[gmx-users] g_sdf again

syma syma.khalid at bioch.ox.ac.uk
Thu Mar 29 13:53:48 CEST 2007


I am using g_sdf to calculating the spatial distribution of lipid headgroups
around other species in my system.

The thing is when I get the gro file (produced by using the -r flag in
g_sdf) and then look at this in vmd or chimera with my spatial density file
(plt), the reference gro file is not positioned 'in' the box of density
produced by g_sdf.

Is this as it should be and I am interpreting my results incorrectly, or
have I set up my coordinate system incorrectly?

Many thanks in advance for help with this.



Dr Syma Khalid                                  
Department of Biochemistry,       
University of Oxford                       
South Parks Road,


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