ngmx(1)
NAME
ngmx - displays a trajectory
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
- Generic trajectory: xtc trr trj gro g96 pdb
- -s topol.tpr Input
- Generic run input: tpr tpb tpa xml
- -n index.ndx Input, Opt.
- Index file
OTHER OPTIONS
- -[no]h no
- 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)
- - Balls option does not work
- - Some times dumps core without a good reason
SEE ALSO
- More information about the GROMACS suite is available in /usr/share/doc/gromacs or at <http://www.gromacs.org/>.