Hello, I believe *do_dssp* will do the trick. Generate the *.xpm* matrix file , it contains the required information.
Regards, S. Borkotoky On Fri, Feb 16, 2018 at 1:30 PM, Sundari <sundi6...@gmail.com> wrote: > Dear gromacs users, > > can any one please tell me that how we get the secondary structure > propensity or secondary structure content(%) as a function of simulation > time. > > I used "gmx do_dssp" but it gives me number of residues forming the > secondary structure vs simulation time. is it same thing or something > different? > > Thank you in advance.. > -- > 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. > -- Yours Sincerely, -------------------------- *Dr. Subhomoi Borkotoky, Ph. D.* DBT Research Associate, Kusuma School of Biological Sciences, Indian Institute of Technology Delhi, New Delhi-110016, India. https://scholar.google.co.in/citations?user=bJz7GokAAAAJ&hl=en -- 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.