IRanges

DOI:10.18129 / B9.bioc.IRanges

这个包是3.16版本Bioconductor;的稳定,最新的发布版本,请参阅IRanges

在Bioconductor整数范围内操作的基础

Bioconductor版本:3.16

提供高效的底层和高度可重用的S4类存储,处理和聚合在注释范围的整数。实现了一个代数范围操作,包括高效的算法寻找重叠和最近的邻居。定义有效的类似类存储、转换和聚合大分组数据,即。、原子的集合向量和DataFrames。

作者:Herve页(aut (cre),帕特里克Aboyoun (aut),迈克尔·劳伦斯(aut)

维护人员:< hpages.on Herve页面。github在gmail.com >

从内部引用(R,回车引用(“IRanges”)):

安装

安装这个包,开始R(版本“4.2”)并输入:

如果(!要求(“BiocManager”,悄悄地= TRUE)) install.packages (“BiocManager”) BiocManager::安装(“IRanges”)

R的旧版本,请参考适当的Bioconductor释放

文档

查看文档的版本这个包安装在您的系统,开始R和输入:

browseVignettes (“IRanges”)

PDF R脚本 IRanges包的概述
PDF 参考手册
文本 新闻

细节

biocViews DataRepresentation,基础设施,软件
版本 2.32.0
Bioconductor自 BioC 2.3 (r - 2.8)(14.5年)
许可证 艺术- 2.0
取决于 R(> = 4.0.0)、方法、效用,统计数据,BiocGenerics(> = 0.39.2),S4Vectors(> = 0.33.3)
进口 stats4
链接 S4Vectors
建议 XVector,GenomicRanges,Rsamtools,GenomicAlignments,GenomicFeatures,BSgenome.Celegans.UCSC.ce2,pasillaBamSubsetRUnit,BiocStyle
SystemRequirements
增强了
URL //www.anjoumacpherson.com/packages/IRanges
BugReports https://github.com/Bioconductor/IRanges/issues
取决于我 AnnotationDbi,AnnotationHubData,BaalChIP,bambu,biomvRCNS,Biostrings,BiSeq,BSgenome,BubbleTree,bumphunter,咖啡馆,卡斯珀,CexoR,chimeraviz,ChIPComp,ChIPpeakAnno,chipseq,食典委,consensusSeekeR,CSAR,CSSQ,customProDB,deepSNV,DelayedArray,DESeq2,DEXSeq,DirichletMultinomial,DMCFB,DMCHMM,DMRcaller,epigenomix,epihet,ExCluster,exomeCopy,fCCAC,geneRxCluster,GenomeInfoDb,GenomicAlignments,GenomicDistributions,GenomicFeatures,GenomicRanges,groHMM,gtrellis,Gviz,harbChIP,HelloRanges,HiTC,IdeoViz,InTAD,LiebermanAidenHiC2009,MotifDb,NADfinder,oncoscanR,ORFik,OTUbase,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,pepStat,periodicDNA,plyranges,proBAMr,RepViz,rGADEM,rGREAT,RJMCMCNucleosomes,RNAmodR,Scale4C,范围,SGSeq,SICtools,Structstrings,TEQC,tra利用,三层,VariantTools,VplotR,XVector
进口我 ALDEx2,AllelicImbalance,高山,amplican,AneuFinder,annmap,annotatr,appreci8R,ArrayExpressHTS,ASpediaFI,ASpli,AssessORF,ATACCoGAPS,ATACseqQC,ATACseqTFEA,atena,舞会礼服,bamsignals,BasicSTARRseq,BBCAnalyzer,beadarray,BiocOncoTK,biovizBase,biscuiteer,BiSeq,BitSeq,bnbc,BPRMeth,分歧点,breakpointR,BRGenomics,BSgenome,bsseq,BUMHMM,BumpyMatrix,BUSpaRse,CAGEfightR,cageminer,篮球选手,cBioPortalData,cfDNAPro,别致的,ChIPanalyser,chipenrich,chipenrich.data,ChIPexoQual,ChIPQC,ChIPseeker,chipseq,ChIPseqR,ChIPsim,ChromHeatMap,ChromSCape,chromstaR,chromswitch,chromVAR,西塞罗,CINdex,circRNAprofiler,CircSeqAlignTk,cleanUpdTSeq,切肉刀,cn.mops,cn,CNVfilteR,CNVMetrics,CNVPanelizer,CNVRanger,CNVrd2,可可,comapr,彗星,coMethDMR,compEpiTools,ComplexHeatmap,CompoundDb,contiBAIT,conumee,copynumber,CopyNumberPlots,文案,CoverageView,crisprBase,crisprBowtie,crisprDesign,crisprScore,CRISPRseek,CrispRVariants,crisprViz,csaw,dada2,DAMEfinder,dasper,debrowser,解读,deconvR,DegNorm,DelayedMatrixStats,deltaCaptureC,derfinder,derfinderHelper,derfinderPlot,DEScan2,DiffBind,diffHic,diffUTR,DMRcate,DMRScan,dmrseq,DNAfusion,DominoEffect,dpeak,DRIMSeq,DropletUtils,dStruct,easyRNASeq,EDASeq,eisaR,埃尔默,enhancerHomologSearch,ENmix,EnrichedHeatmap,enrichTF,ensembldb,EpiCompare,epidecodeR,epigraHMM,EpiMix,epimutacions,epistack,EpiTxDb,epivizr,epivizrData,erma,esATAC,EventPointer,exomePeak2,extraChIPs,factR,FastqCleaner,fastseg,fcScan,FilterFFPE,FindIT2,鱼池,fitCons.UCSC.hg19,弗雷泽,GA4GHclient,gcapc,genbankr,geneAttribution,GeneGeneInteR,《创世纪》,GeneStructureTools,genomation,GenomAutomorphism,genomeIntervals,GenomicAlignments,GenomicDataCommons,GenomicFiles,GenomicInteractionNodes,GenomicInteractions,GenomicOZone,GenomicScores,GenomicState,GenomicTuples,genotypeeval,GenVisR,ggbio,girafe,gmapR,gmoviz,GOfuncR,还装有,哥特,gpart软件,GSVA,GUIDEseq,gwascat,h5vc,HDF5Array,的热图,爱马仕,HiCBricks,HiCcompare,HiCDCPlus,HiContacts,HilbertCurve,HTSeqGenie,蜂鸟,icetea,理想的,idr2d,ima,InPAS,检查,intansv,InteractionSet,InteractiveComplexHeatmap,感兴趣,InterMineR,ipdDb,iSEEu,IsoformSwitchAnalyzeR,isomiRs,iva,IWTomics,karyoploteR,katdetectr,leeBamViews,LinTInd,萝拉,m6Aboost,MACPET,MADSEQ,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.v3.1.1.GRCh38,MafH5.gnomAD.v3.1.2.GRCh38,微波激射器,MatrixRider,mCSEA,联合化疗,,MEDIPS,MesKit,metagene,metagene2,metaseqR2,MethCP,methimpute,methInheritSim,MethReg,methrix,methylCC,methylInheritance,methylKit,methylPipe,MethylSeekR,MethylSeqData,methylSig,methylumi,米娅,microbiomeMarker,minfi,MinimumDistance,米拉,missMethyl,MMAPPR2,Modstrings,蒙娜丽莎,马赛克,MOSim,Motif2Site,motifbreakR,motifmatchr,MouseFM,msa,MSA2dist,MsBackendMassbank,MsBackendMgf,MsBackendMsp,MsBackendRawFileReader,MsExperiment,msgbsR,MSnbase,MultiAssayExperiment,MultiDataSet,mumosa,MungeSumstats,musicatk,MutationalPatterns,NanoStringNCTools,ncRNAtools,netDx,NoRCE,normr,nucleoSim,诊断,nullranges,NxtIRFcore,奥得河,食人魔,oligoClasses,OmaDB,OMICsPCA,openPrimeR,Organism.dplyr,OrganismDbi,先驱者,packFinder,panelcn.mops,pcaExplorer,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.atdschip.tiling,pd.charm.hg18.example,pd.feinberg.hg18.me.hx1,pd.feinberg.mm8.me.hx1,pd.mirna.3.1,pdInfoBuilder,phastCons100way.UCSC.hg19,phastCons100way.UCSC.hg38,phastCons7way.UCSC.hg38,PhIPData,π,图片,,plethy,plotgardener