VMD

Visualizing Molecular Dynamics: a very powerful tool, essential for success! You can download the software, or check out the documentation. For quick reference, there are two common ways to load files in vmd. One can load a single system, possibly with multiple files and frames: vmd topology.psf trajectory.dcd

Or one can load many files as separate molecules: vmd -m traj*.pdb

Topics:

• Save settings and visualization states:
• Materials: custom VMD renders