Using g_msd on a group of atoms results in an msd vs. time plot which is
the result of an average over all the atoms' motions. I would like to
obtain the same plot, but for an average over the center of mass motions
of a group of molecules. Using the -mol option results in a plot of the
I am trying to perform a simulation of 128 dppc in 3655 spc water.
I obtained .pdb and .top files from the Biocomputing website at U.Calgary.
I do nothing to alter the structure, which must be minimized as it comes
from the end of a 1 ns simulation. Processing the input files works fine,
but
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