IRanges

This is the development version of IRanges; for the stable release version, see IRanges.

Foundation of integer range manipulation in Bioconductor

Installation

To install this package, start R (version "4.5") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("IRanges")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("IRanges")

An Overview of the IRanges package	PDF	R Script
Reference Manual	PDF
NEWS	Text

Details

biocViews	DataRepresentation, Infrastructure, Software
Version	2.41.2
In Bioconductor since	BioC 2.3 (R-2.8) (16 years)
License	Artistic-2.0
Depends	R (>= 4.0.0), methods, utils, stats, BiocGenerics(>= 0.53.2), S4Vectors(>= 0.45.2)
Imports	stats4
System Requirements
URL	https://bioconductor.org/packages/IRanges
Bug Reports	https://github.com/Bioconductor/IRanges/issues

See More

Suggests	XVector, GenomicRanges, Rsamtools, GenomicAlignments, GenomicFeatures, BSgenome.Celegans.UCSC.ce2, pasillaBamSubset, RUnit, BiocStyle
Linking To	S4Vectors
Enhances
Depends On Me	AnnotationDbi, AnnotationHubData, BaalChIP, bambu, biomvRCNS, Biostrings, BiSeq, BSgenome, BSgenomeForge, BubbleTree, bumphunter, CAFE, casper, CexoR, chimeraviz, ChIPpeakAnno, chipseq, CODEX, consensusSeekeR, CSAR, CSSQ, customProDB, deepSNV, DelayedArray, DESeq2, DirichletMultinomial, DMCFB, DMCHMM, DMRcaller, epigenomix, ExCluster, fCCAC, GenomeInfoDb, GenomicAlignments, GenomicDistributions, GenomicFeatures, GenomicRanges, gtrellis, Gviz, HelloRanges, HERON, HiTC, IdeoViz, InTAD, MotifDb, MultimodalExperiment, NADfinder, oncoscanR, ORFik, OTUbase, pepStat, periodicDNA, plyranges, proBAMr, pwalign, RepViz, rGADEM, rGREAT, RJMCMCNucleosomes, RNAmodR, S4Arrays, Scale4C, SCOPE, seqArchRplus, SGSeq, SICtools, Structstrings, TEQC, traseR, triplex, VariantTools, VplotR, XVector, pd.ag, pd.aragene.1.0.st, pd.aragene.1.1.st, pd.ath1.121501, pd.barley1, pd.bovgene.1.0.st, pd.bovgene.1.1.st, pd.bovine, pd.bsubtilis, pd.cangene.1.0.st, pd.cangene.1.1.st, pd.canine, pd.canine.2, pd.celegans, pd.chicken, pd.chigene.1.0.st, pd.chigene.1.1.st, pd.chogene.2.0.st, pd.chogene.2.1.st, pd.citrus, pd.clariom.d.human, pd.clariom.s.human, pd.clariom.s.human.ht, pd.clariom.s.mouse, pd.clariom.s.mouse.ht, pd.clariom.s.rat, pd.clariom.s.rat.ht, pd.cotton, pd.cyngene.1.0.st, pd.cyngene.1.1.st, pd.cyrgene.1.0.st, pd.cyrgene.1.1.st, pd.cytogenetics.array, pd.drogene.1.0.st, pd.drogene.1.1.st, pd.drosgenome1, pd.drosophila.2, pd.e.coli.2, pd.ecoli, pd.ecoli.asv2, pd.elegene.1.0.st, pd.elegene.1.1.st, pd.equgene.1.0.st, pd.equgene.1.1.st, pd.felgene.1.0.st, pd.felgene.1.1.st, pd.fingene.1.0.st, pd.fingene.1.1.st, pd.genomewidesnp.5, pd.genomewidesnp.6, pd.guigene.1.0.st, pd.guigene.1.1.st, pd.hc.g110, pd.hg.focus, pd.hg.u133.plus.2, pd.hg.u133a, pd.hg.u133a.2, pd.hg.u133a.tag, pd.hg.u133b, pd.hg.u219, pd.hg.u95a, pd.hg.u95av2, pd.hg.u95b, pd.hg.u95c, pd.hg.u95d, pd.hg.u95e, pd.hg18.60mer.expr, pd.ht.hg.u133.plus.pm, pd.ht.hg.u133a, pd.ht.mg.430a, pd.hta.2.0, pd.hu6800, pd.huex.1.0.st.v2, pd.hugene.1.0.st.v1, pd.hugene.1.1.st.v1, pd.hugene.2.0.st, pd.hugene.2.1.st, pd.maize, pd.mapping250k.nsp, pd.mapping250k.sty, pd.mapping50k.hind240, pd.mapping50k.xba240, pd.margene.1.0.st, pd.margene.1.1.st, pd.medgene.1.0.st, pd.medgene.1.1.st, pd.medicago, pd.mg.u74a, pd.mg.u74av2, pd.mg.u74b, pd.mg.u74bv2, pd.mg.u74c, pd.mg.u74cv2, pd.mirna.1.0, pd.mirna.2.0, pd.mirna.3.0, pd.mirna.4.0, pd.moe430a, pd.moe430b, pd.moex.1.0.st.v1, pd.mogene.1.0.st.v1, pd.mogene.1.1.st.v1, pd.mogene.2.0.st, pd.mogene.2.1.st, pd.mouse430.2, pd.mouse430a.2, pd.mta.1.0, pd.mu11ksuba, pd.mu11ksubb, pd.nugo.hs1a520180, pd.nugo.mm1a520177, pd.ovigene.1.0.st, pd.ovigene.1.1.st, pd.pae.g1a, pd.plasmodium.anopheles, pd.poplar, pd.porcine, pd.porgene.1.0.st, pd.porgene.1.1.st, pd.rabgene.1.0.st, pd.rabgene.1.1.st, pd.rae230a, pd.rae230b, pd.raex.1.0.st.v1, pd.ragene.1.0.st.v1, pd.ragene.1.1.st.v1, pd.ragene.2.0.st, pd.ragene.2.1.st, pd.rat230.2, pd.rcngene.1.0.st, pd.rcngene.1.1.st, pd.rg.u34a, pd.rg.u34b, pd.rg.u34c, pd.rhegene.1.0.st, pd.rhegene.1.1.st, pd.rhesus, pd.rice, pd.rjpgene.1.0.st, pd.rjpgene.1.1.st, pd.rn.u34, pd.rta.1.0, pd.rusgene.1.0.st, pd.rusgene.1.1.st, pd.s.aureus, pd.soybean, pd.soygene.1.0.st, pd.soygene.1.1.st, pd.sugar.cane, pd.tomato, pd.u133.x3p, pd.vitis.vinifera, pd.wheat, pd.x.laevis.2, pd.x.tropicalis, pd.xenopus.laevis, pd.yeast.2, pd.yg.s98, pd.zebgene.1.0.st, pd.zebgene.1.1.st, pd.zebrafish, harbChIP, LiebermanAidenHiC2009
Imports Me	alabaster.bumpy, alabaster.ranges, alabaster.se, ALDEx2, AllelicImbalance, amplican, AneuFinder, annmap, annotatr, appreci8R, ASpli, AssessORF, ATACseqQC, ATACseqTFEA, atena, ballgown, bamsignals, BBCAnalyzer, beadarray, BindingSiteFinder, biovizBase, biscuiteer, BiSeq, bnbc, BPRMeth, branchpointer, breakpointR, bsseq, BUMHMM, BumpyMatrix, BUSpaRse, CAGEfightR, cageminer, CAGEr, cBioPortalData, cfdnakit, cfDNAPro, ChIPanalyser, chipenrich, ChIPexoQual, ChIPQC, ChIPseeker, chipseq, ChIPseqR, ChIPsim, ChromHeatMap, ChromSCape, chromVAR, cicero, CINdex, circRNAprofiler, CircSeqAlignTk, cleanUpdTSeq, cleaver, cn.mops, CNEr, CNVfilteR, CNVMetrics, CNVPanelizer, CNVRanger, CNVrd2, COCOA, comapr, coMethDMR, compEpiTools, ComplexHeatmap, CompoundDb, conumee, CopyNumberPlots, CoverageView, crisprBase, crisprBowtie, crisprDesign, crisprScore, CRISPRseek, CrispRVariants, crisprViz, csaw, CTexploreR, dada2, DAMEfinder, debrowser, DECIPHER, deconvR, DegCre, DegNorm, DelayedMatrixStats, deltaCaptureC, demuxSNP, derfinder, derfinderHelper, derfinderPlot, DEScan2, DiffBind, diffHic, DMRcate, dmrseq, DNAfusion, DominoEffect, dreamlet, DRIMSeq, DropletUtils, dStruct, easyRNASeq, EDASeq, eisaR, ELMER, enhancerHomologSearch, EnrichedHeatmap, ensembldb, EpiCompare, epidecodeR, epigraHMM, EpiMix, epimutacions, epiregulon, epistack, EpiTxDb, epivizr, epivizrData, erma, esATAC, EventPointer, extraChIPs, factR, FastqCleaner, fastseg, fcScan, FilterFFPE, FindIT2, fishpond, FLAMES, FRASER, G4SNVHunter, GA4GHclient, gcapc, gDNAx, geneAttribution, GeneGeneInteR, GENESIS, genomation, GenomAutomorphism, genomeIntervals, GenomicAlignments, GenomicDataCommons, GenomicFiles, GenomicInteractionNodes, GenomicInteractions, GenomicOZone, GenomicPlot, GenomicScores, GenomicTuples, GenVisR, geomeTriD, ggbio, girafe, gmapR, gmoviz, GOfuncR, GOpro, GOTHiC, GSVA, GUIDEseq, gwascat, h5vc, HDF5Array, heatmaps, hermes, HicAggR, HiCBricks, HiCcompare, HiCExperiment, HiContacts, HiCool, hicVennDiagram, HilbertCurve, hummingbird, icetea, ideal, idr2d, IMAS, InPAS, INSPEcT, intansv, InteractionSet, InteractiveComplexHeatmap, ipdDb, iSEEu, isomiRs, IVAS, karyoploteR, katdetectr, knowYourCG, LinTInd, LOLA, m6Aboost, MADSEQ, magpie, mariner, maser, MatrixRider, mCSEA, MDTS, MEAL, MEDIPS, MesKit, metagene2, metaseqR2, methimpute, methInheritSim, MethReg, methrix, methylCC, methylInheritance, methylKit, methylPipe, MethylSeekR, methylSig, methylumi, mia, minfi, MinimumDistance, MIRA, missMethyl, mobileRNA, Modstrings, monaLisa, mosaics, MOSim, Motif2Site, motifbreakR, motifmatchr, MotifPeeker, motifTestR, MouseFM, msa, MSA2dist, MsBackendMassbank, MsBackendMgf, MsBackendMsp, MsBackendRawFileReader, MsBackendSql, MsExperiment, msgbsR, MSnbase, MultiAssayExperiment, MultiDataSet, mumosa, MungeSumstats, musicatk, MutationalPatterns, NanoMethViz, NanoStringNCTools, ncRNAtools, normr, nucleoSim, nucleR, nullranges, OGRE, oligoClasses, OmaDB, OMICsPCA, openPrimeR, Organism.dplyr, OrganismDbi, OUTRIDER, OutSplice, packFinder, panelcn.mops, pcaExplorer, pdInfoBuilder, PhIPData, PICS, PING, plotgardener, plyinteractions, podkat, pqsfinder, pram, preciseTAD, primirTSS, proActiv, profileplyr, ProteoDisco, PureCN, Pviz, QDNAseq, QFeatures, qpgraph, qPLEXanalyzer, qsea, QuasR, R3CPET, r3Cseq, R453Plus1Toolbox, raer, RaggedExperiment, RAIDS, ramr, RareVariantVis, RCAS, recount, recoup, REDseq, regioneR, regutools, REMP, Repitools, ReportingTools, RESOLVE, rfaRm, rfPred, RgnTX, RiboCrypt, RiboDiPA, RiboProfiling, riboSeqR, ribosomeProfilingQC, rnaEditr, RNAmodR.AlkAnilineSeq, RNAmodR.ML, RNAmodR.RiboMethSeq, RnBeads, roar, rprimer, Rqc, Rsamtools, RSVSim, RTN, rtracklayer, SARC, sarks, SCAN.UPC, scanMiR, scanMiRApp, scDblFinder, scHOT, scPipe, scRNAseqApp, segmenter, segmentSeq, SeqArray, seqCAT, seqPattern, seqsetvis, SeqSQC, SeqVarTools, sesame, sevenC, ShortRead, signeR, SimFFPE, SingleMoleculeFootprinting, sitadela, SMITE, snapcount, SNPhood, soGGi, SomaticSignatures, SparseArray, SparseSignatures, spatzie, Spectra, spiky, SpliceWiz, SplicingGraphs, strandCheckR, StructuralVariantAnnotation, SummarizedExperiment, SynExtend, tadar, TAPseq, target, TCGAbiolinks, TCGAutils, TCseq, TFBSTools, TFEA.ChIP, TFHAZ, tidyCoverage, TitanCNA, TnT, tracktables, trackViewer, transcriptR, transmogR, TreeSummarizedExperiment, TRESS, tricycle, tRNA, tRNAdbImport, tRNAscanImport, TVTB, txcutr, txdbmaker, tximeta, UMI4Cats, Uniquorn, universalmotif, UPDhmm, VanillaICE, VarCon, VariantAnnotation, VariantExperiment, VariantFiltering, VaSP, VDJdive, wavClusteR, wiggleplotr, xcms, xcore, XNAString, XVector, yamss, ZygosityPredictor, fitCons.UCSC.hg19, GenomicState, MafDb.1Kgenomes.phase1.GRCh38, MafDb.1Kgenomes.phase1.hs37d5, MafDb.1Kgenomes.phase3.GRCh38, MafDb.1Kgenomes.phase3.hs37d5, MafDb.ExAC.r1.0.GRCh38, MafDb.ExAC.r1.0.hs37d5, MafDb.ExAC.r1.0.nonTCGA.GRCh38, MafDb.ExAC.r1.0.nonTCGA.hs37d5, MafDb.gnomAD.r2.1.GRCh38, MafDb.gnomAD.r2.1.hs37d5, MafDb.gnomADex.r2.1.GRCh38, MafDb.gnomADex.r2.1.hs37d5, MafDb.TOPMed.freeze5.hg19, MafDb.TOPMed.freeze5.hg38, MafH5.gnomAD.v4.0.GRCh38, pd.081229.hg18.promoter.medip.hx1, pd.2006.07.18.hg18.refseq.promoter, pd.2006.07.18.mm8.refseq.promoter, pd.2006.10.31.rn34.refseq.promoter, pd.charm.hg18.example, pd.feinberg.hg18.me.hx1, pd.feinberg.mm8.me.hx1, pd.mirna.3.1, phastCons100way.UCSC.hg19, phastCons100way.UCSC.hg38, phastCons7way.UCSC.hg38, SNPlocs.Hsapiens.dbSNP144.GRCh37, SNPlocs.Hsapiens.dbSNP144.GRCh38, SNPlocs.Hsapiens.dbSNP149.GRCh38, SNPlocs.Hsapiens.dbSNP150.GRCh38, SNPlocs.Hsapiens.dbSNP155.GRCh37, SNPlocs.Hsapiens.dbSNP155.GRCh38, XtraSNPlocs.Hsapiens.dbSNP144.GRCh37, XtraSNPlocs.Hsapiens.dbSNP144.GRCh38, chipenrich.data, fourDNData, leeBamViews, MethylSeqData, pd.atdschip.tiling, sesameData, SomaticCancerAlterations, spatialLIBD, seqpac, alakazam, crispRdesignR, cubar, geneHapR, geno2proteo, GenoPop, hahmmr, hoardeR, ICAMS, iimi, karyotapR, locuszoomr, lolliplot, longreadvqs, LoopRig, MAAPER, MitoHEAR, MOCHA, noisyr, numbat, oncoPredict, PACVr, RapidoPGS, refseqR, revert, rnaCrosslinkOO, RTIGER, Signac, simMP, STRMPS, tidygenomics, VALERIE
Suggests Me	annotate, AnnotationHub, BaseSpaceR, BiocGenerics, BREW3R.r, Chicago, ClassifyR, DFplyr, easylift, epivizrChart, gDRcore, gDRutils, Glimma, GWASTools, HilbertVis, HilbertVisGUI, maftools, martini, MiRaGE, multicrispr, partCNV, plyxp, regionalpcs, RTCGA, S4Vectors, SigsPack, splatter, svaNUMT, svaRetro, systemPipeR, TFutils, tidybulk, scMultiome, systemPipeRdata, xcoredata, yeastRNASeq, fuzzyjoin, gkmSVM, MARVEL, polyRAD, rliger, scPloidy, seqmagick, Seurat, sigminer, SNPassoc, updog, valr
Links To Me	Biostrings, CNEr, DECIPHER, GenomicAlignments, GenomicRanges, kebabs, MatrixRider, pwalign, Rsamtools, rtracklayer, ShortRead, SparseArray, Structstrings, triplex, VariantAnnotation, VariantFiltering, XVector
Build Report	Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	IRanges_2.41.2.tar.gz
Windows Binary (x86_64)	IRanges_2.41.2.zip (64-bit only)
macOS Binary (x86_64)	IRanges_2.41.2.tgz
macOS Binary (arm64)	IRanges_2.41.2.tgz
Source Repository	git clone https://git.bioconductor.org/packages/IRanges
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/IRanges
Bioc Package Browser	https://code.bioconductor.org/browse/IRanges/
Package Short Url	https://bioconductor.org/packages/IRanges/
Package Downloads Report	Download Stats