From: Marcos Sotomayor (sotomayo_at_ks.uiuc.edu)
Date: Fri Mar 10 2006 - 10:19:43 CST
VMD can align and compute RMSD over trajectories very easily. Have a look
at the last section of the VMD tutorial at:
On Thu, 9 Mar 2006, Richard Wood wrote:
> Hi all,
> Is there a way to align all the frames of a dynamics calculation using
VMD? I know that one can open two or more molecule files and do an
alingment on them, but I need to know if I can do this with a dynamics
trajectory having 100 frames or more. I need to align all the structures
and then calculate RMSD's. Any help will be most appreciated.
> Richard L. Wood, Ph. D.
> Computational Chemist
> Cockeysville, MD 21030
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