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: 0.23.0
Depends: R (≥ 3.0.0), methods, utils, pkgmaker (≥ 0.20), registry, rngtools (≥ 1.2.3), cluster
Imports: graphics, stats, stringr (≥ 1.0.0), digest, grid, grDevices, gridBase, colorspace, RColorBrewer, foreach, doParallel, ggplot2, reshape2, BiocManager, Biobase
Suggests: fastICA, doMPI, bigmemory (≥ 4.2), synchronicity (≥ 1.3.2), corpcor, xtable, devtools, knitr, bibtex, RUnit, mail
Published: 2020-08-01
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


Reference manual: NMF.pdf
Vignettes: An introduction to the package NMF
NMF: generating heatmaps
Package source: NMF_0.23.0.tar.gz
Windows binaries: r-devel: NMF_0.23.0.zip, r-release: NMF_0.23.0.zip, r-oldrel: NMF_0.23.0.zip
macOS binaries: r-release: NMF_0.23.0.tgz, r-oldrel: NMF_0.23.0.tgz
Old sources: NMF archive

Reverse dependencies:

Reverse depends: CancerSubtypes, InterSIM, IntNMF, MutationalPatterns, signeR, SomaticSignatures, SparseSignatures
Reverse imports: biosvd, CAMTHC, chromswitch, clusterExperiment, debCAM, diceR, genBart, hNMF, miRSM, NanoStringQCPro, pcaExplorer, projectR, sigminer, SomaticSignatures, spectralAnalysis, SpNMF
Reverse suggests: AUCell, BEARscc, butcher, cola, crassmat, dimRed, iTOP, maftools, MAST, mlr3pipelines, scater, scone
Reverse enhances: fdm2id


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