beachmat

This is the released version of beachmat; for the devel version, see beachmat.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6

Compiling Bioconductor to Handle Each Matrix Type

Bioconductor version: Release (3.23)

Provides a consistent C++ class interface for reading from a variety of commonly used matrix types. Ordinary matrices and several sparse/dense Matrix classes are directly supported, along with a subset of the delayed operations implemented in the DelayedArray package. All other matrix-like objects are supported by calling back into R.

Author: Aaron Lun [aut, cre], Hervé Pagès [aut], Mike Smith [aut]

Maintainer: Aaron Lun <infinite.monkeys.with.keyboards at gmail.com>

Citation (from within R, enter citation("beachmat")):

Aaron Lun, Hervé Pagès, Mike Smith. beachmat: Compiling Bioconductor to Handle Each Matrix Type. doi:10.18129/B9.bioc.beachmat, R package version 2.28.0, https://bioconductor.org/packages/beachmat.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("beachmat")

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")

Developer guide	HTML	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	DataImport, DataRepresentation, Infrastructure, Software
Version	2.28.0
In Bioconductor since	BioC 3.6 (R-3.4) (9 years)
License	GPL-3
Depends
Imports	methods, DelayedArray (>= 0.27.2), SparseArray, BiocGenerics, Matrix, Rcpp
System Requirements	C++17
URL	https://github.com/tatami-inc/beachmat
Bug Reports	https://github.com/tatami-inc/beachmat/issues

Suggests	testthat, BiocStyle, knitr, rmarkdown, rcmdcheck, BiocParallel, HDF5Array, beachmat.hdf5
Linking To	Rcpp, assorthead (>= 1.5.4)
Enhances
Depends On Me
Imports Me	batchelor, beachmat.hdf5, beachmat.tiledb, BiocSingular, bsseq, DropletUtils, glmGamPoi, mumosa, omicsGMF, PCAtools, scater, scran, scrapper, scuttle, SigBridgeRUtils, SingleR
Suggests Me	BiocNeighbors, mbkmeans, methFuse, scCB2
Links To Me	beachmat.hdf5, beachmat.tiledb, BiocNeighbors, BiocSingular, bsseq, dreamlet, DropletUtils, glmGamPoi, mbkmeans, PCAtools, scran, scrapper, scuttle, SigBridgeRUtils, SingleR
Build Report	Build Report, r-universe

Package Archives

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

Source Package	beachmat_2.28.0.tar.gz
Windows Binary (x86_64)	beachmat_2.28.0.zip (64-bit only)
macOS Binary (big-sur-x86_64)	beachmat_2.28.0.tgz
macOS Binary (sonoma-arm64)	beachmat_2.28.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/beachmat
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/beachmat
Package Short Url	https://bioconductor.org/packages/beachmat/
Package Downloads Report	Download Stats