VMD-L Mailing List

From: John Stone (johns_at_ks.uiuc.edu)
Date: Tue Aug 02 2011 - 16:53:16 CDT

Hi,
  The VolumeSlice representation is the only way to do it within the
VMD graphics window. You can get isocontours that look more like
what Matlab does by using a custom color gradient. This makes it easy
to have a smaller number of color bands if you want, or to use all 1024
slots to have very smoothly varying colors for the isocontours. If you
want a separate plot, independent of the visualization in VMD, then it's
probably best to do this with OpenDX, Matlab or one of the other tools
that specializes in making general isocontour plots of that sort.

Cheers,
  John Stone
  vmd_at_ks.uiuc.edu

On Thu, Jul 28, 2011 at 01:31:37PM -0400, Raul Araya wrote:
> Dear VMD users:
>
> I want to know how to manipulate the volumetric info cotained in .dx files
> into 2D isocontour plots. I know one can use the Volume slice option
> directl on VMD bur I will like to know if there ara any other means to do
> so. I know that it can be done with matlab, does any one knows how to do
> it?
>
> Thx.
>
> Raul Araya Secchi
> B.Sc Molecular Biotechnology.
> Molecular Biotechnology Engineer.
> PhD Student (Biotechnology Program. UNAB, Chile)
> Computational Biology Lab (DLab)
> Center for Mathematical Modeling (CMM)
> Facultad de Ciencias Fisicas y Matematicas.
> Universidad de Chile. 

-- 
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