[Chimera-users] Command line "Render by attribute"

Elaine Meng meng at cgl.ucsf.edu
Wed Apr 18 18:42:10 PDT 2012

Hi Rebecca!
The coloring part of Render by Attribute can be done with the "rangecolor" command:


For example, to color molecular surfaces only (not atoms, ribbons, labels, etc.) based on values of the attribute named kdHydrophobicity:

rangecol kdHydrophobicity,s -4.0 lime green 0.0 white 4.0 brown

You can also use min, mid, max instead of specific values, and many possible colors:


There aren't commands for the other parts of Render by Attribute (radii, worms), but luckily it sounds like you are interested in the coloring part.
I hope this helps,
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 18, 2012, at 6:25 PM, rswett at chem.wayne.edu wrote:

> So, I"m wondering if there's a way to call "Render by Attribute" command line for movie making purposes. I have several Defined Attributes and i'd like to be able to  recolor surfaces by the various attributes at different points in a movie. What would the format for that type of command be? Thanks for any help you guys have!
> ~Rebecca

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