.TH ngmx 1 "Mon 4 Apr 2011" "" "GROMACS suite, VERSION 4.5.4-dev-20110404-bc5695c"
.SH NAME
ngmx - displays a trajectory

.B VERSION 4.5.4-dev-20110404-bc5695c
.SH SYNOPSIS
\f3ngmx\fP
.BI "\-f" " traj.xtc "
.BI "\-s" " topol.tpr "
.BI "\-n" " index.ndx "
.BI "\-[no]h" ""
.BI "\-[no]version" ""
.BI "\-nice" " int "
.BI "\-b" " time "
.BI "\-e" " time "
.BI "\-dt" " time "
.SH DESCRIPTION
\&\fB ngmx\fR 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: 
\&\fB \-bg\fR, \fB \-fg\fR change colors, \fB \-font fontname\fR changes the font.
.SH FILES
.BI "\-f" " traj.xtc" 
.B Input
 Trajectory: xtc trr trj gro g96 pdb cpt 

.BI "\-s" " topol.tpr" 
.B Input
 Run input file: tpr tpb tpa 

.BI "\-n" " index.ndx" 
.B Input, Opt.
 Index file 

.SH OTHER OPTIONS
.BI "\-[no]h"  "no    "
 Print help info and quit

.BI "\-[no]version"  "no    "
 Print version info and quit

.BI "\-nice"  " int" " 0" 
 Set the nicelevel

.BI "\-b"  " time" " 0     " 
 First frame (ps) to read from trajectory

.BI "\-e"  " time" " 0     " 
 Last frame (ps) to read from trajectory

.BI "\-dt"  " time" " 0     " 
 Only use frame when t MOD dt = first time (ps)

.SH KNOWN PROBLEMS
\- Balls option does not work

\- Some times dumps core without a good reason

.SH SEE ALSO
.BR gromacs(7)

More information about \fBGROMACS\fR is available at <\fIhttp://www.gromacs.org/\fR>.