[gmx-users] g_hbond / hbmap.xpm file

Erik Marklund erikm at xray.bmc.uu.se
Wed Nov 10 12:50:33 CET 2010

shahab shariati skrev 2010-11-10 10.48:
> Dear gromacs users
> I used g_hbond -f *.xtc -s *.tpr -n *.ndx -hbm hbmap.xpm  for hydrogen 
> bond analysis.
> then I used xpm2ps -f hbmap.xpm -o hbmap.eps.the  ps file is hydrogen 
> bond index vs time. I don't understand numbers in vertical axis. do 
> these numbers in vertical axis relate to hbond.ndx file? how?
Each line is one DHA-trad in the ndx-file. The order is the same in the 
matrix and the ndx-file, but keep in mind that the matrix is displayed 
with the first row at the bottom.

Erik Marklund, PhD student
Dept. of Cell and Molecular Biology, Uppsala University.
Husargatan 3, Box 596,    75124 Uppsala, Sweden
phone:    +46 18 471 4537        fax: +46 18 511 755
erikm at xray.bmc.uu.se    http://folding.bmc.uu.se/

More information about the gromacs.org_gmx-users mailing list