AnnotationDbi

DOI:10.18129 / B9.bioc.AnnotationDbi

此包适用于Bioconductor 3.12版本;有关稳定的最新发布版本,请参见AnnotationDbi

在Bioconductor中操作基于sqlite的注释

Bioconductor版本:3.12

实现一个用户友好的界面,用于查询基于sqlite的注释数据包。

作者:Hervé Pagès, Marc Carlson, Seth Falcon,李年华

维护者:Bioconductor Package维护者< Maintainer at Bioconductor .org>

引文(从R内,输入引用(“AnnotationDbi”)):

安装

要安装此包,请启动R(版本“4.0”)并输入:

如果(!requireNamespace("BiocManager", quiet = TRUE)) install.packages("BiocManager")::install("AnnotationDbi")

对于R的旧版本,请参考相应的Bioconductor释放

文档

要查看系统中安装的此包版本的文档,请启动R并输入:

browseVignettes(“AnnotationDbi”)

PDF R脚本 1.简介Bioconductor注释包
PDF R脚本 2.(已弃用)如何使用".db"注释包中的bimaps
PDF 参考手册
文本 新闻
视频 使用AnnotationDb对象

细节

biocViews 注释GenomeAnnotation微阵列测序软件
版本 1.52.0
在Bioconductor BioC 2.1 (R-2.6)(13.5年)
许可证 艺术- 2.0
取决于 R(>= 2.7.0),方法,utils, stats4,BiocGenerics(> = 0.29.2),Biobase(> = 1.17.0),IRanges
进口 DBIRSQLiteS4Vectors(> = 0.9.25)
链接
建议 hgu95av2.dbGO.dborg.Sc.sgd.dborg.At.tair.dbKEGG.dbRUnitTxDb.Hsapiens.UCSC.hg19.knownGenehom.Hs.inp.dborg.Hs.eg.dbreactome.dbAnnotationForgeEnsDb.Hsapiens.v75BiocStyleknitr
SystemRequirements
增强了
URL //www.anjoumacpherson.com/packages/AnnotationDbi
BugReports https://github.com/Bioconductor/AnnotationDbi/issues
全靠我 adme16cod.dbag.dbagprobe注释AnnotationForgeAnnotationFuncsanopheles.db0arabidopsis.db0ASpliath1121501.dbath1121501probe吸引barley1probebovine.dbbovine.db0bovineprobebsubtilisprobecanine.dbcanine.db0canine2.dbcanine2probecanineprobe类别celegans.dbcelegansprobechicken.dbchicken.db0chickenprobe嵌合体chimp.db0ChromHeatMapcitrusprobeclariomdhumanprobeset.dbclariomdhumantranscriptcluster.dbclariomshumanhttranscriptcluster.dbclariomshumantranscriptcluster.dbclariomsmousehttranscriptcluster.dbclariomsmousetranscriptcluster.dbclariomsrathttranscriptcluster.dbclariomsrattranscriptcluster.dbcottonprobecustomProDB德科DEXSeqDO.dbdrosgenome1.dbdrosgenome1probedrosophila2.dbdrosophila2probeecoli2.dbecoli2probeecoliasv2probeecoliK12.db0ecoliprobeecoliSakai.db0EGSEAeisaEpiTxDbExpressionViewfly.db0GenomicFeaturesGGdataGGHumanMethCancerPanelv1.dbGO.dbGOFunctiongoProfilesGSReg吉他h10kcod.dbh20kcod.dbhcg110.dbhcg110probehgfocus.dbhgfocusprobehgu133a.dbhgu133a2.dbhgu133a2probehgu133aprobehgu133atagprobehgu133b.dbhgu133bprobehgu133plus2.dbhgu133plus2probehgu219.dbhgu219probehgu95a.dbhgu95aprobehgu95av2.dbhgu95av2probehgu95b.dbhgu95bprobehgu95c.dbhgu95cprobehgu95d.dbhgu95dprobehgu95e.dbhgu95eprobehguatlas13k.dbhgubeta7.dbhguDKFZ31.dbhgug4100a.dbhgug