NMF: Algorithms and Framework for Nonnegative Matrix Factorization (NMF)

Provides a framework to perform Non-negative Matrix Factorization (NMF). The package implements a set of already published algorithms and seeding methods, and provides a framework to test, develop and plug new/custom algorithms. Most of the built-in algorithms have been optimized in C++, and the main interface function provides an easy way of performing parallel computations on multicore machines.

Version: 0.25
Depends: R (≥ 3.0.0), methods, utils, registry, rngtools (≥ 1.2.3), cluster
Imports: graphics, stats, stringr (≥ 1.0.0), digest, grid, grDevices, gridBase, colorspace, RColorBrewer, foreach, doParallel, ggplot2, reshape2, Biobase, codetools, BiocManager
Suggests: fastICA, doMPI, bigmemory (≥ 4.2), synchronicity (≥ 1.3.2), corpcor, xtable, devtools, knitr, RUnit, mail
Published: 2022-11-18
Author: Renaud Gaujoux, Cathal Seoighe
Maintainer: Nicolas Sauwen <nicolas.sauwen at openanalytics.eu>
License: GPL-2 | GPL-3 [expanded from: GPL (≥ 2)]
URL: http://renozao.github.io/NMF/
NeedsCompilation: yes
Citation: NMF citation info
Materials: README NEWS
CRAN checks: NMF results

Documentation:

Reference manual: NMF.pdf
Vignettes: An introduction to the package NMF
NMF: generating heatmaps

Downloads:

Package source: NMF_0.25.tar.gz
Windows binaries: r-devel: NMF_0.25.zip, r-release: NMF_0.24.0.zip, r-oldrel: NMF_0.25.zip
macOS binaries: r-release (arm64): NMF_0.25.tgz, r-oldrel (arm64): NMF_0.25.tgz, r-release (x86_64): NMF_0.25.tgz, r-oldrel (x86_64): NMF_0.25.tgz
Old sources: NMF archive

Reverse dependencies:

Reverse depends: CancerSubtypes, InterSIM, IntNMF, musicatk, MutationalPatterns, RESOLVE, signeR, SomaticSignatures, SparseSignatures
Reverse imports: chromswitch, clusterExperiment, DBNMFrank, debCAM, diceR, hNMF, miRSM, NanoStringQCPro, pcaExplorer, projectR, scITD, shattering, sigminer, SomaticSignatures, spectralAnalysis, SpNMF, SPOTlight
Reverse suggests: AUCell, BEARscc, cola, crassmat, dimRed, Evacluster, iTOP, maftools, MAST, mlr3pipelines, scone
Reverse enhances: fdm2id

Linking:

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