This is the released version of rhdf5; for the devel version, see
rhdf5.
R Interface to HDF5
Bioconductor version: Release (3.22)
This package provides an interface between HDF5 and R. HDF5's main features are the ability to store and access very large and/or complex datasets and a wide variety of metadata on mass storage (disk) through a completely portable file format. The rhdf5 package is thus suited for the exchange of large and/or complex datasets between R and other software package, and for letting R applications work on datasets that are larger than the available RAM.
Author: Bernd Fischer [aut], Mike Smith [aut] (ORCID:
ORCID iD
ORCID: 0000-0002-7800-3848
, Maintainer from 2017 to 2025), Gregoire Pau [aut], Martin Morgan [ctb], Daniel van Twisk [ctb], Hugo Gruson [cre]
ORCID iD
ORCID: 0000-0002-4094-1476
Maintainer: Hugo Gruson <hugo.gruson at embl.de>
Citation (from within R, enter citation("rhdf5")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("rhdf5")
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("rhdf5")
Details
Version
2.54.0
In Bioconductor since
BioC 1.6 (R-2.1) or earlier (> 20.5 years)
License
Artistic-2.0
Depends
R (>= 4.0.0), methods
System Requirements
GNU make
See More
Enhances
Imports Me
alabaster.base,
alabaster.bumpy,
alabaster.mae,
alabaster.matrix,
alabaster.ranges,
alabaster.spatial,
BayesSpace,
BgeeCall,
biomformat,
bnbc,
bsseq,
chihaya,
CiteFuse,
cmapR,
CoGAPS,
CopyNumberPlots,
cTRAP,
cytomapper,
diffHic,
DropletUtils,
epigraHMM,
EventPointer,
FRASER,
GenomicScores,
gep2pep,
h5vc,
HDF5Array,
HicAggR,
HiCcompare,
HiCExperiment,
HiCPotts,
IONiseR,
mariner,
methodical,
MOFA2,
MoleculeExperiment,
phantasus,
plotgardener,
ptairMS,
PureCN,
recountmethylation,
ribor,
scafari,
scCB2,
scMitoMut,
scone,
scRNAseqApp,
signatureSearch,
SpaceTrooper,
SpliceWiz,
SpotClean,
SurfR,
TENxIO,
trackViewer,
MafH5.gnomAD.v4.0.GRCh38,
MethylSeqData,
ptairData,
scMultiome,
signatureSearchData,
TumourMethData,
BigDataStatMeth,
bioRad,
ebvcube,
file2meco,
karyotapR,
LOMAR,
NEONiso,
OmicFlow,
rDataPipeline
Suggests Me
anndataR,
beachmat.hdf5,
edgeR,
HiCDOC,
HiCParser,
mia,
pairedGSEA,
phantasusLite,
rhdf5filters,
SCArray,
scviR,
slalom,
SpatialFeatureExperiment,
Spectra,
SummarizedExperiment,
tximport,
Voyager,
xcms,
zellkonverter,
ClustAssess,
conos,
CRMetrics,
getRad,
io,
MplusAutomation,
neonstore,
neonUtilities,
SignacX,
SpatialDDLS
Links To Me
Package Archives
Follow Installation instructions to use this package in your R session.
Source Repository
git clone https://git.bioconductor.org/packages/rhdf5
Source Repository (Developer Access)
git clone git@git.bioconductor.org:packages/rhdf5