How could I split a MD trajectory file (usually xtc file) into pieces (I'm using Gromacs)?

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Krishna Prasad Ghanta Popular answer

If you use gromacs 5 version

gmx_mpi trjconv -f traj_comp.xtc -s topol.tpr -o traj-1-10ns.xtc -b 0 -e 5000

It will give you .xtc file from 0 to 5 ns

Krishna Prasad Ghanta

Ashar J Malik

The CatDCD plugin: http://www.ks.uiuc.edu/Development/MDTools/catdcd/

can also be used to split trajectories. On the page above some examples are provided. Although they are all for DCD, they can be extended to xtc.

Hope this helps.