[Chimera-users] Sequence vs Sequence plot using minrms....

[Elaine Meng]

Hi Sergio,
That sequence vs. sequence plot was shown in the older tool AlignPlot,  
but is not included in the newer tool Minrms Plot.
<http://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/minrmsplot/minrmsplot.html 
 >
<http://www.cgl.ucsf.edu/chimera/1.2065/docs/ContributedSoftware/minrms/minrms.html#alignplot 
 >

AlignPlot was removed a very long time ago, sometime between Dec 2004  
and Oct 2005.  You can get the Dec 2004 and older releases of Chimera  
from
<http://www.cgl.ucsf.edu/chimera/olddownload.html>

There have been many improvements and new features since then, so I  
recommend just naming the old version differently and/or putting it in  
a different place so that you can also have a current version of  
Chimera on your computer.

I tried using the AlignPlot extension with a new version of Chimera,  
but that was unsuccessful (generated errors and did not work well).   
Best,
Elaine
-----
Elaine C. Meng, Ph.D.                          meng at cgl.ucsf.edu
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco
                      http://www.cgl.ucsf.edu/home/meng/index.html

On Feb 24, 2009, at 9:21 AM, Sergio Garay wrote:

> Hi all
>
> I run minrms with defaults values on my two proteins and I was able  
> to obtain many useful alignments. But when I
> load the results on chimera, it doesn´t show me the sequence vs  
> sequence plot. Is there any particular way to do that?
> Or there is any special minrms command (option) to obtain this?
> All the other plot were right (rms vs sequece and the alignment plot).
>
> Any help will be appreciated.
>