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ExperimentHub

This is thereleased version of ExperimentHub; for the devel version, seeExperimentHub.

Client to access ExperimentHub resources

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DOI: 10.18129/B9.bioc.ExperimentHub


Bioconductor version: Release (3.22)

This package provides a client for the Bioconductor ExperimentHub web resource. ExperimentHub provides a central location where curated data from experiments, publications or training courses can be accessed. Each resource has associated metadata, tags and date of modification. The client creates and manages a local cache of files retrieved enabling 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 bioconductor.org>

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

Installation

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

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

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("ExperimentHub")
ExperimentHub: Access the ExperimentHub Web ServiceHTMLR Script
Reference ManualPDF
NEWSText

Need some help? Ask on the Bioconductor Support site!

Details

biocViewsDataImport,GUI,Infrastructure,Software,ThirdPartyClient
Version3.0.0
In Bioconductor sinceBioC 3.4 (R-3.3) (9 years)
LicenseArtistic-2.0
Dependsmethods,BiocGenerics(>= 0.15.10),AnnotationHub(>= 3.99.3),BiocFileCache(>= 2.99.3)
Importsutils,S4Vectors,BiocManager,rappdirs
System Requirements
URLhttps://github.com/Bioconductor/ExperimentHub
Bug Reportshttps://github.com/Bioconductor/ExperimentHub/issues
See More
Suggestsknitr,BiocStyle,rmarkdown,HubPub,GenomicAlignments
Linking To
EnhancesExperimentHubData
Depends On MeadductomicsR,iSEEhub,LRcell,octad,SeqSQC,AWAggregatorData,BeadSorted.Saliva.EPIC,biscuiteerData,bodymapRat,CellMapperData,clustifyrdatahub,CoSIAdata,crisprScoreData,curatedAdipoChIP,CytoMethIC,DMRcatedata,eoPredData,EpiMix.data,ewceData,FlowSorted.Blood.EPIC,FlowSorted.CordBloodCombined.450k,HDCytoData,HiContactsData,HighlyReplicatedRNASeq,HumanAffyData,mcsurvdata,MetaGxBreast,MetaGxPancreas,multiWGCNAdata,muscData,muSpaData,NanoporeRNASeq,NestLink,nullrangesData,ObMiTi,octad.db,RNAmodR.Data,scMultiome,scpdata,sesameData,SimBenchData,SpatialDatasets,spatialDmelxsim,STexampleData,tartare,TENxVisiumData,TENxXeniumData,VectraPolarisData,WeberDivechaLCdata
Imports MeBiocHubsShiny,BloodGen3Module,CBNplot,coMethDMR,CTdata,DeconvoBuddies,DMRcate,EpiMix,epimutacions,EpipwR,epiregulon,ExperimentHubData,GSEABenchmarkeR,hpar,iModMix,m6Aboost,MACSr,MatrixQCvis,methodical,MethReg,methylclock,Moonlight2R,MsDataHub,orthos,shinyDSP,signatureSearch,singleCellTK,spatialFDA,TENET,TFEA.ChIP,adductData,BioImageDbs,celldex,CENTREprecomputed,cfToolsData,ChIPDBData,chipseqDBData,CLLmethylation,curatedMetagenomicData,curatedPCaData,curatedTBData,curatedTCGAData,depmap,DoReMiTra,DropletTestFiles,DuoClustering2018,easierData,emtdata,EpipwR.data,FieldEffectCrc,gDNAinRNAseqData,GenomicDistributionsData,HarmonizedTCGAData,HCAData,HCATonsilData,HMP16SData,HMP2Data,homosapienDEE2CellScore,humanHippocampus2024,imcdatasets,iModMixData,JohnsonKinaseData,LRcellTypeMarkers,marinerData,MerfishData,methylclockData,MethylSeqData,microbiomeDataSets,MouseAgingData,MouseGastrulationData,MouseThymusAgeing,msigdb,NxtIRFdata,orthosData,PhyloProfileData,preciseTADhub,ProteinGymR,raerdata,scaeData,scRNAseq,SFEData,signatureSearchData,SingleCellMultiModal,SingleMoleculeFootprintingData,spatialLIBD,TabulaMurisData,TabulaMurisSenisData,TENET.ExperimentHub,TENxBrainData,TENxBUSData,TENxPBMCData,tuberculosis,TumourMethData,xcoredata, OSTA
Suggests MeAlphaMissenseR,ANF,AnnotationHub,AWAggregator,bambu,Banksy,celaref,CellMapper,crumblr,DESpace,dreamlet,ELMER,genomicInstability,h5mread,HDF5Array,HVP,jazzPanda,mariner,missMethyl,MsBackendRawFileReader,multiWGCNA,muscat,nullranges,planet,quantiseqr,rawDiag,rawrr,recountmethylation,SingleMoleculeFootprinting,sosta,SparseArray,SPOTlight,standR,TCGAbiolinks,TENxIO,Voyager,xcore,BioPlex,celarefData,curatedAdipoArray,epimutacionsData,GSE103322,GSE13015,GSE159526,GSE62944,muleaData,smokingMouse,SubcellularSpatialData,tissueTreg,TransOmicsData
Links To Me
Build ReportBuild Report

Package Archives

FollowInstallation instructions to use this package in your R session.

Source PackageExperimentHub_3.0.0.tar.gz
Windows Binary (x86_64) ExperimentHub_3.0.0.zip (64-bit only)
macOS Binary (x86_64)ExperimentHub_3.0.0.tgz
macOS Binary (arm64)ExperimentHub_3.0.0.tgz
Source Repositorygit clone https://git.bioconductor.org/packages/ExperimentHub
Source Repository (Developer Access)git clone git@git.bioconductor.org:packages/ExperimentHub
Bioc Package Browserhttps://code.bioconductor.org/browse/ExperimentHub/
Package Short Urlhttps://bioconductor.org/packages/ExperimentHub/
Package Downloads ReportDownload Stats
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