (Thu Jan 21 2016 - 17:20:22 CST)
- Re: VMD stereo NVIDIA 3D vision with Composite (Thu Jan 21 2016 - 03:02:49 CST)
- VMD stereo NVIDIA 3D vision with Composite (Wed Jan 20 2016 - 11:45:30 CST)
- Re: fitting a line to 3D data points (Thu Nov 26 2015 - 02:18:55 CST)
- fitting a line to 3D data points (Wed Nov 25 2015 - 10:10:30 CST)
- Re: using the colvar module in VMD within a tcl loop through trajectory frames (Mon Apr 27 2015 - 11:24:46 CDT)
- using the colvar module in VMD within a tcl loop through trajectory frames (Mon Apr 27 2015 - 09:27:02 CDT)
- Re: compiling VMD 1.9.2 source with tcl 8.6 (Tue Apr 07 2015 - 05:40:33 CDT)
- compiling VMD 1.9.2 source with tcl 8.6 (Tue Apr 07 2015 - 05:23:35 CDT)
- Re: adding additional atoms to psf and dcd (Mon Feb 23 2015 - 04:15:44 CST)
- adding additional atoms to psf and dcd (Sat Feb 21 2015 - 03:59:33 CST)
- LAST CALL: Free Energy Workshop, MÃ¼nster, March 9-11, 2015 (Tue Feb 03 2015 - 14:35:02 CST)
- Free Energy Workshop, MÃ¼nster, March 9-11, 2015 (Fri Jan 09 2015 - 03:20:14 CST)
- Re: Network View plugin (Sat Dec 13 2014 - 07:11:42 CST)
- Network View plugin (Sat Dec 13 2014 - 06:40:55 CST)
- Re: XOpenIM failed (failed to find CUDA devices) (Wed Dec 03 2014 - 14:36:38 CST)
- Re: XOpenIM failed (failed to find CUDA devices) (Wed Dec 03 2014 - 14:23:30 CST)
- Re: XOpenIM failed (failed to find CUDA devices) (Wed Dec 03 2014 - 14:00:49 CST)
- Re: XOpenIM failed (failed to find CUDA devices) (Wed Dec 03 2014 - 12:47:20 CST)
- Re: XOpenIM failed (failed to find CUDA devices) (Wed Dec 03 2014 - 12:50:06 CST)
- Re: XOpenIM failed (failed to find CUDA devices) (Wed Dec 03 2014 - 12:27:55 CST)
- XOpenIM failed (failed to find CUDA devices) (Wed Dec 03 2014 - 06:47:01 CST)
- Re: essential dynamics visualization in VMD (Thu Oct 30 2014 - 09:15:20 CDT)
- essential dynamics visualization in VMD (Thu Oct 30 2014 - 04:38:51 CDT)
- Re: compile VMD with cuda 6.5.14 (Thu Oct 23 2014 - 05:33:43 CDT)
- Re: compile VMD with cuda 6.5.14 (Thu Oct 23 2014 - 04:47:31 CDT)
- compile VMD with cuda 6.5.14 (Wed Oct 22 2014 - 09:39:04 CDT)
- Re: how to control the superposition (measure fit) ? (Sun Apr 13 2014 - 07:28:33 CDT)
- Re: AW: how to control the superposition (measure fit) ? (Sat Apr 12 2014 - 05:49:13 CDT)
- how to control the superposition (measure fit) ? (Fri Apr 11 2014 - 07:16:17 CDT)
- Call for participation: ISQBP Meeting, Telluride 15-19.06.2014 (Mon Mar 10 2014 - 11:38:42 CDT)
- building VMD with opnempi support (Thu May 16 2013 - 11:00:43 CDT)
- Re: Re: compiling VMD with gcc 4.7 (Thu Oct 04 2012 - 13:25:24 CDT)
- Re: compiling VMD with gcc 4.7 (Thu Oct 04 2012 - 08:41:51 CDT)
- Re: compiling VMD with gcc 4.7 (Wed Oct 03 2012 - 14:08:55 CDT)
- compiling VMD with gcc 4.7 (Wed Oct 03 2012 - 09:37:45 CDT)
- Re: Re: Error building VMD plugins from CVS 21.08.2012 (Fri Aug 24 2012 - 10:09:25 CDT)
- Re: Re: Error building VMD plugins from CVS 21.08.2012 (Fri Aug 24 2012 - 07:15:31 CDT)
- Re: Re: Error building VMD plugins from CVS 21.08.2012 (Thu Aug 23 2012 - 07:24:39 CDT)
- Re: Re: Error building VMD plugins from CVS 21.08.2012 (Thu Aug 23 2012 - 03:00:56 CDT)
- Re: Re: Error building VMD plugins from CVS 21.08.2012 (Wed Aug 22 2012 - 10:16:36 CDT)
- Re: Re: Error building VMD plugins from CVS 21.08.2012 (Wed Aug 22 2012 - 09:49:16 CDT)
- Re: Error building VMD plugins from CVS 21.08.2012 (Wed Aug 22 2012 - 04:41:21 CDT)
- Error building VMD plugins from CVS 21.08.2012 (Tue Aug 21 2012 - 11:06:01 CDT)
- main menu rests to top molecule after each double click in a list of molecules (Tue Aug 21 2012 - 10:14:38 CDT)
- Re: main menu rests to top molecule after each double click in a list of molecules (Tue Aug 21 2012 - 10:17:12 CDT)
- Re: Waters enclosed in internal cavities (Fri May 18 2012 - 06:26:55 CDT)
- Re: stereo images for publication (Fri Apr 20 2012 - 10:04:39 CDT)
- stereo images for publication (Fri Apr 20 2012 - 09:59:21 CDT)
- Re: VMD STRIDE not functional after operating system upgrade (Wed Nov 30 2011 - 11:15:15 CST)
- VMD STRIDE not functional after operating system upgrade (Thu Nov 24 2011 - 08:50:40 CST)
- Re: movie out of principal component analysis (Tue Nov 22 2011 - 08:13:29 CST)
- Re: compile VMD 1.9 with FLTK 1.3 (Mon Nov 21 2011 - 07:45:24 CST)
- compile VMD 1.9 with FLTK 1.3 (Mon Nov 21 2011 - 06:37:19 CST)
- Re: VMD fails to start/stalls/crashes on AMD workstation with Quadro FX 3800 (Fri Oct 07 2011 - 07:50:19 CDT)
- VMD fails to start/stalls/crashes on AMD workstation with Quadro FX 3800 (Wed Oct 05 2011 - 06:47:08 CDT)
- Fwd: Re: namd-l: How to evaluate the area per lipid and thickness of the lipid bilayer in a membrane-protein system? (Thu Aug 25 2011 - 02:14:15 CDT)
- converting coarse grained POPC membranes to atomistic representation (AMBER, GAFF) (Thu Aug 18 2011 - 07:06:32 CDT)
- Re: Quadro FX1800 , Stereo and VMD (Fri Jul 08 2011 - 12:00:49 CDT)
- Re: Quadro FX1800 , Stereo and VMD (Fri Jul 08 2011 - 12:00:23 CDT)
- Re: Quadro FX1800 , Stereo and VMD (Fri Jul 08 2011 - 11:49:09 CDT)
- Re: Quadro FX1800 , Stereo and VMD (Fri Jul 08 2011 - 11:26:17 CDT)
- Quadro FX1800 , Stereo and VMD (Fri Jul 08 2011 - 09:25:33 CDT)
- Re: Save Coordinates for Multiple Loads (Mon May 30 2011 - 00:33:50 CDT)
- Re: Save Coordinates for Multiple Loads (Sun May 29 2011 - 14:53:11 CDT)
- Re: PhD position in Computational Structural Biology at MPI Muenster (Sun May 15 2011 - 13:47:01 CDT)
- PhD position in Computational Structural Biology at MPI Muenster (Fri May 13 2011 - 04:49:14 CDT)
- Re: Reverse Mapping of RBCG Model (Thu Mar 31 2011 - 12:39:17 CDT)
- Re: Re: VMD 1.9 beta 1 posted for download... (Wed Feb 16 2011 - 15:11:06 CST)
- Re: IED 2.02 and VMD 1.8.7 (Mon Dec 20 2010 - 09:31:41 CST)
- compilation of vmd 1.8.7 source (Tue Jul 20 2010 - 09:22:15 CDT)
- Fwd: Re: allowing negative 'resid' numbers in selection strings (Fri Jan 08 2010 - 09:10:02 CST)
- allowing negative 'resid' numbers in selection strings (Fri Jan 08 2010 - 07:56:16 CST)
- multiseq and fasta files from pdb (Thu Oct 01 2009 - 04:26:01 CDT)
- add a new representation style to VMD (Tue Feb 03 2009 - 08:22:24 CST)
- view only parts of the loaded volumetric data (Fri Nov 21 2008 - 04:18:11 CST)
- Re: Re: namd-l: Truncated Octahedron for VMD and NAMD simulation (Fri May 16 2008 - 03:29:41 CDT)
- Re: warnings during plugin build (Tue Apr 22 2008 - 03:39:43 CDT)
- Re: compilation with python 2.5 and file permissions from the CVS repository (Mon Apr 14 2008 - 05:43:00 CDT)
- Re: compilation with python 2.5 and file permissions from the CVS repository (Mon Apr 14 2008 - 05:16:25 CDT)
- Re: compilation with python 2.5 and file permissions from the CVS repository (Mon Apr 14 2008 - 03:26:35 CDT)
- preserving atom index or hexadecimal residue numbers after writepdb (Thu Jan 24 2008 - 04:44:40 CST)
- Re: periodic box manipulation (solution) (Fri Oct 26 2007 - 09:04:03 CDT)
- periodic box manipulation (Fri Oct 26 2007 - 07:39:58 CDT)
- bilayer thickness in simulation of POPC membranes (Fri Aug 10 2007 - 10:56:41 CDT)
- save state fails (Thu Aug 02 2007 - 10:09:12 CDT)
- save state fails (Thu Aug 02 2007 - 10:20:03 CDT)
- increase light under depth cueing (Sat Apr 28 2007 - 17:46:59 CDT)
- process and plot matrix data (Fri Apr 20 2007 - 04:28:12 CDT)
- Re: tcl variable withing variable name (Thu Apr 19 2007 - 11:13:21 CDT)
- tcl variable withing variable name (Thu Apr 19 2007 - 07:58:27 CDT)
- Re: assignment of "measure contacts" output to tcl variables (Tue Apr 17 2007 - 09:50:49 CDT)
- assignment of "measure contacts" output to tcl variables (Tue Apr 17 2007 - 07:25:19 CDT)
- I'm sorry ... please ignore the junk !! (Mon Apr 09 2007 - 05:50:54 CDT)
- Vlad has Tagged you! :) (Mon Apr 09 2007 - 05:06:39 CDT)
- using Grace instead of Multiplot (Wed Apr 04 2007 - 05:04:36 CDT)
- Re: rendering time bars or other vmd added graphics with povray (Mon Feb 05 2007 - 11:31:50 CST)
- rendering time bars or other vmd added graphics with povray (Mon Feb 05 2007 - 10:58:48 CST)
- Re: creating gif animation with povray (Mon Feb 05 2007 - 03:48:54 CST)
- creating gif animation with povray (Fri Feb 02 2007 - 04:09:12 CST)
- Re: IED individual eigenvectors/movie (Thu Nov 02 2006 - 05:40:08 CST)
- coloring HIE, HIP, HID: sorry ... I got it (Mon Oct 30 2006 - 07:12:12 CST)
- changing default colors for resname HIE HID HIP (Mon Oct 30 2006 - 06:45:42 CST)
- retrieving the center of mass for each frame of trajectory (Wed Oct 18 2006 - 12:35:14 CDT)
- Hbond donor-acceptor distances (Tue Oct 03 2006 - 14:49:40 CDT)
- ribbons representation for RNA in vmd 1.8.5 (Wed Sep 20 2006 - 09:06:43 CDT)
- loading gzipped trajectories into vmd (Tue Aug 29 2006 - 08:24:03 CDT)
- water model used for the waterbox in VMD (Tue Aug 08 2006 - 08:32:07 CDT)
- Re: water selection (Thu Jul 13 2006 - 04:44:31 CDT)
- water selection (Thu Jul 13 2006 - 04:09:17 CDT)
- Re: residue no. greater than 9999 in pdb files created with VMD (Thu Jul 13 2006 - 03:57:28 CDT)
- residue no. greater than 9999 in pdb files created with VMD (Wed Jul 12 2006 - 10:56:16 CDT)
- OpenGL Programmable Shading not available. (Fri Apr 28 2006 - 08:52:49 CDT)
- write output pdb for lots of different selections (Thu Apr 13 2006 - 11:48:08 CDT)
- download pdb files from PDB with vmd 1.8.4b10 (Thu Apr 06 2006 - 03:55:16 CDT)
- Re: contact map definition (Mon Mar 13 2006 - 11:53:22 CST)
- Re: drawing a truncated octahedron (Mon Mar 13 2006 - 04:07:17 CST)
- drawing a truncated octahedron (Wed Mar 08 2006 - 05:26:06 CST)
- Re: question about electrostatic potential maps (Tue Feb 28 2006 - 04:12:02 CST)
- color scale data range (Mon Feb 27 2006 - 05:28:18 CST)
- color scale data range (Mon Feb 27 2006 - 05:25:43 CST)
- Tachyon and text rendering (Thu Feb 23 2006 - 13:08:44 CST)
- render text in VMD with Tachyon (Thu Feb 23 2006 - 09:07:54 CST)
