1 User commands

gm

• gm
• gm-convert_file converts files from within GNUmed
• gm-create_datamatrix create a datamatrix QR code from within GNUmed
• gm-describe_file describes files from within GNUmed
• gm-import_incoming a script to import a file into the INCOMING area of a GNUmed database.
• gm-print_doc prints documents from within GNUmed
• gm-remove_person GNUmed server remove person from database
• gm2 The GNU Modula-2 Compiler
• gm2-10 The GNU Modula-2 Compiler
• gm2-11 The GNU Modula-2 Compiler
• gm2-12 The GNU Modula-2 Compiler
• gm2-13 The GNU Modula-2 Compiler
• gm2-14 The GNU Modula-2 Compiler
• gm2-9 The GNU Modula-2 compiler. gm2l - GNU Modula-2 linker subcomponent. gm2lcc - GNU Modula-2 linker subcomponent. gm2lgen - GNU Modula-2 linker subcomponent. gm2lsub - GNU Modula-2 linker subcomponent. gm2m - GNU Modula-2 makefile generator. h2def - Transform a 'C' header file into a Modula-2 definition file.
• gm2segs present GeneMachine BLAST aligments in tabular form
• gm_ctl_client GNUmed XML-RPC connector for legacy applications
• gmac Microcode and Macrocode Compiler for TkGate
• gmail A Vfolder Based Gnome Email Client
• gmail-notify A Gmail Notifier
• gmake GNU Make utility to maintain groups of programs
• gmanedit GTK+ program for editing manual pages.
• gmap compute static mappings and partitions sequentially
• gmap_build Tool for genome database creation for GMAP or GSNAP
• gmapl Large Genome Mapping and Alignment Program
• gmasqdialer
• gmc No manpage for this program, utility or function.
• gmcs Turbo C# Compiler
• gmdb2 GNOME UI for MDB Tools
• gmdns Tool for doing mDNS operations
• gmds GNUstep Finder application
• gmediarender UPNP-AV renderer daemon
• gmediaserver A UPnP compatible media server
• gmemusage graphically display memory used by running processes.
• gmenu Graphical menu editor for the Gnome panel
• gmer_caller call the genotypes from a file with counted k-mers
• gmer_counter count k-mers from raw reads in FASTQ file
• gmerlin Gmerlin Player
• gmerlin-mediainfo Print media information
• gmerlin-play Gmerlin commandline player
• gmerlin-record Gmerlin commandline recorder
• gmerlin-remote Remote control for the Gmerlin GUI Player
• gmerlin-renderer Gmerlin media renderer
• gmerlin-server Gmerlin media server
• gmerlin-video-thumbnailer Video thumbnailer
• gmerlin_alsamixer graphical soundcard mixer from the Gmerlin project
• gmerlin_imgconvert Image converter
• gmerlin_imgdiff compare two images
• gmerlin_kbd keyboard shortcut daemon
• gmerlin_kbd_config keyboard shortcut daemon
• gmerlin_launcher Remote control command for the Gmerlin GUI Player
• gmerlin_play Commandline Multimedia player
• gmerlin_plugincfg Gmerlin plugin configurator
• gmerlin_psnr compare two images
• gmerlin_recorder Gmerlin recording application
• gmerlin_remote Remote control command for the Gmerlin GUI Player
• gmerlin_ssim compare two images
• gmerlin_transcoder Gmerlin transcoder
• gmerlin_transcoder_remote Remote control command for the Gmerlin GUI transcoder
• gmerlin_vanalyze compare two videos
• gmerlin_visualize Visualize audio files and save as A/V files
• gmerlin_visualizer soundcard input visualization program
• gmerlin_vpsnr compare two images
• gmessage a GTK-based xmessage clone
• gmetad manual page for Ganglia Meta Daemon
• gmetadom-config No manpage for this program, utility or function.
• gmetric manual page for Ganglia Custom Metric Utility
• gmfsk MFSK terminal for GNOME
• gmgaclock GNOME-based overclocking utility for Matrox G400
• gmi Fast fetch and two-way tag synchronization between notmuch and GMail
• gmi2email subscribe to gemlogs and read individual Gemini pages by e-mail
• gmic Perform image processing operations using the G'MIC framework.
• gmidimonitor MIDI controlled sampler
• gmime-uudecode decode a uuencoded stream to its binary form
• gmime-uuencode encode a binary file to a text stream
• gmix No manpage for this program, utility or function.
