[gmx-users] rmsd-dist.xvg

[David van der Spoel]

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.
________________________________________________________________________
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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