- Re: X-PLOR EDM files (from AMBER) (Wed Feb 01 2006 - 09:05:37 CST)
- Re: grid (Mon Jan 30 2006 - 07:15:56 CST)
- loading X-PLOR grids created with ptraj (Fri Jan 20 2006 - 03:59:35 CST)
- Re: secondary structure's display - problem (Thu Jan 12 2006 - 06:43:06 CST)
- Re: secondary structure's display - problem (Wed Jan 11 2006 - 10:08:27 CST)
- Re: secondary structure's display - problem (Wed Jan 11 2006 - 09:25:01 CST)
- Re: secondary structure's display - problem (Tue Jan 10 2006 - 11:08:43 CST)
- vmd and xmgrace (Fri Dec 16 2005 - 09:24:58 CST)
- compilation from source: make error message (Mon Dec 12 2005 - 03:59:36 CST)
- compilation: forgot to say about Python (Fri Dec 09 2005 - 08:06:39 CST)
- compilation from source: first attempt failed (Fri Dec 09 2005 - 08:01:34 CST)
- compiling vmd from source--will that solve ied issue? (Wed Dec 07 2005 - 09:16:31 CST)
- Tachyon rendering (Thu Dec 01 2005 - 07:01:22 CST)
- Re: STRIDE doesnt recognize unusual protein residue (Fri Nov 18 2005 - 10:51:09 CST)
- Re: STRIDE doesnt recognize unusual protein residue (Fri Nov 18 2005 - 04:57:08 CST)
- STRIDE doesnt recognize unusual protein residue (Wed Nov 16 2005 - 05:14:47 CST)
- visualizing CCP4 maps in VMD (Mon Nov 07 2005 - 11:44:00 CST)
- changing the default representation for the sequence viewer (Mon Oct 31 2005 - 05:20:48 CST)
- IED problem update: IED works only with vmd 1.8.2 (Mon Oct 17 2005 - 05:21:28 CDT)
- how to make IED work? (Fri Oct 14 2005 - 14:33:56 CDT)
- vmd & python (Fri Oct 14 2005 - 13:15:40 CDT)
- IED with VMD 1.8.3 on Debian (Thu Oct 13 2005 - 07:50:52 CDT)
- overlaying more than 2 molecules (Wed Aug 17 2005 - 11:31:15 CDT)
- set a different beta field for each frame of trajectory (Tue Mar 15 2005 - 08:02:02 CST)
- error message from IED (Wed Mar 02 2005 - 08:55:06 CST)
- problem with IED on VMD 1.8.3 (Wed Mar 02 2005 - 08:51:59 CST)
- Re: APBS error (Thu Feb 17 2005 - 08:24:07 CST)
- Tachyon does not render surfaces colored by EP (Wed Feb 16 2005 - 04:19:59 CST)
- IED and output of labels (Mon Feb 07 2005 - 08:55:35 CST)
- Re: script for mapping the electrostatic potential from APBS on surfaces (Wed Jan 26 2005 - 10:01:02 CST)
- script for mapping the electrostatic potential from APBS on surfaces (Wed Jan 26 2005 - 03:58:37 CST)
- APBS data visualization (Tue Jan 25 2005 - 13:08:23 CST)
- APBS Plugin (Tue Jan 25 2005 - 09:36:11 CST)
- last call for early registrations for "Horizons2005" (Fri Jan 14 2005 - 07:19:00 CST)
- International PhD Symppozium "DECODING NATURE: HIERARCHY OF INTERACTIONS" (Wed Oct 20 2004 - 11:10:43 CDT)
- Python error (Mon Sep 27 2004 - 12:33:47 CDT)
- g03 output and editing features for VMD (Mon Aug 30 2004 - 11:03:41 CDT)
- Gaussian03 output (Tue Aug 24 2004 - 10:09:27 CDT)
- loading compressed trajectory files (Wed Jul 21 2004 - 05:49:17 CDT)
- loading .gz trajectory files (Tue Jul 20 2004 - 12:56:38 CDT)
- drawing poligons (Tue Apr 06 2004 - 06:39:54 CDT)
- animating drawn objects (Thu Apr 01 2004 - 10:20:56 CST)
- sorry...I got it!!! (Thu Apr 01 2004 - 10:07:47 CST)
- draw command (Thu Apr 01 2004 - 09:30:13 CST)
- VMD as command line interface (Thu Mar 11 2004 - 07:33:52 CST)
- add a new color (Sun Feb 22 2004 - 12:51:11 CST)
- tcl question (Sat Feb 07 2004 - 06:47:17 CST)
- Sorry ... the test was because of ..... (Fri Jan 30 2004 - 10:07:15 CST)
- a question (Fri Jan 30 2004 - 07:29:38 CST)
- test (Fri Jan 30 2004 - 07:36:53 CST)
- Does VMD support LES simulations? (Thu Jan 29 2004 - 11:17:28 CST)
- "nucleic" selection (Wed Nov 12 2003 - 10:45:47 CST)
- "nucleic" selection (Wed Nov 12 2003 - 09:17:56 CST)
- "nucleic" selection (Wed Nov 12 2003 - 04:55:26 CST)
- opdating the selection during trajectory (Mon Oct 06 2003 - 07:20:38 CDT)
- Pressure and Gpressure output in NAMD (Wed Aug 06 2003 - 10:40:55 CDT)
- NAMD failure on Berendsen pressure scheme (Wed Jul 30 2003 - 07:53:39 CDT)
- namd restraints question (Mon Jul 28 2003 - 14:54:28 CDT)
- Re: maillist (Sun Jul 27 2003 - 14:34:03 CDT)
- fitting (Thu Jul 10 2003 - 07:13:07 CDT)
- Visualizing CURVES output (Fri Jun 20 2003 - 05:08:12 CDT)
- helix axis for A-RNA (Tue Jun 10 2003 - 07:25:09 CDT)
- Re: VMD 1.8 problems with AMBER parm and crd file (Wed Feb 05 2003 - 04:32:32 CST)
- visualizing Delphi output (electrostatic potential) (Thu Jan 23 2003 - 10:08:51 CST)
- smoothing from the command line (Fri Dec 13 2002 - 08:55:17 CST)
- interatomic distances (Mon Dec 09 2002 - 07:59:30 CST)
- converting (Wed Dec 04 2002 - 16:04:06 CST)
- Re: hbonds during trajectorywith vmd 1.8beta (Tue Dec 03 2002 - 04:05:59 CST)
- hbonds during trajectorywith vmd 1.8beta (Mon Dec 02 2002 - 03:05:44 CST)
- breaking the last bond when loading (Tue Nov 26 2002 - 07:24:59 CST)
- mpeg movie from trajectory (Wed Nov 13 2002 - 04:39:26 CST)
- carnal output trajectory (Wed Oct 30 2002 - 07:25:36 CST)
- reference about structure (Tue Oct 29 2002 - 04:34:57 CST)
- rms dumping in a file (Mon Oct 28 2002 - 05:16:41 CST)
- carnal output trajectory (Fri Oct 25 2002 - 04:50:55 CDT)
- carnal output trajectory (Thu Oct 24 2002 - 15:07:35 CDT)
- just a test (Wed Sep 11 2002 - 08:40:47 CDT)
- assigning variables for representations (Wed Sep 04 2002 - 07:10:40 CDT)
- reading cube files (Thu Aug 22 2002 - 10:58:09 CDT)
- save (Tue Aug 20 2002 - 06:15:02 CDT)
- the same problem (Fri Aug 16 2002 - 04:33:55 CDT)
- selection question (Thu Aug 15 2002 - 07:28:58 CDT)
- rmsd problem (Wed Aug 14 2002 - 10:46:48 CDT)
- fiiting (Mon May 27 2002 - 09:30:59 CDT)
- bond length (Mon Jan 28 2002 - 05:26:27 CST)
vlad.chindea_at_pharmatech.ro
- molecular dynamics problems (Mon Jul 19 2004 - 15:45:48 CDT)
vladanstefanovic_at_kg.ac.rs
- Docking protein-protein (Wed May 16 2012 - 16:08:22 CDT)
- COORDINATES extraction of molecule's centers of mass (Tue Mar 27 2012 - 01:37:23 CDT)
- Adsorption VMD Tcl script error (Wed Feb 29 2012 - 13:51:58 CST)
Vladimir Stegailov
- Molden orbitals: how to increase the bounding box size? (Sat Aug 04 2018 - 07:10:18 CDT)
Vlastimil ZÃma
- Farewell VMD (Sun Jul 29 2018 - 14:02:54 CDT)
- pyvmd: Highlevel python library for VMD (Wed Jun 08 2016 - 06:33:59 CDT)
- Bugs in solvate plugin (Wed Jan 06 2016 - 03:27:41 CST)
- Re: Persistent troubles with tk fonts (Wed Aug 13 2014 - 12:21:12 CDT)
- Re: Persistent troubles with tk fonts (Wed Aug 13 2014 - 11:34:42 CDT)
- Re: Persistent troubles with tk fonts (Wed Aug 13 2014 - 04:12:10 CDT)
- Re: How to contribute to VMD? (Wed Jul 09 2014 - 12:29:27 CDT)
- How to contribute to VMD? (Wed Jul 09 2014 - 06:35:03 CDT)
- Re: Persistent troubles with tk fonts (Wed Dec 04 2013 - 03:11:02 CST)
- Re: Persistent troubles with tk fonts (Wed Nov 27 2013 - 10:11:34 CST)
- Persistent troubles with tk fonts (Thu Oct 04 2012 - 04:07:03 CDT)
- Misfunction of some plugins if compiled (Tue Apr 17 2012 - 12:28:10 CDT)
Vlastimil Zíma
- Re: Persistent troubles with tk fonts (Fri Oct 05 2012 - 12:07:49 CDT)
vmd-l digest
- vmd-l digest V1 #579 (Mon Jul 17 2006 - 15:51:45 CDT)
vmd-l_at_spider.med.jhmi.edu
- progports, new project (Tue Aug 03 2004 - 11:02:09 CDT)
vmd_chcwaaa
- dll by c++ cannot be recognized by VMD tk console ? (Sun Nov 01 2009 - 01:32:42 CDT)
Vo Cam Quy
- how to do acetylated lysine in VMD (Fri Feb 05 2010 - 14:27:46 CST)
Volodymyr Zloy
- selection of 2 molecules (Wed Oct 20 2004 - 08:25:16 CDT)
vsharma
- Re: solvate problem (Tue Dec 07 2004 - 08:26:00 CST)
vuissoz jean-marc
- trio and osX (Thu Jan 20 2005 - 14:23:43 CST)
vvenditti_at_biochem.wisc.edu
- RNA first residue (Thu Apr 06 2006 - 14:20:33 CDT)
Vy Phan
- plot secondary structure of protein along trajectory. (Mon Feb 02 2015 - 01:20:50 CST)
- Stray PME grid (Tue Sep 30 2014 - 09:39:12 CDT)
- Protein went out of the Box (Mon Sep 29 2014 - 08:09:02 CDT)
- Ask VMD scripts (Tue May 20 2014 - 22:52:08 CDT)
Vyom Sharma
- Re: Problems with APBS Compatibility (Thu Jun 01 2006 - 21:19:19 CDT)
- Problems with APBS Compatibility (Thu Jun 01 2006 - 17:34:04 CDT)
Víctor
- Re: VMD's superposition algorithm (Thu Jul 19 2012 - 07:41:45 CDT)
- Re: VMD's superposition algorithm (Thu Jul 19 2012 - 07:17:54 CDT)
- VMD's superposition algorithm (Thu Jul 19 2012 - 05:06:29 CDT)
- Re: Using threads in VMD's tcl (Tue Jan 17 2012 - 17:19:48 CST)
- Re: Using threads in VMD's tcl (Tue Jan 17 2012 - 16:03:38 CST)
- Using threads in VMD's tcl (Tue Jan 17 2012 - 10:04:57 CST)
- Re: Ho to save exactly the screen structure? (Mon Jun 15 2009 - 10:32:25 CDT)
- Re: Ho to save exactly the screen structure? (Mon Jun 15 2009 - 02:21:43 CDT)
- Ho to save exactly the screen structure? (Sun Jun 14 2009 - 15:35:55 CDT)
Wagener, M. (Markus)
- RE: atomselect within (Fri Feb 27 2004 - 04:39:48 CST)
- atomselect within (Wed Feb 25 2004 - 08:23:37 CST)
Wallace Chan
- Querying Residue Numbers that are Alphanumeric (Fri Sep 06 2019 - 12:56:35 CDT)
Wallace Dumars
- Question Regarding User-Defined Trajectories (Fri Mar 05 2010 - 15:53:01 CST)
Walter Huang
- coloring scheme in "VolumeSlice" (Sat Jan 17 2015 - 21:08:02 CST)
Walter Rocchia
- Re: exporting 3D model of a volume-based colored mesh (Thu Sep 19 2019 - 10:42:44 CDT)
- Re: exporting 3D model of a volume-based colored mesh (Thu Sep 19 2019 - 08:39:00 CDT)
- exporting 3D model of a volume-based colored mesh (Wed Sep 18 2019 - 16:10:18 CDT)
- Computational Electrostatics for Biological Applications (CEBA'13) July 01-03, 2013 - Genova - Italy (Wed Mar 27 2013 - 17:49:09 CDT)
- Re: Surface won't close (Mon Feb 18 2013 - 12:21:12 CST)
- RE: Mean value of el. potential ? (Thu May 26 2011 - 06:02:03 CDT)
wang
- Re: A error of " transforming dcd into pdb " (Tue Aug 29 2006 - 03:02:10 CDT)
- A error of " transforming dcd into pdb " (Tue Aug 29 2006 - 01:27:52 CDT)
Wang Xianqiao
- Re: Contour plots for XYZ format (Sat Oct 30 2010 - 19:02:25 CDT)
- Contour plots for XYZ format (Fri Oct 29 2010 - 23:47:51 CDT)
Wang Yi
