NAME
ngmx - displays a trajectory
VERSION 4.0.1
SYNOPSIS
ngmx -f traj.xtc -s topol.tpr -n index.ndx -[no]h -nice int -b time -e
time -dt time
DESCRIPTION
ngmx is the Gromacs trajectory viewer. This program reads a trajectory
file, a run input file and an index file and plots a 3D structure of
your molecule on your standard X Window screen. No need for a high end
graphics workstation, it even works on Monochrome screens.
The following features have been implemented: 3D view, rotation,
translation and scaling of your molecule(s), labels on atoms, animation
of trajectories, hardcopy in PostScript format, user defined
atom-filters runs on MIT-X (real X), open windows and motif, user
friendly menus, option to remove periodicity, option to show
computational box.
Some of the more common X command line options can be used:
-bg, -fg change colors, -font fontname, changes the font.
FILES
-f traj.xtc Input
Trajectory: xtc trr trj gro g96 pdb cpt
-s topol.tpr Input
Run input file: tpr tpb tpa
-n index.ndx Input, Opt.
Index file
OTHER OPTIONS
-[no]hno
Print help info and quit
-nice int 0
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)
KNOWN PROBLEMS
- Balls option does not work
- Some times dumps core without a good reason
SEE ALSO
gromacs(7)
More information about GROMACS is available at
<http://www.gromacs.org/>.
Thu 16 Oct 2008 ngmx(1)