AnnotationDbi

DOI:10.18129 / B9.bioc.AnnotationDbi

这是发展版本的AnnotationDBI;对于稳定的版本版本,请参阅AnnotationDbi

Bioconductor中基于sqlite的注释的操作

Bioconductor版本:开发(3.13)

实现查询基于sqlite的注释数据包的用户友好界面。

作者:HervéPagès,Marc Carlson,Seth Falcon,Nianhua Li

Maintainer: Bioconductor Package Maintainer < Maintainer at Bioconductor。org>

引文(从R中输入引用(“AnnotationDbi”)):

安装

要安装此软件包,请启动R(版本“4.1”)并输入:

if(!carcenamespace(“biocmanager”,squally = true))install.packages(“biocmanager”)#下面初始化buoc devel biocmanager :: install的使用(版本='devel')biocmanager ::安装(“annotationdbi”)

对于旧版本,请参阅相应的Bioconductor释放

文档

要查看系统中安装此包版本的文档,请启动r并输入:

BROWSEVIGNETTES(“AnnotationDBI”)

PDF r script. 1.生物导体注释包简介
PDF r script. 2.(已弃用)如何使用来自“.db”注释包的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 1.53.2.
Bioconductor自 BIOC 2.1(R-2.6)(13.5岁)
执照 艺术-2.0
依靠 R (>= 2.7.0), methods, utils, stats4,BiocGenerics(> = 0.29.2),Biobase(> = 1.17.0),绞喉
进口 DBI.rsqlite.S4Vectors.(> = 0.9.25),统计数据,KEGGREST
链接到
建议 hgu95av2.db.GO.dborg.Sc.sgd.dborg.at.tair.db.运行TxDb.Hsapiens.UCSC.hg19.knownGeneorg.hs.eg.db.reactome.dbAnnotationForgeensdb.hsapiens.v75.BiocStylekn
SystemRequirements
加强
URL. //www.anjoumacpherson.com/packages/AnnotationDbi
Bugreports. https://github.com/Bioconductor/AnnotationDbi/issues
取决于我 adme16cod.dbag.db.agprobe.注释AnnotationForgeannotationfuncs.anopheles.db0.rabidopsis.db0.Aspli.ATH1121501.DB.ath1121501probe吸引Barley1probe.Bovine.DB.Bovine.db0.bovineprobebsubtilisprobe.canine.db.Canine.db0.canine2.dbcanine2probeCanineProbe.类别celegans.dbcelegansprobechicken.dbchicken.db0鸡工厂chimp.db0ChromHeatMapCitrusprobe.clariomdhumanprobeset.dbclariomdhumantranscriptcluster.db.clariomshumanhttranscriptcluster.db.clariomshumantranscriptcluster.dbclariomsmousehttranscriptcluster.db.clariomsmousetranscriptcluster.db.clariomsrathttranscriptcluster.db.clariomsrattranscriptcluster.db棉花工程customProDB德科DEXSeqDO.dbdrosgenome1.db.drosgenome1probe.drosophila2.db果蝇Ecoli2.db.Ecoli2probe.Ecoliasv2probe.Ecolik12.db0.ecoliprobe.Ecolisakai.db0.EGSEA.艾莎EpiTxDbExpressionViewfly.db0.基因组法gghumanmethcancerpanelv1.db.GO.dbGoprofiles.GSReg吉他h10kcod.dbH20KCOD.DB.hcg110.dbhcg110probehgfocus.dbhgfocusprobe.hgu133a.db.hgu133a2.db.hgu133a2probe.hgu133aprobe.hgu133atagprobe.hgu133b.db.hgu133bprobe.hgu133plus2.db.hgu133plus2probe.hgu219.db.hgu219probe.hgu95a.db.hgu95aprobe.hgu95av2.db.hgu95av2probe.hgu95b.db.hgu95bprobe.hgu95c.dbhgu95cprobe.hgu95d.dbhgu95dprobehgu95e.db.hgu95eprobehguatlas13k.db.hgubeta7.dbhguDKFZ31.dbhgug4100a.db.hgug4101a.db.hgug4110b.db.hgug4111a.db.hgug