Computational Biophysics Workshop - Bethesda, Nov. 5-7, 2007
Tutorials
Below is a list of the tutorials used at the workshop.
Please
click here to see a page with the updated versions of these tutorials.
- VMD Molecular Graphics Tutorial
An introduction to VMD and its capabilities.
- NAMD Molecular Dynamics/Steered Molecular Dynamics Tutorial
An introduction to NAMD and its capabilities.
- Parameterization of a Novel Residue
Takes participants through a comprehensive example of how one investigates, sets up, and simulates a small nonstandard ligand bound to a protein system; specifically, the glutaminase subunit of the hisH-hisF system and determining the parameters for the non-standard residue.
- Topology File Tutorial
An introduction on how to generate parameter information for a molecule based on topology information from other molecules.
- Simulation of Water Permeation Through Nanotubes Tutorial
A tutorial simulating water diffusion and permeation through nanotubes.
- Stretching Deca-Alanine Tutorial
An introduction to IMD and SMD simulations with VMD and NAMD.
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