• gmixvm a GUI to the MIX virtual machine simulator
• gmk_hy create source graphs
• gmk_hy-int32 create source graphs
• gmk_hy-int64 create source graphs
• gmk_hy-long create source graphs
• gmk_m2 create 2D and 3D grid source graphs
• gmk_m2-int32 create 2D and 3D grid source graphs
• gmk_m2-int64 create 2D and 3D grid source graphs
• gmk_m2-long create 2D and 3D grid source graphs
• gmk_m3 utility command for SCOTCH
• gmk_m3-int32 utility command for SCOTCH
• gmk_m3-int64 utility command for SCOTCH
• gmk_m3-long utility command for SCOTCH
• gmk_msh create source graph from source mesh
• gmk_msh-int32 create source graph from source mesh
• gmk_msh-int64 create source graph from source mesh
• gmk_msh-long create source graph from source mesh
• gmk_sym create rectangular symbols for gschem from a text file
• gmk_ub2 utility command for SCOTCH
• gmk_ub2-int32 utility command for SCOTCH
• gmk_ub2-int64 utility command for SCOTCH
• gmk_ub2-long utility command for SCOTCH
• gml2gv GML-DOT converters
• gmlive live video frontend for mplayer
• gmm No manpage for this program, utility or function.
• gmni Gemini client
• gmnlm Gemini line-mode browser
• gmobilemedia program to manipulate filesystem on mobile phone
• gmoccapy TOUCHY LinuxCNC Graphical User Interface
• gmock-config setup compilation and linking for gmock
• gmock_doctor diagnoses problems in code using Google Mock
• gmock_gen program to generate gmock header files
• gmod play music modules
• gmond manual page for Ganglia Monitor Daemon
• gmoo a GTK+ based MOO (and MUD) client
• gmotionlive simple multipart/x-mixed-replace viewer
• gmp-ecm integer factorization using ECM, P-1 or P+1
• gmp3info No manpage for this program, utility or function.
• gmpc Gnome Music Player Client
• gmpc-remote a remote control for GMPC.
• gmpc-remote-stream a remote control for GMPC.
• gmplayer movie player mencoder - movie encoder
• gmrun Featureful CLI-like GTK+ application launcher
• gmsh 3D finite element mesh generator with built-in CAD engine and post-processor
• gmshToFoam part of OpenFOAM (The Open Source CFD Toolbox).
• GMT The Generic Mapping Tools data processing and display software package
• gmt The Generic Mapping Tools data processing and display software package
• gmt-config Get information about the gmt installation
• gmtconvert Convert between ASCII and binary 1-D tables
• gmtdefaults To list current GMT defaults
• gmtkbabel Zenity GUI to mtkbabel
• gmtmath Reverse Polish Notation calculator for data tables
• gmtp simple MP3 player client for MTP based devices
• gmtselect Select data subsets based on multiple spatial criteria
• gmtset To change individual GMT default parameters
• gmtst compute statistics on mappings
• gmtst-int32 compute statistics on mappings
• gmtst-int64 compute statistics on mappings
• gmtst-long compute statistics on mappings
• gmtswitch Switching between different GMT versions
• gmusicbrowser Jukebox for large collections of music files
• gmx molecular dynamics simulation suite
• gmx-anadock Cluster structures from Autodock runs
• gmx-anaeig Analyze eigenvectors/normal modes
• gmx-analyze Analyze data sets
• gmx-angle Calculate distributions and correlations for angles and dihedrals
• gmx-awh Extract data from an accelerated weight histogram (AWH) run
• gmx-bar Calculate free energy difference estimates through Bennett's acceptance ratio
• gmx-bundle Analyze bundles of axes, e.g., helices
• gmx-check Check and compare files
• gmx-chi Calculate everything you want to know about chi and other dihedrals
• gmx-cluster Cluster structures
• gmx-clustsize Calculate size distributions of atomic clusters
• gmx-confrms Fit two structures and calculates the RMSD
• gmx-convert-tpr Make a modified run-input file
• gmx-convert-trj Converts between different trajectory types
• gmx-covar Calculate and diagonalize the covariance matrix
• gmx-current Calculate dielectric constants and current autocorrelation function
• gmx-density Calculate the density of the system
• gmx-densmap Calculate 2D planar or axial-radial density maps
• gmx-densorder Calculate surface fluctuations
• gmx-dielectric Calculate frequency dependent dielectric constants
• gmx-dipoles Compute the total dipole plus fluctuations
• gmx-disre Analyze distance restraints
• gmx-distance Calculate distances between pairs of positions
• gmx-do_dssp Assign secondary structure and calculate solvent accessible surface area
• gmx-dos Analyze density of states and properties based on that
• gmx-dssp Calculate protein secondary structure via DSSP algorithm
• gmx-dump Make binary files human readable
• gmx-dyecoupl Extract dye dynamics from trajectories
• gmx-dyndom Interpolate and extrapolate structure rotations
• gmx-editconf Convert and manipulates structure files
• gmx-eneconv Convert energy files
• gmx-enemat Extract an energy matrix from an energy file
• gmx-energy Writes energies to xvg files and display averages
• gmx-extract-cluster Allows extracting frames corresponding to clusters from trajectory
• gmx-filter Frequency filter trajectories, useful for making smooth movies
• gmx-freevolume Calculate free volume
• gmx-gangle Calculate angles
• gmx-genconf Multiply a conformation in 'random' orientations
• gmx-genion Generate monoatomic ions on energetically favorable positions
• gmx-genrestr Generate position restraints or distance restraints for index groups
• gmx-grompp Make a run input file
• gmx-gyrate Calculate radius of gyration of a molecule
• gmx-gyrate-legacy Calculate the radius of gyration
• gmx-h2order Compute the orientation of water molecules
• gmx-hbond Compute and analyze hydrogen bonds.
