[gmx-users] rmsd-dist.xvg

David van der Spoel spoel at xray.bmc.uu.se
Mon Feb 13 09:24:28 CET 2006

Itamar Kass wrote:
> Shalom all,
> I am using g_cluster to analyze my MD results, where one of the output 
> files is rmsd-dist.xvg.

it is the distance based RMSD

> I hope this is not a silly question, but I do wish to understand what 
> this graph represents.  Is this the RMS distribution in the biggest 
> cluster? Is this the RMS distribution among all clusters?
I think the latter.

> Also, what a.u. represents?
arbitrary units maybe?

David van der Spoel, PhD, Assoc. Prof., Molecular Biophysics group,
Dept. of Cell and Molecular Biology, Uppsala University.
Husargatan 3, Box 596,  	75124 Uppsala, Sweden
phone:	46 18 471 4205		fax: 46 18 511 755
spoel at xray.bmc.uu.se	spoel at gromacs.org   http://folding.bmc.uu.se

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