The hardware and bandwidth for this mirror is donated by METANET, the Webhosting and Full Service-Cloud Provider.
If you wish to report a bug, or if you are interested in having us mirror your free-software or open-source project, please feel free to contact us at mirror[@]metanet.ch.
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>, Stuart T, Butler A, et al (2019) <doi:10.1016/j.cell.2019.05.031>, and Hao, Hao, et al (2020) <doi:10.1101/2020.10.12.335331> for more details.
Version: | 5.1.0 |
Depends: | R (≥ 4.0.0), methods, SeuratObject (≥ 5.0.2) |
Imports: | cluster, cowplot, fastDummies, fitdistrplus, future, future.apply, generics (≥ 0.1.3), ggplot2 (≥ 3.3.0), ggrepel, ggridges, graphics, grDevices, grid, httr, ica, igraph, irlba, jsonlite, KernSmooth, leiden (≥ 0.3.1), lifecycle, lmtest, MASS, Matrix (≥ 1.5-0), matrixStats, miniUI, patchwork, pbapply, plotly (≥ 4.9.0), png, progressr, purrr, RANN, RColorBrewer, Rcpp (≥ 1.0.7), RcppAnnoy (≥ 0.0.18), RcppHNSW, reticulate, rlang, ROCR, RSpectra, Rtsne, scales, scattermore (≥ 1.2), sctransform (≥ 0.4.1), shiny, spatstat.explore, spatstat.geom, stats, tibble, tools, utils, uwot (≥ 0.1.10) |
LinkingTo: | Rcpp (≥ 0.11.0), RcppEigen, RcppProgress |
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 |
Published: | 2024-05-10 |
DOI: | 10.32614/CRAN.package.Seurat |
Author: | 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] |
Maintainer: | Rahul Satija <seurat at nygenome.org> |
BugReports: | https://github.com/satijalab/seurat/issues |
License: | MIT + file LICENSE |
URL: | https://satijalab.org/seurat, https://github.com/satijalab/seurat |
NeedsCompilation: | yes |
Additional_repositories: | https://satijalab.r-universe.dev, https://bnprks.r-universe.dev |
Citation: | Seurat citation info |
Materials: | README NEWS |
In views: | Omics |
CRAN checks: | Seurat results |
Reference manual: | Seurat.pdf |
Package source: | Seurat_5.1.0.tar.gz |
Windows binaries: | r-devel: Seurat_5.1.0.zip, r-release: Seurat_5.1.0.zip, r-oldrel: Seurat_5.1.0.zip |
macOS binaries: | r-release (arm64): Seurat_5.1.0.tgz, r-oldrel (arm64): Seurat_5.1.0.tgz, r-release (x86_64): Seurat_5.1.0.tgz, r-oldrel (x86_64): Seurat_5.1.0.tgz |
Old sources: | Seurat archive |
Please use the canonical form https://CRAN.R-project.org/package=Seurat to link to this page.
These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.