ExperimentHub

DOI: 10.18129/B9.bioc.ExperimentHub  

This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see ExperimentHub.

Client to access ExperimentHub resources

Bioconductor version: 3.17

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, enter citation("ExperimentHub")):

Installation

To install this package, start R (version "4.3") and enter:

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

BiocManager::install("ExperimentHub")

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

Documentation

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

browseVignettes("ExperimentHub")

 

HTML R Script ExperimentHub: Access the ExperimentHub Web Service
PDF   Reference Manual
Text   NEWS

Details

biocViews DataImport, GUI, Infrastructure, Software, ThirdPartyClient
Version 2.8.1
In Bioconductor since BioC 3.4 (R-3.3) (7 years)
License Artistic-2.0
Depends methods, BiocGenerics(>= 0.15.10), AnnotationHub(>= 3.3.6), BiocFileCache(>= 1.5.1)
Imports utils, S4Vectors, BiocManager, rappdirs
LinkingTo
Suggests knitr, BiocStyle, rmarkdown, HubPub
SystemRequirements
Enhances ExperimentHubData
URL
BugReports https://github.com/Bioconductor/ExperimentHub/issues
Depends On Me adductomicsR, alpineData, BeadSorted.Saliva.EPIC, benchmarkfdrData2019, biscuiteerData, bodymapRat, CellMapperData, clustifyrdatahub, CoSIA, CoSIAdata, crisprScoreData, curatedAdipoChIP, DMRcatedata, EpiMix.data, ewceData, FlowSorted.Blood.EPIC, FlowSorted.CordBloodCombined.450k, HDCytoData, HiContactsData, HighlyReplicatedRNASeq, HumanAffyData, iSEEhub, LRcell, mcsurvdata, MetaGxBreast, MetaGxOvarian, MetaGxPancreas, muscData, NanoporeRNASeq, NestLink, nullrangesData, ObMiTi, octad, octad.db, restfulSEData, RNAmodR.Data, SCATEData, scMultiome, scpdata, SeqSQC, sesameData, SimBenchData, spatialDmelxsim, STexampleData, tartare, TENxVisiumData, VectraPolarisData, WeberDivechaLCdata
Imports Me adductData, BiocHubsShiny, BioImageDbs, BloodGen3Module, CBNplot, celldex, chipseqDBData, CLLmethylation, coMethDMR, CopyNeutralIMA, CTdata, curatedMetagenomicData, curatedTBData, curatedTCGAData, depmap, DMRcate, DropletTestFiles, DuoClustering2018, easierData, emtdata, ENmix, EpiMix, epimutacions, ExperimentHubData, FieldEffectCrc, gDNAinRNAseqData, GenomicDistributionsData, GSEABenchmarkeR, HarmonizedTCGAData, HCAData, HMP16SData, HMP2Data, hpar, imcdatasets, LRcellTypeMarkers, m6Aboost, MACSr, marinerData, MatrixQCvis, MerfishData, MethReg, methylclock, methylclockData, MethylSeqData, microbiomeDataSets, MouseGastrulationData, MouseThymusAgeing, MsDataHub, msigdb, NxtIRFdata, PhyloProfile, PhyloProfileData, preciseTADhub, pwrEWAS.data, restfulSE, RLHub, scRNAseq, SFEData, signatureSearch, signatureSearchData, SingleCellMultiModal, singleCellTK, SingleMoleculeFootprintingData, spatialLIBD, TabulaMurisData, TabulaMurisSenisData, TENxBrainData, TENxBUSData, TENxPBMCData, tuberculosis, xcoredata
Suggests Me ANF, AnnotationHub, bambu, BioPlex, celaref, celarefData, CellMapper, curatedAdipoArray, DEqMS, DESpace, ELMER, epimutacionsData, genomicInstability, GSE103322, GSE13015, GSE159526, GSE62944, HDF5Array, mariner, metavizr, missMethyl, MsBackendRawFileReader, muscat, nullranges, quantiseqr, rawrr, recountmethylation, SingleMoleculeFootprinting, SPOTlight, standR, TCGAbiolinks, TENxIO, tissueTreg, Voyager, xcore
Links To Me
Build Report  

Package Archives

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

Source Package ExperimentHub_2.8.1.tar.gz
Windows Binary ExperimentHub_2.8.1.zip
macOS Binary (x86_64) ExperimentHub_2.8.1.tgz
macOS Binary (arm64) ExperimentHub_2.8.1.tgz
Source Repository git clone https://git.bioconductor.org/packages/ExperimentHub
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/ExperimentHub
Bioc Package Browser https://code.bioconductor.org/browse/ExperimentHub/
Package Short Url https://bioconductor.org/packages/ExperimentHub/
Package Downloads Report Download Stats

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