CRAN/E | SeuratObject

SeuratObject

Data Structures for Single Cell Data

Installation

About

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.

mojaveazure.github.io/seurat-object/
github.com/mojaveazure/seurat-object
Bug report File report

Key Metrics

Version 5.0.1
R ≥ 4.0.0
Published 2023-11-17 13 days ago
Needs compilation? yes
License MIT
License File
CRAN checks SeuratObject results

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Maintainer

Maintainer

Paul Hoffman

seurat@nygenome.org

Authors

Rahul Satija

aut

Paul Hoffman

aut / cre

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

Material

NEWS
Reference manual
Package source

In Views

Omics

Additional repos

bnprks.r-universe.dev

macOS

r-release

arm64

r-oldrel

arm64

r-release

x86_64

r-oldrel

x86_64

Windows

r-devel

x86_64

r-release

x86_64

r-oldrel

x86_64

Old Sources

SeuratObject archive

Depends

R ≥ 4.0.0
sp ≥ 1.5.0

Imports

future
future.apply
grDevices
grid
Matrix ≥ 1.6.3
methods
progressr
Rcpp ≥ 1.0.5
rlang ≥ 0.4.7
stats
tools
utils
spam
lifecycle
generics

Suggests

DelayedArray
fs ≥ 1.5.2
ggplot2
HDF5Array
rmarkdown
testthat
BPCells
sf ≥ 1.0.0

Enhances

Seurat

LinkingTo

Rcpp
RcppEigen

Reverse Depends

SCArray.sat
Seurat
tidyseurat

Reverse Imports

bbknnR
CAMML
CuratedAtlasQueryR
GeomxTools
mastR
scaper
sccomp
scCustomize
scpoisson
scRepertoire
scRNAseqApp
Signac
SpatialDecon

Reverse Suggests

cellpypes
CoGAPS
DCATS
edgeR
escape
ggsc
Nebulosa
RESET
rliger
scOntoMatch
SCpubr
singleCellHaystack
SPECK
SPOTlight
VAM