VMD
From Rizzo_Lab
Revision as of 15:02, 23 June 2008 by 129.49.109.172 (talk)
A great resource is the user manual [1].
One can run scripts in VMD command line (example scripts).
To run a script (in windows) type source in the command line followed by the fill name.
Useful atom selection commands:
"within <distance> of <selection>" "same <property> as <selection>"
here is a script to calculate rmsd's: vmd.rmsd.csh.
