Seurat: Tools for Single Cell Genomics

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) <doi:10.1038/nbt.3192>, Macosko E, Basu A, Satija R, et al (2015) <doi:10.1016/j.cell.2015.05.002>, and Butler A and Satija R (2017) <doi:10.1101/164889> for more details.

Version: 3.1.0
Depends: R (≥ 3.4.0), methods
Imports: ape, cluster, cowplot, fitdistrplus, future, future.apply, ggplot2 (≥ 3.0.0), ggrepel, ggridges, graphics, grDevices, grid, ica, igraph, irlba, KernSmooth, leiden (≥ 0.3.1), lmtest, MASS, Matrix (≥ 1.2-14), metap, pbapply, plotly, png, RANN, RColorBrewer, Rcpp, RcppAnnoy, reticulate, rlang, ROCR, rsvd, Rtsne, scales, sctransform (≥ 0.2.0), SDMTools, stats, tools, tsne, utils, uwot
LinkingTo: Rcpp (≥ 0.11.0), RcppEigen, RcppProgress
Suggests: loomR, testthat, hdf5r, S4Vectors, SummarizedExperiment, SingleCellExperiment, MAST, DESeq2, GenomicRanges, GenomeInfoDb, IRanges, rtracklayer, monocle, Biobase, VGAM
Published: 2019-08-20
Author: Rahul Satija ORCID iD [aut], Andrew Butler ORCID iD [aut], Paul Hoffman ORCID iD [aut, cre], Tim Stuart ORCID iD [aut], Jeff Farrell [ctb], Shiwei Zheng ORCID iD [ctb], Christoph Hafemeister ORCID iD [ctb], Patrick Roelli [ctb], Yuhan Hao ORCID iD [ctb]
Maintainer: Paul Hoffman <nygcSatijalab at nygenome.org>
BugReports: https://github.com/satijalab/seurat/issues
License: GPL-3 | file LICENSE
URL: http://www.satijalab.org/seurat, https://github.com/satijalab/seurat
NeedsCompilation: yes
Citation: Seurat citation info
Materials: README NEWS
CRAN checks: Seurat results

Downloads:

Reference manual: Seurat.pdf
Package source: Seurat_3.1.0.tar.gz
Windows binaries: r-devel: Seurat_3.0.2.zip, r-release: Seurat_3.0.2.zip, r-oldrel: Seurat_3.1.0.zip
OS X binaries: r-release: Seurat_3.1.0.tgz, r-oldrel: Seurat_3.1.0.tgz
Old sources: Seurat archive

Reverse dependencies:

Reverse suggests: BisqueRNA, clustree, iCellR

Linking:

Please use the canonical form https://CRAN.R-project.org/package=Seurat to link to this page.