A collection of methods to extract gene programs from single-cell gene expression data using non-negative matrix factorization (NMF). 'GeneNMF' contains functions to directly interact with the 'Seurat' toolkit and derive interpretable gene program signatures.
| Version: |
0.9.2 |
| Depends: |
R (≥ 4.3.0) |
| Imports: |
RcppML, Matrix, stats, methods, utils, Seurat (≥ 4.3.0), cluster, lsa, irlba, pheatmap, dendextend, viridis, colorspace |
| Suggests: |
knitr, rmarkdown, fgsea, msigdbr |
| Published: |
2025-09-11 |
| DOI: |
10.32614/CRAN.package.GeneNMF |
| Author: |
Massimo Andreatta 
[aut, cre],
Santiago Carmona
[aut] |
| Maintainer: |
Massimo Andreatta <massimo.andreatta at unige.ch> |
| BugReports: |
https://github.com/carmonalab/GeneNMF/issues |
| License: |
GPL-3 |
| URL: |
https://github.com/carmonalab/GeneNMF |
| NeedsCompilation: |
no |
| Materials: |
README, NEWS |
| CRAN checks: |
GeneNMF results |