[gmx-users] visualization tools for trajectories

[Itamar Kass]

  Try createing pdb file from the xtc file (pdb with all the position) and read
it with pumol.
Quoting Matt Ziegler <mziegler at mosis.org>:

> Hi All,
>
>
>
> Does anyone have any suggestions for tools to view trajectories.
>
>
>
> I have a few .xtc files that are of 1ns simulations that are about 40Mb.
>
> I have a few .xtc files that are of 5ns simulations that are about 200Mb.
>
>
>
> I'm using VMD right now, but unfortunately it won't let me see the back 50%
> of my 5ns simulations.  At the stop point a molecule looks to be out of
> place and I can't view any further into the trajectory even though I know
> more data is there and my simulation log doesn't have any errors.
>
>
>
> Any suggestions?
>
>
>
> Thanks,
>
>
>
> Matt
>
>




===========================================
| Itamar Kass
| The Alexander Silberman
| Institute of Life Sciences
| Department of Biological Chemistry
| The Hebrew University, Givat-Ram
| Jerusalem, 91904, Israel
| Tel: +972-(0)2-6585194
| Fax: +972-(0)2-6584329
| Email: ikass at cc.huji.ac.il
| Net: http://www.ls.huji.ac.il/~membranelab/itamar/itamar_homepage.html
============================================

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