4112a.db.hgug4845a.dbHguqiagenv3.db.hi16cod.db.homo.sapiens.hs25kresogen.db.Hs6UG171.dbHsAgilentDesign026652.dbhta20probeset.dbhta20transcriptcluster.db.hthgu133a.db.hthgu133aprobe.hthgu133b.db.hthgu133bprobe.hthgu133pluspmprobehtmg430aprobe.htmg430bprobe.htmg430pmprobeHTRAT230PMPROBE.htratfocusprobehu35ksuba.db.hu35ksubaprobehu35ksubb.db.hu35ksubbprobehu35ksubc.dbhu35ksubcprobe.hu35ksubd.db.hu35ksubdprobe.hu6800.db.hu6800probehuex10stprobeset.dbhuex10sttranscriptcluster.dbHuExExonProbesetLocationHuExExonProbesetLocationHg18HuExExonProbesetLocationHg19hugene10stprobeset.dbhugene10sttranscript cluster.db.Hugene10Stv1probe.hugene11stprobeset.db.hugene11sttranscriptcluster.db.hugene20stprobeset.db.hugene20sttranscriptcluster.dbhugene21stprobeset.dbhugene21sttranscriptcluster.db.Human.db0.HUO22.DB.hwgcod.dbIlluminaHumanMethylation27k.dbIlluminaHumanMethylation450kprobeilliminahumanv1.db.illuminaHumanv2.dbilluminahumanv2beadid.db.illuminahumanv3.db.illiminahumanv4.db.illuminahumanwgdaslv3.db.illuminahumanwgdaslv4.db.Illuminamousev1.db.Illuminamousev1p1p1.db.Illuminamousev2.db.Illuminaratv1.db.indac.dbIPDDB.jazaerimetadata.db.LAPOINTE.dblumiHumanAll.dblumihumanidmapppinglumiMouseAll.dblumiMouseIDMappinglumiRatAll.dblumiratidmappingm10kcod.db.m20kcod.dbMaizeProbe.malaria.db0mapredictdsc.Medicogopobe.MGFMmgu74a.db.mgu74aprobe.mgu74av2.dbmgu74av2probe.mgu74b.db.mgu74bprobemgu74bv2.db.mgu74bv2probe.mgu74c.dbmgu74cprobemgu74cv2.db.mgu74cv2probe.mguatlas5k.db.mgug4104a.db.mgug4120a.dbmgug4121a.dbmgug4122a.db.mi16cod.db.mirbase.db.miRNA10probe.miRNAtapmm24kresogen.dbMmAgilentDesign026655.dbmoe430a.db.moe430aprobemoe430b.db.moe430bprobe.moex10stprobeset.dbmoex10sttranscriptcluster.db.moexexonprobesetlocation.mogene10stprobeset.db.mogene10sttranscriptcluster.dbmogene10stv1probemogene11stprobeset.db.mogene11sttranscriptcluster.dbmogene20stprobeset.db.mogene20sttranscriptcluster.db.mogene21stprobeset.db.mogene21sttranscriptcluster.db.mouse.db0mouse4302.db.鼠标4302probe.mouse430a2.dbmouse430a2probe.mpedbarray.dbmta10probeset.dbmta10transcriptcluster.dbmu11ksuba.db.mu11ksubaprobe.mu11ksubb.dbmu11ksubbprobe.mu15v1.db.mu19ksuba.db.mu19ksubb.dbmu19ksubc.db.mu22v3.db.Mus.musculusmwgcod.db.挪威981.db.nugohs1a520180.db.nugohs1a520180probenugomm1a520177.db.nugomm1a520177probe.operonhumanv3.db.org.Ag.eg.dborg.at.tair.db.org.Bt.eg.dborg.Ce.eg.dborg.cf.eg.db.org.Dm.eg.dborg.Dr.eg.dborg.eck12.eg.db.org.ecsakai.eg.db.org.Gg.eg.dborg.hs.eg.db.org.mm.eg.db.org.Mmu.eg.dborg.mxanthus.db.org.pf.plasmo.db.org.Pt.eg.dborg.rn.eg.db.org.Sc.sgd.dborg.Ss.eg.dborg.xl.eg.db.OrganismDbiPaeg1aprobe.PANTHER.dbpartheenmetadata.db.pathRenderpedbarrayv10.dbpedbarrayv9.db.pfam.db.pig.db0Plasmodiumanophelesprobe.pocrcannotation.db.Poplarprobe.porcine.dbPorcineProbe.primeviewprobe.