ExperimentHub

DOI: 10.18129/B9.bioc.ExperimentHub    

This package is for version 3.15 of Bioconductor; for the stable, up-to-date release version, see ExperimentHub.

Client to access ExperimentHub resources

Bioconductor version: 3.15

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>

Installation

To install this package, start R (version "4.2") 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	2.4.0
In Bioconductor since	BioC 3.4 (R-3.3) (6 years)
License	Artistic-2.0
Depends	methods, BiocGenerics(>= 0.15.10), AnnotationHub(>= 3.3.6), BiocFileCache(>= 1.5.1)
Imports	utils, S4Vectors, BiocManager, curl, 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, crisprScoreData, curatedAdipoChIP, DMRcatedata, ewceData, FlowSorted.Blood.EPIC, FlowSorted.CordBloodCombined.450k, HDCytoData, HighlyReplicatedRNASeq, HumanAffyData, LRcell, mcsurvdata, MetaGxBreast, MetaGxOvarian, MetaGxPancreas, muscData, NanoporeRNASeq, NestLink, nullrangesData, ObMiTi, restfulSEData, RNAmodR.Data, SCATEData, scpdata, SeqSQC, sesameData, SimBenchData, spatialDmelxsim, STexampleData, tartare, TENxVisiumData, VectraPolarisData
Imports Me	adductData, BioImageDbs, BloodGen3Module, celldex, chipseqDBData, CLLmethylation, coMethDMR, CopyNeutralIMA, curatedMetagenomicData, curatedTBData, curatedTCGAData, depmap, DMRcate, DropletTestFiles, DuoClustering2018, easierData, emtdata, ENmix, ExperimentHubData, FieldEffectCrc, GenomicDistributionsData, GSEABenchmarkeR, HarmonizedTCGAData, HCAData, HMP16SData, HMP2Data, imcdatasets, LRcellTypeMarkers, m6Aboost, MACSr, MethReg, methylclock, methylclockData, MethylSeqData, microbiomeDataSets, MouseGastrulationData, MouseThymusAgeing, msigdb, NxtIRFdata, PhyloProfile, PhyloProfileData, preciseTADhub, pwrEWAS.data, restfulSE, RLHub, scRNAseq, signatureSearch, signatureSearchData, SingleCellMultiModal, singleCellTK, SingleMoleculeFootprintingData, spatialLIBD, TabulaMurisData, TabulaMurisSenisData, TENxBrainData, TENxBUSData, TENxPBMCData, tuberculosis, xcoredata
Suggests Me	ANF, AnnotationHub, bambu, BioPlex, celaref, celarefData, CellMapper, curatedAdipoArray, DEqMS, ELMER, epimutacions, epimutacionsData, genomicInstability, GSE103322, GSE13015, GSE159526, GSE62944, HDF5Array, metavizr, missMethyl, MsBackendRawFileReader, muscat, quantiseqr, rawrr, recountmethylation, SingleMoleculeFootprinting, SPOTlight, standR, TCGAbiolinks, tissueTreg, xcore
Links To Me
Build Report

Package Archives

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

Source Package	ExperimentHub_2.4.0.tar.gz
Windows Binary	ExperimentHub_2.4.0.zip
macOS Binary (x86_64)	ExperimentHub_2.4.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/ExperimentHub
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/ExperimentHub
Package Short Url	https://bioconductor.org/packages/ExperimentHub/
Package Downloads Report	Download Stats