Reference manual

It appears you don't have a PDF plugin for this browser. You can click here to download the reference manual.

install.packages("Seurat") by Paul Hoffman, 3 months ago,

Report a bug at

Browse source code at

Authors: Andrew Butler [ctb] , Saket Choudhary [ctb] , Charlotte Darby [ctb] , Jeff Farrell [ctb] , Christoph Hafemeister [ctb] , Yuhan Hao [ctb] , Austin Hartman [ctb] , Paul Hoffman [aut, cre] , Jaison Jain [ctb] , Madeline Kowalski [ctb] , Efthymia Papalexi [ctb] , Patrick Roelli [ctb] , Rahul Satija [ctb] , Karthik Shekhar [ctb] , Avi Srivastava [ctb] , Tim Stuart [ctb] , Kristof Torkenczy [ctb] , Shiwei Zheng [ctb] , Satija Lab and Collaborators [fnd]

Documentation:   PDF Manual  

MIT + file LICENSE license

Imports cluster, cowplot, fitdistrplus, future, future.apply, ggplot2, ggrepel, ggridges, graphics, grDevices, grid, httr, ica, igraph, irlba, jsonlite, KernSmooth, leiden, lmtest, MASS, Matrix, matrixStats, miniUI, patchwork, pbapply, plotly, png, progressr, RANN, RColorBrewer, Rcpp, RcppAnnoy, reticulate, rlang, ROCR, Rtsne, scales, scattermore, sctransform, SeuratObject, shiny, spatstat.explore, spatstat.geom, stats, tibble, tools, utils, uwot

Depends on methods

Suggests ape, rsvd, testthat, hdf5r, S4Vectors, SummarizedExperiment, SingleCellExperiment, MAST, DESeq2, BiocGenerics, GenomicRanges, GenomeInfoDb, IRanges, rtracklayer, Rfast2, monocle, Biobase, VGAM, limma, metap, enrichR, mixtools, ggrastr, data.table, R.utils

Linking to Rcpp, RcppEigen, RcppProgress

Imported by AnanseSeurat, CAMML, CIDER, CSCDRNA, DR.SC, DWLS, PRECAST, ProFAST, SCRIP, SPECK, STREAK, SignacX, SoupX, bbknnR, ggsector, gsdensity, mixhvg, rPanglaoDB, scAnnotate, scDiffCom, scGate, scMappR, scRNAstat, scperturbR, scpoisson.

Depended on by CACIMAR, scCustomize.

Suggested by BisqueRNA, CIARA, CRMetrics, Canek, ClustAssess, DIscBIO, RESET, SCORPIUS, SCpubr, Signac, VAM, cellpypes, clustree, combiroc, conos, countland, dyngen, grandR, harmony, rliger, treefit.

See at CRAN