Package: Seurat Version: 5.6.0 Title: Tools for Single Cell Genomics Description: A toolkit for quality control, analysis, and exploration of single cell RNA sequencing data. 'Seurat' aims to enable users to identify and interpret sources of heterogeneity from single cell transcriptomic measurements, and to integrate diverse types of single cell data. See Satija R, Farrell J, Gennert D, et al (2015) , Macosko E, Basu A, Satija R, et al (2015) , Stuart T, Butler A, et al (2019) , and Hao, Hao, et al (2020) for more details. Authors@R: c( person(given = "Andrew", family = "Butler", email = "abutler@nygenome.org", role = "ctb", comment = c(ORCID = "0000-0003-3608-0463")), person(given = "Saket", family = "Choudhary", email = "schoudhary@nygenome.org", role = "ctb", comment = c(ORCID = "0000-0001-5202-7633")), person(given = 'David', family = 'Collins', email = 'dcollins@nygenome.org', role = 'ctb', comment = c(ORCID = '0000-0001-9243-7821')), person(given = "Charlotte", family = "Darby", email = "cdarby@nygenome.org", role = "ctb", comment = c(ORCID = "0000-0003-2195-5300")), person(given = "Jeff", family = "Farrell", email = "jfarrell@g.harvard.edu", role = "ctb"), person(given = "Isabella", family = "Grabski", email = "igrabski@nygenome.org", role = "ctb", comment = c(ORCID = "0000-0002-0616-5469")), person(given = "Christoph", family = "Hafemeister", email = "chafemeister@nygenome.org", role = "ctb", comment = c(ORCID = "0000-0001-6365-8254")), person(given = "Yuhan", family = "Hao", email = "yhao@nygenome.org", role = "ctb", comment = c(ORCID = "0000-0002-1810-0822")), person(given = "Austin", family = "Hartman", email = "ahartman@nygenome.org", role = "ctb", comment = c(ORCID = "0000-0001-7278-1852")), person(given = "Paul", family = "Hoffman", email = "hoff0792@umn.edu", role = "ctb", comment = c(ORCID = "0000-0002-7693-8957")), person(given = "Jaison", family = "Jain", email = "jjain@nygenome.org", role = "ctb", comment = c(ORCID = "0000-0002-9478-5018")), person(given = "Longda", family = "Jiang", email = "ljiang@nygenome.org", role = "ctb", comment = c(ORCID = "0000-0003-4964-6497")), person(given = "Madeline", family = "Kowalski", email = "mkowalski@nygenome.org", role = "ctb", comment = c(ORCID = "0000-0002-5655-7620")), person(given = "Skylar", family = "Li", email = "sli@nygenome.org", role = "ctb"), person(given = "Gesmira", family = "Molla", email = 'gmolla@nygenome.org', role = 'ctb', comment = c(ORCID = '0000-0002-8628-5056')), person(given = "Efthymia", family = "Papalexi", email = "epapalexi@nygenome.org", role = "ctb", comment = c(ORCID = "0000-0001-5898-694X")), person(given = "Patrick", family = "Roelli", email = "proelli@nygenome.org", role = "ctb"), person(given = "Rahul", family = "Satija", email = "seurat@nygenome.org", role = c("aut", "cre"), comment = c(ORCID = "0000-0001-9448-8833")), person(given = "Karthik", family = "Shekhar", email = "kshekhar@berkeley.edu", role = "ctb"), person(given = "Anagha", family = "Shenoy", email = "ashenoy@nygenome.org", role = "ctb", comment = c(ORCID = "0000-0002-0537-6862")), person(given = "Avi", family = "Srivastava", email = "asrivastava@nygenome.org", role = "ctb", comment = c(ORCID = "0000-0001-9798-2079")), person(given = "Tim", family = "Stuart", email = "tstuart@nygenome.org", role = "ctb", comment = c(ORCID = "0000-0002-3044-0897")), person(given = "Kristof", family = "Torkenczy", email = "", role = "ctb", comment = c(ORCID = "0000-0002-4869-7957")), person(given = "Brian", family = "Zhang", email = "brianzhang@nygenome.org", role = "ctb"), person(given = "Shiwei", family = "Zheng", email = "szheng@nygenome.org", role = "ctb", comment = c(ORCID = "0000-0001-6682-6743")), person("Satija Lab and Collaborators", role = "fnd") ) License: MIT + file LICENSE URL: https://satijalab.org/seurat, https://github.com/satijalab/seurat BugReports: https://github.com/satijalab/seurat/issues Additional_repositories: https://satijalab.r-universe.dev, https://bnprks.r-universe.dev Depends: R (>= 4.0.0), methods, SeuratObject (>= 5.0.2) Imports: cluster, cowplot, fastDummies, fitdistrplus, future, future.apply, generics (>= 0.1.3), ggplot2 (>= 3.3.0), ggrepel, ggridges, graphics, grDevices, grid, httr, ica, igraph, irlba, jsonlite, KernSmooth, lifecycle, lmtest, MASS, Matrix (>= 1.5-0), matrixStats, miniUI, patchwork, pbapply, plotly (>= 4.9.0), png, progressr, RANN, RColorBrewer, Rcpp (>= 1.0.7), RcppAnnoy (>= 0.0.18), RcppHNSW, reticulate, rlang, ROCR, RSpectra, Rtsne, scales, scattermore (>= 1.2), sctransform (>= 0.4.1), shiny, spatstat.explore, spatstat.geom, stats, tibble, tools, utils, uwot (>= 0.2.4) Suggests: ape, arrow, base64enc, Biobase, BiocGenerics, BPCells, data.table, DESeq2, DelayedArray, enrichR, GenomicRanges, GenomeInfoDb, glmGamPoi, ggrastr, harmony, hdf5r, IRanges, leidenbase, limma, magrittr, MAST, metap, mixtools, monocle, presto, rsvd, R.utils, Rfast2, rtracklayer, S4Vectors, sf (>= 1.0.0), sp, SingleCellExperiment, SummarizedExperiment, testthat, VGAM LinkingTo: Rcpp (>= 0.11.0), RcppAnnoy (>= 0.0.18), RcppEigen, RcppProgress, RcppThread, RSpectra SystemRequirements: GNU make BuildManual: true Encoding: UTF-8 LazyData: true RoxygenNote: 7.3.3 Collate: 'RcppExports.R' 'reexports.R' 'generics.R' 'clustering.R' 'visualization.R' 'convenience.R' 'data.R' 'differential_expression.R' 'dimensional_reduction.R' 'integration.R' 'zzz.R' 'integration5.R' 'mixscape.R' 'objects.R' 'preprocessing.R' 'preprocessing5.R' 'roxygen.R' 'sketching.R' 'tree.R' 'utilities.R' NeedsCompilation: yes Packaged: 2026-10-09 12:17:45 UTC; root Author: Andrew Butler [ctb] (ORCID: ), Saket Choudhary [ctb] (ORCID: ), David Collins [ctb] (ORCID: ), Charlotte Darby [ctb] (ORCID: ), Jeff Farrell [ctb], Isabella Grabski [ctb] (ORCID: ), Christoph Hafemeister [ctb] (ORCID: ), Yuhan Hao [ctb] (ORCID: ), Austin Hartman [ctb] (ORCID: ), Paul Hoffman [ctb] (ORCID: ), Jaison Jain [ctb] (ORCID: ), Longda Jiang [ctb] (ORCID: ), Madeline Kowalski [ctb] (ORCID: ), Skylar Li [ctb], Gesmira Molla [ctb] (ORCID: ), Efthymia Papalexi [ctb] (ORCID: ), Patrick Roelli [ctb], Rahul Satija [aut, cre] (ORCID: ), Karthik Shekhar [ctb], Anagha Shenoy [ctb] (ORCID: ), Avi Srivastava [ctb] (ORCID: ), Tim Stuart [ctb] (ORCID: ), Kristof Torkenczy [ctb] (ORCID: ), Brian Zhang [ctb], Shiwei Zheng [ctb] (ORCID: ), Satija Lab and Collaborators [fnd] Maintainer: Rahul Satija Config/pak/sysreqs: make Repository: https://cran.r-universe.dev Date/Publication: 2026-10-03 13:10:02 UTC RemoteUrl: https://github.com/cran/Seurat RemoteRef: HEAD RemoteSha: 117c7f0f8490eae5737e8ebe7dfed96259bb0522