scRNAseq

DOI: 10.18129/B9.bioc.scRNAseq    

This package is for version 3.15 of Bioconductor; for the stable, up-to-date release version, see scRNAseq.

Collection of Public Single-Cell RNA-Seq Datasets

Bioconductor version: 3.15

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>

Installation

To install this package, start R (version "4.2") 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.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("scRNAseq")

 

HTML	R Script	User's Guide
PDF		Reference Manual
Text		NEWS

Details

biocViews	ExperimentData, ExperimentHub, ExpressionData, RNASeqData, SequencingData, SingleCellData
Version	2.10.0
License	CC0
Depends	SingleCellExperiment
Imports	utils, methods, BiocGenerics, S4Vectors, GenomicRanges, SummarizedExperiment, ExperimentHub(>= 2.3.4), AnnotationHub(>= 3.3.6), AnnotationDbi, ensembldb, GenomicFeatures
LinkingTo
Suggests	BiocStyle, knitr, rmarkdown, BiocFileCache, testthat, rappdirs, tools
SystemRequirements
Enhances
URL
Depends On Me	OSCA.advanced, OSCA.basic, OSCA.intro, OSCA.workflows
Imports Me	singleCellTK
Suggests Me	APL, batchelor, bluster, destiny, dittoSeq, Glimma, iSEE, iSEEu, miQC, mumosa, scAnnotatR, scater, scDblFinder, scFeatureFilter, scone, scran, scTreeViz, scuttle, SingleCellExperiment, SingleR, SummarizedBenchmark, UCell, velociraptor, zellkonverter, zinbwave
Links To Me
Build Report

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package	scRNAseq_2.10.0.tar.gz
Windows Binary
macOS Binary (x86_64)
Source Repository	git clone https://git.bioconductor.org/packages/scRNAseq
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/scRNAseq
Package Short Url	https://bioconductor.org/packages/scRNAseq/
Package Downloads Report	Download Stats