To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("rhdf5")
In most cases, you don't need to download the package archive at all.
rhdf5
HDF5 interface to R
Bioconductor version: 3.0
This R/Bioconductor 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, Gregoire Pau
Maintainer: Bernd Fischer <bernd.fischer at embl.de>
Citation (from within R,
enter citation("rhdf5")):
Installation
To install this package, start R and enter:
source("http://bioconductor.org/biocLite.R")
biocLite("rhdf5")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("rhdf5")
| R Script | rhdf5 | |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | DataImport, Infrastructure, Software |
| Version | 2.10.0 |
| In Bioconductor since | BioC 1.6 (R-2.1) or earlier |
| License | Artistic-2.0 |
| Depends | methods |
| Imports | zlibbioc |
| LinkingTo | |
| Suggests | bit64, BiocStyle |
| SystemRequirements | GNU make |
| Enhances | |
| URL | |
| Depends On Me | GENE.E, GSCA |
| Imports Me | GENE.E, h5vc |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | rhdf5_2.10.0.tar.gz |
| Windows Binary | rhdf5_2.10.0.zip (32- & 64-bit) |
| Mac OS X 10.6 (Snow Leopard) | rhdf5_2.10.0.tgz |
| Mac OS X 10.9 (Mavericks) | rhdf5_2.10.0.tgz |
| Browse/checkout source | (username/password: readonly) |
| Package Downloads Report | Download Stats |
Common Bioconductor workflows include:
- Oligonucleotide Arrays
- High-throughput Sequencing
- Counting Reads for Differential Expression (parathyroideSE vignette)
- Annotation
- Annotating Variants
- Annotating Ranges
- Flow Cytometry and other assays
- Candidate Binding Sites for Known Transcription Factors
- Cloud-enabled cis-eQTL search and annotation
- RNA-Seq workflow: gene-level exploratory analysis and differential expression
- Changing genomic coordinate systems with rtracklayer::liftOver
- Mass spectrometry and proteomics data analysis
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