验证r10kcod.db.Rae230a.db.Rae230aprobe.Rae230b.db.rae230bprobe.raex10stprobeset.db.raex10sttranscriptcluster.db.RaexexonProbesetLocation.ragene10stprobeset.dbragene10sttranscriptcluster.db.Ragene10stv1probe.ragene11stprobeset.dbragene11sttranscriptcluster.db.ragene20stprobeset.dbragene20sttranscriptcluster.db.ragene21stprobeset.dbragene21sttranscriptcluster.db.rat.db0.rat2302.db.rat2302proberattoxfxproberattus.norvegicus.reactome.dbrgu34a.db.Rgu34aprobe.rgu34b.dbRGU34BPROBE.rgu34c.db.rgu34cprobeRguatlas4k.db.rgug4105a.dbrgug4130a.db.rgug4131a.dbrhesuus.db0.rhehusprobe.RI16COD.DB.大米RnAgilentDesign028282.dbrnaseqgene.rnu34.dbrnu34probeRoberts2005Annotation.dbRTA10Probeset.dB.RTA10TranscriptCluster.db.RTU34.DB.RTU34Probe.rwgcod.db.安全的萨鲁斯百货讽刺shdz.db.soybeanprobesugarcaneprobetargetscan.Hs.eg.dbtargetscan.mm.eg.db.test3probe.tinesath1probeTomatopobe.顶点U133x3p.db.u133x3pprobevitisviniferaprobe.Wheatprobe.WORM.DB0.xenopus.db0Xenopuslaevisprobe.xlaevis.db.xlaevis2probe.Xtropicalisprobe.yeast.db0.yeast2.db.yeast2probeygs98.dbYGS98Probe.zebrafish.dbZebrafish.db0.zebrafishprobe
进口我 adme16cod.dbadsplit.affycoretools聘请圭圭ag.db.agcdf.等位基因矛纪andaffy.annotationhub.AnnotationHubDataannotatr.anopheles.db0.rabidopsis.db0.artMSATH1121501.DB.ATH1121501CDF.巴利1CDF.Beadarray.生物集生物雕生命网络biovizBaseBovine.DB.Bovine.db0.Bovinecdf.bsubtiriscdf.Bumphunter.海滩癌变分析canine.db.Canine.db0.canine2.dbcanine2cdfCaninecdf.CompoundationCompare.CCMAP.celegans.dbceleganscdf.celldex.cellitychicken.dbchicken.db0chickencdfChimeraviz.chimp.db0chipenrichchipenrich.dataChIPpeakAnnoChIPseekercitruscdfclariomdhumanprobeset.dbclariomdhumantranscriptcluster.db.clariomshumanhttranscriptcluster.db.clariomshumantranscriptcluster.dbclariomsmousehttranscriptcluster.db.clariomsmousetranscriptcluster.db.clariomsrathttranscriptcluster.db.clariomsrattranscriptcluster.dbClusterProfiler.椰子COMPETOOLS.结论consensusDEcosmosr.Cottoncdf.Crisprseekplus.Crisprvariants.crossmetaCYP450CDF.DAPARdebrowser德内捷德desousa2013DO.dbDominoEffect剂量drosgenome1.db.drosgenome1cdfdrosophila2.dbdrosophila2cdfEcoli2.db.Ecoli2CDF.ecoliasv2cdfecolicdfEcolik12.db0.Ecolisakai.db0.edaseq.EEGC.enrichmentbrowser.EnsembldB.ermaesatac.exphuntersuite.ExpressionViewfdb.fantom4.promoters.hg19.FDB.INFINUIUM甲基化.HG18Fdb.infiniummethylation.hg19.FDb.UCSC.snp135common.hg19fdb.ucsc.snp137common.hg19.FDb.UCSC.tRNAsfly.db0.