Package: RcppML
Type: Package
Title: Fast Non-Negative Matrix Factorization and Divisive Clustering
Version: 1.0.0
Date: 2026-03-10
Authors@R: person("Zachary", "DeBruine", 
    email = "zacharydebruine@gmail.com", 
    role = c("aut", "cre"), 
    comment = c(ORCID = "0000-0003-2234-4827"))
Description: High-performance non-negative matrix factorization (NMF),
        singular value decomposition (SVD), and divisive clustering for
        large sparse and dense matrices. Implements alternating least
        squares with coordinate descent and Cholesky NNLS solvers,
        diagonal scaling for interpretable factors, cross-validation
        for automatic rank selection, multiple distribution-based
        losses (Gaussian, Poisson, Generalized Poisson, Negative
        Binomial, Gamma, Inverse Gaussian, Tweedie) via iteratively
        reweighted least squares, regularization (L1, L2, L21, angular,
        graph Laplacian), and optional GPU acceleration via CUDA.
        Includes divisive clustering via recursive rank-2
        factorization, consensus clustering, and the StreamPress
        compressed sparse matrix format. Methods are described in
        DeBruine, Melcher, and Triche (2021)
        <doi:10.1101/2021.09.01.458620>.
Depends: R (>= 4.1.0), Matrix
License: GPL (>= 3)
Imports: Rcpp, methods, stats, utils
LinkingTo: Rcpp, RcppEigen
RoxygenNote: 7.3.3
Suggests: ggplot2, hdf5r, jsonlite, knitr, pheatmap, randomForest,
        RColorBrewer, rmarkdown, patchwork, plotly, scales, Seurat,
        SeuratData, SeuratObject, testthat (>= 3.0.0), uwot, viridis
VignetteBuilder: knitr
Config/testthat/edition: 3
LazyData: true
LazyDataCompression: xz
URL: https://github.com/zdebruine/RcppML
BugReports: https://github.com/zdebruine/RcppML/issues
SystemRequirements: CUDA Toolkit >= 11.0 (optional, for GPU
        acceleration)
Encoding: UTF-8
Config/pak/sysreqs: nvidia-cuda-dev
Repository: https://zdebruine.r-universe.dev
Date/Publication: 2026-04-06 20:58:48 UTC
RemoteUrl: https://github.com/zdebruine/rcppml
RemoteRef: HEAD
RemoteSha: df69dddbe37962cd0179b6b6c6ace94e400b4f60
NeedsCompilation: yes
Packaged: 2026-07-05 06:30:11 UTC; root
Author: Zachary DeBruine [aut, cre] (ORCID:
    <https://orcid.org/0000-0003-2234-4827>)
Maintainer: Zachary DeBruine <zacharydebruine@gmail.com>