scRNAseq
This is thereleased version of scRNAseq; for the devel version, seescRNAseq.
Collection of Public Single-Cell RNA-Seq Datasets
Bioconductor version: Release (3.22)
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")BiocManager::install("scRNAseq")For older versions of R, please refer to the appropriateBioconductor 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 | 2.24.0 |
| 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, OSTA |
| Suggests Me | APL,BASiCS,batchelor,bluster,ccImpute,ClusterFoldSimilarity,Coralysis,CSOA,destiny,dittoSeq,Glimma,iSEE,iSEEfier,iSEEhex,iSEEindex,iSEEu,looking4clusters,miloR,miQC,mumosa,ReactomeGSA,scAnnotatR,scater,scDblFinder,scDiagnostics,scDotPlot,scFeatureFilter,scone,scran,scrapper,scTreeViz,scuttle,SingleCellExperiment,SingleR,SplineDV,UCell,velociraptor,zellkonverter,zinbwave,scStability,speakeasyR |
| Links To Me | |
| Build Report | Build Report |
Package Archives
FollowInstallation instructions to use this package in your R session.
| Source Package | scRNAseq_2.24.0.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 |