To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("annotate")

In most cases, you don't need to download the package archive at all.

annotate

   

This package is for version 2.12 of Bioconductor; for the stable, up-to-date release version, see annotate.

Annotation for microarrays

Bioconductor version: 2.12

Using R enviroments for annotation.

Author: R. Gentleman

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

Citation (from within R, enter citation("annotate")):

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("annotate")

Documentation

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

browseVignettes("annotate")

 

PDF R Script Annotation Overview
PDF R Script Basic GO Usage
PDF R Script HowTo: Get HTML Output
PDF R Script HowTo: use chromosomal information
PDF R Script HOWTO: Use the online query tools
PDF R Script Using Affymetrix Probe Level Data
PDF R Script Using Data Packages
PDF R Script Using the homology package
PDF   Reference Manual

Details

biocViews Annotation, GO, Pathways, Software
Version 1.38.0
In Bioconductor since BioC 1.6 (R-2.1) or earlier (> 11 years)
License Artistic-2.0
Depends R (>= 2.10), AnnotationDbi(>= 0.1.15)
Imports Biobase, AnnotationDbi, DBI, xtable, graphics, utils, stats, methods, XML (>= 0.92-2), BiocGenerics(>= 0.1.13)
LinkingTo
Suggests Biobase, hgu95av2.db, genefilter, Biostrings(>= 2.25.10), rae230a.db, rae230aprobe, tkWidgets, GO.db, org.Hs.eg.db, XML (>= 0.92-2), org.Mm.eg.db, hom.Hs.inp.db, humanCHRLOC, Rgraphviz, RUnit
SystemRequirements
Enhances
URL
Depends On Me Agi4x44PreProcess, ChromHeatMap, GeneAnswers, geneplotter, GSEABase, idiogram, macat, MineICA, MLInterfaces, Neve2006, PCpheno, phenoTest, PREDA, PREDAsampledata, RpsiXML, ScISI
Imports Me affycoretools, Category, categoryCompare, ChromHeatMap, codelink, DrugVsDisease, gCMAP, gCMAPWeb, GeneAnswers, genefilter, GeneGroupAnalysis, geneplotter, GlobalAncova, globaltest, GOstats, GSEABase, lumi, methyAnalysis, methylumi, phenoTest, qpgraph, ReportingTools, ScISI, splicegear, tigre
Suggests Me adme16cod.db, ag.db, ath1121501.db, BiocCaseStudies, biomaRt, bovine.db, canine.db, canine2.db, celegans.db, chicken.db, drosgenome1.db, drosophila2.db, ecoli2.db, geneplotter, GGHumanMethCancerPanelv1.db, GlobalAncova, globaltest, GOstats, GSEAlm, 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, hthgu133a.db, hthgu133b.db, hu35ksuba.db, hu35ksubb.db, hu35ksubc.db, hu35ksubd.db, hu6800.db, hugene10stprobeset.db, hugene10sttranscriptcluster.db, hugene11stprobeset.db, hugene11sttranscriptcluster.db, hugene20stprobeset.db, hugene20sttranscriptcluster.db, hugene21stprobeset.db, hugene21sttranscriptcluster.db, HuO22.db, hwgcod.db, IlluminaHumanMethylation27k.db, IlluminaHumanMethylation450k.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, maigesPack, metagenomeSeq, mgu74a.db, mgu74av2.db, mgu74b.db, mgu74bv2.db, mgu74c.db, mgu74cv2.db, mguatlas5k.db, mgug4104a.db, mgug4120a.db, mgug4121a.db, mgug4122a.db, mi16cod.db, MLP, mm24kresogen.db, MmAgilentDesign026655.db, moe430a.db, moe430b.db, mogene10stprobeset.db, mogene10sttranscriptcluster.db, mogene11stprobeset.db, mogene11sttranscriptcluster.db, mogene20stprobeset.db, mogene20sttranscriptcluster.db, mogene21sttranscriptcluster.db, mouse4302.db, mouse430a2.db, mpedbarray.db, mu11ksuba.db, mu11ksubb.db, Mu15v1.db, mu19ksuba.db, mu19ksubb.db, mu19ksubc.db, Mu22v3.db, mwgcod.db, Norway981.db, nugohs1a520180.db, nugomm1a520177.db, oneChannelGUI, 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.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.Sco.eg.db, org.Ss.eg.db, org.Tgondii.eg.db, org.Xl.eg.db, PartheenMetaData.db, pedbarrayv10.db, pedbarrayv9.db, POCRCannotation.db, porcine.db, puma, r10kcod.db, rae230a.db, rae230b.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, rtu34.db, rwgcod.db, SHDZ.db, siggenes, tigre, u133x3p.db, xlaevis.db, yeast2.db, ygs98.db, zebrafish.db
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Package Source annotate_1.38.0.tar.gz
Windows Binary annotate_1.38.0.zip
Mac OS X 10.6 (Snow Leopard) annotate_1.38.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/annotate/tree/release-2.12
Package Short Url http://bioconductor.org/packages/annotate/
Package Downloads Report Download Stats

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