[gmx-users] visualization tools for trajectories

[sunita at chem.iitb.ac.in]

center your molecule by doing trjconv.

trjconv -f *.xtc -s *.tpr -o center.xtc -center -pbc nojump

> 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
>
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