[gmx-users] solvent spatial distribution

[Mark Abraham]

Jinyao Wang wrote:
> gmx-users，
> 
> I have computed the rdf between a atom of solvent and a atom of solute 
> and get rmin=0.43nm.I have also known the g_spatial can compute 
> the solvent spatial distribution around a atom of solute. I could get 
> a 3D solvent spatial distribution plot if I load the grid.cube into VMD.
> But if I want to get a 3D solvent spatial distribution plot within r<=0.43nm,
> I don't know how to do it. Any suggestion will be appreciated.

I'm not sure I understand your problem, but if you've computed an RDF
with a GROMACS tool, then you have it in an .xvg file. You can visualize
that immediately with GRACE, or other tools. See
http://wiki.gromacs.org/index.php/Graphing_Data

Mark