beachmat.hdf5
beachmat bindings for HDF5-backed matrices
Bioconductor version: Release (3.19)
Extends beachmat to support initialization of tatami matrices from HDF5-backed arrays. This allows C++ code in downstream packages to directly call the HDF5 C/C++ library to access array data, without the need for block processing via DelayedArray. Some utilities are also provided for direct creation of an in-memory tatami matrix from a HDF5 file.
Author: Aaron Lun [aut, cre]
Maintainer: Aaron Lun <infinite.monkeys.with.keyboards at gmail.com>
citation("beachmat.hdf5")):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("beachmat.hdf5")
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("beachmat.hdf5")| User guide | HTML | R Script |
| Reference Manual |
Details
| biocViews | DataImport, DataRepresentation, Infrastructure, Software |
| Version | 1.2.0 |
| In Bioconductor since | BioC 3.18 (R-4.3) (1 year) |
| License | GPL-3 |
| Depends | |
| Imports | methods, beachmat, HDF5Array, DelayedArray, Rcpp |
| System Requirements | C++17, GNU make |
| URL |
See More
| Suggests | testthat, BiocStyle, knitr, rmarkdown, rhdf5, Matrix |
| Linking To | Rcpp, beachmat, Rhdf5lib |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | sketchR |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | beachmat.hdf5_1.2.0.tar.gz |
| Windows Binary (x86_64) | beachmat.hdf5_1.2.0.zip (64-bit only) |
| macOS Binary (x86_64) | beachmat.hdf5_1.2.0.tgz |
| macOS Binary (arm64) | beachmat.hdf5_1.2.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/beachmat.hdf5 |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/beachmat.hdf5 |
| Bioc Package Browser | https://code.bioconductor.org/browse/beachmat.hdf5/ |
| Package Short Url | https://bioconductor.org/packages/beachmat.hdf5/ |
| Package Downloads Report | Download Stats |