- Re: Regarding the latest VMD 1.9.2.alpha builds from BioCoRE (Thu Aug 23 2012 - 21:57:27 CDT)
- Re: B-factor plugin (Fri Aug 10 2012 - 12:53:48 CDT)
- Re: B-factor plugin (Fri Aug 10 2012 - 09:26:39 CDT)
- Re: B-factor plugin (Thu Aug 09 2012 - 15:00:42 CDT)
- Re: namdEnergy doesn't run on clusters (Wed Jul 18 2012 - 09:55:37 CDT)
- Re: namdEnergy doesn't run on clusters (Wed Jul 18 2012 - 10:31:17 CDT)
- Re: namdEnergy doesn't run on clusters (Wed Jul 18 2012 - 10:17:52 CDT)
- namdEnergy doesn't run on clusters (Tue Jul 17 2012 - 22:28:06 CDT)
- Re: remove a selection in vmd? (Sun Jul 01 2012 - 00:09:54 CDT)
- Re: Bond angle distribution (Tue Jun 19 2012 - 15:13:48 CDT)
- Re: TR: VMD atomselect with cartesian reference (Wed May 30 2012 - 08:56:42 CDT)
- Re: Another thought related to drawing dipole moment vectors (Sat May 26 2012 - 14:27:25 CDT)
- Re: FFTK plugin: in which order should the components be run? (Mon May 21 2012 - 08:47:10 CDT)
- Re: Making only a subset of atoms transparent (or otherwise non-emphasized) (Tue May 15 2012 - 13:44:17 CDT)
- Re: flashing the VMD (Thu May 10 2012 - 11:17:11 CDT)
- Re: flashing the VMD (Thu May 10 2012 - 09:57:19 CDT)
- Re: flashing the VMD (Tue May 08 2012 - 09:14:35 CDT)
- Re: flashing the VMD (Tue May 08 2012 - 08:19:43 CDT)
- Re: Force Field ToolKit - Angles (Sun Apr 29 2012 - 19:56:10 CDT)
- Re: Saving coordinates that meet selection criteria for each frame (Tue Apr 17 2012 - 19:23:15 CDT)
- Re: Dynamically displaying the length of hydrogen bonds (Fri Mar 30 2012 - 11:24:22 CDT)
- Re: Force field toolkit (ffTK) - problem of reading Gaussian log file (Sat Mar 10 2012 - 15:14:20 CST)
- Force field toolkit (ffTK) - problem of reading Gaussian log file (Sat Mar 10 2012 - 13:58:20 CST)
Wang, Steven
- RE: mol pdbload failing (Tue Aug 15 2017 - 11:55:54 CDT)
- autoionize plugin parsing error (vmd 1.9.3 ) (Wed Jan 04 2017 - 16:57:19 CST)
Wang, Yangzhou
- movie quality degradation (Tue Mar 21 2006 - 10:50:45 CST)
- Display alternative atom locations using vmd (Thu Sep 29 2005 - 13:35:47 CDT)
- RE: Crosseye stereo image rendering (Tue Feb 01 2005 - 16:43:24 CST)
- Crosseye stereo image rendering (Tue Feb 01 2005 - 15:06:07 CST)
wangyong_at_dicp.ac.cn
- How to visualize iron and chlorine properly. (Mon Jun 23 2008 - 19:44:35 CDT)
Wanlei Wei
- Re: NetCDF plug-in for VMD (Fri Dec 11 2015 - 20:20:15 CST)
- NetCDF plug-in for VMD (Fri Dec 11 2015 - 07:49:43 CST)
Wanzhi Qiu
- Re: psfgen forces to apply terminils to peptide (Fri Oct 11 2013 - 03:36:09 CDT)
- psfgen forces to apply terminils to peptide (Thu Oct 10 2013 - 00:11:40 CDT)
Warren DeLano
- RE: stereo on LCD display = pipe dream? (Wed Aug 16 2006 - 15:11:39 CDT)
- RE: No stereo display support in Windows Vista... (Mon Aug 07 2006 - 22:06:10 CDT)
- RE: Solutions for stereo - is CRT technology dead? (Mon May 22 2006 - 12:34:56 CDT)
- RE: Stereo on MacG5 (single processor) for VMD, Chimera UCSF etc. (Wed Mar 29 2006 - 14:52:16 CST)
- RE: Stereo on MacG5 (single processor) for VMD, Chimera UCSF etc. (Wed Mar 29 2006 - 11:54:16 CST)
- RE: VMD 1.8.4 beta 11 test version available (Fri Feb 10 2006 - 19:12:14 CST)
- nVidia Driver 7664 for Linux (Thu Jun 02 2005 - 11:41:38 CDT)
- RE: VMD crash on athlon64 with licorice representation (Thu May 12 2005 - 19:27:17 CDT)
- Stereo 3D by the Numbers (Thu Feb 10 2005 - 16:50:44 CST)
- Stereo-3D in a Window: Not in MacOS X Tiger?!! (Thu Jan 13 2005 - 19:58:50 CST)
- RE: python2.3 and vmd (Tue Oct 26 2004 - 12:25:52 CDT)
Warren L. DeLano
- RE: Python's future in VMD (Tue Sep 30 2003 - 20:38:19 CDT)
- RE: Some comments about stereo with nvidia cards & shutter glasses (Wed Apr 30 2003 - 15:08:19 CDT)
Wasim Abdul
- Re: Increasing the number of bonds per atom (Fri Jul 12 2019 - 04:38:31 CDT)
- Re: Increasing the number of bonds per atom (Wed Jul 03 2019 - 01:09:12 CDT)
- Re: Increasing the number of bonds per atom (Fri Jun 28 2019 - 13:47:04 CDT)
- Re: Increasing the number of bonds per atom (Fri Jun 28 2019 - 01:42:49 CDT)
- Re: Increasing the number of bonds per atom (Thu Jun 27 2019 - 09:10:46 CDT)
- Increasing the number of bonds per atom (Thu Jun 27 2019 - 06:54:17 CDT)
wayj86 wayj86
- A question about the namd energy plugin of VMD (Sun Oct 26 2008 - 08:58:21 CDT)
Wayne Dawson
- Re: conflict between VMD and Netbeans IDE on MacOSX (Thu Jan 07 2010 - 06:44:52 CST)
- Re: VMD hangs up with a file size ~ 1.2 GB ? (Thu Jan 07 2010 - 01:58:26 CST)
- Re: VMD hangs up with a file size ~ 1.2 GB ? (Wed Jan 06 2010 - 20:48:34 CST)
- conflict between VMD and Netbeans IDE on MacOSX (Tue Jan 05 2010 - 21:16:58 CST)
Weatherby,Gerard
- NetCDF (Amber MMTK) plugin (Tue Aug 20 2019 - 12:41:34 CDT)
- Re: Error compiling 1.9.3 with CUDA (Thu Jun 20 2019 - 15:18:43 CDT)
- Error compiling 1.9.3 with CUDA (Thu Jun 20 2019 - 12:54:53 CDT)
wei
- high resolution ps or eps picture (Wed May 12 2004 - 14:25:21 CDT)
Wei Chen
- Re: strange coloring (Mon May 07 2012 - 16:44:19 CDT)
- Re: strange coloring (Mon May 07 2012 - 15:54:51 CDT)
- strange coloring (Mon May 07 2012 - 15:17:21 CDT)
- Re: Save Atom Selection to DCD (Wed Dec 15 2010 - 14:55:24 CST)
- Re: problem with "animate delete all" (Mon May 10 2010 - 17:37:31 CDT)
- Re: problem with "animate delete all" (Wed May 05 2010 - 13:57:16 CDT)
- problem with "animate delete all" (Tue May 04 2010 - 17:07:54 CDT)
- catdcd in Windows (Tue Sep 08 2009 - 21:44:25 CDT)
- Re: convert PDB file to CRD? (Mon Nov 14 2005 - 11:13:18 CST)
- Re: Representing disulfide bonds when using psfgen (Thu Jul 21 2005 - 12:48:58 CDT)
- Re: exclude residues (Thu Jun 30 2005 - 16:39:51 CDT)
- Re: Query (Thu Jun 09 2005 - 13:54:59 CDT)
- Re: rmsf calculation (Wed May 04 2005 - 10:18:10 CDT)
- representation_problem (Wed Apr 20 2005 - 14:21:21 CDT)
Wei Fu (Linda)
- cavity/pocket representation (Tue May 02 2006 - 13:50:38 CDT)
wei gao
- set view along an chosen axis (Mon Mar 31 2014 - 15:44:07 CDT)
- Re: how to plot per-atom field variable (Mon Jan 07 2013 - 17:20:48 CST)
- Re: how to plot per-atom field variable (Mon Jan 07 2013 - 14:51:11 CST)
- how to plot per-atom field variable (Sat Jan 05 2013 - 10:42:53 CST)
Wei Huang
- Re: Re: convert prmtop to psf (Tue Feb 01 2011 - 22:04:07 CST)
- Re: Re: convert prmtop to psf (Tue Feb 01 2011 - 16:22:28 CST)
- RE: helix axes (Tue Mar 31 2009 - 10:06:20 CDT)
- Re: rmsd matrix (Mon Feb 02 2009 - 11:08:40 CST)
- RE: Problem in text mode (Thu Oct 16 2008 - 00:58:55 CDT)
- Problem in text mode (Thu Oct 16 2008 - 00:25:07 CDT)
- Re: Label on Movie (Mon May 26 2008 - 14:21:22 CDT)
- Label on Movie (Mon May 26 2008 - 10:26:30 CDT)
Wei Liu
- Display Grasp potential map in VMD (Wed Jul 25 2007 - 16:15:14 CDT)
- Re: Installation of VMD on Mandriva Linux 2006 (Sat Aug 12 2006 - 18:52:07 CDT)
- Installation of VMD on Mandriva Linux 2006 (Sat Aug 12 2006 - 13:23:58 CDT)
Wei-Lan Lin
- Reduce size/number of nodes/image quality while rendering VRML 2.0 file (Tue Aug 20 2019 - 17:10:13 CDT)
Weidong Xin
- How to get a membran.psf from membrane.pdb? (Tue Oct 18 2005 - 03:42:58 CDT)
weikai
- Can VMD add other organic solvent into system? (Wed Sep 28 2005 - 02:51:38 CDT)
- Can VMD add other solvent except water in system? (Mon Sep 26 2005 - 03:17:42 CDT)
weilin Zhang
- Normal VMD crashed when pdb load but Debug mode works (Mon Oct 08 2007 - 09:45:50 CDT)
Weiping Liu
- Re: vmd-1.9.1 linux installation problem (Mon Jul 21 2014 - 11:48:16 CDT)
- Re: vmd-1.9.1 linux installation problem (Mon Jul 21 2014 - 11:32:08 CDT)
- vmd-1.9.1 linux installation problem (Sun Jul 20 2014 - 20:43:54 CDT)
Weiqiang Wang
- Re: Color Scale Data Range (Tue May 29 2007 - 17:46:31 CDT)
- Color Scale Data Range (Tue May 29 2007 - 17:08:16 CDT)
- Re: change default bond cutoff distance (Tue Mar 14 2006 - 02:11:22 CST)
- Re: change default bond cutoff distance (Tue Mar 07 2006 - 15:12:42 CST)
- change default bond cutoff distance (Tue Mar 07 2006 - 03:25:53 CST)
weiz
- question about the definition of secondary motiffs (Mon Apr 05 2004 - 19:44:44 CDT)
Weldon Sylvester
- Spring quality watches offer (Fri Apr 18 2008 - 18:29:29 CDT)
Wen Li
- Re: antialiasing (Wed Sep 13 2006 - 14:00:02 CDT)
- antialiasing (Wed Sep 13 2006 - 13:36:53 CDT)
- Re: rmsdtt (Fri Apr 01 2005 - 13:23:07 CST)
- rmsdtt (Fri Apr 01 2005 - 11:15:08 CST)
- Re: conformational alignment (Thu Mar 31 2005 - 12:55:27 CST)
- Re: conformational alignment (Thu Mar 31 2005 - 12:49:47 CST)
- Re: conformational alignment (Thu Mar 31 2005 - 12:26:20 CST)
- Re: conformational alignment (Thu Mar 31 2005 - 10:53:10 CST)
- Re: conformational alignment (Thu Mar 31 2005 - 10:32:51 CST)
- Re: conformational alignment (Thu Mar 31 2005 - 10:24:18 CST)
- conformational alignment (Wed Mar 30 2005 - 15:21:26 CST)
wenchangyu2006_at_gmail.com
- Re:Re: Re: Re: Re: Superposition of Multiple Trajectory Timesteps (Sun Jan 03 2010 - 02:48:55 CST)
- Re:Re: Re: Re: Superposition of Multiple Trajectory Timesteps (Sat Jan 02 2010 - 16:00:44 CST)
- Re:Re: Re: Superposition of Multiple Trajectory Timesteps (Fri Jan 01 2010 - 06:28:22 CST)
Wendy González
- Waters enclosed in internal cavities (Fri May 18 2012 - 04:46:53 CDT)
- Re: PhD position in Computational Structural Biology at MPI Muenster (Fri May 13 2011 - 07:54:29 CDT)
- Re: Multiseq (Mon Dec 03 2007 - 07:11:24 CST)
- Multiseq (Fri Nov 30 2007 - 15:57:18 CST)
Wenhao Liu
- Basic question about improper (Tue Jun 18 2013 - 18:29:38 CDT)
- Re: charge exceed the range between Low bound and High bound in ffTK charge optimization (Fri Jun 07 2013 - 10:00:43 CDT)
- Re: charge exceed the range between Low bound and High bound in ffTK charge optimization (Fri Jun 07 2013 - 09:16:14 CDT)
- charge exceed the range between Low bound and High bound in ffTK charge optimization (Thu Jun 06 2013 - 21:58:35 CDT)
- Re: How to get improper dihedral list (Sat Apr 27 2013 - 21:14:03 CDT)
