Linked Inference of Genomic Experimental Relationships R package rliger version 2.2.1 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. Software 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 Yichen Wang <wayichen@umich.edu> Comprehensive R Archive Network (CRAN) 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] GPL-3 2025-08-26 application/tgz https://CRAN.R-project.org/package=rliger doi:10.32614/CRAN.package.rliger