Package: GeneNMF
Type: Package
Title: Non-Negative Matrix Factorization for Single-Cell Omics
Version: 0.9.2
Authors@R: c(
  person('Massimo', 'Andreatta',
    email = 'massimo.andreatta@unige.ch',
    role = c('aut','cre'),
    comment = c(ORCID = '0000-0002-8036-2647')),
  person('Santiago', 'Carmona',
    email = 'santiago.carmona@unige.ch',
    role = c('aut'),
    comment = c(ORCID = '0000-0002-2495-0671')) 
  )
Description: 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.
biocViews:
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
VignetteBuilder: knitr
URL: https://github.com/carmonalab/GeneNMF
BugReports: https://github.com/carmonalab/GeneNMF/issues
License: GPL-3
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.3.2
NeedsCompilation: no
Packaged: 2025-09-11 12:04:31 UTC; mass
Author: Massimo Andreatta [aut, cre] (ORCID:
    <https://orcid.org/0000-0002-8036-2647>),
  Santiago Carmona [aut] (ORCID: <https://orcid.org/0000-0002-2495-0671>)
Maintainer: Massimo Andreatta <massimo.andreatta@unige.ch>
Repository: CRAN
Date/Publication: 2025-09-11 12:30:02 UTC
Built: R 4.6.0; ; 2026-04-30 11:41:29 UTC; unix
