MatrixGenerics
This is the released version of MatrixGenerics; for the devel version, see MatrixGenerics.
S4 Generic Summary Statistic Functions that Operate on Matrix-Like Objects
Bioconductor version: Release (3.23)
S4 generic functions modeled after the 'matrixStats' API for alternative matrix implementations. Packages with alternative matrix implementation can depend on this package and implement the generic functions that are defined here for a useful set of row and column summary statistics. Other package developers can import this package and handle a different matrix implementations without worrying about incompatibilities.
Author: Constantin Ahlmann-Eltze [aut]
, Peter Hickey [aut, cre]
, Hervé Pagès [aut]
Maintainer: Peter Hickey <peter.hickey at gmail.com>
citation("MatrixGenerics")):
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M (2015). "Orchestrating high-throughput genomic analysis with Bioconductor." Nature Methods, 12(2), 115–121. doi:10.1038/nmeth.3252.
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JYH, Zhang J (2004). "Bioconductor: open software development for computational biology and bioinformatics." Genome Biology, 5(10), R80. doi:10.1186/gb-2004-5-10-r80.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("MatrixGenerics")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
| Reference Manual | |
| NEWS | Text |
Details
| biocViews | Infrastructure, Software |
| Version | 1.24.0 |
| In Bioconductor since | BioC 3.11 (R-4.0) (6.5 years) |
| License | Artistic-2.0 |
| Depends | matrixStats (>= 1.4.1) |
| Imports | methods |
| System Requirements | |
| URL | https://bioconductor.org/packages/MatrixGenerics |
| Bug Reports | https://github.com/Bioconductor/MatrixGenerics/issues |
See More
| Suggests | Matrix, sparseMatrixStats, SparseArray, DelayedArray, DelayedMatrixStats, SummarizedExperiment, testthat (>= 2.1.0) |
| Linking To | |
| Enhances | |
| Depends On Me | DelayedArray, DelayedMatrixStats, GenomicFiles, SparseArray, sparseMatrixStats, SummarizedExperiment, VariantAnnotation |
| Imports Me | atena, Banksy, blase, carnation, CoreGx, crisprDesign, CTexploreR, DeconvoBuddies, demuxSNP, DESeq2, dreamlet, escape, FLAMES, gCrisprTools, genefilter, glmGamPoi, GSVA, imcRtools, lemur, lineagespot, methodical, mia, miaSim, miloR, MinimumDistance, MultiAssayExperiment, muscat, omicsGMF, PDATK, plaid, RaggedExperiment, RAIDS, RCSL, SanityR, saseR, scater, scFeatures, scone, scPCA, scran, scuttle, scviR, Seqtometry, shinyMethyl, StabMap, tadar, TENxIO, tLOH, tpSVG, transformGamPoi, universalmotif, VanillaICE, Voyager, zitools, spatialLIBD, dbMatrix |
| Suggests Me | bnem, cypress, MungeSumstats, MoBPS |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | MatrixGenerics_1.24.0.tar.gz |
| Windows Binary (x86_64) | MatrixGenerics_1.24.0.zip (64-bit only) |
| macOS Binary (big-sur-x86_64) | MatrixGenerics_1.24.0.tgz |
| macOS Binary (sonoma-arm64) | MatrixGenerics_1.24.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/MatrixGenerics |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/MatrixGenerics |
| Bioc Package Browser | https://code.bioconductor.org/browse/MatrixGenerics/ |
| Package Short Url | https://bioconductor.org/packages/MatrixGenerics/ |
| Package Downloads Report | Download Stats |