,podkat,聚酯,pqsfinder,婴儿车,prebs,preciseTAD,PrecisionTrialDrawer,primirTSS,高伦雅芙,profileplyr,ProteoDisco,PureCN,Pviz,QDNAseq,QFeatures,qpgraph,qPLEXanalyzer,qsea,QuasR,R3CPET,r3Cseq,R453Plus1Toolbox,RaggedExperiment,ramr,RareVariantVis,Rcade,美国广播公司,rCGH,重新计票,收回,REDseq,地区,regutools,REMP,Repitools,ReportingTools,解决,rfaRm,rfPred,RgnTX,RiboCrypt,RiboDiPA,RiboProfiling,riboSeqR,ribosomeProfilingQC,RIPAT,rnaEditr,RNAmodR.AlkAnilineSeq,RNAmodR.ML,RNAmodR.RiboMethSeq,RnBeads,咆哮,rprimer,Rqc,Rsamtools,RSVSim,研制,rtracklayer,衬衣,SCAN.UPC,scanMiR,scanMiRApp,SCANVIS,SCArray,scDblFinder,散粒,scPipe,裂殖体,segmentSeq,SeqArray,seqCAT,seqPattern,seqsetvis,SeqSQC,SeqVarTools,芝麻,sesameData,sevenC,ShortRead,签名者,signifinder,SimFFPE,,SingleMoleculeFootprinting,sitadela,击杀,snapcount,SNPhood,SNPlocs.Hsapiens.dbSNP144.GRCh37,SNPlocs.Hsapiens.dbSNP144.GRCh38,SNPlocs.Hsapiens.dbSNP149.GRCh38,SNPlocs.Hsapiens.dbSNP150.GRCh38,SNPlocs.Hsapiens.dbSNP155.GRCh37,SNPlocs.Hsapiens.dbSNP155.GRCh38,soGGi,SomaticCancerAlterations,SomaticSignatures,SparseSignatures,spatialLIBD,spatzie,光谱,spicyR,,SpliceWiz,SplicingGraphs,分裂,srnadiff,斯坦,strandCheckR,StructuralVariantAnnotation,SummarizedExperiment,SynExtend,TAPseq,目标,TarSeqQC,TCGAbiolinks,TCGAutils,TCseq,TFBSTools,TFEA.ChIP,TFHAZ,TitanCNA,三硝基甲苯,tracktables,trackViewer,transcriptR,TransView,TreeSummarizedExperiment,一绺头发,三轮车,tRNA,tRNAdbImport,tRNAscanImport,tscR,TVTB,txcutr,tximeta,UMI4Cats,Uniquorn,universalmotif,VanillaICE,VarCon,VariantAnnotation,VariantExperiment,VariantFiltering,VaSP,VDJdive,wavClusteR,wiggleplotr,XCIR,xcms,xcore,XNAString,XtraSNPlocs.Hsapiens.dbSNP144.GRCh37,XtraSNPlocs.Hsapiens.dbSNP144.GRCh38,XVector,山药
建议我 注释,AnnotationHub,BaseSpaceR,BiocGenerics,芝加哥,ClassifyR,epivizrChart,Glimma,GWASTools,HilbertVis,HilbertVisGUI,maftools,马提尼,海市蜃楼,multicrispr,regionReport,RTCGA,S4Vectors,SigsPack,飞溅,svaNUMT,svaRetro,systemPipeR,systemPipeRdata,TFutils,xcoredata,yeastRNASeq
我的链接 Biostrings,cn,解读,DegNorm,GenomicAlignments,GenomicRanges,烤肉串,MatrixRider,Rsamtools,rtracklayer,ShortRead,Structstrings,三层,VariantAnnotation,VariantFiltering,XVector
构建报告

包档案

遵循bob 体育网址 指示在R会话中使用这个包。

源包 IRanges_2.32.0.tar.gz
Windows二进制 IRanges_2.32.0.zip
macOS二进制(x86_64) IRanges_2.32.0.tgz
macOS二进制(arm64) IRanges_2.32.0.tgz
源库 git克隆https://git.bioconductor.org/packages/IRanges
源库(开发人员访问) git克隆git@git.bioconductor.org:包/ IRanges
Bioc包浏览器 https://code.bioconductor.org/browse/IRanges/
包短Url //www.anjoumacpherson.com/packages/IRanges/
包下载报告 下载数据

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