[Chimera-users] RMSD plot

Eric Pettersen pett at cgl.ucsf.edu
Fri Mar 23 13:16:08 PDT 2012

On Mar 22, 2012, at 8:16 PM, lecan wrote:

> Hi everybody.
> I am interested in plotting RMSD values vs time from molecular  
> dynamics. Is there a way to extract the RMSD values from a the RMSD  
> map in the analysis tool of MD movie. Or maybe exists another way to  
> do this with Chimera.

Hi Luis,
	Chimera cannot do a linear plot of RMSD values, though it's certainly  
something I'd like to add to MD Movie's plotting capabilities when I  
have time.
	You can very easily extract the RMSD values from the RMSD map.  Just  
use the "Save RMSDs" button at the bottom of the map dialog to save  
the values to a file.


                         Eric Pettersen
                         UCSF Computer Graphics Lab

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