annotate
Annotation for microarrays
Bioconductor version: 3.23 · Package version: 1.90.0
Using R enviroments for annotation.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("annotate")Details
| Maintainer | Bioconductor Package Maintainer <maintainer@bioconductor.org> |
| Author | R. Gentleman |
| License | Artistic-2.0 |
| Downloads rank | 21560 |
| Source branch | RELEASE_3_23 |
| biocViews | Annotation, GO, Pathways, Software |
Documentation
- Annotation Overview
- Basic GO Usage
- HowTo: Build and use chromosomal information
- HowTo: Get HTML Output
- HOWTO: Use the online query tools
- Using Affymetrix Probe Level Data
- Using Bioconductor's Annotation Libraries
Download
Follow the installation instructions to use this package in your R session.
| Source package | annotate_1.90.0.tar.gz |
| Windows binary (x86_64) | annotate_1.90.0.zip |
| macOS binary (arm64) | annotate_1.90.0.tgz |
| macOS binary (x86_64) | annotate_1.90.0.tgz |
Dependencies
Depends: R (>= 2.10), AnnotationDbi (>= 1.27.5), XML
Imports: Biobase, DBI, xtable, graphics, utils, stats, methods, BiocGenerics (>= 0.13.8), httr
Suggests: hgu95av2.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
Reverse dependencies
Depends On Me (12): ChromHeatMap, geneplotter, GSEABase, idiogram, MGFM, MLInterfaces, Neve2006, phenoTest, PREDA, PREDAsampledata, sampleClassifier, SemDist
Imports Me (21): CAFE, Category, categoryCompare, CNEr, codelink, debrowser, DrugVsDisease, geneExpressionFromGEO, genefilter, GlobalAncova, globaltest, GOstats, lumi, methylumi, MGFR, phenoTest, qpgraph, ReportingTools, SGCP, tigre, UMI4Cats
Suggests Me (221): adme16cod.db, ag.db, ath1121501.db, BiocGenerics, 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, clValid, drosgenome1.db, drosophila2.db, ecoli2.db, GenomicRanges, GGHumanMethCancerPanelv1.db, GSAR, 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, hmdbQuery, 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, limorhyde, lumiHumanAll.db, lumiMouseAll.db, lumiRatAll.db, m10kcod.db, m20kcod.db, maGUI, 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, miRBaseVersions.db, MLP, 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, pageRank, PartheenMetaData.db, pedbarrayv10.db, pedbarrayv9.db, PhosR, POCRCannotation.db, porcine.db, puma, 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, RnBeads, rnu34.db, Roberts2005Annotation.db, rta10probeset.db, rta10transcriptcluster.db, rtu34.db, rwgcod.db, SHDZ.db, siggenes, SomaScan.db, SummarizedExperiment, systemPipeR, u133x3p.db, xlaevis.db, yeast2.db, ygs98.db, zebrafish.db