gmx density show wrong symmetrize density profile using -symm?
Gromacs show wrong symmetrize density profile using -symm while doing gmx density?
In the snapshot, we can see the density profile of the same component with and without -symm
Bilayer simulation using NVE
Volume is constant
gmx20193d density -f traj_comp.xtc -s md.tpr -sl 109 -o density_two.xvg
gmx20193d density -f traj_comp.xtc -s md.tpr -sl 109 -symm -o density_two.xvg
#1 Updated by Super duper about 1 year ago
Probably this is a problem of Centring based on the center of mass where the layer in the end of z axis
I got correct density after trjconv -trans (translating) trejctory such that it stay around approx center of box
see plot and figure attached