SparseArray
This package is for version 3.17 of Bioconductor; for the stable, up-to-date release version, see SparseArray.
Efficient in-memory representation of multidimensional sparse arrays
Bioconductor version: 3.17
The SparseArray package is an infrastructure package that provides an array-like container for efficient in-memory representation of multidimensional sparse data in R. The package defines the SparseArray virtual class and two concrete subclasses: COO_SparseArray and SVT_SparseArray. Each subclass uses its own internal representation of the nonzero multidimensional data, the "COO layout" and the "SVT layout", respectively. SVT_SparseArray objects mimic as much as possible the behavior of ordinary matrix and array objects in base R. In particular, they suppport most of the "standard matrix and array API" defined in base R and in the matrixStats package from CRAN.
Author: Hervé Pagès [aut, cre], Vince Carey [fnd], Rafael A. Irizarry [fnd]
Maintainer: Hervé Pagès <hpages.on.github at gmail.com>
citation("SparseArray")):
Installation
To install this package, start R (version "4.3") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("SparseArray")
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("SparseArray")| SparseArray objects | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DataRepresentation, Infrastructure, Software |
| Version | 1.0.12 |
| In Bioconductor since | BioC 3.17 (R-4.3) (1 year) |
| License | Artistic-2.0 |
| Depends | R (>= 4.3.0), methods, Matrix, BiocGenerics(>= 0.43.1), MatrixGenerics(>= 1.11.1), S4Vectors, S4Arrays(>= 1.0.6) |
| Imports | stats, matrixStats, IRanges, XVector |
| System Requirements | |
| URL | https://bioconductor.org/packages/SparseArray |
| Bug Reports | https://github.com/Bioconductor/SparseArray/issues |
See More
| Suggests | DelayedArray, testthat, knitr, rmarkdown, BiocStyle |
| Linking To | S4Vectors, IRanges, XVector |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | MatrixGenerics, S4Arrays |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | SparseArray_1.0.12.tar.gz |
| Windows Binary | SparseArray_1.0.12.zip |
| macOS Binary (x86_64) | SparseArray_1.0.12.tgz |
| macOS Binary (arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/SparseArray |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/SparseArray |
| Bioc Package Browser | https://code.bioconductor.org/browse/SparseArray/ |
| Package Short Url | https://bioconductor.org/packages/SparseArray/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.17 | Source Archive |