Reference manual

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install.packages("Seurat")

5.1.0 by Rahul Satija, 2 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] , David Collins [ctb] , Charlotte Darby [ctb] , Jeff Farrell [ctb] , Isabella Grabski [ctb] , Christoph Hafemeister [ctb] , Yuhan Hao [ctb] , Austin Hartman [ctb] , Paul Hoffman [ctb] , Jaison Jain [ctb] , Longda Jiang [ctb] , Madeline Kowalski [ctb] , Skylar Li [ctb] , Gesmira Molla [ctb] , Efthymia Papalexi [ctb] , Patrick Roelli [ctb] , Rahul Satija [aut, cre] , 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, fastDummies, fitdistrplus, future, future.apply, generics, ggplot2, ggrepel, ggridges, graphics, grDevices, grid, httr, ica, igraph, irlba, jsonlite, KernSmooth, leiden, lifecycle, lmtest, MASS, Matrix, matrixStats, miniUI, patchwork, pbapply, plotly, png, progressr, purrr, RANN, RColorBrewer, Rcpp, RcppAnnoy, RcppHNSW, reticulate, rlang, ROCR, RSpectra, Rtsne, scales, scattermore, sctransform, shiny, spatstat.explore, spatstat.geom, stats, tibble, tools, utils, uwot

Depends on methods, SeuratObject

Suggests ape, arrow, BPCells, 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, presto, DelayedArray, harmony

Linking to Rcpp, RcppEigen, RcppProgress


Imported by APackOfTheClones, AnanseSeurat, CAMML, DR.SC, DWLS, GeneNMF, PRECAST, ProFAST, SCIntRuler, SCRIP, SPECK, STREAK, SignacX, SoupX, bbknnR, ggsector, mixhvg, nebula, rPanglaoDB, scAnnotate, scDiffCom, scGOclust, scGate, scMappR, scRNAstat, scaper, sccca, scperturbR, scpoisson, tidyseurat.

Depended on by CACIMAR, SCdeconR, scCustomize.

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

Enhanced by SeuratObject.


See at CRAN