- How to get improper dihedral list (Sat Apr 27 2013 - 15:39:56 CDT)
- Re: Is it necessary to set up more than 1 hydrogen bonding for one Acceptor in Water Int. in ffTK (Wed Apr 17 2013 - 13:11:22 CDT)
- Re: Is it necessary to set up more than 1 hydrogen bonding for one Acceptor in Water Int. in ffTK (Wed Apr 17 2013 - 13:17:42 CDT)
- Re: Is it necessary to set up more than 1 hydrogen bonding for one Acceptor in Water Int. in ffTK (Wed Apr 17 2013 - 12:46:20 CDT)
- Re: Is it necessary to set up more than 1 hydrogen bonding for one Acceptor in Water Int. in ffTK (Wed Apr 17 2013 - 09:17:23 CDT)
- Is it necessary to set up more than 1 hydrogen bonding for one Acceptor in Water Int. in ffTK (Wed Apr 17 2013 - 01:53:12 CDT)
Wesley Smith
- Re: VASP CHGCAR (Thu Feb 21 2008 - 17:10:28 CST)
- Re: VASP CHGCAR (Thu Feb 21 2008 - 17:25:42 CST)
- VASP CHGCAR (Thu Feb 21 2008 - 14:12:05 CST)
- Re: Volume data formats (Thu Feb 14 2008 - 12:37:16 CST)
- Re: MSVC Projects Corrupt and Missing (Sat Jan 26 2008 - 14:51:01 CST)
- Re: MSVC Projects Corrupt and Missing (Thu Jan 24 2008 - 23:25:14 CST)
- Re: MSVC Projects Corrupt and Missing (Thu Jan 24 2008 - 22:53:58 CST)
- Re: MSVC Projects Corrupt and Missing (Thu Jan 24 2008 - 22:56:03 CST)
- MSVC Projects Corrupt and Missing (Thu Jan 24 2008 - 22:18:09 CST)
- Re: VMD drawing (Sun Jan 20 2008 - 21:08:27 CST)
- VMD drawing (Sun Jan 20 2008 - 15:51:06 CST)
White, Mark
- PSFGEN vs AUTOPSF (Thu Oct 29 2020 - 18:10:37 CDT)
Whiteside, Alexander
- FW: Unable to render electrostatic potential cube files with most non-HF densities (Thu Jun 11 2009 - 08:39:21 CDT)
Whitford, Paul
- Re: PDBx and chain IDs in VMD 1.9.4a55 (Thu Jun 23 2022 - 22:29:17 CDT)
- PDBx and chain IDs in VMD 1.9.4a55 (Fri Feb 04 2022 - 10:28:32 CST)
Will Bricker
- Loading Gaussian Log File into Paratool (Sat Mar 13 2010 - 16:19:08 CST)
Will Sheffler
- namd callback command (Mon Aug 05 2002 - 03:51:14 CDT)
- Re: problem connecting namd/vmd using charmrun/charmd (Thu Jul 25 2002 - 13:58:39 CDT)
- problem connecting namd/vmd using charmrun/charmd (Thu Jul 25 2002 - 13:19:23 CDT)
- tracker coordinate calibration (Fri Jul 19 2002 - 23:43:53 CDT)
- Issue with wildcat 3 cards (Mon Jul 01 2002 - 14:13:09 CDT)
- animations with molecular surfaces (Sat Jun 22 2002 - 02:32:12 CDT)
- Re: haptic interfaces && namd on clusters (Thu Jun 06 2002 - 01:27:25 CDT)
- haptic interfaces (Thu Jun 06 2002 - 00:11:34 CDT)
William A. Shelton
- Intersurf & MAC OSX 10.3 (Tue Aug 23 2005 - 15:28:16 CDT)
William Glass
- Change color scale data range (Fri Nov 08 2019 - 04:32:03 CST)
William Howe
- TCL script to measure distance between two points in space (Wed Mar 10 2021 - 17:19:18 CST)
- Creating PDB files of binding pockets that lists ligands first within the file (Tue Feb 02 2021 - 18:14:55 CST)
- TCL script for creating multiple representations on the same molecule (Wed Sep 30 2020 - 19:17:54 CDT)
- Create Binding Pocket of Every PDB File In A Directory Using TCL Scripts and Atomselect Command protein and within 4 of resname LIG (Mon Jul 20 2020 - 11:12:54 CDT)
William Ray
- Re: IMD and AutoIMD bug when releasing forces on residues? (Mon Oct 22 2012 - 11:15:38 CDT)
- Re: IMD and AutoIMD bug when releasing forces on residues? (Fri Oct 05 2012 - 12:41:42 CDT)
- Re: IMD and AutoIMD bug when releasing forces on residues? (Mon Oct 01 2012 - 10:09:39 CDT)
- Re: IMD and AutoIMD bug when releasing forces on residues? (Thu Sep 27 2012 - 15:13:03 CDT)
- Re: IMD and AutoIMD bug when releasing forces on residues? (Thu Sep 27 2012 - 14:21:31 CDT)
- Re: IMD and AutoIMD bug when releasing forces on residues? (Thu Sep 27 2012 - 13:29:49 CDT)
- Re: IMD and AutoIMD bug when releasing forces on residues? (Thu Sep 27 2012 - 13:09:55 CDT)
- Re: IMD and AutoIMD bug when releasing forces on residues? (Thu Sep 27 2012 - 10:51:44 CDT)
- IMD and AutoIMD bug when releasing forces on residues? (Thu Sep 27 2012 - 09:57:52 CDT)
William Sheffler
- explicit secondary structure (Tue Nov 08 2005 - 00:21:29 CST)
- graphics card (Tue Nov 08 2005 - 00:17:18 CST)
- compiling VMD on mac (Wed Apr 20 2005 - 14:32:05 CDT)
Williams Miranda
- Average structure (Wed Mar 21 2018 - 01:37:13 CDT)
- electrostatic potential along channel axis (Thu Aug 31 2017 - 09:55:39 CDT)
- electrostatic potential along channel axis (Wed Aug 30 2017 - 16:25:28 CDT)
Willie Bray
- Your V1agra 0rder #18671 (Sat Apr 21 2007 - 02:54:52 CDT)
Willie Maddox
- Creating length dependent coloured bonds in VMD (Tue Mar 30 2010 - 14:17:33 CDT)
Willy Wriggers
- Visualizing volumetric data with Situs and VMD (Mon Feb 01 1999 - 16:55:29 CST)
- Re: [VMDTECH] Hingefind (Wed Jun 11 1997 - 16:57:22 CDT)
Wim R. Cardoen
- Re: ImportError: cannot import name AtomSel (Tue Jan 24 2012 - 11:26:23 CST)
- ImportError: cannot import name AtomSel (Mon Jan 23 2012 - 15:36:19 CST)
Win Liu
- Re: Issue in Cal. Bonded and Scan Torsion in fftk (Tue Apr 02 2013 - 08:53:49 CDT)
- Re: Issue in Cal. Bonded and Scan Torsion in fftk (Mon Apr 01 2013 - 23:25:12 CDT)
- Re: Issue in Cal. Bonded and Scan Torsion in fftk (Mon Apr 01 2013 - 23:23:15 CDT)
- Issue in Cal. Bonded and Scan Torsion in fftk (Mon Apr 01 2013 - 22:11:35 CDT)
- Re: One same issue happened as before in fftk (Sun Mar 31 2013 - 19:59:03 CDT)
- Re: One same issue happened as before in fftk (Sun Mar 31 2013 - 16:24:38 CDT)
- Re: One same issue happened as before in fftk (Sun Mar 31 2013 - 14:24:18 CDT)
- Re: One same issue happened as before in fftk (Sun Mar 31 2013 - 11:37:19 CDT)
- One same issue happened as before in fftk (Sat Mar 30 2013 - 21:00:47 CDT)
winardi, erik
- counting specific atom types (Tue May 08 2012 - 08:37:01 CDT)
- Re: writing pair/bond/angle/dihedral information for lammps input (Sun Apr 29 2012 - 23:21:01 CDT)
- writing pair/bond/angle/dihedral information for lammps input (Sun Apr 29 2012 - 17:17:14 CDT)
- topotools writelammps data (Tue Apr 10 2012 - 17:24:48 CDT)
- .xyz bond (Mon Feb 20 2012 - 05:15:05 CST)
- Re: Visualizing Trajectory file: .pdb or .xyz (Wed Sep 07 2011 - 18:02:19 CDT)
- Visualizing Trajectory file: .pdb or .xyz (Wed Sep 07 2011 - 13:49:06 CDT)
- Re: Lammps Output data format (Tue Aug 30 2011 - 10:44:49 CDT)
- Lammps Output data format (Mon Aug 29 2011 - 12:20:31 CDT)
- .car or .xyz output (Wed Aug 03 2011 - 19:39:47 CDT)
Windle,Stephen
- Re: Molecule limit (Thu Feb 01 2018 - 14:44:04 CST)
- Re: Molecule limit (Wed Jan 31 2018 - 14:21:17 CST)
- Molecule limit (Mon Jan 29 2018 - 18:20:31 CST)
- Re: Cycling between files using the same output file (Sun Dec 17 2017 - 13:21:09 CST)
- Cycling between files using the same output file (Fri Dec 15 2017 - 16:39:25 CST)
- Re: Computing atom distances (Sat Nov 04 2017 - 17:05:40 CDT)
- Re: Computing atom distances (Fri Nov 03 2017 - 17:43:44 CDT)
- Re: Computing atom distances (Fri Nov 03 2017 - 16:57:55 CDT)
- Re: Computing atom distances (Fri Nov 03 2017 - 16:29:48 CDT)
- Computing atom distances (Tue Oct 31 2017 - 15:52:54 CDT)
wliu
- Problem on merging multi-psf files into one (Tue Oct 20 2015 - 00:47:12 CDT)
wmsmith
- RE: applying 6dof input forces (Mon Jul 11 2005 - 12:03:52 CDT)
- RE: applying 6dof input forces (Tue Jul 05 2005 - 17:10:09 CDT)
- IMD question (Mon Jun 20 2005 - 13:38:18 CDT)
Wojciech Rajchel
- question (Thu Nov 20 2008 - 11:08:31 CST)
Wolbach, Jeffrey P $WOLBACH$
- RE: namd-l: is possible to remove the waterbox before running VMD (Thu Mar 09 2006 - 13:45:20 CST)
Wolf Dapp
- Re: VMD selection: change atom size across various frames (Mon Jul 02 2012 - 03:25:22 CDT)
- VMD selection: change atom size across various frames (Fri Jun 29 2012 - 08:57:04 CDT)
wolfinbm_at_uci.edu
- Saving work in VMD--this seems ridiculously difficult! (Thu Feb 08 2007 - 16:09:52 CST)
- Saving mutli-molecule structures in VMD (e.g., for building membranes) (Sun Feb 04 2007 - 22:20:41 CST)
- Re: PET force field & topolgy files (Wed Dec 27 2006 - 17:24:59 CST)
- RE: (); [Fwd: PET force field & topolgy files etc.] (Wed Dec 27 2006 - 14:23:22 CST)
- I have working PETE xbgf file, now how to combine into membrane? (Wed Dec 27 2006 - 11:34:11 CST)
- Re: Trying to Build a Membrane w/conical pore out of PET (polyethylene terephthalate) (Sun Dec 24 2006 - 14:35:08 CST)
- Re: Trying to Build a Membrane w/conical pore out of PET (polyethylene terephthalate) (Sun Dec 24 2006 - 13:07:28 CST)
- Re: Trying to Build a Membrane w/conical pore out of PET (polyethylene terephthalate) (Fri Dec 22 2006 - 14:29:56 CST)
- Re: Trying to Build a Membrane w/conical pore out of PET (polyethylene terephthalate) (Fri Dec 22 2006 - 14:05:36 CST)
- Trying to Build a Membrane w/conical pore out of PET (polyethylene terephthalate) (Fri Dec 22 2006 - 12:48:36 CST)
Wong Li Zhe
- Superimpose Protein Structure (Tue Jan 30 2018 - 03:20:14 CST)
- Superimpose Structures (Tue Jan 23 2018 - 20:49:59 CST)
- Re: Superimpose (Thu Dec 08 2016 - 18:37:12 CST)
- Re: Superimpose (Tue Dec 06 2016 - 18:03:04 CST)
- Superimpose (Wed Nov 30 2016 - 23:53:25 CST)
- Re: Superimpose Models (Thu Nov 24 2016 - 20:42:29 CST)
- Superimpose Models (Thu Nov 24 2016 - 00:40:01 CST)
- Superimpose Models (Wed Nov 23 2016 - 23:37:45 CST)
Woodson, Michael
- RE: Extensions menu empty (Thu Oct 23 2014 - 16:31:57 CDT)
- RE: Extensions menu empty (Thu Oct 23 2014 - 16:14:59 CDT)
- RE: Extensions menu empty (Thu Oct 23 2014 - 15:51:13 CDT)
- RE: Extensions menu empty (Thu Oct 23 2014 - 13:15:05 CDT)
- Extensions menu empty (Thu Oct 23 2014 - 10:27:54 CDT)
- RE: Python text interpreter in VMD (Tue Oct 21 2014 - 14:07:25 CDT)
- Python text interpreter in VMD (Tue Oct 21 2014 - 10:13:18 CDT)
WT Ren
- Re: failure of charge optimization by fftk (Thu Jul 11 2019 - 11:00:57 CDT)
- Re: failure of charge optimization by fftk (Sun Jun 30 2019 - 20:58:24 CDT)
- failure of charge optimization by fftk (Sun Jun 30 2019 - 09:42:13 CDT)
WuChaofu
