Bioconductor - rhdf5
Bioconductor 3.22
Software Packages
rhdf5
rhdf5
This is the
released
version of rhdf5; for the devel version, see
rhdf5
R Interface to HDF5
DOI:
10.18129/B9.bioc.rhdf5
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: 0000-0002-7800-3848
, Maintainer from 2017 to 2025), Gregoire Pau [aut], Martin Morgan [ctb], Daniel van Twisk [ctb], Hugo Gruson [cre]
ORCID: 0000-0002-4094-1476
Maintainer:
Hugo Gruson
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")
Reading HDF5 Files In The Cloud
HTML
R Script
rhdf5 - HDF5 interface for R
HTML
R Script
rhdf5 Practical Tips
HTML
R Script
Reference Manual
PDF
NEWS
Text
Need some help? Ask on the Bioconductor Support site!
Details
biocViews
DataImport
Infrastructure
Software
Version
2.54.1
In Bioconductor since
BioC 1.6 (R-2.1) or earlier (> 21 years)
License
Artistic-2.0
Depends
R (>= 4.0.0), methods
Imports
Rhdf5lib
(>= 1.13.4),
rhdf5filters
(>= 1.15.5)
System Requirements
GNU make
URL
Bug Reports
See More
Suggests
bit64
BiocStyle
knitr
rmarkdown
testthat
bench
dplyr
ggplot2
mockery
BiocParallel
Linking To
Rhdf5lib
Enhances
Depends On Me
GSCA
h5mread
HiCBricks
LoomExperiment
MuData
octad
Imports Me
alabaster.base
alabaster.bumpy
alabaster.mae
alabaster.matrix
alabaster.ranges
alabaster.spatial
BayesSpace
BgeeCall
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
bioRad
ebvcube
file2meco
karyotapR
LOMAR
OmicFlow
rDataPipeline
Suggests Me
anndataR
beachmat.hdf5
biomformat
edgeR
HiCDOC
HiCParser
mia
MicrobiotaProcess
pairedGSEA
phantasusLite
rhdf5filters
SCArray
scviR
slalom
SpatialFeatureExperiment
spatialHeatmap
Spectra
SummarizedExperiment
tximport
Voyager
xcms
zellkonverter
ClustAssess
conos
CRMetrics
getRad
io
MplusAutomation
neonstore
neonUtilities
SignacX
Links To Me
Build Report
Build Report
Package Archives
Follow
Installation
instructions to use this package in your R session.
Source Package
rhdf5_2.54.1.tar.gz
Windows Binary (x86_64)
rhdf5_2.54.1.zip
macOS Binary (x86_64)
rhdf5_2.54.1.tgz
macOS Binary (arm64)
rhdf5_2.54.1.tgz
Source Repository
git clone https://git.bioconductor.org/packages/rhdf5
Source Repository (Developer Access)
git clone git@git.bioconductor.org:packages/rhdf5
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