Hi,
Hope this helps:
https://ctlee.github.io/BioChemCoRe-2018/clustering/
In case you may want to align the trajectory using one group but calculate
RMSD using another group, you can choose no fit when doing clustering. In
that case, gmx trajconv can be used before doing clustering.
Best,
Jin
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Dear Gromacs Users,
I ran the MD simulation of Membrane environment of protein at 100ns. I
would like to analysis of clustering methods.
I am planning to generate 'rmsd-matrix.xpm' and run 'gmx cluster' job but i
don't know which group select both for cluster analysis. could you guide
me, how to ru
