VMD-L Mailing List

From: ban arn (ban.arn_at_gmail.com)
Date: Tue Jul 27 2010 - 10:55:48 CDT

Dear All

I would like to plot 2D rmsd matrix for backbone & C-alpha atoms for my
trajectories.

I'm using rmsd_matrix.tcl for the same.

The script works fine for the backbone.

For c-alpha atoms, in the command line while i'm selecting "name CA" its
shows error as "unknow argument".

This is the command i have used for c-alpha atoms "rmsd_matrix -mol top
-seltext name CA -frames all -fit none -o output.txt"

Kindly advice.

Many Thanks
Balaji