- How to place the origin point at the position of an atom? (Fri May 31 2013 - 02:14:00 CDT)
- What is revbonds in cgtools.tcl? (Thu May 30 2013 - 08:16:44 CDT)
- How to characterize and change the tacticity of polymer chain (Mon May 27 2013 - 04:44:12 CDT)
- RE: CGTools with pdb and top files (Mon Apr 01 2013 - 23:59:51 CDT)
- RE: CGTools with pdb and top files (Mon Apr 01 2013 - 17:52:08 CDT)
- CGTools with pdb and top files (Mon Apr 01 2013 - 02:55:13 CDT)
- RE: Theory of backmapping of CGTools (Mon Mar 25 2013 - 19:04:21 CDT)
- Theory of backmapping of CGTools (Mon Mar 25 2013 - 07:06:07 CDT)
wurl
- loading molecules with increasing number of backbone atoms in VMD (Tue Jan 16 2007 - 19:39:42 CST)
- scripts in windows version (Tue Jan 16 2007 - 19:31:40 CST)
- plot the box margins (Wed Jan 10 2007 - 02:40:35 CST)
Wuwei Liang
- TK script problem (Fri Jun 07 2002 - 12:11:13 CDT)
- atoms filter? (Thu May 16 2002 - 13:03:35 CDT)
- vmd-1.7.1 installation problems (Wed Jan 23 2002 - 12:41:52 CST)
wuxiao
- CGTools error: atom select: cannot parse selection text... (Mon Sep 14 2009 - 08:48:36 CDT)
- Can the CG model built from VMD be used as an Input of NAMD,GROMACS and any other MD program? (Tue Apr 28 2009 - 02:52:44 CDT)
xaneorat_at_mail.uni-paderborn.de
- vmdcollab in VMD (Mon Jan 11 2010 - 05:19:33 CST)
Xavier Cartoixa Soler
- Request for change in gaussian cube reader (Tue May 19 2009 - 13:40:37 CDT)
- Rainbow color scheme for VolumeSlice / Volume (Tue Dec 04 2007 - 05:41:36 CST)
Xavier Periole
- VolMap use !! (Thu May 25 2006 - 13:07:42 CDT)
Xiang Gao
- Re: Coloring rings with paperchain (Tue Oct 19 2021 - 02:33:01 CDT)
- Re: Coloring rings with paperchain (Mon Oct 18 2021 - 17:24:08 CDT)
- Coloring rings with paperchain (Mon Oct 18 2021 - 16:47:56 CDT)
Xiang Yu
- residue based CG model (Fri Jul 10 2009 - 09:20:42 CDT)
Xiang, Tian-Xiang
- Amber periodic images (Wed Apr 28 2004 - 10:25:09 CDT)
- Amber trajectory loading (Wed Apr 21 2004 - 10:03:48 CDT)
Xiangyun Qiu
- Text/Labels on ray tracing externer render (Wed Jan 04 2006 - 21:53:13 CST)
Xiao-Ping Zhang
- Re: MSMS in VMD (Sat Mar 18 2000 - 14:00:37 CST)
- Re: MSMS in VMD (Fri Mar 17 2000 - 08:28:32 CST)
- MSMS in VMD (Fri Mar 17 2000 - 07:53:22 CST)
Xiaogang Wang
- Re: "non-grid" volumetric data (Sat Mar 19 2011 - 17:15:48 CDT)
- "non-grid" volumetric data (Sat Mar 19 2011 - 01:23:32 CDT)
- Re: using gimp for converting jpg, tga ... images to high quality eps files (Sat Feb 19 2005 - 15:49:05 CST)
Xiaohu Hu
- Re: VMD with sensible phantom haptic device using VRPN (Wed Oct 04 2017 - 16:09:27 CDT)
- Re: VMD with sensible phantom haptic device using VRPN (Tue Oct 03 2017 - 13:44:51 CDT)
- Re: VMD with sensible phantom haptic device using VRPN (Mon Oct 02 2017 - 14:58:03 CDT)
- VMD with sensible phantom haptic device using VRPN (Mon Oct 02 2017 - 13:30:36 CDT)
Xiaohui She
- RE: Delete redundant bonds in water molecule (Wed Aug 12 2015 - 14:25:05 CDT)
- Delete redundant bonds in water molecule (Wed Aug 12 2015 - 11:32:31 CDT)
- Questions about outputting an image with specified atom colors (Tue Jun 02 2015 - 09:34:19 CDT)
- Is VMD available to control the movie made by movie maker (Mon Aug 04 2014 - 16:44:44 CDT)
- Re: How to adjust different atom size separately (Mon Jul 21 2014 - 10:46:27 CDT)
- How to adjust different atom size separately (Fri Jul 18 2014 - 11:02:32 CDT)
xiaoqin huang
- labeling for movie title (Mon Jun 04 2007 - 13:21:54 CDT)
- labeling for movie title (Mon Jun 04 2007 - 11:43:13 CDT)
- water layers (Fri Apr 07 2006 - 14:08:38 CDT)
- Re: membrane loading (Wed Apr 05 2006 - 17:05:39 CDT)
- membrane loading (Wed Apr 05 2006 - 14:25:12 CDT)
Xiaoqing Wang
- add water on the top of protein border (Wed Apr 06 2005 - 09:20:24 CDT)
- about adding ions to an ion channel pore (Thu Mar 31 2005 - 20:59:36 CST)
xiaoyu qing
- volutil option (Sun May 19 2019 - 03:46:15 CDT)
- Re: regarding cionize (Sun May 19 2019 - 03:30:07 CDT)
Xifang Wang
- Re: Mapping electronic potential to surface (Thu Feb 23 2006 - 19:42:50 CST)
- Mapping electronic potential to surface (Wed Feb 22 2006 - 21:36:16 CST)
Xijun Wang
- Volmap Tool: Angular or spatial correlation function around a center molecule (Wed Dec 29 2010 - 17:57:56 CST)
Xing
- Re: align molecules using "anchor" atoms (Tue Sep 15 2015 - 22:10:11 CDT)
- Re: align molecules using "anchor" atoms (Tue Sep 15 2015 - 12:08:03 CDT)
- align molecules using "anchor" atoms (Tue Sep 15 2015 - 10:34:25 CDT)
Xinqiang Ding
- Error (incompatible tcl8.5.so) when installing VMD plugins (Sat Nov 14 2015 - 07:09:59 CST)
- Re: get the coordinate of the mouse arrow (Tue Dec 16 2014 - 20:32:58 CST)
- get the coordinate of the mouse arrow (Tue Dec 16 2014 - 17:11:48 CST)
- Re: can't use arrow key in vmd -disp text mode (Sun Nov 09 2014 - 11:00:14 CST)
- can't use arrow key in vmd -disp text mode (Sat Nov 08 2014 - 16:46:28 CST)
Xinyu(cindy) Li
- using scrpt making movies in Windows (Mon Oct 10 2005 - 10:02:11 CDT)
Xiongce Zhao
- how to write out the coordinates of center of mass of a particular residue (Wed Jun 01 2005 - 12:36:45 CDT)
- How to image molecules back into a PBC box? (Tue Feb 15 2005 - 09:09:33 CST)
Xu
- bond information in psf file (Sat Jun 24 2006 - 20:51:27 CDT)
Xu Zhiping
- PBCWrap for Gromacs? (Tue Jun 29 2004 - 07:19:33 CDT)
Xunlei Wu
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XY
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xzhao_at_uiuc.edu
- mutate residue (Thu Aug 09 2007 - 21:02:15 CDT)
xzp02_at_mails.tsinghua.edu.cn
- IED2.02 Problem (Tue Sep 06 2005 - 07:27:16 CDT)
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Y U Sasidhar
- Re: VMD on Linux Fedora Core 2 (Wed Oct 13 2004 - 08:46:24 CDT)
- ca contact map (Mon Feb 16 2004 - 20:36:06 CST)
- Re: unit cell (Mon Nov 10 2003 - 21:25:08 CST)
- Re: aminoacid mutation (Mon Oct 27 2003 - 22:25:00 CST)
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Y Xu
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Y. U. Sasidhar
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Ya.Shashel
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Yalini
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yalini.pathy_at_yale.edu
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Yamada, Masako (GE Global Research)
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- RE: Re: Topotools - limit to size of system it can be used for? (Wed Feb 08 2012 - 10:37:29 CST)
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Yamei
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Yan Shen
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yan zhang
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- (no subject) (Fri Aug 20 2010 - 03:54:47 CDT)
Yang Yang
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- (no subject) (Fri Apr 16 2004 - 21:59:41 CDT)
- (no subject) (Thu Apr 15 2004 - 13:19:11 CDT)
Yang Zhenyu
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Yang, Shaorui
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YangMingjun
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- Re: Re: how to label the distances using tk console mode (Tue Dec 15 2009 - 20:39:49 CST)
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- Model building questions (Mon May 18 2009 - 08:14:38 CDT)
- Re: Re: graphics for publication (Sat Apr 25 2009 - 04:30:40 CDT)
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Yangyang Shen
- Re: OpenGL Display slow/freeze (Tue Jun 22 2010 - 08:34:40 CDT)
- Re: OpenGL Display slow/freeze (Tue Jun 22 2010 - 08:09:59 CDT)
- OpenGL Display slow/freeze (Mon Jun 21 2010 - 22:08:11 CDT)
Yann Claveau
- Re: vmd change atom type when saving lammpstrj (Thu Jul 15 2021 - 03:27:18 CDT)
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- Re: [topotool] writelammpsdata : custom order for atom types (Wed May 12 2021 - 08:29:46 CDT)
- Re: [topotool] writelammpsdata : custom order for atom types (Wed May 12 2021 - 08:12:59 CDT)
- Re: [topotool] writelammpsdata : custom order for atom types (Wed May 12 2021 - 04:37:01 CDT)
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Yann Fichou
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Yanxiao Han
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Yarrow Madrona
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- Re: HEME acting unplanar (Mon Apr 22 2013 - 14:10:18 CDT)
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- Re: VMD water box vs. CHARMM (Wed Apr 17 2013 - 08:56:54 CDT)
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- RE: how to convert dcd AND ALIGN molecules then to pdbs in command line (Thu Apr 11 2013 - 08:33:14 CDT)
- Re: how to convert dcd AND ALIGN molecules then to pdbs in command line (Thu Apr 11 2013 - 08:25:43 CDT)
- Re: how to convert dcd AND ALIGN molecules then to pdbs in command line (Wed Apr 10 2013 - 10:41:17 CDT)
- Re: how to convert dcd to pdbs in command line (Tue Apr 09 2013 - 19:50:10 CDT)
- Re: how to convert dcd to pdbs in command line (Mon Apr 08 2013 - 18:42:49 CDT)
- Re: how to visualize water movement over trajectory (Sun Apr 07 2013 - 13:27:04 CDT)
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- Re: vmd-I: remove water, protein from a dcd (Fri Mar 29 2013 - 17:19:18 CDT)
- Re: vmd-I: remove water, protein from a dcd (Thu Mar 28 2013 - 19:36:48 CDT)
- Re: vmd-I: remove water, protein from a dcd (Thu Mar 28 2013 - 19:34:23 CDT)
- Re: vmd-I: remove water, protein from a dcd (Thu Mar 28 2013 - 17:46:17 CDT)
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- vmd-I: remove water, protein from a dcd (Thu Mar 28 2013 - 15:45:02 CDT)
- Re: problems aligning two simillar structures (Tue Mar 26 2013 - 17:38:11 CDT)
- Re: problems aligning two simillar structures (Tue Mar 26 2013 - 17:35:44 CDT)
- Re: problems aligning two simillar structures (Tue Mar 26 2013 - 14:19:48 CDT)
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Yasaman Ghadarghadr
