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 
[aut],
Rahul Satija
[aut, cre],
David Collins
[aut],
Yuhan Hao [aut],
Austin Hartman
[aut],
Gesmira Molla
[aut],
Andrew Butler
[aut],
Tim Stuart [aut],
Madeline Kowalski
[ctb],
Saket Choudhary
[ctb],
Skylar Li [ctb],
Longda Jiang
[ctb],
Jeff Farrell [ctb],
Shiwei Zheng
[ctb],
Christoph Hafemeister
[ctb],
Patrick Roelli [ctb] |
| Maintainer: |
Rahul Satija <seurat at nygenome.org> |
| BugReports: |
https://github.com/satijalab/seurat-object/issues |
| License: |
MIT + file LICENSE |
| URL: |
https://satijalab.github.io/seurat-object/,
https://github.com/satijalab/seurat-object |
| NeedsCompilation: |
yes |
| Additional_repositories: |
https://bnprks.r-universe.dev |
| Materials: |
NEWS |
| In views: |
Omics |
| CRAN checks: |
SeuratObject results |