• gmx-hbond-legacy Compute and analyze hydrogen bonds
• gmx-helix Calculate basic properties of alpha helices
• gmx-helixorient Calculate local pitch/bending/rotation/orientation inside helices
• gmx-help Print help information
• gmx-hydorder Compute tetrahedrality parameters around a given atom
• gmx-insert-molecules Insert molecules into existing vacancies
• gmx-lie Estimate free energy from linear combinations
• gmx-make_edi Generate input files for essential dynamics sampling
• gmx-make_ndx Make index files
• gmx-mdmat Calculate residue contact maps
• gmx-mdrun Perform a simulation, do a normal mode analysis or an energy minimization
• gmx-mindist Calculate the minimum distance between two groups
• gmx-mk_angndx Generate index files for 'gmx angle'
• gmx-morph Interpolate linearly between conformations
• gmx-msd Compute mean squared displacements
• gmx-nmeig Diagonalize the Hessian for normal mode analysis
• gmx-nmens Generate an ensemble of structures from the normal modes
• gmx-nmr Analyze nuclear magnetic resonance properties from an energy file
• gmx-nmtraj Generate a virtual oscillating trajectory from an eigenvector
• gmx-nonbonded-benchmark Benchmarking tool for the non-bonded pair kernels.
• gmx-order Compute the order parameter per atom for carbon tails
• gmx-pairdist Calculate pairwise distances between groups of positions
• gmx-pdb2gmx Convert coordinate files to topology and FF-compliant coordinate files
• gmx-pme_error Estimate the error of using PME with a given input file
• gmx-polystat Calculate static properties of polymers
• gmx-potential Calculate the electrostatic potential across the box
• gmx-principal Calculate principal axes of inertia for a group of atoms
• gmx-protonate Protonate structures
• gmx-rama Compute Ramachandran plots
• gmx-rdf Calculate radial distribution functions
• gmx-report-methods Write short summary about the simulation setup to a text file and/or to the standard output.
• gmx-rms Calculate RMSDs with a reference structure and RMSD matrices
• gmx-rmsdist Calculate atom pair distances averaged with power -2, -3 or -6
• gmx-rmsf Calculate atomic fluctuations
• gmx-rotacf Calculate the rotational correlation function for molecules
• gmx-rotmat Plot the rotation matrix for fitting to a reference structure
• gmx-saltbr Compute salt bridges
• gmx-sans Compute small angle neutron scattering spectra
• gmx-sans-legacy Compute small angle neutron scattering spectra
• gmx-sasa Compute solvent accessible surface area
• gmx-saxs Compute small angle X-ray scattering spectra
• gmx-saxs-legacy Compute small angle X-ray scattering spectra
• gmx-scattering Calculate small angle scattering profiles for SANS or SAXS
• gmx-select Print general information about selections
• gmx-sham Compute free energies or other histograms from histograms
• gmx-sigeps Convert c6/12 or c6/cn combinations to and from sigma/epsilon
• gmx-solvate Solvate a system
• gmx-sorient Analyze solvent orientation around solutes
• gmx-spatial Calculate the spatial distribution function
• gmx-spol Analyze solvent dipole orientation and polarization around solutes
• gmx-tcaf Calculate viscosities of liquids
• gmx-traj Plot x, v, f, box, temperature and rotational energy from trajectories
• gmx-trajectory Print coordinates, velocities, and/or forces for selections
• gmx-trjcat Concatenate trajectory files
• gmx-trjconv Convert and manipulates trajectory files
• gmx-trjorder Order molecules according to their distance to a group
• gmx-tune_pme Time mdrun as a function of PME ranks to optimize settings
• gmx-vanhove Compute Van Hove displacement and correlation functions
• gmx-velacc Calculate velocity autocorrelation functions
• gmx-view View a trajectory on an X-Windows terminal
• gmx-wham Perform weighted histogram analysis after umbrella sampling
• gmx-wheel Plot helical wheels
• gmx-x2top Generate a primitive topology from coordinates
• gmx-xpm2ps Convert XPM (XPixelMap) matrices to postscript or XPM
• gmx_d molecular dynamics simulation suite
• gmx_mpi molecular dynamics simulation suite
• gmx_mpi_d molecular dynamics simulation suite
• gmxcheck Check and compare files
• gmxcheck_d Check and compare files
• gmxdump Make binary files human readable
• gmxdump_d Make binary files human readable
• gmysqlcc a GTK+ client for mysql databases.
• gmyth-cat gmyth utility to read streams to command line
• gmyth-ls gmyth utility to list streams to command line