SeuratObject: Data Structures for Single Cell Data

Defines S4 classes for single-cell genomic data and associated information, such as dimensionality reduction embeddings, nearest-neighbor graphs, and spatially-resolved coordinates. Provides data access methods and R-native hooks to ensure the Seurat object is familiar to other R users. 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>, Hao Y, Hao S, et al (2021) <doi:10.1016/j.cell.2021.04.048> and Hao Y, et al (2023) <doi:10.1101/2022.02.24.481684> for more details.

Version: 5.0.2
Depends: R (≥ 4.1.0), sp (≥ 1.5.0)
Imports: future, future.apply, grDevices, grid, Matrix (≥ 1.6.4), methods, progressr, Rcpp (≥ 1.0.5), rlang (≥ 0.4.7), stats, tools, utils, spam, lifecycle, generics
LinkingTo: Rcpp, RcppEigen
Suggests: DelayedArray, fs (≥ 1.5.2), ggplot2, HDF5Array, rmarkdown, testthat, BPCells, sf (≥ 1.0.0)
Enhances: Seurat
Published: 2024-05-08
DOI: 10.32614/CRAN.package.SeuratObject
Author: Paul Hoffman ORCID iD [aut], Rahul Satija ORCID iD [aut, cre], David Collins ORCID iD [aut], Yuhan Hao ORCID iD [aut], Austin Hartman ORCID iD [aut], Gesmira Molla ORCID iD [aut], Andrew Butler ORCID iD [aut], Tim Stuart ORCID iD [aut], Madeline Kowalski ORCID iD [ctb], Saket Choudhary ORCID iD [ctb], Skylar Li [ctb], Longda Jiang ORCID iD [ctb], Jeff Farrell [ctb], Shiwei Zheng ORCID iD [ctb], Christoph Hafemeister ORCID iD [ctb], Patrick Roelli [ctb]
Maintainer: Rahul Satija <seurat at>
License: MIT + file LICENSE
NeedsCompilation: yes
Materials: NEWS
In views: Omics
CRAN checks: SeuratObject results


Reference manual: SeuratObject.pdf


Package source: SeuratObject_5.0.2.tar.gz
Windows binaries: r-devel:, r-release:, r-oldrel:
macOS binaries: r-release (arm64): SeuratObject_5.0.2.tgz, r-oldrel (arm64): SeuratObject_5.0.2.tgz, r-release (x86_64): SeuratObject_5.0.2.tgz, r-oldrel (x86_64): SeuratObject_5.0.2.tgz
Old sources: SeuratObject archive

Reverse dependencies:

Reverse depends: SCArray.sat, Seurat, tidyseurat
Reverse imports: APackOfTheClones, bbknnR, CAMML, CDI, ClusterFoldSimilarity, clustifyr, CuratedAtlasQueryR, escape, GeomxTools, mastR, Nebulosa, scAnnotate, scaper, sccomp, scCustomize, SCIntRuler, scpoisson, scRepertoire, scRNAseqApp, Signac, SpatialDecon
Reverse suggests: cellpypes, CoGAPS, CytoSimplex, DCATS, edgeR, ggsc, MOFA2, projectR, RESET, rliger, scOntoMatch, SCpubr, SFEData, SimBu, singleCellHaystack, singleCellTK, SpatialFeatureExperiment, SpaTopic, SPECK, UCell, VAM


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