GenomeInfoDb

DOI:10.18129 / B9.bioc.GenomeInfoDb

这个包是3.12版本Bioconductor;的稳定,最新的发布版本,请参阅GenomeInfoDb

公用事业公司操纵染色体的名字,包括修改他们遵循一个特定的命名风格

Bioconductor版本:3.12

包含数据和函数定义,允许翻译不同染色体序列命名约定(例如,“chr1”和“1”),包括一个函数,它试图序列名称在自然,而不是字典式的秩序。

作者:Sonali Arora,马丁·摩根,马克•卡尔森h .页面

维修工:Bioconductor包维护者<维护者bioconductor.org >

从内部引用(R,回车引用(“GenomeInfoDb”)):

安装

安装这个包,开始R(版本“4.0”)并输入:

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

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 (“GenomeInfoDb”)

PDF R脚本 GenomeInfoDb: GenomeInfoDb概论
PDF R脚本 GenomeInfoDb GenomeInfoDb:提交你的生物体
PDF 参考手册
文本 新闻
视频 简单的任务genomeInfoDb

细节

biocViews 注释,DataRepresentation,遗传学,GenomeAnnotation,软件
版本 1.26.7
Bioconductor自 BioC 2.14 (r - 3.1)(7年)
许可证 艺术- 2.0
取决于 R(> = 3.1),方法,BiocGenerics(> = 0.13.8),S4Vectors(> = 0.25.12),IRanges(> = 2.13.12)
进口 统计数据、stats4跑龙套,RCurl,GenomeInfoDbData
链接
建议 GenomicRanges,Rsamtools,GenomicAlignments,GenomicFeatures,TxDb.Dmelanogaster.UCSC.dm3.ensGene,BSgenome,BSgenome.Scerevisiae.UCSC.sacCer2,BSgenome.Celegans.UCSC.ce2,BSgenome.Hsapiens.NCBI.GRCh38,RUnit,BiocStyle,knitr
SystemRequirements
增强了
URL //www.anjoumacpherson.com/packages/GenomeInfoDb
BugReports https://github.com/Bioconductor/GenomeInfoDb/issues
取决于我 BRGenomics,BSgenome,bumphunter,ChIPComp,食典委,CSAR,eQTL,GenomicAlignments,GenomicFeatures,GenomicRanges,GenomicTuples,gmapR,groHMM,HelloRanges,IdeoViz,methyAnalysis,Rsamtools,范围,SNPlocs.Hsapiens.dbSNP141.GRCh38,SNPlocs.Hsapiens.dbSNP142.GRCh37,VariantAnnotation,XtraSNPlocs.Hsapiens.dbSNP141.GRCh38
进口我 AllelicImbalance,高山,amplican,AneuFinder,AnnotationHubData,annotatr,ASpediaFI,ATACseqQC,BaalChIP,舞会礼服,bambu,BasicSTARRseq,biovizBase,biscuiteer,BiSeq,bnbc,分歧点,breakpointR,BSgenome,bsseq,BUSpaRse,CAGEfightR,篮球选手,卡斯珀,cBioPortalData,CexoR,chimeraviz,ChIPanalyser,chipenrich,chipenrich.data,ChIPexoQual,ChIPpeakAnno,ChIPseeker,chromstaR,chromVAR,CINdex,circRNAprofiler,cleanUpdTSeq,cn.mops,cn,CNVfilteR,CNVPanelizer,CNVRanger,compEpiTools,consensusSeekeR,conumee,CopyNumberPlots,文案,CrispRVariants,csaw,customProDB,DAMEfinder,dasper,decompTumor2Sig,位深蓝,derfinder,derfinderPlot,DEScan2,DEWSeq,diffHic,diffloop,DMRcate,DMRScan,dmrseq,DominoEffect,easyRNASeq,埃尔默,ENCODExplorer,enrichTF,ensembldb,ensemblVEP,epigenomix,EpiTxDb,epivizr,epivizrData,epivizrStandalone,erma,esATAC,EventPointer,exomeCopy,exomePeak2,fitCons.UCSC.hg19,弗雷泽,FunChIP,funtooNorm,GA4GHclient,GA4GHshiny,gcapc,genbankr,geneAttribution,GenoGAM,genomation,genomeIntervals,GenomicFiles,GenomicInteractions,GenomicOZone,GenomicScores,GenomicState,genoset,genotypeeval,GenVisR,ggbio,GGtools,gmoviz,哥特,gQTLstats,grasp2db,GreyListChIP,GUIDEseq,Gviz,gwascat,h5vc,的热图,HiCBricks,HiTC,HTSeqGenie,idr2d,ima,InPAS,检查,InteractionSet,IsoformSwitchAnalyzeR,iva,karyoploteR,ldblock,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.gnomAD.r3.0.GRCh38,MafDb.gnomADex.r2.1.GRCh38,MafDb.gnomADex.r2.1.hs37d5,MafDb.TOPMed.freeze5.hg19,MafDb.TOPMed.freeze5.hg38,MafH5.gnomAD.r3.0.GRCh38,微波激射器,metagene,metagene2,metaseqR2,metavizr,MethCP,methimpute,methInheritSim,methylKit,methylPipe,MethylSeqData,methylSig,methylumi,methyvim,minfi,MinimumDistance,MMAPPR2,马赛克,motifbreakR,motifmatchr,MouseFM,msgbsR,multicrispr,multiHiCcompare,musicatk,MutationalPatterns,myvariant,NADfinder,NarrowPeaks,nearBynding,netDx,normr,诊断,OMICsPCA,ORFik,Organism.dplyr,panelcn.mops,periodicDNA,phastCons100way.UCSC.hg19,phastCons100way.UCSC.hg38,phastCons7way.UCSC.hg38,π,pipeFrame,plyranges,podkat,婴儿车,prebs,高伦雅芙,profileplyr,ProteomicsAnnotationHubData,PureCN,qpgraph,qsea,QuasR,R3CPET,r3Cseq,RaggedExperiment,RareVariantVis,Rariant,Rcade,美国广播公司,rCGH,重新计票,收回,地区,regionReport,REMP,Repitools,RiboProfiling,riboSeqR,ribosomeProfilingQC,RJMCMCNucleosomes,rnaEditr,RNAmodR,咆哮,RTCGAToolbox,rtracklayer,scmeth,颈背,segmentSeq,SeqArray,seqCAT,seqplots,seqsetvis,sevenC,SGSeq,ShortRead,签名者,SigsPack,SNPhood,SNPlocs.Hsapiens.dbSNP141.GRCh38,SNPlocs.Hsapiens.dbSNP142.GRCh37,SNPlocs.Hsapiens.dbSNP144.GRCh37,SNPlocs.Hsapiens.dbSNP144.GRCh38,SNPlocs.Hsapiens.dbSNP149.GRCh38,SNPlocs.Hsapiens.dbSNP150.GRCh38,SNPlocs.Hsapiens.dbSNP151.GRCh38,soGGi,SomaticSignatures,SparseSignatures,SplicingGraphs,分裂,srnadiff,斯坦,strandCheckR,SummarizedExperiment,TAPseq,TarSeqQC,TCGAutils,TCGAWorkflow,TFBSTools,TitanCNA,三硝基甲苯,trackViewer,transcriptR,tRNAscanImport,TSRchitect,TVTB,tximeta,TxRegInfra,Ularcirc,UMI4Cats,VanillaICE,VariantFiltering,VariantTools,vasp,VaSP,VplotR,wiggleplotr,XtraSNPlocs.Hsapiens.dbSNP141.GRCh38,XtraSNPlocs.Hsapiens.dbSNP144.GRCh37,XtraSNPlocs.Hsapiens.dbSNP144.GRCh38,YAPSA,yriMulti
建议我 AnnotationForge,AnnotationHub,BiocOncoTK,chromswitch,ExperimentHubData,gQTLBase,megadepth,methrix,parglms,QDNAseq,飞溅,StructuralVariantAnnotation,TFutils
我的链接
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 GenomeInfoDb_1.26.7.tar.gz
Windows二进制 GenomeInfoDb_1.26.7.zip
macOS 10.13(高山脉) GenomeInfoDb_1.26.7.tgz
源库 git克隆https://git.bioconductor.org/packages/GenomeInfoDb
源库(开发人员访问) git克隆git@git.bioconductor.org:包/ GenomeInfoDb
包短Url //www.anjoumacpherson.com/packages/GenomeInfoDb/
包下载报告 下载数据

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