Index of /Training/TutorialsOverview/namd/namd-tutorial-files
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Initial Setup
In order to complete this tutorial, you will require to have up-to-date
versions of the following software, properly installed on your computer:
* VMD: a molecular graphics program.
This software is developed by the Theoretical and Computational
Biophysics Group. You can download it for free from
www.ks.uiuc.edu/Research/vmd. We encourage you to go through
the VMD tutorial at www.ks.uiuc.edu/Research/vmd/tutorial prior to
using the present tutorial.
* NAMD: a molecular dynamics simulation program. This software is
also developed by the Theoretical and Computational Biophysics Group.
You can download it for free from www.ks.uiuc.edu/Research/namd.
Unix / MacOSX Users:
* xmgrace: a free scientific plotting and analysis program. More
information about xmgrace can be found at
http://plasma-gate.weizmann.ac.il/Grace/.
* a command prompt:
- UNIX: Terminal
- Mac OS X: Terminal.app
Windows Users:
* Microsoft Excel: a spreadsheet program. It may be downloaded at
http://office.microsoft.com/en-gb/FX010858001033.aspx.
We will use Excel for the plotting and analysis of data. If you
are unable to acquire Excel, a free scientific analysis and
plotting program called scilab is available free of charge at
http://www.scilab.org/.
* a command prompt:
- DOS command prompt.