For making .ndx files look at the following: http://manual.gromacs.org/programs/gmx-make_ndx.html
Best of luck, Jonathan On Tue, Apr 11, 2017 at 10:26 PM, Dilip H N <cy16f01.di...@nitk.edu.in> wrote: > gmx sorient -f .xtc/trr -s .tpr -n .ndx... > > How to make these indexes for this case..?? what are the atoms/groups > that i need to consider for > > indexing in this case.. > > > > > <https://mailtrack.io/> Sent with Mailtrack > <https://mailtrack.io/install?source=signature&lang=en& > referral=cy16f01.di...@nitk.edu.in&idSignature=22> > > On Wed, Apr 12, 2017 at 9:57 AM, Dilip H N <cy16f01.di...@nitk.edu.in> > wrote: > > > Hello, > > 1] I want to calculate cos theta distributions (eg.,cos theta > > distributions of hydrogen's of water in first hydration shell layer of > > amino acid)..?? > > 2] and how can i analyze the graph ..?? > > -- > > With Best Regards, > > > > DILIP.H.N > > Ph.D Student > > > > > > > > <https://mailtrack.io/> Sent with Mailtrack > > <https://mailtrack.io/install?source=signature&lang=en& > referral=cy16f01.di...@nitk.edu.in&idSignature=22> > > > > > > -- > With Best Regards, > > DILIP.H.N > Ph.D Student > -- > Gromacs Users mailing list > > * Please search the archive at http://www.gromacs.org/ > Support/Mailing_Lists/GMX-Users_List before posting! > > * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists > > * For (un)subscribe requests visit > https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or > send a mail to gmx-users-requ...@gromacs.org. > -- Gromacs Users mailing list * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List before posting! * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists * For (un)subscribe requests visit https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or send a mail to gmx-users-requ...@gromacs.org.