VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Mon Mar 13 2006 - 11:17:08 CST

Michel,
  For the VolumeSlice representation, you should be able to switch the
coloring mode to color by volume, then select a color scale mode (RWB, BWR,
or another that pleases you), select the color scale data range you want
to use (in the trajectory tab), and adjust things to your satisfaction.
If those are too limiting, then you could also rewrite the color scale
with your own colors with a little bit of Tcl scripting, there's an example
of how to do that in the VMD User's Guide.

  John Stone
  vmd_at_ks.uiuc.edu

On Mon, Mar 13, 2006 at 05:44:23PM +0100, L. Michel Espinoza-Fonseca wrote:
> Hi all,
>
> I'm trying to visualize the charge density of a molecule. I used APBS
> and got dx files. I've been playing around with VMD and I found that
> the volumeslice rendering works well for the things I want to show.
> The problem comes up when I try to re-color what I got. I get these
> well-defined regions, but at the colors are kind of "psycho". What can
> I do to change the colours of the regions? I attach a image of what I
> got, so you know what I mean.
>
> Thanks a lot!
> Michel 

-- 
NIH Resource for Macromolecular Modeling and Bioinformatics
Beckman Institute for Advanced Science and Technology
University of Illinois, 405 N. Mathews Ave, Urbana, IL 61801
Email: johns_at_ks.uiuc.edu                 Phone: 217-244-3349
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