VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Mon Mar 22 2004 - 10:16:37 CST

Alex,
  Did you see the previous response to your question by Oliver Beckstein?:
    http://www.ks.uiuc.edu/Research/vmd/mailing_list/vmd-l/2536.html

Have you tried using those two programs sph_process and sos_triangle?

You could also load the "Plot" files that it can produce into VMD using
the "Plt" plugin I believe. (produced by sphqpt etc)
  http://www.biochemistry.bham.ac.uk/osmart/hole/doc/hole_d09.html

One could write a simple VMD script to generate spheres according to
the positions calculated by HOLE with a little work. I know that people
in our group have done this sort of thing in the past, but I don't have a
copy of their scripts presently.

  John Stone
  vmd_at_ks.uiuc.edu

On Tue, Mar 16, 2004 at 05:35:12PM -0500, Saladino, Alex wrote:
> Hello VMDers,
> I was wondering if anyone had a script or knew of a way to visualize the
> output from the program HOLE with VMD.
>
> Thanks,
> Alex 

-- 
NIH Resource for Macromolecular Modeling and Bioinformatics
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