[gmx-users] Did this MD simulation run correctly? If so, how do I visualize it nicely?

[Jonathan Saboury]

Thank you Justin, "trjconv -pbc mol -center" is exactly what I needed.

One problem though, I visualize with vmd so I use the initial .gro file for
coordinates and .xtc files for trajectories.

The problem is the initial .gro files are not centred/whole. How would I
get the initial coordinates centred/whole as well?

Thank you!