弗雷泽Ga4ghshiny.Gapgom.genefiltergeneplottergenetonic.Genextender.基因组Genvisr.GGBIO.gghumanmethcancerpanelv1.db.Globalancova全球化境GmicRGO.dbGofuncr.还装有Gosemsim.goseqGOSIM古典古司裤goolsgp53cdfgpart软件石墨GSEABaseGSEABENCHMARMARR.GVIZ.Gwascath10kcod.dbH20KCOD.DB.hcg110.dbHCG110CDF.hgfocus.dbhgfocuscdfhgu133a.db.hgu133a2.db.hgu133a2cdf.hgu133acdfhgu133atagcdfhgu133b.db.hgu133bcdfhgu133plus2.db.hgu133plus2cdf.hgu219.db.hgu219cdf.hgu95a.db.hgu95acdfhgu95av2.db.hgu95av2cdf.hgu95b.db.hgu95bcdf.hgu95c.dbhgu95ccdfhgu95d.dbhgu95dcdf.hgu95e.db.hgu95ecdf.hguatlas13k.db.hgubeta7.dbhguDKFZ31.dbhgug4100a.db.hgug4101a.db.hgug4110b.db.hgug4111a.db.hgug4112a.db.hgug4845a.dbHguqiagenv3.db.hi16cod.db.HIVPRTPLUS2CDF.homo.sapiens.hs25kresogen.db.Hs6UG171.dbHsAgilentDesign026652.dbHSPEC.hspeccdf.hta20probeset.dbhta20transcriptcluster.db.hthgu133a.db.hthgu133acdfhthgu133b.db.hthgu133bcdf.hthgu133pluspmcdfhtmg430acdf.htmg430bcdfhtmg430pmcdf.HTRAT230PMCDF.htratfocuscdfhu35ksuba.db.hu35ksubacdf.hu35ksubb.db.hu35ksubbcdfhu35ksubc.dbhu35ksubccdf.hu35ksubd.db.hu35ksubdcdfhu6800.db.HU6800CDF.hu6800subacdf.hu6800subbcdf.hu6800subccdfhu6800subdcdf.huex10stprobeset.dbhuex10sttranscriptcluster.dbhugene10stprobeset.dbhugene10sttranscript cluster.db.Hugene10stv1cdf.hugene11stprobeset.db.hugene11sttranscriptcluster.db.hugene20stprobeset.db.hugene20sttranscriptcluster.dbhugene21stprobeset.dbhugene21sttranscriptcluster.db.Human.db0.HUO22.DB.hwgcod.db理想的IlluminaHumanMethylation27k.dbilliminahumanv1.db.illuminaHumanv2.dbilluminahumanv2beadid.db.illuminahumanv3.db.illiminahumanv4.db.illuminahumanwgdaslv3.db.illuminahumanwgdaslv4.db.Illuminamousev1.db.Illuminamousev1p1p1.db.Illuminamousev2.db.Illuminaratv1.db.IMAS.indac.dbInPASinteractiveDisplayIRISFGMisomiRsIVAS.jazaerimetadata.db.Karyploter.Kegglincs.Kogcorthology.keggfrofile.LAPOINTE.dbLRBaseDbi光民lumiHumanAll.dblumihumanidmapppinglumiMouseAll.dblumiMouseIDMappinglumiRatAll.dblumiratidmappingm10kcod.db.m20kcod.dbmaizecdfmalaria.db0mapkl.麦克巴斯特MDGSA.medicagocdfMeSHDbi网格meskit.MetaboSignal甲烷分析甲基葡萄酒弥撒mgu74a.db.mgu74acdfmgu74av2.dbmgu74av2cdfmgu74b.db.mgu74bcdf.mgu74bv2.db.mgu74bv2cdfmgu74c.dbmgu74ccdf.mgu74cv2.db.mgu74cv2cdfmguatlas5k.db.mgug4104a.db.mgug4120a.dbmgug4121a.dbmgug4122a.db.mi16cod.db.