g_saltbr − computes salt bridges
g_saltbr -f traj.xtc -s topol.tpr -[no]h -nice int -b time -e time -dt time -t real -[no]sep
g_saltbr plots the difference between all combination of charged groups as a function of time. The groups are combined in different ways.A minimum distance can be given, (eg. the cut-off), then groups that are never closer than that distance will not be plotted.
Output will be in a number of fixed filenames, min-min.xvg,min-plus.xvg and plus-plus.xvg, or files for every individual ion-pair if selected
-f traj.xtc Input
Generic trajectory: xtc trr trj gro g96 pdb
-s topol.tpr Input
Generic run input: tpr tpb tpa xml
-[no]h no
Print help info and quit
-nice int 19
Set the nicelevel
-b time 0
First frame (ps) to read from trajectory
-e time 0
Last frame (ps) to read from trajectory
-dt time 0
Only use frame when t MOD dt = first time (ps)
-t real 1000
trunc distance
-[no]sep no
Use separate files for each interaction (may be MANY)
More information about the GROMACS suite is available in /usr/share/doc/gromacs or at <http://www.gromacs.org/>.