beachmat

Compiling Bioconductor to Handle Each Matrix Type

Bioconductor version: Release (3.17)

Provides a consistent C++ class interface for reading from and writing data to a variety of commonly used matrix types. Ordinary matrices and several sparse/dense Matrix classes are directly supported, third-party S4 classes may be supported by external linkage, while all other matrices are handled by DelayedArray block processing.

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")):

Installation

To install this package, start R (version "4.3") 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")

1. Developer guide	HTML	R Script
2. Reading data from R matrices in C++ (v2)	HTML	R Script
3. Writing data into R matrix objects (v2)	HTML	R Script
4. Supporting arbitrary matrix classes (v2)	HTML	R Script
Reference Manual	PDF
NEWS	Text

Details

biocViews	DataImport, DataRepresentation, Infrastructure, Software
Version	2.16.0
In Bioconductor since	BioC 3.6 (R-3.4) (6 years)
License	GPL-3
Depends
Imports	methods, DelayedArray(>= 0.15.14), BiocGenerics, Matrix, Rcpp
Linking To	Rcpp
Suggests	testthat, BiocStyle, knitr, rmarkdown, rcmdcheck, BiocParallel, HDF5Array
System Requirements	C++11
Enhances
URL

Depends On Me
Imports Me	batchelor, BiocSingular, DropletUtils, mumosa, scater, scran, scuttle, SingleR
Suggests Me	bsseq, glmGamPoi, mbkmeans, PCAtools, scCB2
Links To Me	BiocSingular, bsseq, DropletUtils, glmGamPoi, mbkmeans, PCAtools, scran, scuttle, SingleR
Build Report

Package Archives

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

Source Package	beachmat_2.16.0.tar.gz
Windows Binary	beachmat_2.16.0.zip (64-bit only)
macOS Binary (x86_64)	beachmat_2.16.0.tgz
macOS Binary (arm64)	beachmat_2.16.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/beachmat
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/beachmat
Bioc Package Browser	https://code.bioconductor.org/browse/beachmat/
Package Short Url	https://bioconductor.org/packages/beachmat/
Package Downloads Report	Download Stats