Please help ! I ran a simulation of self-assembly of a DPPC lipid bilayer. At the end of the simulation, I have a bilayer, but it is not at the center of the box. Instead, it has two leaflets on each edge of the box separated by water, with the bilayer normal along the x-axis. How can I realign this trajectory, so that I can get the bilayer at the center of the box? It will also be nice to be able to align the membrane with the z-axis as is the norm. I have trialled and errored with many combinations of trjconv, but none seems to work
-- Maria G. Technical University of Denmark Copenhagen
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