4101a.dbhgug4110b.dbhgug4111a.dbhgug4112a.dbhgug4845a.dbhguqiagenv3.dbhi16cod.dbhom.At.inp.dbhom.Ce.inp.dbhom.Dm.inp.dbhom.Dr.inp.dbhom.Hs.inp.dbhom.Mm.inp.dbhom.Rn.inp.dbhom.Sc.inp.dbHomo.sapienshs25kresogen.dbHs6UG171.dbHsAgilentDesign026652.dbhta20probeset.dbhta20transcriptcluster.dbhthgu133a.dbhthgu133aprobehthgu133b.dbhthgu133bprobehthgu133pluspmprobehtmg430aprobehtmg430bprobehtmg430pmprobehtrat230pmprobehtratfocusprobehu35ksuba.dbhu35ksubaprobehu35ksubb.dbhu35ksubbprobehu35ksubc.dbhu35ksubcprobehu35ksubd.dbhu35ksubdprobehu6800.dbhu6800probehuex10stprobeset.dbhuex10sttranscriptcluster.dbHuExExonProbesetLocationHuExExonProbesetLocationHg18HuExExonProbesetLocationHg19hugene10stprobeset.dbhugene10sttranscriptcluster.dbhugene10stv1probehugene11stprobeset.dbhugene11sttranscriptcluster.dbhugene20stprobeset.dbhugene20sttranscriptcluster.dbhugene21stprobeset.dbhugene21sttranscriptcluster.dbhuman.db0HuO22.dbhwgcod.dbIlluminaHumanMethylation27k.dbIlluminaHumanMethylation450kprobeilluminaHumanv1.dbilluminaHumanv2.dbilluminaHumanv2BeadID.dbilluminaHumanv3.dbilluminaHumanv4.dbilluminaHumanWGDASLv3.dbilluminaHumanWGDASLv4.dbilluminaMousev1.dbilluminaMousev1p1.dbilluminaMousev2.dbilluminaRatv1.dbindac.dbipdDbJazaeriMetaData.dbKEGG.dbLAPOINTE.dblumiHumanAll.dblumiHumanIDMappinglumiMouseAll.dblumiMouseIDMappinglumiRatAll.dblumiRatIDMappingm10kcod.dbm20kcod.dbmaizeprobemalaria.db0maPredictDSCmedicagoprobeMGFMmgu74a.dbmgu74aprobemgu74av2.dbmgu74av2probemgu74b.dbmgu74bprobemgu74bv2.dbmgu74bv2probemgu74c.dbmgu74cprobemgu74cv2.dbmgu74cv2probemguatlas5k.dbmgug4104a.dbmgug4120a.dbmgug4121a.dbmgug4122a.dbmi16cod.dbmirbase.dbmirna10probemiRNAtap中长期规划mm24kresogen.dbMmAgilentDesign026655.dbmoe430a.dbmoe430aprobemoe430b.dbmoe430bprobemoex10stprobeset.dbmoex10sttranscriptcluster.dbMoExExonProbesetLocationmogene10stprobeset.dbmogene10sttranscriptcluster.dbmogene10stv1probemogene11stprobeset.dbmogene11sttranscriptcluster.dbmogene20stprobeset.dbmogene20sttranscriptcluster.dbmogene21stprobeset.dbmogene21sttranscriptcluster.dbmouse.db0mouse4302.dbmouse4302probemouse430a2.dbmouse430a2probempedbarray.dbmta10probeset.dbmta10transcriptcluster.dbmu11ksuba.dbmu11ksubaprobemu11ksubb.dbmu11ksubbprobeMu15v1.dbmu19ksuba.dbmu19ksubb.dbmu19ksubc.dbMu22v3.dbMus.musculusmwgcod.dbNorway981.dbnugohs1a520180.dbnugohs1a520180probenugomm1a520177.dbnugomm1a520177probeOperonHumanV3.dborg.Ag.eg.dborg.At.tair.dborg.Bt.eg.dborg.Ce.eg.dborg.Cf.eg.dborg.Dm.eg.dborg.Dr.eg.dborg.EcK12.eg.dborg.EcSakai.eg.dborg.Gg.eg.dborg.Hs.eg.dborg.Mm.eg.dborg.Mmu.eg.dborg.Mxanthus.dborg.Pf.plasmo.dborg.Pt.eg.dborg.Rn.eg.dborg.Sc.sgd.dborg.Ss.eg.dborg.Xl.eg.dbOrganismDbipaeg1aprobePANTHER.dbPartheenMetaData.dbpathRenderpedbarrayv10.dbpedbarrayv9.dbPFAM.dbPGSEApig.db0plasmodiumanophelesprobePOCRCannotation.dbpoplarprobeporcine.dbporcineprobeprimeviewprobeproBAMrr10kcod.dbrae230a.dbrae230aproberae230b.dbrae230bproberaex10stprobeset.dbraex10sttranscriptcluster.dbRaExExonProbesetLocationragene10stprobeset.dbragene10sttranscriptcluster.dbragene10stv1proberagene11stprobeset.dbragene11sttranscriptcluster.dbragene20stprobeset.dbragene20sttranscriptcluster.dbragene21stprobeset.dbragene21sttranscriptcluster.dbrat.db0rat2302.dbrat2302proberattoxfxprobeRattus.norvegicusreactome.dbrgu34a.dbrgu34aprobergu34b.dbrgu34bprobergu34c.dbrgu34cproberguatlas4k.dbrgug4105a.dbrgug4130a.dbrgug4131a.dbrhesus.db0rhesusproberi16cod.dbriceprobeRnAgilentDesign028282.dbrnaseqGenernu34.dbrnu34probeRoberts2005Annotation.dbRpsiXMLrta10probeset.dbrta10transcriptcluster.dbrtu34.dbrtu34proberwgcod.db安全saureusprobeSemDistSHDZ.dbsoybeanprobesugarcaneprobetargetscan.Hs.eg.dbtargetscan.Mm.eg.dbtest3probetinesath1probetomatoprobetopGOu133x3p.dbu133x3pprobevitisviniferaprobewheatprobeworm.db0xenopus.db0xenopuslaevisprobexlaevis.dbxlaevis2probextropicalisprobeyeast.db0yeast2.dbyeast2probeygs98.dbygs98probezebrafish.dbzebrafish.db0zebrafishprobe
进口我 adme16cod.dbadSplitaffycoretoolsaffylmGUIag.dbagcdfAllelicImbalanceannaffyAnnotationHubAnnotationHubDataannotatranopheles.db0arabidopsis.db0artMSath1121501.dbath1121501cdfbarley1cdfbeadarrayBiocSetbiomaRt生命网络biovizBasebovine.dbbovine.db0bovinecdfbsubtiliscdfbumphunterBUSpaRseCancerMutationAnalysiscanine.dbcanine.db0canine2.dbcanine2cdfcaninecdf狂欢节categoryCompareccmapcelegans.dbceleganscdfcelldexcellitychicken.dbchicken.db0chickencdfchimeravizchimp.db0chipenrichchipenrich.dataChIPpeakAnnoChIPseekercitruscdfclariomdhumanprobeset.dbclariomdhumantranscriptcluster.dbclariomshumanhttranscriptcluster.dbclariomshumantranscriptcluster.dbclariomsmousehttranscriptcluster.dbclariomsmousetranscriptcluster.dbclariomsrathttranscriptcluster.dbclariomsrattranscriptcluster.dbclusterProfilerCoCiteStatscompEpiToolsconsensusDEcottoncdfcrisprseekplusCrispRVariantscrossmetacsawcyp450cdfDAPARdebrowserderfinderDeSousa2013DO.dbDominoEffect剂量drosgenome1.dbdrosgenome1cdfdrosophila2.dbdrosophila2cdfecoli2.dbecoli2cdfecoliasv2cdfecolicdfecoliK12.db0ecoliSakai.db0EDASeqeegceisaREnrichmentBrowserensembldbermaesATACExpressionViewFDb.FANTOM4.promoters.hg19FDb.InfiniumMethylation.hg18FDb.InfiniumMethylation.hg19FDb.UCSC.snp135common.hg19FDb.UCSC.snp137common.hg19FDb.UCSC.tRNAsfly.db0弗雷泽GA4GHshinyGAPGOMgenefiltergeneplotterGeneTonicgeneXtendeRGenomicStateGenVisRGGBaseggbioGGHumanMethCancerPanelv1.dbGGtoolsGlobalAncovaglobaltestGmicRGO.dbGOfuncRGOFunction还装有GOSemSimgoseqGOSimgoSTAGGOstatsgoToolsgp53cdfgpart软件gQTLstats石墨GSEABaseGSEABenchmarkeRGvizgwascath10kcod.dbh20kcod.dbhcg110.dbhcg110cdfhgfocus.dbhgfocuscdfhgu133a.dbhgu133a2.dbhgu133a2cdfhgu133acdfhgu133atagcdfhgu133b.dbhgu133bcdfhgu133plus2.dbhgu133plus2cdfhgu219.dbhgu219cdfhgu95a.dbhgu95acdfhgu95av2.dbhgu95av2cdfhgu95b.dbhgu95bcdfhgu95c.dbhgu95ccdfhgu95d.dbhgu95dcdfhgu95e.dbhgu95ecdfhguatlas13k.dbhgubeta7.dbhguDKFZ31.dbhgug4100a.dbhgug4101a.dbhgug4110b.dbhgug4111a.dbhgug4112a.dbhgug4845a.dbhguqiagenv3.dbhi16cod.dbhivprtplus2cdfhom.At.inp.dbhom.Ce.inp.dbhom.Dm.inp.dbhom.Dr.inp.dbhom.Hs.inp.dbhom.Mm.inp.dbhom.Rn.inp.dbhom.Sc.inp.dbHomo.sapienshs25kresogen.dbHs6UG171.dbHsAgilentDesign026652.dbHspechspeccdfhta20probeset.dbhta20transcriptcluster.dbhthgu133a.dbhthgu133acdfhthgu133b.dbhthgu133bcdfhthgu133pluspmcdfhtmg430acdfhtmg430bcdfhtmg430pmcdfhtrat230pmcdfhtratfocuscdfhu35ksuba.dbhu35ksubacdfhu35ksubb.dbhu35ksubbcdfhu35ksubc.dbhu35ksubccdfhu35ksubd.dbhu35ksubdcdfhu6800.dbhu6800cdfhu6800subacdfhu6800subbcdfhu6800subccdfhu6800subdcdfhuex10stprobeset.dbhuex10sttranscriptcluster.dbhugene10stprobeset.dbhugene10sttranscriptcluster.dbhugene10stv1cdfhugene11stprobeset.dbhugene11sttranscriptcluster.dbhugene20stprobeset.dbhugene20sttranscriptcluster.dbhugene21stprobeset.dbhugene21sttranscriptcluster.dbhuman.db0HuO22.dbhwgcod.db理想的IlluminaHumanMethylation27k.dbilluminaHumanv1.dbilluminaHumanv2.dbilluminaHumanv2BeadID.dbilluminaHumanv3.dbilluminaHumanv4.dbilluminaHumanWGDASLv3.dbilluminaHumanWGDASLv4.dbilluminaMousev1.dbilluminaMousev1p1.dbilluminaMousev2.dbilluminaRatv1.dbimaindac.dbInPASinteractiveDisplayisomiRsivaJazaeriMetaData.dbkaryoploteRKEGG.dbKEGGlincskeggorthologyKEGGprofileLAPOINTE.dbLRBaseDbi光民lumiHumanAll.dblumiHumanIDMappinglumiMouseAll.dblumiMouseIDMappinglumiRatAll.dblumiRatIDMappingm10kcod.dbm20kcod.dbmaizecdfmalaria.db0mAPKLMCbiclustmdgsamedicagocdfMeSHDbi网格MesKitMetaboSignalmethyAnalysismethylGSAmethylumimgu74a.dbmgu74acdfmgu74av2.