vmd

VMD Selection Tool: syntax, keywords, and examples for selecting atoms and residues 03-24

VMD Representations and Color Schemes 01-04

Hydrogen bond Analysis with VMD 08-05

RMSD Analysis in VMD: how to calculate and plot RMSD from a trajectory 07-23

VMD Measurements: Analyze Distances and Angles with VMD 06-10

VMD Movie Maker: recording movies from molecular simulations 06-02

How to load GROMACS trajectories in VMD 05-28