[Chimera-users] square of density volume

[Elaine Meng]

Hi Ryo,
Sorry, I don't think there is any tool or command that will square all  
the values in a map.

The volume-editing command "vop" has several options for different  
kinds of smoothing and scaling the values by a constant, but not  
squaring them:
<http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/vop.html>

Also, there is a "Volume Mean, SD, RMS" tool but it just gives one  
value of mean, etc. for the whole map:
<http://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/volumeviewer/volstats.html 
 >

I'm sure it could be done with a python script in Chimera, but that is  
beyond my skills.  Maybe when our volume expert gets back next week,  
he will have some suggestions.
Elaine
-----
Elaine C. Meng, Ph.D.
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco

On Apr 9, 2010, at 1:38 AM, 仁田 亮 wrote:

> Hi chimera users,
> I want to calculate the square value for the volume of the electron  
> density because I want to calculate the variance map.
> Do anyone know whether we can calculate the square value of the  
> volume by chimera?
> And if we can, could you teach me how to calculate?
> Thanks for your time and help,
> Ryo