米格莎MineICA幻影mirbase.db.mirbaseversions.db.mirIntegratormiRNA102xgaincdf.miRNA10CDF.miRNA20CDF.MirnameConverter.mirnatap.db.missMethylMLP.mm24kresogen.dbMmAgilentDesign026655.dbmoe430a.db.moe430acdf.moe430b.db.moe430bcdfmoex10stprobeset.dbmoex10sttranscriptcluster.db.mogene10stprobeset.db.mogene10sttranscriptcluster.dbmogene10stv1cdf.mogene11stprobeset.db.mogene11sttranscriptcluster.dbmogene20stprobeset.db.mogene20sttranscriptcluster.db.mogene21stprobeset.db.mogene21sttranscriptcluster.db.mouse.db0mouse4302.db.mouse4302cdf.mouse430a2.dbmouse430a2cdfmpedbarray.dbmseadbi.msigdbmsnid.mta10probeset.dbmta10transcriptcluster.dbmu11ksuba.db.mu11ksubacdfmu11ksubb.dbmu11ksubbcdf.mu15v1.db.mu19ksuba.db.mu19ksubacdfmu19ksubb.dbmu19ksubbcdf.mu19ksubc.db.mu19ksubccdf.mu22v3.db.mu6500subacdfmu6500subbcdfmu6500subccdf.mu6500subdcdfmultigsea.multiMiRMus.musculusmwgcod.db.nanomethviznanostringqcpro.纳米座NetSAM诺斯挪威981.db.nugohs1a520180.db.nugohs1a520180cdf.nugomm1a520177.db.nugomm1a520177cdf.奥纳西斯ontoProcoperonhumanv3.db.orfik.org.Ag.eg.dborg.at.tair.db.org.Bt.eg.dborg.Ce.eg.dborg.cf.eg.db.org.Dm.eg.dborg.Dr.eg.dborg.eck12.eg.db.org.ecsakai.eg.db.org.Gg.eg.dborg.hs.eg.db.org.mm.eg.db.org.Mmu.eg.dborg.pf.plasmo.db.org.Pt.eg.dborg.rn.eg.db.org.Sc.sgd.dborg.Ss.eg.dborg.xl.eg.db.有机族牧伙伴paeg1acdfpartheenmetadata.db.Pathview.pcaExplorerPCHENO.pedbarrayv10.dbpedbarrayv9.db.pfam.db.幻想phenoTestpig.db0plasmodiumanophelescdf.pocrcannotation.db.polyphen.hsapiens.dbsnp131poplarcdf.porcine.dbporcinecdf.ppidata.primeviewcdf.Proactiv.Psichomics.粉末QPGraph..QuasRr10kcod.db.Rae230a.db.rae230acdfRae230b.db.rae230bcdfraex10stprobeset.db.raex10sttranscriptcluster.db.ragene10stprobeset.dbragene10sttranscriptcluster.db.ragene10stv1cdfragene11stprobeset.dbragene11sttranscriptcluster.db.ragene20stprobeset.dbragene20sttranscriptcluster.db.ragene21stprobeset.dbragene21sttranscriptcluster.db.rat.db0.rat2302.db.rat2302cdf.rattoxfxcdfrattus.norvegicus.rcgh.reactome.db反弹Redseq.regutoolsReportingTools.restfulSErgsepdrgu34a.db.rgu34acdf.rgu34b.dbRGU34BCDF.rgu34c.db.rgu34ccdf.Rguatlas4k.db.rgug4105a.dbrgug4130a.db.rgug4131a.dbrhesuus.db0.rhesuscdf.RI16COD.DB.RibosomeProfiling QCricecdfrmir​​.hs.mirna.RmiR.hsaRNAAgeCalcRnAgilentDesign028282.dbrnu34.dbrnu34cdfRoberts2005Annotation.dbrpsixml.RRVGO.RTA10Probeset.dB.RTA10TranscriptCluster.db.rtrm.RTU34.DB.rtu34cdfrwgcod.db.SBGNviewscisi.SCPIPE.scrnapeq.