DOI: 10.18129/B9.bioc.BiocSingular  

This package is for version 3.16 of Bioconductor; for the stable, up-to-date release version, see BiocSingular.

Singular Value Decomposition for Bioconductor Packages

Bioconductor version: 3.16

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>

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


To install this package, start R (version "4.2") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


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HTML R Script 1. SVD and PCA
HTML R Script 2. Matrix classes
PDF   Reference Manual
Text   NEWS


biocViews DimensionReduction, PrincipalComponent, Software
Version 1.14.0
In Bioconductor since BioC 3.9 (R-3.6) (4 years)
License GPL-3
Imports BiocGenerics, S4Vectors, Matrix, methods, utils, DelayedArray, BiocParallel, ScaledMatrix, irlba, rsvd, Rcpp, beachmat
LinkingTo Rcpp, beachmat
Suggests testthat, BiocStyle, knitr, rmarkdown, ResidualMatrix
SystemRequirements C++11
Depends On Me compartmap
Imports Me batchelor, BayesSpace, clusterExperiment, DelayedTensor, Dino, GSVA, miloR, mumosa, NanoMethViz, NewWave, PCAtools, scater, scDblFinder, scMerge, scran, scry, SingleR, velociraptor
Suggests Me HCAData, ResidualMatrix, ScaledMatrix, spatialHeatmap, splatter, Voyager
Links To Me
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Follow Installation instructions to use this package in your R session.

Source Package BiocSingular_1.14.0.tar.gz
Windows Binary (64-bit only)
macOS Binary (x86_64) BiocSingular_1.14.0.tgz
macOS Binary (arm64) BiocSingular_1.14.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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