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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- RNApaln
- manual page for RNApaln 2.5.1
- RNAparconv
- manual page for RNAparconv 2.5.1
- RNApdist
- manual page for RNApdist 2.5.1
- RNAplex
- manual page for RNAplex 2.5.1
- RNAplfold
- manual page for RNAplfold 2.5.1
- RNAplot
- manual page for RNAplot 2.5.1
- RNApvmin
- manual page for RNApvmin 2.5.1
- RNAsnoop
- manual page for RNAsnoop 2.5.1
- RNAsubopt
- manual page for RNAsubopt 2.5.1
- RNAup
- manual page for RNAup 2.5.1
- RNPxlSearch
- topp - library for LC/MS data management and analysis - tools
- RNPxlXICFilter
- topp - library for LC/MS data management and analysis - tools
- ROPgadget
- search executables for exploitable ROP gadgets
- RTEvaluation
- topp - library for LC/MS data management and analysis - tools
- RTModel
- topp - library for LC/MS data management and analysis - tools
- RTPredict
- topp - library for LC/MS data management and analysis - tools
- R_mds
- project distance matrix into lower number of dimensions
- RawLogViewer
- GUI dataset viewer and editor
- Ray
- assemble genomes in parallel using the message-passing interface
- ReactiveNav3D-Demo
- GUI demo of robot reactive navigation in 3D
- ReactiveNavigationDemo
- GUI demo of robot reactive navigation
- RealTimeSync
- a folder comparison and synchronization tool (Batch)
- Recycler
- GWorkspace - GNUstep Workspace Manager
- Redirect
- xerces-c - xerces-c sample program
- Replication
- Example of using QuantLib
- Repo
- Example of using QuantLib
- Resampler
- topp - library for LC/MS data management and analysis - tools
- RhumbSolve
- - perform rhumb line calculations
- Rscript
- front end for scripting with R
- S
- elvi - surfraw(1) search tools
- SAX2Count
- xerces-c - xerces-c sample program
- SAX2Print
- xerces-c - xerces-c sample program
- SAXCount
- xerces-c - xerces-c sample program
- SAXPrint
- xerces-c - xerces-c sample program
- SCMPrint
- xerces-c - xerces-c sample program
- SEnumVal
- xerces-c - xerces-c sample program
- SHOW_POOL_BACKEND_STATS
- show backend SQL command statistics
- SHOW_POOL_CACHE
- displays cache storage statistics
- SHOW_POOL_HEALTH_CHECK_STATS
- show health check statistics data
- SHOW_POOL_NODES
- sends back a list of all configured nodes
- SHOW_POOL_POOLS
- sends back a list of pools handled by Pgpool-II
- SHOW_POOL_PROCESSES
- sends back a list of all Pgpool-II processes waiting for connections and dealing with a connection
- SHOW_POOL_STATUS
- sends back the list of configuration parameters with their name, value, and description
- SHOW_POOL_VERSION
- displays a string containing the Pgpool-II release number
- SIBsim4
- align RNA sequences with a DNA sequence, allowing for introns
- SIFT_for_submitting_fasta_seq.csh
- predict effect of an amino acid substitution on protein function
- SIXpack
- a full-featured XAS analysis package
- SNAPCommand
- scalable nucleotide alignment program
- SOAPsh
- Interactive shell for SOAP calls
- SRFPimpleFoam
- part of OpenFOAM (The Open Source CFD Toolbox)
- SRFSimpleFoam
- part of OpenFOAM (The Open Source CFD Toolbox)
- STAR
- ultrafast universal RNA-seq aligner
- STKDemo
- stk-demo - Sound Synthesis Toolkit demo application
- SURVIVOR
- SWISH-CONFIG
- Configuration File Directives
- SWISH-FAQ
- The Swish-e FAQ. Answers to Common Questions
- SWISH-LIBRARY
- Interface to the Swish-e C library
- SWISH-RUN
- Running Swish-e and Command Line Switches
- SWarp
- resample and combine FITS images
- SalmID
- rapid Kmer based Salmonella identifier from sequence data
- Save
- save - save revision of a file
- SceneViewer
- 3d editor and viewer for Inventor scenes
- SceneViewer3D
- 3D robotic scenes viewer
- SciTE
- a programmers text editor
- SeedListGenerator
- topp - library for LC/MS data management and analysis - tools
- SemanticValidator
- topp - library for LC/MS data management and analysis - tools
- SeqDist
- AmpliconNoise - remove noise from high throughput nucleotide sequence data
- SeqNoise
- AmpliconNoise - remove noise from high throughput nucleotide sequence data
- SequenceCoverageCalculator
- topp - library for LC/MS data management and analysis - tools
- Shape_PointInPoly
- calculate a point in a polygon
- Sibelia
- comparative genomics tool
- SimpleAgenda
- calendar manager for GNUstep
- SimpleSearchEngine
- topp - library for LC/MS data management and analysis - tools
- Singular
- Computer Algebra System for Polynomial Computations -- command-line interface
- SiriusAdapter
- topp - library for LC/MS data management and analysis - tools
- SoapySDRServer
- provide access to local SoapySDR devices over network
- SoapySDRUtil
- query and change module information of SoapySDR
- Sound
- Sound - AfterStep module for playing sounds when windowing event occurs
- SoundEvents
- SoundEvents - names for different windowing events
- SpecLibCreator
- topp - library for LC/MS data management and analysis - tools
- SpecLibSearcher
- topp - library for LC/MS data management and analysis - tools
- SpectraFilterBernNorm
- topp - library for LC/MS data management and analysis - tools
- SpectraFilterMarkerMower
- topp - library for LC/MS data management and analysis - tools
- SpectraFilterNLargest
- topp - library for LC/MS data management and analysis - tools
- SpectraFilterNormalizer
- topp - library for LC/MS data management and analysis - tools
- SpectraFilterParentPeakMower
- topp - library for LC/MS data management and analysis - tools
- SpectraFilterScaler
- topp - library for LC/MS data management and analysis - tools
- SpectraFilterSqrtMower
- topp - library for LC/MS data management and analysis - tools
- SpectraFilterThresholdMower
- topp - library for LC/MS data management and analysis - tools
- SpectraFilterWindowMower
- topp - library for LC/MS data management and analysis - tools
- SpectraMerger
- topp - library for LC/MS data management and analysis - tools
- SpectraSTSearchAdapter
- topp - library for LC/MS data management and analysis - tools
- SplitClusterClust
- AmpliconNoise - remove noise from high throughput nucleotide sequence data
- SplitClusterEven
- AmpliconNoise - remove noise from high throughput nucleotide sequence data
- SplitSeq.py
- Sorts, samples and splits FASTA/FASTQ sequence files
- StaticModification
- topp - library for LC/MS data management and analysis - tools
- StdInParse
- xerces-c - xerces-c sample program
- StructuredReport
- Dump the SR encoded in the file name on the console
- SupportedHints
- SupportedHints - Afterstep SupportedHints
- SvmTheoreticalSpectrumGeneratorTrainer
- topp - library for LC/MS data management and analysis - tools