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 Stuart T, Butler A, et al (2019) <doi:10.1016/j.cell.2019.05.031> for more details.
| Version: |
3.2.0 |
| Depends: |
R (≥ 3.4.0), methods |
| Imports: |
ape, cluster, cowplot, fitdistrplus, future, future.apply, ggplot2 (≥ 3.0.0), ggrepel, ggridges, graphics, grDevices, grid, httr, ica, igraph, irlba, jsonlite, KernSmooth, leiden (≥ 0.3.1), lmtest, MASS, Matrix (≥ 1.2-14), miniUI, patchwork, pbapply, plotly (≥ 4.9.0), png, RANN, RColorBrewer, Rcpp, RcppAnnoy, reticulate, rlang, ROCR, rsvd, Rtsne, scales, sctransform (≥ 0.2.0), shiny, spatstat, stats, tibble, tools, utils, uwot (≥ 0.1.5) |
| LinkingTo: |
Rcpp (≥ 0.11.0), RcppEigen, RcppProgress |
| Suggests: |
loomR, testthat, hdf5r, S4Vectors, SummarizedExperiment, SingleCellExperiment, MAST, DESeq2, BiocGenerics, GenomicRanges, GenomeInfoDb, IRanges, rtracklayer, Rfast2, monocle, Biobase, VGAM, limma, metap |
| Published: |
2020-07-16 |
| Author: |
Rahul Satija 
[aut],
Andrew Butler
[aut],
Paul Hoffman
[aut, cre],
Tim Stuart [aut],
Jeff Farrell [ctb],
Shiwei Zheng
[ctb],
Christoph Hafemeister
[ctb],
Patrick Roelli [ctb],
Yuhan Hao [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 |