On 2013-07-05 10:50, Ishwor wrote:
I have taken the fit for 2ns in Einsteins curve to calculate the diffusion
coefficient but when i take the values up to 100 ps for velocity auto
correlation i get the matching result...Is it good to do such thing? i will
be happy if you guide me.
I have attached the graph of VAC herewith.
Thanks <http://gromacs.5086.x6.nabble.com/file/n5009582/vac.jpeg>
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The graph does not show the tradition ripples. If this is for water the
result could be ok with 100 ps, but you still need to have decent
sampling (e.g. 20 fs) of the velocities since they change rapidly.
--
David van der Spoel, Ph.D., Professor of Biology
Dept. of Cell & Molec. Biol., Uppsala University.
Box 596, 75124 Uppsala, Sweden. Phone: +46184714205.
sp...@xray.bmc.uu.se http://folding.bmc.uu.se
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