Uses an extension of nonnegative matrix factorization to identify shared and dataset-specific factors. See Welch J, Kozareva V, et al (2019) <doi:10.1016/j.cell.2019.05.006>, and Liu J, Gao C, Sodicoff J, et al (2020) <doi:10.1038/s41596-020-0391-8> for more details.
Version: 2.2.0 Depends: methods, stats, utils, R (≥ 3.5) Imports: cli, DelayedArray, dplyr, ggplot2, grid, HDF5Array, hdf5r, leidenAlg (≥ 1.1.1), lifecycle, magrittr, Matrix, RANN, Rcpp, RcppPlanc (≥ 2.0.0), rlang, S4Vectors, scales, uwot LinkingTo: Rcpp, RcppArmadillo, RcppProgress Suggests: AnnotationDbi, circlize, ComplexHeatmap, cowplot, DESeq2, EnhancedVolcano, fgsea, GenomicRanges, ggrepel, gprofiler2, IRanges, knitr, org.Hs.eg.db, plotly, psych, reactome.db, rmarkdown, Rtsne, sankey, scattermore (≥ 0.7), Seurat, SeuratObject, SingleCellExperiment, SummarizedExperiment, testthat, viridis Published: 2025-05-01 DOI: 10.32614/CRAN.package.rliger Author: Joshua Welch [aut], Yichen Wang [aut, cre], Chao Gao [aut], Jialin Liu [aut], Joshua Sodicoff [aut, ctb], Velina Kozareva [aut, ctb], Evan Macosko [aut, ctb], Paul Hoffman [ctb], Ilya Korsunsky [ctb], Robert Lee [ctb], Andrew Robbins [ctb] Maintainer: Yichen Wang <wayichen at umich.edu> BugReports: https://github.com/welch-lab/liger/issues License: GPL-3 URL: https://welch-lab.github.io/liger/ NeedsCompilation: yes Materials: README NEWS CRAN checks: rliger results Documentation: Downloads: Reverse dependencies: Linking:Please use the canonical form https://CRAN.R-project.org/package=rliger to link to this page.
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