dbmgu74av2cdfmgu74b.dbmgu74bcdfmgu74bv2.dbmgu74bv2cdfmgu74c.dbmgu74ccdfmgu74cv2.dbmgu74cv2cdfmguatlas5k.dbmgug4104a.dbmgug4120a.dbmgug4121a.dbmgug4122a.dbmi16cod.dbMIGSAMineICA海市蜃楼mirbase.dbmiRBaseVersions.dbmirIntegratormirna102xgaincdfmirna10cdfmirna20cdfmiRNAmeConvertermiRNAtap.dbmissMethylmm24kresogen.dbMmAgilentDesign026655.dbmoe430a.dbmoe430acdfmoe430b.dbmoe430bcdfmoex10stprobeset.dbmoex10sttranscriptcluster.dbmogene10stprobeset.dbmogene10sttranscriptcluster.dbmogene10stv1cdfmogene11stprobeset.dbmogene11sttranscriptcluster.dbmogene20stprobeset.dbmogene20sttranscriptcluster.dbmogene21stprobeset.dbmogene21sttranscriptcluster.dbmouse.db0mouse4302.dbmouse4302cdfmouse430a2.dbmouse430a2cdfmpedbarray.dbMSEADbiMSnIDmta10probeset.dbmta10transcriptcluster.dbmu11ksuba.dbmu11ksubacdfmu11ksubb.dbmu11ksubbcdfMu15v1.dbmu19ksuba.dbmu19ksubacdfmu19ksubb.dbmu19ksubbcdfmu19ksubc.dbmu19ksubccdfMu22v3.dbmu6500subacdfmu6500subbcdfmu6500subccdfmu6500subdcdfmultiGSEAmultiMiRMus.musculusmwgcod.dbNanoMethVizNanoStringQCPronanotatoRNoRCENorway981.dbnugohs1a520180.dbnugohs1a520180cdfnugomm1a520177.dbnugomm1a520177cdf奥纳西斯ontoProcOperonHumanV3.dbORFikorg.Ag.eg.dborg.At.tair.dborg.Bt.eg.dborg.Ce.eg.dborg.Cf.eg.dborg.Dm.eg.dborg.Dr.eg.dborg.EcK12.eg.dborg.EcSakai.eg.dborg.Gg.eg.dborg.Hs.eg.dborg.Mm.eg.dborg.Mmu.eg.dborg.Pf.plasmo.dborg.Pt.eg.dborg.Rn.eg.dborg.Sc.sgd.dborg.Ss.eg.dborg.Xl.eg.dbOrganism.dplyrPADOGpaeg1acdfPartheenMetaData.dbpathviewPathwaySplicepcaExplorerPCphenopedbarrayv10.dbpedbarrayv9.dbPFAM.dbPGAphantasusphenoTestpig.db0plasmodiumanophelescdfPOCRCannotation.dbPolyP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建议我 APAlyzerbambuBiocCaseStudiesBiocGenericsBiocOncoTKBloodCancerMultiOmics2017CellTrails西塞罗可乐curatedAdipoChIPDEGreport刨边机enrichplotesetVis小伙子FGNetfgseaGA4GHclientgCrisprToolsGeneAnswersGeneRegionScanGenomicRangesiSEEulimmamiRLABMmPalateMiRNAMutationalPatterns益生元先驱者钢琴PigengenepRolocqcmetricsR3CPET重新计票RforProteomicsRGalaxysigPathwaySummarizedExperimentTFutilstidybulktopconfectsweitrixwiggleplotr
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源包 AnnotationDbi_1.52.0.tar.gz
Windows二进制 AnnotationDbi_1.52.0.zip
macOS 10.13 (High Sierra) AnnotationDbi_1.52.0.tgz
源库 git克隆https://git.bioconductor.org/packages/AnnotationDbi
源存储库(开发人员访问) git克隆git@git.bioconductor.org:packages/AnnotationDbi
包短Url //www.anjoumacpherson.com/packages/AnnotationDbi/
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