scRNAseq
Collection of Public Single-Cell RNA-Seq Datasets
Bioconductor version: Release (3.19)
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("scRNAseq")
):
Installation
To install this package, start R (version "4.4") 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")
User's Guide | HTML | R Script |
Reference Manual | ||
NEWS | Text |
Details
biocViews | ExperimentData, ExperimentHub, ExpressionData, RNASeqData, SequencingData, SingleCellData |
Version | 2.18.0 |
License | CC0 |
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 |
System Requirements | |
URL |
See More
Suggests | BiocStyle, knitr, rmarkdown, testthat, jsonvalidate, BiocManager |
Linking To | |
Enhances | |
Depends On Me | OSCA.advanced, OSCA.basic, OSCA.intro, OSCA.workflows, SingleRBook |
Imports Me | singleCellTK |
Suggests Me | APL, BASiCS, batchelor, bluster, ccImpute, ClusterFoldSimilarity, destiny, dittoSeq, Glimma, iSEE, iSEEfier, iSEEhex, iSEEu, miloR, miQC, mumosa, scAnnotatR, scater, scDblFinder, scFeatureFilter, scone, scran, scTreeViz, scuttle, SingleCellExperiment, SingleR, UCell, velociraptor, zellkonverter, zinbwave, speakeasyR |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | scRNAseq_2.18.0.tar.gz |
Windows Binary | |
macOS Binary (x86_64) | |
macOS Binary (arm64) | |
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 |