- Re: BUG REPORT: Malfunctioning of VMD with Yosemite/ Follow up (Thu Jul 16 2015 - 13:08:30 CDT)
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Yasser Almeida Hernández
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Yasser Almeida-Hernandez
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- Re: Error Qbug=3F=29=20with=20Simulated=20anne?= aling in FFTK-Bond/Angle opt (Thu Aug 06 2020 - 01:36:32 CDT)
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- Re: FFTK Angle optimization error (Mon Aug 03 2020 - 11:27:40 CDT)
- Re: FFTK Angle optimization error (Mon Aug 03 2020 - 09:46:12 CDT)
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ybomble
- VMD and IED for Tiger? (Tue Aug 22 2006 - 19:54:17 CDT)
Yesica Pena
- Re: Topotools guessing angle and bond topology from CONNECT info in PDB files (Wed Nov 22 2017 - 11:50:03 CST)
Yew Yong Kin
- Bond in pbc condition (Wed Aug 26 2009 - 01:46:27 CDT)
yi
- problem about displaying hbond in periodic box (Tue Apr 16 2013 - 04:22:06 CDT)
Yi Shang
- pick center with tcl text command (Mon Oct 15 2012 - 11:59:59 CDT)
- Re: trace cartoon etc displaying incompletely after alignment (Fri Oct 02 2009 - 10:39:21 CDT)
- "measure fit" problem (Wed Sep 09 2009 - 13:31:17 CDT)
- Re: could not visualize DCD file downloaded from VMD website (Tue Jul 21 2009 - 15:24:30 CDT)
- Re: could not visualize DCD file downloaded from VMD website (Tue Jul 21 2009 - 15:05:51 CDT)
- could not visualize DCD file downloaded from VMD website (Tue Jul 21 2009 - 14:59:04 CDT)
- pdb file generated not readable by tleap (Wed May 20 2009 - 14:49:26 CDT)
Yi Wang, PhD
- Re: residue within x of <geometric centre> (Sun Jul 06 2014 - 17:58:04 CDT)
- Re: gofr between center of mass of a functional group and solvent (Tue Mar 19 2013 - 01:37:54 CDT)
YI Zhang
- isosurface saving question (Tue Apr 07 2009 - 20:41:17 CDT)
- questions about the electron density map (Fri Apr 03 2009 - 05:38:54 CDT)
yifat b
- Re: colors changed in animation (Tue Aug 26 2003 - 05:25:18 CDT)
- colors changed in animation (Mon Aug 25 2003 - 10:00:41 CDT)
- Re: changing atom number in animation (Thu May 15 2003 - 05:01:06 CDT)
- changing atom number in animation (Mon May 12 2003 - 04:50:17 CDT)
Yifat Brill
- (no subject) (Tue Sep 27 2005 - 07:03:33 CDT)
Yifei Kong
- vrml output (Wed Sep 11 2002 - 21:04:15 CDT)
Yihua Zhou
- How to visualize the moving periodic boundaries in VMD (Wed Mar 25 2015 - 16:15:26 CDT)
ying xiong
- (no subject) (Thu Jul 01 2004 - 05:57:28 CDT)
Yinghong
- Quite confused with Movie Maker (Fri Nov 25 2005 - 18:30:09 CST)
Yinglong Miao
- center of unit cell (Thu Apr 08 2010 - 10:10:17 CDT)
- Re: to get angle from matrix of rotation around an axis (Wed Feb 25 2009 - 15:45:53 CST)
- to get angle from matrix of rotation around an axis (Wed Feb 25 2009 - 14:55:27 CST)
- Re: error messages "*** glibc detected *** free(): invalid pointer" (Wed Feb 18 2009 - 17:32:26 CST)
- Re: error messages "*** glibc detected *** free(): invalid pointer" (Mon Feb 16 2009 - 12:44:16 CST)
- Re: error messages "*** glibc detected *** free(): invalid pointer" (Mon Feb 16 2009 - 12:10:11 CST)
- Re: error messages "*** glibc detected *** free(): invalid pointer" (Mon Feb 16 2009 - 11:51:38 CST)
- error messages "*** glibc detected *** free(): invalid pointer" (Mon Feb 16 2009 - 11:23:32 CST)
- How to specify processors for running VMD on a cluster? (Tue Feb 10 2009 - 10:45:27 CST)
- Re: errors with using surf and MSMS representations (Tue May 27 2008 - 17:11:54 CDT)
- errors with using surf and MSMS representations (Tue May 27 2008 - 14:53:54 CDT)
- Re: Re: namd-l: Truncated Octahedron for VMD and NAMD simulation (Fri May 16 2008 - 09:42:20 CDT)
- Truncated Octahedron for VMD and NAMD simulation (Thu May 15 2008 - 14:31:48 CDT)
- Re: How to read specific DCD frames directly in Fortran? (Sun Apr 06 2008 - 10:51:40 CDT)
- How to read specific DCD frames directly in Fortran? (Sat Apr 05 2008 - 13:21:53 CDT)
- Re: DCD file (Fri Mar 07 2008 - 14:43:37 CST)
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- RE: problem with installing VMD on a LINUX cluster (Mon May 28 2007 - 22:54:54 CDT)
- problem with installing VMD on a LINUX cluster (Fri May 25 2007 - 16:59:11 CDT)
- Re: questions about developing a plugin (Wed May 23 2007 - 22:20:39 CDT)
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YingZhe
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Yingzhe Liu
- Re: How to maximize the VMD display window (Fri Mar 25 2011 - 07:08:06 CDT)
- How to maximize the VMD display window (Tue Mar 22 2011 - 02:10:48 CDT)
Yixin Chen
- Re: Re: looking for help to solve FATAL ERRORï¼š Didn't find vdw parameter for atom type C11 (Tue Mar 12 2024 - 10:30:55 CDT)
- looking for help to solve FATAL ERRORï¼š Didn't find vdw parameter for atom type C11 (Wed Mar 06 2024 - 08:12:31 CST)
- Re: Error on VMD Tkconsole : syntax error near unexpected token (Fri Nov 03 2023 - 05:11:19 CDT)
- Error on VMD Tkconsole : syntax error near unexpected token (Tue Oct 31 2023 - 10:55:22 CDT)
Yiyan Kuang
- showing bonds in .xyz files (Tue Jul 06 2021 - 22:13:38 CDT)
Yjcoshc
- Re: VMD 2.0 Segmentation Fault on Ubuntu 24.04 and Containers (Tue Feb 25 2025 - 14:20:58 CST)
- Re: VMD 1.9.4 crashes after running the "Merge Structures" plugin (with psfgen 2.0) (Mon Apr 04 2022 - 11:18:41 CDT)
- Re: VMD 1.9.4 crashes after running the "Merge Structures" plugin (with psfgen 2.0) (Mon Apr 04 2022 - 10:14:48 CDT)
- VMD 1.9.4 crashes after running the "Merge Structures" plugin (with psfgen 2.0) (Mon Apr 04 2022 - 10:06:35 CDT)
- Re: VMD high DPI (Sat Sep 18 2021 - 07:21:13 CDT)
- Re: VMD 1.9.4 a48 fails to build from source (Wed Nov 04 2020 - 03:22:28 CST)
- VMD 1.9.4 a48 fails to build from source (Tue Nov 03 2020 - 19:22:56 CST)
- Re: error: can't read "w" no such variable. (Wed Jun 10 2020 - 17:08:56 CDT)
- Re: Is it possible to use colvars module in VMD python mode? (Mon Aug 28 2017 - 03:03:42 CDT)
- Re: VMD 1.9.3 crashes during loading GROMACS trr trajectory in linux. (Sat Apr 29 2017 - 06:43:53 CDT)
yjcoshc_at_gmail.com
- Is it possible to use colvars module in VMD python mode? (Fri Aug 25 2017 - 20:30:33 CDT)
- Re: VMD 1.9.3 crashes during loading GROMACS trr trajectory in linux. (Thu Jun 01 2017 - 09:58:42 CDT)
- Re: VMD 1.9.3 crashes during loading GROMACS trr trajectory in linux. (Thu Mar 02 2017 - 19:36:47 CST)
- Re: VMD 1.9.3 crashes during loading GROMACS trr trajectory in linux. (Tue Feb 28 2017 - 22:11:21 CST)
- VMD 1.9.3 crashes during loading GROMACS trr trajectory in linux. (Fri Feb 24 2017 - 20:54:27 CST)
Yoav Atsmon-Raz
- RE: setting up a 4k HD TV for passive stereoscopic 3d (Thu Apr 07 2016 - 15:34:34 CDT)
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Yogesh Aher
- Re: File conversion for from Amber to Charmm (Mon Jul 20 2009 - 07:22:21 CDT)
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YOGESH NARKHEDE
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Yogesh Sharma
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Yohann Morille
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Yojana Joshi
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YOLANDA SMALL
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- Re: select within distance range (Tue May 10 2005 - 12:44:12 CDT)
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yong zhou
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yongle
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Yongmei Pan
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Yongmei Wang
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yongpingzeng
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- Re:pbc and measure hbond (Tue Apr 20 2010 - 23:16:04 CDT)
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yoongho
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Younes Ansari
- Re: Problem with Hg, H (Wed May 10 2006 - 04:09:57 CDT)
- Problem with Hg, H (Sun Feb 19 2006 - 12:38:20 CST)
your1word_at_yahoo.com
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youtux
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Youyong Li
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yp sun
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Yu Chen
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Yu Fang
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- Re: paratool - parameter generation from gaussian log files (Mon Dec 14 2009 - 05:40:47 CST)
- Re: paratool - parameter generation from gaussian log files (Thu Dec 10 2009 - 05:08:03 CST)
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Yu Liu
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Yu Wang
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Yu Zhou
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Yu,Wenjin
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Yuan Feng
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Yuan Xue
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Yuan Zhang
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Yubo Fan
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- Re: vmd with 3d vision (Fri Jan 07 2011 - 16:56:41 CST)
- Re: vmd with 3d vision (Fri Jan 07 2011 - 16:46:10 CST)
- Re: vmd with 3d vision (Fri Jan 07 2011 - 16:27:31 CST)
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Yuchen Yuan
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Yue Yang
- Re: Numeric Library of Python for VMD 1.8.7 (Thu Feb 18 2010 - 00:08:41 CST)
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Yufang Wang
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yuhl
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Yujie Wu
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Yungok Ihm
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Yunjie Zhao
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yunshi11 .
