[gmx-users] g_hbond / hbmap.xpm file

[Erik Marklund]

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/