Section 1 of the manual describes user commands and tools, for example, file manipulation tools, shells, compilers, web browsers, file and image viewers and editors, and so on.
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- SwathWizard
- topp - library for LC/MS data management and analysis - tools
- SweeD
- Assess SNPs for their contribution to genetic drift
- SystemPreferences
- edit your personal settings for GNUstep
- THESIAS
- Testing Haplotype Effects In Association Studies
- TICCalculator
- topp - library for LC/MS data management and analysis - tools
- TIFFToDicom
- Read a TIFF image input format file and create an image of a specified or appropriate SOP Class
- TMalign
- protein structure alignment
- TMscore
- TM-score - an algorithm to calculate the similarity of topologies of two protein structures
- TOFCalibration
- topp - library for LC/MS data management and analysis - tools
- TOPPAS
- topp - library for LC/MS data management and analysis - tools
- TOPPView
- topp - library for LC/MS data management and analysis - tools
- TSingular
- Computer Algebra System for Polynomial Computations -- command-line interface within a new terminal
- TalkSoup
- IRC client for GNUstep
- TargetedFileConverter
- topp - library for LC/MS data management and analysis - tools
- TbarLayout
- TbarLayout - Afterstep TbarLayout
- Telsearch
- jabber-querybot - tel.search.ch
- Terminal
- GNUstep Terminal Emulator
- TextEdit
- basic editor for GNUstep
- TextExporter
- topp - library for LC/MS data management and analysis - tools
- Thunar
- File Manager for the Xfce Desktop Environment
- TimeMon
- CPU time usage monitor
- TkAnt
- antennavis - Antenna Radiation Pattern Visualization Software
- Toppreise
- jabber-querybot - toppreise.ch
- TransDecoder.LongOrfs
- Transdecoder.LongOrfs - Transcriptome Protein Prediction
- TransDecoder.Predict
- Transdecoder - Transcriptome Protein Prediction
- TransformationEvaluation
- topp - library for LC/MS data management and analysis - tools
- TransverseMercatorProj
- - perform transverse Mercator projection
- TrimmomaticPE
- flexible read trimming tool for Illumina NGS data
- TrimmomaticSE
- TrimmomaticPE - flexible read trimming tool for Illumina NGS data
- UEFIExtract
- UEFI image file parsing utility
- UEFIFind
- UEFI image file replacement utility
- UEFITool
- UEFI firmware image viewer and editor
- UGsmooth
- send UGear-formatted GPS data to a FlightGear instance
- UL
- Molecular Simulator
- UnifyHeaders.py
- Unifies annotation fields based on grouping scheme
- VBoxClient
- x86 virtualization solution
- VBoxHeadless
- x86 virtualization solution
- VBoxManage
- x86 virtualization solution
- VBoxSDL
- x86 virtualization solution
- VFDB_cdhit_to_csv
- Parse cdhit results
- VFDBgenus
- Extract virulence genes by genus from the VFDB database
- VIRTUOSO-T
- virtuoso-t - OpenLink Virtuoso Opensource Server
- VIRT_MAIL
- virt_mail - OpenLink Virtuoso Opensource Mail Interface
- VRMLConverter
- converts VRML to OGRE .mesh files
- Validate
- simple validation tool for XML documents
- VerificationSOPClassSCU
- For testing, establish an association to the specified AE and perform verification (send a C-ECHO request)
- ViewPDF
- view and navigate in PDF documents
- VirtualBox
- x86 virtualization solution
- VisualBoyAdvance
- VisualBoyAdvance
- VolumeControl
- audio mixer for GNUstep
- W
- elvi - surfraw(1) search tools
- WPEWebDriver
- WebDriver service implementation for WPE WebKit
- WPrefs
- Window Maker configuration tool
- Wand-config
- GraphicsMagickWand-config - get information about the installed version of GraphicsMagick
- WebKitWebDriver
- WebDriver service implementation for WebKitGTK
- WebSearch
- a web-searching application demonstrating WWW::Search
- Welcome2L
- Linux ANSI boot logo
- Wharf
- Wharf - AfterStep module for launching or docking applications aka button bar
- WharfFolders
- WharfFolders - AfterStep wharf module
- WharfSounds
- WharfSounds - types of events for which sound could be played by Wharf
- WigeoN
- wigeon - reimplementation of the Pintail 16S DNA anomaly detection utility
- WinCommand
- WinCommand - AfterStep module for choosing and manipulating windows based on patterns
- WinList
- WinList - AfterStep module displaying list of opened windows
- WinTabs
- WinTabs - AfterStep module for arranging windows using tabs
- WindowMaker
- wmaker - X11 window manager with a NEXTSTEP look
- Woerterbuch
- jabber-querybot - woerterbuch.info
- WrapperFactory
- Application wrappers configuration tool
- X0tigervnc
- TigerVNC Server for X displays
- XFDR
- topp - library for LC/MS data management and analysis - tools
- XInclude
- xerces-c - xerces-c sample program
- XML2Modelica
- Scilab's translator from XML model to flat Modelica
- XMLValidator
- topp - library for LC/MS data management and analysis - tools
- XTandemAdapter
- topp - library for LC/MS data management and analysis - tools
- X_count
- *_count - count physical lines of code, in each input file
- Xalan
- Process XML documents with XSLT stylesheets
- Xephyr
- X server outputting to a window on a pre-existing X display
- XiDyMFoam
- part of OpenFOAM (The Open Source CFD Toolbox)
- XiEngineFoam
- part of OpenFOAM (The Open Source CFD Toolbox)
- XiFoam
- part of OpenFOAM (The Open Source CFD Toolbox)
- Xmark
- summarize x11perf results
- Xnest
- a nested X server
- Xorg
- X11R7 X server
- Xorg.wrap
- Xorg X server binary wrapper
- Xserver
- X Window System display server
- Xspice
- X server and SPICE server
- Xtigervnc
- the X VNC server
- Xtightvnc
- Xvnc - an X server providing VNC connectivity
- Xtract
- Xtract, XtractLazy - structured ‘grep’-like programs for XML documents
- XtractLazy
- Xtract, XtractLazy - structured ‘grep’-like programs for XML documents
- Xvfb
- virtual framebuffer X server for X Version 11
- Xwayland
- an X server for running X clients under Wayland
- ZeGrapher
- program for plotting mathematical functions
- Zipper
- inspect and extract compressed archives
- ZydisDisasm
- disassemble files
- ZydisInfo
- detailed instruction information
- [
- test - check file types and compare values
- _toil_worker
- toil - Toil Documentation Toil is an open-source pure-Python workflow engine that lets people write better pipelines. Check out our website for a comprehensive list of Toil's features and read our paper to learn what Toil can do in the real world. Please subscribe to our low-volume announce mailing list and feel free to also join us on GitHub and Gitter . If using Toil for your research, please cite
- a+
- A+ interpreter
- a10login
- clogin - Cisco login script
- a2crd
- attempts the conversion of lyrics file into chordii input