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Yuri Nedialkov
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Yusu Wang
- Re: surf for mac (Tue Jan 27 2004 - 19:26:16 CST)
- Re: surf for mac (Tue Jan 27 2004 - 00:21:30 CST)
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Yuvam Bhateja
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Yves Frapart
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yx38
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yzhou_at_chem.umn.edu
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yzliu
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Z. Erge Akbas
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Z.Y.Qiu
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Zachary SMITH
- Re: << multiple atom selection >> (Sat Jul 23 2022 - 12:20:13 CDT)
Zack Scholl
- PSF generation for proteins with isopeptide bonds (Thu Apr 26 2012 - 19:57:48 CDT)
- VMD Contact map through time (Wed Feb 08 2012 - 16:09:04 CST)
zaheer qasmi
- Required Assistance for VMD (Sat Apr 17 2004 - 09:16:34 CDT)
zaizhi lai
- xterm (Fri Dec 17 2010 - 18:52:30 CST)
Zakaria Bouchouireb
- FFTK Opt.Bonded error: unmatched open quote in list (Tue May 10 2022 - 03:14:24 CDT)
Zampighi, Lorenzo
- RE: vmd 1.8.3a7 no longer works after installing NVIDIA dr iver x86_64 -1.0-6106 (Thu Jul 08 2004 - 17:10:24 CDT)
- vmd 1.8.3a7 no longer works after installing NVIDIA driver x86_64 -1.0-6106 (Thu Jul 08 2004 - 16:31:27 CDT)
- RE: gziped files (Tue Mar 09 2004 - 13:08:17 CST)
- RE: Situs (Wed Jun 04 2003 - 13:46:54 CDT)
Zara Sands
- (no subject) (Mon Jun 12 2006 - 06:36:34 CDT)
Zeinab Emami
- getting extra number of input file at the charge optimization phase/ ffTK (Wed Dec 03 2014 - 07:04:38 CST)
- Re: FFTK-Opt.Bonded-empty string error_VMD1.9.2Beta (Wed Nov 12 2014 - 13:08:47 CST)
- Re: Re: Charge Optimization error: error deleting "base-wat.pdb": permission denied (Sat Nov 08 2014 - 15:28:08 CST)
- Re: Charge Optimization error: error deleting "base-wat.pdb": permission denied (Sat Nov 08 2014 - 10:30:55 CST)
- ffTK: COLP (Charge Optimization Log Plotter) (Sat Nov 08 2014 - 10:07:14 CST)
- Charge Optimization error: error deleting "base-wat.pdb": permission denied (Sat Nov 08 2014 - 07:40:24 CST)
- Re: namd-l: Re: ffTK problem: OPT.Charges (Fri Nov 07 2014 - 11:13:04 CST)
- ffTK problem: OPT.Charges (Fri Nov 07 2014 - 09:14:15 CST)
- Gaussian run for ffTK: Solvation needed? (Wed Oct 22 2014 - 09:00:53 CDT)
- Re: namd-l: Re: ffTK problem: initial parameter file is void of atoms! (Mon Oct 20 2014 - 14:27:30 CDT)
- Re: namd-l: Re: ffTK problem: initial parameter file is void of atoms! (Mon Oct 20 2014 - 14:15:16 CDT)
- Re: namd-l: Re: ffTK problem: initial parameter file is void of atoms! (Mon Oct 20 2014 - 14:14:23 CDT)
- Re: namd-l: Re: ffTK problem: initial parameter file is void of atoms! (Mon Oct 20 2014 - 12:44:19 CDT)
- namd-l: Re: ffTK problem: initial parameter file is void of atoms! (Mon Oct 20 2014 - 11:34:17 CDT)
- Re: making psf files (Mon Oct 13 2014 - 12:59:36 CDT)
- Re: making psf files (Mon Oct 13 2014 - 04:00:14 CDT)
- Fwd: making psf files (Thu Oct 02 2014 - 11:45:27 CDT)
- Re: making psf files (Thu Oct 02 2014 - 11:48:49 CDT)
- NVT system: constant energy, small DCD file size (Thu Jul 24 2014 - 06:42:49 CDT)
zeynab hoseyni
- Re: wraping creates extra bonds! (Mon Jun 14 2021 - 00:38:35 CDT)
- wraping creates extra bonds! (Sun Jun 13 2021 - 14:49:48 CDT)
- Fwd: namd-l: Modifying the equilibrium distance for a specific region of carbon nanotube in the parameter file (Mon Dec 26 2016 - 06:45:28 CST)
- Why wrapped and unwrapped trajectories show different energies over the time? (Sat Apr 23 2016 - 09:32:06 CDT)
- Re: Problem wit solvating carbon nano-tube, psfgen) error reading atoms from psf file (Sun Feb 28 2016 - 13:22:47 CST)
- Problem wit solvating carbon nano-tube, psfgen) error reading atoms from psf file (Sun Feb 28 2016 - 11:16:58 CST)
- Creating Carbon Nano-tube psf file.. (Sun Feb 28 2016 - 06:32:00 CST)
- Re: couldn't execute "psfgen": no such file or directory (Wed Dec 09 2015 - 12:50:37 CST)
- Re: couldn't execute "psfgen": no such file or directory (Sun Dec 06 2015 - 07:46:33 CST)
- Fwd: couldn't execute "psfgen": no such file or directory (Sun Dec 06 2015 - 07:39:17 CST)
- couldn't execute "psfgen": no such file or directory (Sun Dec 06 2015 - 07:02:21 CST)
zeynab hosseini
- Re: FATAL ERROR: UNABLE TO FIND BOND PARAMETERS FOR CD2R6A LPA1 (Mon Aug 16 2021 - 01:19:35 CDT)
- FATAL ERROR: UNABLE TO FIND BOND PARAMETERS FOR CD2R6A LPA1 (Fri Aug 13 2021 - 03:28:24 CDT)
- Re: psfgen 2.0 (Thu Aug 05 2021 - 04:25:41 CDT)
- Re: psfgen 2.0 (Wed Aug 04 2021 - 14:17:11 CDT)
- psfgen 2.0 (Wed Aug 04 2021 - 12:06:36 CDT)
- Re: Problem with Psfgen 2.0 to create Drude FF .psf file for amino acid (Fri Jul 30 2021 - 04:47:35 CDT)
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- Wrapping creates extra bonds..! (Sun Jun 13 2021 - 15:06:41 CDT)
Zhang, Dansong
- Exactly align view direction to coordinate axes (Wed Jun 29 2016 - 10:45:15 CDT)
Zhang, Jiong (MU-Student)
- about psfgen patch (Thu Sep 23 2010 - 09:20:39 CDT)
- phosphorylation modelling (Mon Sep 13 2010 - 15:11:49 CDT)
Zhang, Tao
- RE: assign bond color based on bond type (Wed Oct 21 2015 - 14:54:11 CDT)
- assign bond color based on bond type (Wed Oct 21 2015 - 10:53:26 CDT)
zhangh1_at_umbc.edu
- How do I overlap that specific nucletide between a protein and RNA? (Sat Mar 31 2007 - 08:43:07 CDT)
- Re: How to specify the orientation of the molecule (Tue Mar 13 2007 - 10:23:37 CDT)
- How to specify the orientation of the molecule (Sun Mar 11 2007 - 19:39:45 CDT)
ZHAO Lina
- Re: compiling on LINUXAMD64 problem (Sun Apr 17 2011 - 09:20:16 CDT)
- Re: compiling on LINUXAMD64 problem (Sun Apr 17 2011 - 08:45:41 CDT)
- Re: compiling on LINUXAMD64 problem (Sun Apr 17 2011 - 08:27:05 CDT)
- Re: compiling on LINUXAMD64 problem (Sun Apr 17 2011 - 06:50:47 CDT)
- compiling on LINUXAMD64 problem (Sun Apr 17 2011 - 00:14:59 CDT)
Zhaochuan Shen
- Re: Alignment (Mon Nov 05 2007 - 11:41:52 CST)
- Alignment (Thu Nov 01 2007 - 16:52:12 CDT)
- RMSD Trajectory Tool (Wed Oct 10 2007 - 13:09:22 CDT)
Zhe Wu
- RE: exporting marching cubes data from QuickSurf (Wed Mar 21 2012 - 10:02:16 CDT)
- RE: exporting marching cubes data from QuickSurf (Fri Mar 02 2012 - 15:04:18 CST)
- exporting marching cubes data from QuickSurf (Thu Mar 01 2012 - 21:40:11 CST)
Zhen Qin
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Zhencheng Ren
- VMD color by user (Fri Apr 04 2014 - 14:24:53 CDT)
Zheng Hu
- Re: windows version of VMD (Mon Apr 09 2007 - 00:20:11 CDT)
- dynamic bonding (Tue Mar 27 2007 - 14:21:02 CDT)
- PBCTools Plugin (Mon Mar 26 2007 - 15:14:50 CDT)
- Re: windows version of VMD (Sun Mar 25 2007 - 15:19:48 CDT)
- Re: windows version of VMD (Sat Mar 24 2007 - 17:03:27 CDT)
- Re: windows version of VMD (Sat Mar 24 2007 - 16:39:43 CDT)
- windows version of VMD (Fri Mar 23 2007 - 16:35:29 CDT)
zhenlong li
- Re: running vmd as pbs job (Fri May 09 2008 - 08:34:41 CDT)
- running vmd as pbs job (Tue May 06 2008 - 14:40:44 CDT)
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- Wrap only whole molecules (Fri Jul 27 2007 - 13:00:54 CDT)
Zhenquan Hu
- Re: Failed to compile VMD 1.9.2 on OSX 10.9 (Thu Mar 06 2014 - 16:43:55 CST)
- Re: Failed to compile VMD 1.9.2 on OSX 10.9 (Thu Mar 06 2014 - 15:34:53 CST)
- Failed to compile VMD 1.9.2 on OSX 10.9 (Tue Feb 25 2014 - 10:19:01 CST)
Zhenwei Lu
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- help on making stereo diagram (Tue Jun 26 2007 - 15:25:59 CDT)
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zhenxing wang
- Re: VMD 1.9.1 and OS X 10.10 - display freezes (Wed Jul 08 2015 - 11:04:46 CDT)
Zhenyu Lu
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Zhenyu Yang
- How to color the atoms based on the stress (Wed Jun 28 2006 - 02:17:09 CDT)
zhilei chen
- solvate function (Sat Jan 10 2004 - 12:18:53 CST)
Zhimin Xiong
- How to display boundary crossing bonds? (Tue Jul 03 2007 - 23:58:00 CDT)
- problem when drawing a cylinder (Fri Jun 08 2007 - 03:27:28 CDT)
- Re: How to add two parallel confinement wall (Thu May 17 2007 - 09:41:48 CDT)
- How to add two parallel confinement wall (Wed May 16 2007 - 04:27:04 CDT)
Zhiyong Zhang
- An APBS problem (Thu Jan 26 2006 - 20:38:15 CST)
zhjjvmd
- Re: Re: Does VMD support cfg file format? (Wed Oct 01 2008 - 11:58:06 CDT)
- Re: Re: Does VMD support cfg file format? (Wed Oct 01 2008 - 12:00:33 CDT)
- Does VMD support cfg file format? (Wed Oct 01 2008 - 03:52:32 CDT)
- Re: Re: About Tcl command (Sun Apr 06 2008 - 01:17:54 CDT)
- About Tcl command (Sat Apr 05 2008 - 20:58:15 CDT)
zhngbn_at_gmail.com
- Re: Re: setbonds (Tue Apr 21 2009 - 23:48:30 CDT)
Zhu Liang
- AVX512 support on Linux. (Thu Nov 19 2020 - 10:33:42 CST)
zhurx
- Error, Tk option requires Tcl (Fri Nov 11 2005 - 00:14:00 CST)
Zhuyi Xue
- bond cutoff (Mon Mar 19 2012 - 08:45:34 CDT)
- Secondary structure assignment (Tue Feb 21 2012 - 21:24:14 CST)
Ziemys, Arturas
- RE: DynamicBonding (Fri Apr 09 2010 - 15:34:09 CDT)
- RE: DynamicBonding (Fri Apr 09 2010 - 15:50:58 CDT)
- DynamicBonding (Fri Apr 09 2010 - 14:10:56 CDT)
- CGenFF atom types (Sun Mar 14 2010 - 19:44:53 CDT)
- RE: TkConsole not working (Thu Jul 23 2009 - 14:56:57 CDT)
- TkConsole not working (Thu Jul 23 2009 - 14:45:20 CDT)
ziemys_at_ecr6.ohio-state.edu
- coordinate translation (Tue Jun 27 2006 - 11:04:28 CDT)
- RMSF ? (Tue Jun 20 2006 - 15:33:32 CDT)
- Qtight=22?= selection (Mon Jun 05 2006 - 15:36:37 CDT)
- measure avpos (Mon May 15 2006 - 14:43:28 CDT)
- How to access the subset after 'fit' and 'move' ? (Mon May 08 2006 - 09:50:55 CDT)
- (no subject) (Mon May 08 2006 - 09:41:21 CDT)
- missing cell length on DCD (Wed May 03 2006 - 14:04:48 CDT)
- VMD's Python/Tcl - importing libraries (Fri Apr 21 2006 - 10:45:08 CDT)
- python (Thu Apr 13 2006 - 08:15:01 CDT)
- selection of atoms on INSIDE protein (Tue Feb 28 2006 - 18:50:00 CST)
- AtomSel with object index (Python scripting) (Fri Feb 10 2006 - 13:04:07 CST)
- dublicated residue name in PDB/PSF (Wed Feb 01 2006 - 09:15:37 CST)
Zilong HE
- Re: Artifacts in GLSL rendering mode: deformation and noisy shading of atom spheres (Wed Sep 25 2024 - 04:21:31 CDT)
- Artifacts in GLSL rendering mode: deformation and noisy shading of atom spheres (Tue Sep 24 2024 - 02:00:00 CDT)
zizi moradi
- Running Namd in Window (Fri Dec 31 2010 - 18:34:43 CST)
- Heat capacity (Sun May 24 2009 - 16:39:45 CDT)
- solvent accessible surface area (Sat May 23 2009 - 13:11:19 CDT)
- Solvent Accessible Surface Area (Sun Apr 19 2009 - 09:01:49 CDT)
- (no subject) (Sun Apr 19 2009 - 08:55:44 CDT)
zoran
- Re: netcdf trajectory file (Fri Oct 30 2015 - 09:35:26 CDT)
- Re: netcdf trajectory file (Fri Oct 30 2015 - 08:17:45 CDT)
- Re: HIS Residue (Fri Jul 03 2015 - 14:56:43 CDT)
- Re: Valbond and NAMD (Thu Apr 16 2015 - 09:37:42 CDT)
- Valbond and NAMD (Thu Apr 16 2015 - 07:11:37 CDT)
- Re: Problem with generating psf and pdb files of metalloprotein made up of two fragments (Fri Mar 27 2015 - 06:04:37 CDT)
- Problem with generating psf and pdb files of metalloprotein made up of two fragments (Thu Mar 26 2015 - 13:45:59 CDT)
- Re: Script to impose coordinates from separate file onto equivalent selection of atoms (Thu Mar 26 2015 - 10:59:07 CDT)
- Re: Re: FFTK work's with molecules containing new atom types (Tue Dec 16 2014 - 09:42:00 CST)
- FFTK work's with molecules containing new atom types (Mon Dec 15 2014 - 17:57:28 CST)
- Re: FFTK most probably doesn't work with molecules containing new atom types (Mon Dec 15 2014 - 17:13:16 CST)
- Re: FFTK most probably doesn't work with molecules containing new atom types (Mon Dec 15 2014 - 14:28:29 CST)
- Re: FFTK most probably doesn't work with molecules containing new atom types (Sun Dec 14 2014 - 10:20:00 CST)
