[Chimera-users] 3D projection of eigen vectors

Elaine Meng meng at cgl.ucsf.edu
Fri Mar 22 10:45:53 PDT 2013


Dear Prasanna,
Sorry, there is no easy/automatic function to create porcupine plots in Chimera.  You would need to calculate the vectors in some other program, then write out that information and manually convert the data into some input that Chimera understands.  Here are some possibilities for that input:

(A) the Chimera "Bild" file format; this format describes geometric objects such as the cones you could use to make a porcupine plot, and is fairly simple plain text:
<http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/bild.html>

(B) the Chimera "shape" command can also create cones
<http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/shape.html>

(C) other object formats that Chimera can read include VRML
<http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/filetypes.html#object>

I hope this helps,
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 Mar 22, 2013, at 6:47 AM, Prasanna Venkatesh wrote:

> Dear support member,
> 
>    I would like to know the steps or command lines that I should follow to make 3D projection of eigen vectors like Tube representation or porcupine plots in Chimera. Thank you in advance.
> 
> Regards,
> Prasanna
> Ph.D student 
> Ajou university, South Korea




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