VMD-L Mailing List

From: Axel Kohlmeyer (akohlmey_at_gmail.com)
Date: Wed Oct 13 2010 - 09:41:00 CDT

On Wed, 2010-10-13 at 14:46 +0100, Brooke Dallas wrote:
> Dear Vmd List,

dear brooke,

> I need to draw a molecule with bond colors indicating the RMS bond
> length fluctuation for each bond, e.g. blue for small RMS fluctuations
> continuous to red for large RMS fluctuations. Does anybody have any
> suggestions for how to do that?

how large a molecule?
does it have to be dynamics or only a static image?

VMD doesn't have any internal provisions for things like this,
so you would either have to do some kind of hack with multiple
representations, or draw the bonds manually from a script.

if you can give some more details about what you want to
achieve and for what purpose you need this, somebody may
be able to come up with some suggestions for doing this.

cheers,
    axel.

> Thanks in advance,
>
> Brooke Dallas 

-- 
Dr. Axel Kohlmeyer  akohlmey_at_gmail.com
http://sites.google.com/site/akohlmey/
Institute for Computational Molecular Science
Temple University, Philadelphia PA, USA.