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BiocSingular
This is thereleased version of BiocSingular; for the devel version, seeBiocSingular.
Singular Value Decomposition for Bioconductor Packages
Bioconductor version: Release (3.22)
Implements exact and approximate methods for singular value decomposition and principal components analysis, in a framework that allows them to be easily switched within Bioconductor packages or workflows. Where possible, parallelization is achieved using the BiocParallel framework.
Author: Aaron Lun [aut, cre, cph]
Maintainer: Aaron Lun <infinite.monkeys.with.keyboards at gmail.com>
citation("BiocSingular")):Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE)) install.packages("BiocManager")BiocManager::install("BiocSingular")For older versions of R, please refer to the appropriateBioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("BiocSingular")| 1. SVD and PCA | HTML | R Script |
| 2. Matrix classes | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DimensionReduction,PrincipalComponent,Software |
| Version | 1.26.1 |
| In Bioconductor since | BioC 3.9 (R-3.6) (6.5 years) |
| License | GPL-3 |
| Depends | |
| Imports | BiocGenerics,S4Vectors,Matrix, methods, utils,DelayedArray,BiocParallel,ScaledMatrix,irlba,rsvd,Rcpp,beachmat(>= 2.25.1) |
| System Requirements | C++17 |
| URL | https://github.com/LTLA/BiocSingular |
| Bug Reports | https://github.com/LTLA/BiocSingular/issues |
See More
| Suggests | testthat,BiocStyle,knitr,rmarkdown,ResidualMatrix |
| Linking To | Rcpp,beachmat,assorthead |
| Enhances | |
| Depends On Me | OSCA.advanced, OSCA.basic, OSCA.multisample, OSCA.workflows |
| Imports Me | batchelor,BayesSpace,clusterExperiment,COTAN,DelayedTensor,Dino,GSVA,miloR,MPAC,mumosa,NanoMethViz,NewWave,omicsGMF,ReactomeGSA,SCArray,SCArray.sat,scater,scDblFinder,scMerge,scran,scry,StabMap,velociraptor |
| Suggests Me | alabaster.matrix,chihaya,ResidualMatrix,ScaledMatrix,splatter,SuperCellCyto,Voyager,HCAData |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | BiocSingular_1.26.1.tar.gz |
| Windows Binary (x86_64) | BiocSingular_1.26.1.zip |
| macOS Binary (x86_64) | BiocSingular_1.26.1.tgz |
| macOS Binary (arm64) | BiocSingular_1.26.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/BiocSingular |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/BiocSingular |
| Bioc Package Browser | https://code.bioconductor.org/browse/BiocSingular/ |
| Package Short Url | https://bioconductor.org/packages/BiocSingular/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.22 | Source Archive |