scRNAseq
This is the development version of scRNAseq; for the stable release version, see scRNAseq.
Collection of Public Single-Cell RNA-Seq Datasets
Bioconductor version: Development (3.21)
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 "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
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 | 2.21.0 |
| 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.intro, OSCA.workflows, SingleRBook |
| Imports Me | singleCellTK |
| Suggests Me | APL, BASiCS, batchelor, bluster, ccImpute, ClusterFoldSimilarity, destiny, dittoSeq, Glimma, iSEE, iSEEfier, iSEEhex, iSEEindex, iSEEu, miloR, miQC, mumosa, scAnnotatR, scater, scDblFinder, scDiagnostics, scDotPlot, scFeatureFilter, scone, scran, scrapper, 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_2.21.0.tar.gz |
| Windows Binary (x86_64) | |
| 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 |