this plug-in looks interesting.
However, as far as I saw from the tutorial that even we run simulation
from Gromacs, this plugin can only import NAMD psf and DCD to analysis.
That's a headache issue. Can you improve this vmd plugin so that it can
also read Gromacs format files directly?
best
Albert
On 05/24/2014 07:02 PM, Tom Dodson wrote:
Nidhi,
You might be interested in this tool:http://prody.csb.pitt.edu/drugui/
Here are slide from a talk about the method:
http://mmbios.org/images/workshops/HandsOn2014/Lecture3.pdf
And here is a tutorial:
http://prody.csb.pitt.edu/tutorials/drugui_tutorial/drugui_tutorial.pdf
I am sure that you could use GROMACS to do the simulated annealing step
instead of NAMD.
Tom
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