TRJ, MDCRD, CRDBOX (AMBER ASCII trajectory)¶
MDAnalysis supports reading of AMBER ASCII trajectories (“traj”) and binary trajectories (“netcdf”).
In the AMBER community, these trajectories are often saved with the
suffix ‘.crd’. This extension conflicts with the CHARMM CRD
format and MDAnalysis will not correctly autodetect AMBER “.crd”
trajectories. Instead, explicitly provide the
u = MDAnalysis.Universe("top.prmtop", "traj.crd", format="TRJ")
Units are assumed to be the following default AMBER units: