scRNAseq
This is the released version of scRNAseq; for the devel version, see scRNAseq.
All Bioconductor versions of scRNAseq
3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4
Collection of Public Single-Cell RNA-Seq Datasets
Bioconductor version: 3.23 · Package version: 2.26.0
Gene-level counts for a collection of public scRNA-seq datasets, provided as SingleCellExperiment objects with cell- and gene-level metadata.
Author: Davide Risso [aut, cph], Michael Cole [aut], Aaron Lun [ctb, cre], Alan O'Callaghan [ctb], Jens Preussner [ctb], Charlotte Soneson [ctb], Stephany Orjuela [ctb], Daniel Bunis [ctb], Milan Malfait [ctb]
Maintainer: Aaron Lun <infinite.monkeys.with.keyboards at gmail.com>
Citation
From within R, enter citation("scRNAseq"):
Davide Risso, Michael Cole. scRNAseq: Collection of Public Single-Cell RNA-Seq Datasets. doi:10.18129/B9.bioc.scRNAseq, R package version 2.26.0, https://bioconductor.org/packages/scRNAseq.
Generated from the package metadata; it may differ from the package's own citation.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("scRNAseq")For older versions of R, please refer to the appropriate Bioconductor release.
Details
| Version | 2.26.0 |
| License | CC0 |
| Last updated | 2026-05-05 |
| In Bioconductor since | BioC 3.4 (R-3.3) (9 years) |
| Downloads rank | 7 of 434 |
| Source branch | RELEASE_3_23 |
| Build report | Bioconductor build system, r-universe |
| biocViews | ExperimentData, ExperimentHub, ExpressionData, RNASeqData, SequencingData, SingleCellData |
| Package Short Url | https://bioconductor.org/packages/scRNAseq/ |
Documentation
| Reference Manual |
Download
Follow the installation instructions to use this package in your R session.
| Source package | scRNAseq_2.26.0.tar.gz |
| Source Repository | git clone https://git.bioconductor.org/packages/scRNAseq |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/scRNAseq |
| Package Downloads Report | Download Stats |
Dependencies
Depends: SingleCellExperiment
Imports: utils, methods, Matrix, BiocGenerics, S4Vectors, SparseArray, DelayedArray, GenomicRanges, SummarizedExperiment, ExperimentHub (>= 2.3.4), AnnotationHub (>= 3.3.6), AnnotationDbi, ensembldb, GenomicFeatures, alabaster.base, alabaster.matrix, alabaster.sce, gypsum, jsonlite, DBI, RSQLite
Suggests: BiocStyle, knitr, rmarkdown, testthat, jsonvalidate, BiocManager
Reverse dependencies
Imports Me (1): singleCellTK
Suggests Me (48): APL, BASiCS, batchelor, bluster, ccImpute, CellMentor, ClusterFoldSimilarity, Coralysis, CSOA, destiny, dittoSeq, Glimma, GSABenchmark, hammers, iSEE, iSEEfier, iSEEhex, iSEEindex, iSEEu, LISTO, looking4clusters, miloR, miQC, mumosa, ReactomeGSA, scAnnotatR, scater, scDblFinder, scDiagnostics, scDotPlot, scECODA, scFeatureFilter, scLang, scone, scran, scrapper, scStability, scTreeViz, scuttle, SingleCellExperiment, SingleR, speakeasyR, SplineDV, StatescopeR, UCell, velociraptor, zellkonverter, zinbwave