DOI: 10.18129/B9.bioc.AnnotationHub  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see AnnotationHub.

Client to access AnnotationHub resources

Bioconductor version: 3.16

This package provides a client for the Bioconductor AnnotationHub web resource. The AnnotationHub web resource provides a central location where genomic files (e.g., VCF, bed, wig) and other resources from standard locations (e.g., UCSC, Ensembl) can be discovered. The resource includes metadata about each resource, e.g., a textual description, tags, and date of modification. The client creates and manages a local cache of files retrieved by the user, helping with quick and reproducible access.

Author: Bioconductor Package Maintainer [cre], Martin Morgan [aut], Marc Carlson [ctb], Dan Tenenbaum [ctb], Sonali Arora [ctb], Valerie Oberchain [ctb], Kayla Morrell [ctb], Lori Shepherd [aut]

Maintainer: Bioconductor Package Maintainer <maintainer at>

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


To install this package, start R (version "4.2") and enter:

if (!require("BiocManager", quietly = TRUE))


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


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



HTML R Script AnnotationHub: Access the AnnotationHub Web Service
HTML R Script AnnotationHub: AnnotationHub HOW TO's
HTML R Script Troubleshooting The Hubs
PDF   Reference Manual
Text   NEWS


biocViews DataImport, GUI, Infrastructure, Software, ThirdPartyClient
Version 3.6.0
In Bioconductor since BioC 2.12 (R-3.0) (10 years)
License Artistic-2.0
Depends BiocGenerics(>= 0.15.10), BiocFileCache(>= 1.5.1)
Imports utils, methods, grDevices, RSQLite, BiocManager, BiocVersion, curl, rappdirs, AnnotationDbi(>= 1.31.19), S4Vectors, interactiveDisplayBase, httr, yaml, dplyr
Suggests IRanges, GenomicRanges, GenomeInfoDb, VariantAnnotation, Rsamtools, rtracklayer, BiocStyle, knitr, AnnotationForge, rBiopaxParser, RUnit, GenomicFeatures, MSnbase, mzR, Biostrings, SummarizedExperiment, ExperimentHub, gdsfmt, rmarkdown, HubPub
Enhances AnnotationHubData
Depends On Me adductomicsR, annotation, AnnotationHubData, EpiTxDb.Hs.hg38, EpiTxDb.Mm.mm10, EpiTxDb.Sc.sacCer3, EuPathDB, ExperimentHub, GenomicState, hipathia, ipdDb, LRcell, MetaGxBreast, MetaGxOvarian, NestLink, octad, org.Mxanthus.db, PANTHER.db, phastCons30way.UCSC.hg38, phastCons35way.UCSC.mm39, phyloP35way.UCSC.mm39, rGenomeTracksData, sequencing, sesameData,, tartare, UCSCRepeatMasker
Imports Me adductData, AHLRBaseDbs, AHMeSHDbs, AHPathbankDbs, AHPubMedDbs, AHWikipathwaysDbs, alpineData, alternativeSplicingEvents.hg19, alternativeSplicingEvents.hg38, annotatr, atena, BioImageDbs, biscuiteerData, celldex, chipseqDBData, circRNAprofiler, coMethDMR, crisprScoreData, cTRAP, curatedMetagenomicData, curatedTBData, curatedTCGAData, customCMPdb, depmap, dmrseq, DropletTestFiles, easierData, ENmix, EpiCompare, EpiMix, epimutacions, FieldEffectCrc, FlowSorted.Blood.EPIC, FlowSorted.CordBloodCombined.450k, GenomicDistributionsData, GenomicScores, grasp2db, GSEABenchmarkeR, gwascat, HCAData, HiContactsData, HMP16SData, HMP2Data, iSEEhub, MACSr, mcsurvdata, MerfishData, meshes, metaboliteIDmapping, MetaGxPancreas, MethReg, msigdb, MSnID, NxtIRFcore, OGRE, ontoProc, psichomics, pwOmics, regutools, REMP, restfulSE, RLHub, RLSeq, scanMiRApp, scAnnotatR, scmeth, scpdata, scRNAseq, scTensor, SFEData, SingleCellMultiModal, singleCellTK, spatialLIBD, SpliceWiz, synaptome.db, TabulaMurisSenisData, TCGAWorkflow, TENxBrainData, TENxBUSData, TENxPBMCData, tuberculosis, tximeta, Ularcirc
Suggests Me AHEnsDbs, BgeeCall, BioPlex, Chicago, ChIPpeakAnno, CINdex, clusterProfiler, CNVRanger, COCOA, crisprViz, CTCF, DNAshapeR, dupRadar, ELMER, ENCODExplorerData, ensembldb, epiNEM, EpiTxDb, epivizrChart, epivizrData, excluderanges, factR, GenomicRanges, Glimma, GOSemSim, gwascatData, HarmonizedTCGAData, maser, MetaboAnnotation, MIRA, MSnbase, multicrispr, nullranges, ontoProcData, OrganismDbi, plotgardener, recountmethylation, satuRn, TCGAbiolinks, TCGAutils, VariantAnnotation, xcore
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