[gmx-users] Regarding calculation of angles

Dilip H N cy16f01.dilip at nitk.edu.in
Sun Apr 9 18:19:34 CEST 2017

I have ran a amino acid simulation, and i want to calculate the angle
between the atoms in amino acid molecule. how can i calculate it..??

gmx angle [-f [<.xtc/.trr/...>]] [-n [<.ndx>]] [-od [<.xvg>]]......

1] here what index does it refer to .?? is it similar to the the RDF
indexing ..??

2] how can i make these indexes...??

Thank you
With Best Regards,

Ph.D Student

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