1GMX-RAMA(1)                         GROMACS                        GMX-RAMA(1)
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NAME

6       gmx-rama - Compute Ramachandran plots
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SYNOPSIS

9          gmx rama [-f [<.xtc/.trr/...>]] [-s [<.tpr>]] [-o [<.xvg>]] [-b <time>]
10                   [-e <time>] [-dt <time>] [-[no]w] [-xvg <enum>]
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DESCRIPTION

13       gmx  rama  selects the phi/psi dihedral combinations from your topology
14       file and computes these as a function of time.  Using simple Unix tools
15       such as grep you can select out specific residues.
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OPTIONS

18       Options to specify input files:
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20       -f [<.xtc/.trr/…>] (traj.xtc)
21              Trajectory: xtc trr cpt gro g96 pdb tng
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23       -s [<.tpr>] (topol.tpr)
24              Portable xdr run input file
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26       Options to specify output files:
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28       -o [<.xvg>] (rama.xvg)
29              xvgr/xmgr file
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31       Other options:
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33       -b <time> (0)
34              Time of first frame to read from trajectory (default unit ps)
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36       -e <time> (0)
37              Time of last frame to read from trajectory (default unit ps)
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39       -dt <time> (0)
40              Only use frame when t MOD dt = first time (default unit ps)
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42       -[no]w (no)
43              View output .xvg, .xpm, .eps and .pdb files
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45       -xvg <enum> (xmgrace)
46              xvg plot formatting: xmgrace, xmgr, none
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SEE ALSO

49       gmx(1)
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51       More     information    about    GROMACS    is    available    at    <‐
52       http://www.gromacs.org/>.
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55       2019, GROMACS development team
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602018.7                           May 29, 2019                      GMX-RAMA(1)
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