VMD plugins at WMC Physiology & Biophysics
VMD is a molecular visualization program for displaying, animating, and analyzing large biomolecular systems using 3-D graphics and built-in scripting. VMD supports computers running MacOS-X, Unix, or Windows, is distributed free of charge, and includes source code.
Within this page you will find developing versions of VMD plugins developed in our group. Other plugins can be found at the main VMD plugin library.
These plugins were developed totally or partially at the department of Physiology and Biophysics at Weill Cornell Medical College.
Available plugins are:
| RMSDTT: RMSD Trajectory Tool | 2.01 (24 Apr'06) |
| Tool for the calculation of rmsd and alignment trajectories. | |
| iTrajComp: iterative Trajectory Comparision | Preview (4 Apr'06) |
| A graphical and interactive tool for analysis and comparison of trajectories: rmsd, contacts, hbonds, labels, ... (former RMSDTT2 plugin). | |
| Swap: swapping coordinates between atoms | 1.0 (4 Apr'06) |
| Provides functions to swap coordinates between atoms in a molecule. Aimed primarily at reducing rmsd calculations can be used within the RMSDTT plugin, but uses are up to the user imagination. | |
| Cluster | 1.6 (13 Aug'07) |
| Visualize clusters of conformations by color. | |