颈背SCTERSOR.SGSEQ.shdz.db.sift.hsapiens.dbsnp132sift.hsapiens.dbsnp137signatureSearchsimplifyEnrichmentsinglecelltk.SLGI.soybeancdf蜘蛛侠Starbiotrek.SubcellBarCode.Sugarcanecdf.targetscan.Hs.eg.dbtargetscan.mm.eg.db.TCGAutilstenxplore.test1cdf.test2cdf.test3cdf.tigreTomatocdf.trackViewer特纳三轮车txdb.athalana.biomart.plantsmart22.txdb.athalana.biomart.plantsmart25.txdb.athalana.biomart.plantsmart28TxDb.Btaurus.UCSC.bosTau8.refGenetxdb.btaurus.ucsc.bostau9.refgene.txdb.celegans.ucsc.CE11.ensgene.txdb.celegans.ucsc.ce11.refgene.txdb.celegans.ucsc.CE6.ensgene.txdb.cfamiliaris.ucsc.canfam3.refgene.TxDb.Dmelanogaster.UCSC.dm3.ensGeneTxDb.Dmelanogaster.UCSC.dm6.ensGenetxdb.drerio.ucsc.danrer10.refgene.txdb.drerio.ucsc.danrer11.refgene.txdb.ggallus.ucsc.galgal4.refgene.TxDb.Ggallus.UCSC.galGal5.refGenetxdb.ggallus.ucsc.galgal6.refgene.txdb.hsapiens.biomart.igis.txdb.hsapiens.ucsc.hg18.knowngene.TxDb.Hsapiens.UCSC.hg19.knownGeneTxDb.Hsapiens.UCSC.hg19.lincRNAsTranscriptstxdb.hsapiens.ucsc.hg38.knowngene.txdb.hsapiens.ucsc.hg38.refgene.txdb.mmulatta.ucsc.Rhemac10.refgene.TxDb.Mmulatta.UCSC.rheMac3.refGenetxdb.mmulatta.ucsc.rhemac8.refgene.TxDb.Mmusculus.UCSC.mm10.ensGenetxdb.mmusculus.ucsc.mm10.knowngene.txdb.mmusculus.ucsc.mm39.refgene.TxDb.Mmusculus.UCSC.mm9.knownGenetxdb.ptroglodytes.ucsc.pantro4.refgene.txdb.ptroglodytes.ucsc.pantro5.refgene.TxDb.Ptroglodytes.UCSC.panTro6.refGenetxdb.rnorvegicus.biomart.igis.txdb.rnorvegicus.ucsc.rn4.ensgene.txdb.rnorvegicus.ucsc.rn5.refgene.TxDb.Rnorvegicus.UCSC.rn6.ncbiRefSeqtxdb.rnorvegicus.ucsc.rn6.refgene.txdb.scerevisiae.ucsc.saccer2.sgden.TxDb.Scerevisiae.UCSC.sacCer3.sgdGeneTxDb.Sscrofa.UCSC.susScr11.refGenetxdb.scrofa.ucsc.susscr3.refgene.tximeta.U133AAOFAV2CDF.U133x3p.db.U133X3PCDF.ularcircUniprot.ws.VariantAnnotation.变型滤波器毕验法vitisviniferacdf.Wheatcdf.WORM.DB0.xenopus.db0Xenopuslaeviscdf.xlaevis.db.xlaevis2cdf.XTropicalIscdf.ye6100subacdf.ye6100subbcdf.ye6100subccdf.ye6100subdcdf.yeast.db0.yeast2.db.yeast2cdf.ygs98.dbygs98cdfzebrafish.dbZebrafish.db0.Zebrafishcdf.
建议我 Apalyzer.自主学Bambu.Bioccasestudies.BiocGenericsBioconcotk.Bloodcancermultiomics2017蜂窝线西塞罗可乐csaw施用adipochip.重新评估edger.Eisar.enrichplotesetvis.小伙子FGNet.FGSEA.Ga4ghclient.Gcrisprtools.Geneanswers.Generegionscan.Genomicranges.Iseeu.林马miRLABMutationalPatternsoligo.先驱者钢琴鸽子ProMoC.Quantiseqr.R3CPET.叙事RforProteomicsrgalaxy.SigPathway.概括分析TFutilsTidybulk.topconfectsweitrixwiggleplotr
链接给我
建立报告

包档案包

跟随bob 体育网址 在r会话中使用此包的说明。

源包 annotationdbi_1.53.2.tar.gz.
Windows二进制文件 AnnotationDbi_1.53.2.zip
macOS 10.13 (High Sierra) AnnotationDbi_1.53.2.tgz
源存储库 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:包/ AnnotationDbi
包短Url https://biocumon.org/packages/annotationdbi/
包裹下载报告 下载统计信息

文档»

生物体

R./cr包和文档

支持»

请阅读发布指南。将关于Biocometiond的问题发布到以下位置之一:

  • 支持网站- 关于生物导体包的问题
  • 正常词 邮件列表 - 适用于包开发人员bob电竞体育官网