- Re: FFTK most probably doesn't work with molecules containing new atom types (Sat Dec 13 2014 - 18:54:35 CST)
- Re: FFTK most probably doesn't work with molecules containing new atom types (Sat Dec 13 2014 - 17:22:16 CST)
- Re: FFTK most probably doesn't work with molecules containing new atom types (Sat Dec 13 2014 - 16:04:25 CST)
- FFTK most probably doesn't work with molecules containing new atom types (Sat Dec 13 2014 - 06:50:49 CST)
- Re: How find water mediated hydrogen bond (Thu Dec 11 2014 - 06:26:39 CST)
- fftk-bonded-opt problem (Thu Dec 11 2014 - 03:30:25 CST)
- fftk problem - opt_bonded (Mon Dec 08 2014 - 06:39:38 CST)
zoran matovic
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zsinkala_at_mtsu.edu
- Tachyon renderer (Wed May 16 2007 - 23:03:14 CDT)
- Re: windows version of VMD (Mon Mar 26 2007 - 07:21:19 CDT)
ZT Yew
- RE: multiple attempts before vmd starts up (Thu Oct 18 2007 - 07:03:23 CDT)
- multiple attempts before vmd starts up (Wed Oct 17 2007 - 20:25:55 CDT)
- (no subject) (Wed Oct 17 2007 - 18:26:24 CDT)
- RE: Problem vmd1.8.5 & vmd1.8.6 on a mac-pro running ubuntu (Tue Oct 16 2007 - 10:55:34 CDT)
- Problem vmd1.8.5 & vmd1.8.6 on a mac-pro running ubuntu (Tue Oct 16 2007 - 10:13:22 CDT)
Zu Thur Yew
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- drawing of direction vectors for conformational transition (Wed Sep 13 2006 - 11:52:45 CDT)
- color: negative values (Sat Aug 12 2006 - 14:30:37 CDT)
zubin mehta
- psf file generation.? (Wed Feb 10 2010 - 05:58:45 CST)
- invalid command name 'vmdcon' (Wed Feb 10 2010 - 04:41:01 CST)
Zumot, Elia Nabil
- RE: ionic radii of sodium and chloride (Fri Jan 20 2012 - 19:55:53 CST)
- RE: ionic radii of sodium and chloride (Fri Jan 20 2012 - 10:57:19 CST)
- ionic radii of sodium and chloride (Thu Jan 19 2012 - 20:12:38 CST)
- RE: centering problem in trajectory tool (Mon Oct 17 2011 - 17:58:49 CDT)
- RE: Problem building POPE membrane with plugin using CHARMM36 (Fri Oct 14 2011 - 11:55:18 CDT)
- RE: Problem building POPE membrane with plugin using CHARMM36 (Fri Oct 14 2011 - 11:18:25 CDT)
- RE: centering problem in trajectory tool (Mon Oct 10 2011 - 15:34:54 CDT)
- RE: centering problem in trajectory tool (Mon Oct 10 2011 - 11:19:48 CDT)
- RE: convert .coor to pdb (Mon Sep 26 2011 - 08:08:59 CDT)
Zuzanna Jedlinska
- Problem with converting from lammpstrj to dcd using CatDCD (Fri Jul 07 2023 - 08:54:50 CDT)
Zyla Dawid
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§õ¤å¤Z
- build unit cells and supercells for VASP (Wed Apr 17 2013 - 10:03:30 CDT)
- cp: cannot stat `../LINUXAMD64/vmd_LINUXAMD64': No such file or directory (Mon Mar 18 2013 - 09:16:44 CDT)
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- VMD, Paratool (Fri Apr 12 2013 - 15:40:20 CDT)
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- how to display bond btw backbone atom and sidechain atom (Wed Nov 24 2010 - 04:58:37 CST)
- (no subject) (Sun Sep 12 2010 - 11:12:01 CDT)
- vmd.ps (Sun Sep 12 2010 - 11:14:49 CDT)
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- where can I find the parameter file for chlorophenols? (Sun May 24 2015 - 21:43:04 CDT)
- How to continue the calculation of NAMD in case of power failure? (Sun May 17 2015 - 20:28:31 CDT)
- how to set the coordinates of carbon nanotube? (Fri May 08 2015 - 01:30:17 CDT)
- How to create the psf of an aggregation of molecules with VMD? (Tue May 05 2015 - 06:48:39 CDT)
- How to create an aggregation of molecules with VMD? (Mon May 04 2015 - 22:12:05 CDT)
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- How to save image in SVG format? (Tue Jul 26 2011 - 00:48:28 CDT)
- why atom positions are reset after readpsf, coordpdb commands? (Wed Dec 15 2010 - 03:37:53 CST)
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- questions about RBCG (Fri Jun 03 2011 - 21:27:17 CDT)
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- ACE and NH2 (Tue Jul 03 2007 - 16:37:43 CDT)
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- volmap (Sun Jul 01 2012 - 09:01:33 CDT)
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- measure command in vmd (Fri Jan 03 2014 - 21:03:43 CST)
Ã‰ric Germaneau
- Re: How to display frames title ? (Fri Sep 11 2015 - 01:09:13 CDT)
- How to display frames title ? (Wed Sep 09 2015 - 16:43:44 CDT)
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- Q=B0startup.command=A1=B1_can=A1=AFt_be?= opened because CoreServicesUIAgent is not allowed to open documents in Terminal. (Fri Mar 27 2015 - 15:33:20 CDT)
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- consultation about metal_enviroment.tcl (Wed Dec 22 2010 - 03:30:20 CST)
Èùìáò Åõáããåëéäçò
- Re: Create a PSF (Fri Sep 21 2007 - 06:12:49 CDT)
- "truncate_trajectory" a new plugin (Fri Sep 14 2007 - 10:01:23 CDT)
- Re: program finishes before bigdcd is executed completely (Tue Sep 11 2007 - 17:26:12 CDT)
- Re: program finishes before bigdcd is executed completely (Tue Sep 11 2007 - 13:56:32 CDT)
- Re: program finishes before bigdcd is ececuted completely (Tue Sep 11 2007 - 10:07:23 CDT)
- Re: program finishes before bigdcd is ececuted completely (Tue Sep 11 2007 - 06:19:53 CDT)
- program finishes before bigdcd is ececuted completely (Mon Sep 10 2007 - 14:57:11 CDT)
- regular expression in Tcl (Tue Sep 04 2007 - 06:13:56 CDT)
- VMD crashes during the execution of a computational intensive TCL script (Mon Aug 20 2007 - 16:25:33 CDT)
- Re: create psf and dcd from pdb (Tue Aug 14 2007 - 10:25:15 CDT)
- create psf and dcd from pdb (Mon Aug 13 2007 - 16:26:27 CDT)
- Re: within and exwithin macro (Tue Aug 07 2007 - 15:52:50 CDT)
- Re: within and exwithin macro (Tue Aug 07 2007 - 08:34:14 CDT)
- within and exwithin macro (Mon Aug 06 2007 - 16:52:34 CDT)
- orientation of hexahedrons parallelepipeds unit cells relative to x,y axes (Sat Jul 28 2007 - 09:03:23 CDT)
- Re: missing cell length on DCD (Sat Jul 14 2007 - 11:32:17 CDT)
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- (no subject) (Wed Apr 06 2005 - 08:58:13 CDT)
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- solvate v1.3 bug (Thu May 14 2009 - 07:43:23 CDT)
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- Dynamical Network Analysis (Thu Dec 20 2018 - 02:53:47 CST)
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- cannot ionize coarse-grained system (Wed May 01 2013 - 14:25:37 CDT)
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- fftk: domain error: argument not in valid range (Tue Jul 10 2012 - 03:30:31 CDT)
ÕÅ Îª
- Re: help: i can not type words in hostname textbox in imd (Thu Sep 08 2005 - 05:47:27 CDT)
- Re: help: i can not type words in hostname textbox in imd (Wed Sep 07 2005 - 02:00:28 CDT)
- Re: help: i can not type words in hostname textbox in imd (Wed Sep 07 2005 - 01:36:29 CDT)
- help: i can not type words in hostname textbox in imd (Mon Sep 05 2005 - 10:36:56 CDT)
- when i use imd connect in vmd,i can not type words in hostname textbox (Mon Sep 05 2005 - 10:22:54 CDT)
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- How to change resolution default setting? (Thu Jul 11 2013 - 09:02:35 CDT)
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- Ions conversion from atomic model to coarse grained model (Wed Nov 10 2010 - 11:41:41 CST)
- Superposition of Multiple Trajectory Timesteps (Thu Dec 31 2009 - 05:47:20 CST)
- Re: Satellite tobacco mosaic virus images making by VMD (Tue May 05 2009 - 10:16:45 CDT)
- Satellite tobacco mosaic virus images making by VMD (Tue May 05 2009 - 08:31:33 CDT)
- Re: VMD plugin for Desmond (Tue Jan 20 2009 - 08:58:31 CST)
- VMD plugin for Desmond (Tue Jan 20 2009 - 08:23:13 CST)
- Download the newest version of VMD (Mon Jan 19 2009 - 04:15:52 CST)
- IED analysis (Wed Nov 19 2008 - 02:19:19 CST)
- About Hydrogen bond calculation (Thu Nov 13 2008 - 03:20:03 CST)
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- Re: Topo tools error in dihedral guess (Wed Feb 20 2019 - 15:49:15 CST)
- Re: Topo tools error in dihedral guess (Wed Feb 20 2019 - 02:45:56 CST)
- Re: Topo tools error in dihedral guess (Wed Feb 20 2019 - 02:33:51 CST)
- Re: Topo tools error in dihedral guess (Tue Feb 19 2019 - 03:19:51 CST)
- Topo tools error in dihedral guess (Mon Feb 18 2019 - 07:06:42 CST)
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- Re: Running Hydrogen Bonding Analysis with Script (Sun Mar 22 2020 - 16:53:21 CDT)
- Running Hydrogen Bonding Analysis with Script (Sun Mar 22 2020 - 02:04:34 CDT)
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- How to make the trajectory file show the right bonds information in VMD (Thu Sep 24 2020 - 06:00:44 CDT)
å™ä¸šå¹³
- vmd cannot display cartoon/ribbon representations of part of a protein in gro/trr format (Sun Feb 05 2017 - 08:11:19 CST)
- How to smooth atom labels in a MD trajectory? (Sat Aug 20 2016 - 13:06:37 CDT)
- VMD cannot display electron density map (Sun Aug 23 2015 - 13:11:01 CDT)
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- Re: Re: Re: How can I measure bond length with â€œname ** and resid **" in scripts? (Tue Dec 19 2017 - 22:01:20 CST)
- Re: How can I measure bond length with Q=80=9Cname_**_and_resid_**=22_in_scripts=3F?= (Tue Dec 19 2017 - 03:03:19 CST)
- How can I measure bond length with â€œname ** and resid **" in scripts? (Tue Dec 19 2017 - 01:56:45 CST)
- I would like to get a trajectory file in PDB. Can I use like data frame in VMD? (Wed Dec 13 2017 - 00:41:56 CST)
- Re: error : invalid command name "psfgen" in 6pti tutorial (Mon Nov 20 2017 - 23:34:40 CST)
- error : invalid command name "psfgen" in 6pti tutorial (Mon Nov 20 2017 - 21:47:25 CST)
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- error: can't read "w" no such variable. (Wed Jun 10 2020 - 08:16:23 CDT)
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- Re: Startup position of OpenGL Display window and VMD console window (Fri Dec 01 2023 - 00:41:40 CST)
- Startup position of OpenGL Display window and VMD console window (Wed Nov 29 2023 - 20:44:29 CST)
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- Re: output data file problem (Fri Apr 22 2016 - 09:34:46 CDT)
- output data file problem (Tue Apr 19 2016 - 15:05:35 CDT)
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- delete bad atom in psfgen (Fri Nov 26 2010 - 05:21:01 CST)
- missing operator at _@_in expression "$i _@_$n" (Wed Nov 17 2010 - 09:59:16 CST)
- vmd can't display Pt-Cl bond (Mon Sep 20 2010 - 02:06:38 CDT)
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- Re:Re: ??startup.command?? can??t be opened because CoreServicesUIAgent is not allowed to open documents in Terminal. (Wed Apr 01 2015 - 15:13:24 CDT)
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- save/load visualization for data file (Sun Mar 17 2024 - 07:40:35 CDT)
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- FATAL ERROR: DIDN'T FIND vdW PARAMETER FOR ATOM TYPE OT (Wed Jul 10 2019 - 09:03:44 CDT)
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- VMD RMSD Plot Selection (Mon Oct 21 2019 - 10:53:46 CDT)
- TIP4P Water box (Tue Feb 19 2019 - 19:51:03 CST)
- 1CA2 autoionization (Tue Feb 19 2019 - 08:44:29 CST)
- Unable to load molecule (Thu May 03 2018 - 05:16:28 CDT)
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- Re: VMD window doesn't show up (Sun Apr 28 2019 - 19:47:40 CDT)
- Re: VMD window doesn't show up (Thu Apr 25 2019 - 20:00:39 CDT)
- Re: VMD window doesn't show up (Thu Apr 25 2019 - 19:08:55 CDT)
- VMD window doesn't show up (Thu Apr 25 2019 - 06:44:52 CDT)
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- Re: How to change the font size in VMD? (Tue Apr 11 2017 - 03:18:08 CDT)
- How to change the font size in VMD? (Tue Apr 11 2017 - 02:55:52 CDT)

Last message date: Thu Apr 17 2025 - 01:02:05 CDT
Archived on: Tue Apr 29 2025 - 02:16:50 CDT

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