[Chimera-users] RMSD calculation

Conrad Huang conrad at cgl.ucsf.edu
Tue Jul 10 09:18:30 PDT 2012

Will you be running Chimera with a graphical interface?  If so, then the 
Ensemble Cluster tool already prints the RMSD matrix to the Reply Log. 
If you want to get the RMSD in "nogui" mode, please let us know and we 
can figure something out.


On 7/10/12 7:57 AM, Austin B. Yongye wrote:
> Hello Chimera-developers/users:
> Does someone have a script that can perform pairwise backbone RMSD
> calculations for a group of pdb structures in a file and write out the
> RMSD matrix? This may already be implemented in the clustering routine.
> Just need to get the RMSDs.
> Thanks,
> Austin-
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