[gmx-users] g_density, number density

Ali Alizadeh ali.alizadehmojarad at gmail.com
Tue Oct 16 13:55:24 CEST 2012

Dear All users

1- When i use these commands for generating number density profile

I see completely different results(in z direction, length in z
direction is 8, number density versus of z)

g_density -f md.xtc -s md.tpr -dens number -o  dens8.xvg -d z -symm -center

It's trend is increasing(from z=0 to z=2 then decreasing(fall to zero,
z= 2-5) and then increasing(z=5-7.5)

g_density -f md.xtc -s md.tpr -dens number -o  dens8.xvg -d z

But in the case,It's trend is decreasing(z=0-2.5) then
increasing(suddenly to maximum, z=2.5-5) and then decreasing(z=5-8)

2- Number density profile Should be symmetric?


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