Reference manual

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install.packages("Seurat")

4.3.0 by Paul Hoffman, 3 months ago


https://satijalab.org/seurat, https://github.com/satijalab/seurat


Report a bug at https://github.com/satijalab/seurat/issues


Browse source code at https://github.com/cran/Seurat


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, DUBStepR, DWLS, PALMO, PRECAST, Platypus, SCRIP, SPECK, STREAK, SignacX, SoupX, bbknnR, ggsector, mixhvg, rPanglaoDB, scAnnotate, scDiffCom, scGate, scRNAstat, scpoisson, tidyseurat.

Depended on by CACIMAR, scCustomize.

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


See at CRAN