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Bioconductor 3.22 Released

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annotate

This is thereleased version of annotate; for the devel version, seeannotate.

Annotation for microarrays

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DOI: 10.18129/B9.bioc.annotate


Bioconductor version: Release (3.22)

Using R enviroments for annotation.

Author: R. Gentleman

Maintainer: Bioconductor Package Maintainer <maintainer at bioconductor.org>

Citation (from within R, entercitation("annotate")):

Installation

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

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

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

Documentation

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

browseVignettes("annotate")
Annotation OverviewPDFR Script
Basic GO UsagePDFR Script
HowTo: Build and use chromosomal informationHTMLR Script
HowTo: Get HTML OutputPDFR Script
HOWTO: Use the online query toolsPDFR Script
Using Affymetrix Probe Level DataPDFR Script
Using Bioconductor's Annotation LibrariesHTMLR Script
Reference ManualPDF
NEWSText

Need some help? Ask on the Bioconductor Support site!

Details

biocViewsAnnotation,GO,Pathways,Software
Version1.88.0
In Bioconductor sinceBioC 1.6 (R-2.1) or earlier (> 20.5 years)
LicenseArtistic-2.0
DependsR (>= 2.10),AnnotationDbi(>= 1.27.5),XML
ImportsBiobase,DBI,xtable, graphics, utils, stats, methods,BiocGenerics(>= 0.13.8),httr
System Requirements
URL
See More
Suggestshgu95av2.db,genefilter,Biostrings(>= 2.25.10),IRanges,rae230a.db,rae230aprobe,tkWidgets,GO.db,org.Hs.eg.db,org.Mm.eg.db,humanCHRLOC,Rgraphviz,RUnit,BiocStyle,knitr
Linking To
Enhances
Depends On MeChromHeatMap,geneplotter,GSEABase,idiogram,MineICA,MLInterfaces,phenoTest,PREDA,SemDist,Neve2006,PREDAsampledata
Imports MeCAFE,Category,categoryCompare,CNEr,codelink,debrowser,DrugVsDisease,genefilter,GlobalAncova,globaltest,GOstats,lumi,methylumi,phenoTest,qpgraph,tigre,UMI4Cats,geneExpressionFromGEO,GOxploreR
Suggests MeBiocGenerics,GenomicRanges,GSAR,GSEAlm,hmdbQuery,metagenomeSeq,MLP,pageRank,PhosR,RnBeads,siggenes,SummarizedExperiment,systemPipeR,adme16cod.db,ag.db,ath1121501.db,bovine.db,canine.db,canine2.db,celegans.db,chicken.db,clariomdhumanprobeset.db,clariomdhumantranscriptcluster.db,clariomshumanhttranscriptcluster.db,clariomshumantranscriptcluster.db,clariomsmousehttranscriptcluster.db,clariomsmousetranscriptcluster.db,clariomsrathttranscriptcluster.db,clariomsrattranscriptcluster.db,drosgenome1.db,drosophila2.db,ecoli2.db,GGHumanMethCancerPanelv1.db,h10kcod.db,h20kcod.db,hcg110.db,hgfocus.db,hgu133a.db,hgu133a2.db,hgu133b.db,hgu133plus2.db,hgu219.db,hgu95a.db,hgu95av2.db,hgu95b.db,hgu95c.db,hgu95d.db,hgu95e.db,hguatlas13k.db,hgubeta7.db,hguDKFZ31.db,hgug4100a.db,hgug4101a.db,hgug4110b.db,hgug4111a.db,hgug4112a.db,hgug4845a.db,hguqiagenv3.db,hi16cod.db,hs25kresogen.db,Hs6UG171.db,HsAgilentDesign026652.db,hta20probeset.db,hta20transcriptcluster.db,hthgu133a.db,hthgu133b.db,hthgu133plusa.db,hthgu133plusb.db,hthgu133pluspm.db,htmg430a.db,htmg430b.db,htmg430pm.db,htrat230pm.db,htratfocus.db,hu35ksuba.db,hu35ksubb.db,hu35ksubc.db,hu35ksubd.db,hu6800.db,huex10stprobeset.db,huex10sttranscriptcluster.db,hugene10stprobeset.db,hugene10sttranscriptcluster.db,hugene11stprobeset.db,hugene11sttranscriptcluster.db,hugene20stprobeset.db,hugene20sttranscriptcluster.db,hugene21stprobeset.db,hugene21sttranscriptcluster.db,HuO22.db,hwgcod.db,IlluminaHumanMethylation27k.db,illuminaHumanv1.db,illuminaHumanv2.db,illuminaHumanv2BeadID.db,illuminaHumanv3.db,illuminaHumanv4.db,illuminaHumanWGDASLv3.db,illuminaHumanWGDASLv4.db,illuminaMousev1.db,illuminaMousev1p1.db,illuminaMousev2.db,illuminaRatv1.db,indac.db,JazaeriMetaData.db,LAPOINTE.db,lumiHumanAll.db,lumiMouseAll.db,lumiRatAll.db,m10kcod.db,m20kcod.db,mgu74a.db,mgu74av2.db,mgu74b.db,mgu74bv2.db,mgu74c.db,mgu74cv2.db,mguatlas5k.db,mgug4104a.db,mgug4120a.db,mgug4121a.db,mgug4122a.db,mi16cod.db,miRBaseVersions.db,mm24kresogen.db,MmAgilentDesign026655.db,moe430a.db,moe430b.db,moex10stprobeset.db,moex10sttranscriptcluster.db,mogene10stprobeset.db,mogene10sttranscriptcluster.db,mogene11stprobeset.db,mogene11sttranscriptcluster.db,mogene20stprobeset.db,mogene20sttranscriptcluster.db,mogene21stprobeset.db,mogene21sttranscriptcluster.db,mouse4302.db,mouse430a2.db,mpedbarray.db,mta10probeset.db,mta10transcriptcluster.db,mu11ksuba.db,mu11ksubb.db,Mu15v1.db,mu19ksuba.db,mu19ksubb.db,mu19ksubc.db,Mu22v3.db,mwgcod.db,Norway981.db,nugohs1a520180.db,nugomm1a520177.db,OperonHumanV3.db,org.Ag.eg.db,org.At.tair.db,org.Bt.eg.db,org.Ce.eg.db,org.Cf.eg.db,org.Dm.eg.db,org.Dr.eg.db,org.EcK12.eg.db,org.EcSakai.eg.db,org.Gg.eg.db,org.Hbacteriophora.eg.db,org.Hs.eg.db,org.Mm.eg.db,org.Mmu.eg.db,org.Pf.plasmo.db,org.Pt.eg.db,org.Rn.eg.db,org.Sc.sgd.db,org.Ss.eg.db,org.Xl.eg.db,Orthology.eg.db,PartheenMetaData.db,pedbarrayv10.db,pedbarrayv9.db,POCRCannotation.db,porcine.db,r10kcod.db,rae230a.db,rae230b.db,raex10stprobeset.db,raex10sttranscriptcluster.db,ragene10stprobeset.db,ragene10sttranscriptcluster.db,ragene11stprobeset.db,ragene11sttranscriptcluster.db,ragene20stprobeset.db,ragene20sttranscriptcluster.db,ragene21stprobeset.db,ragene21sttranscriptcluster.db,rat2302.db,rgu34a.db,rgu34b.db,rgu34c.db,rguatlas4k.db,rgug4105a.db,rgug4130a.db,rgug4131a.db,ri16cod.db,RnAgilentDesign028282.db,rnu34.db,Roberts2005Annotation.db,rta10probeset.db,rta10transcriptcluster.db,rtu34.db,rwgcod.db,SHDZ.db,SomaScan.db,u133x3p.db,xlaevis.db,yeast2.db,ygs98.db,zebrafish.db,clValid,limorhyde,maGUI
Links To Me
Build ReportBuild Report

Package Archives

FollowInstallation instructions to use this package in your R session.

Source Packageannotate_1.88.0.tar.gz
Windows Binary (x86_64) annotate_1.88.0.zip
macOS Binary (x86_64)annotate_1.88.0.tgz
macOS Binary (arm64)annotate_1.88.0.tgz
Source Repositorygit clone https://git.bioconductor.org/packages/annotate
Source Repository (Developer Access)git clone git@git.bioconductor.org:packages/annotate
Bioc Package Browserhttps://code.bioconductor.org/browse/annotate/
Package Short Urlhttps://bioconductor.org/packages/annotate/
Package Downloads ReportDownload Stats
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