SingleRBook

This is the released version of SingleRBook; for the devel version, see SingleRBook.

All versions

3.24 (devel), 3.23 (release)

The Book of SingleR

Bioconductor version: Release (3.23)

Comprehensive guide to using the SingleR Bioconductor package (https://bioconductor.org/packages/SingleR) for automated cell annotation in single-cell RNA-seq datasets. Includes theoretical explanations, worked examples with code, and demonstrations of advanced functionality.

Author: Aaron Lun [aut, cre]

Maintainer: Aaron Lun <infinite.monkeys.with.keyboards at gmail.com>

Citation (from within R, enter citation("SingleRBook")):

Aaron Lun. SingleRBook: The Book of SingleR. doi:10.18129/B9.bioc.SingleRBook, R package version 1.22.0, https://bioconductor.org/packages/SingleRBook.

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("SingleRBook")

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("SingleRBook")

Link to book	HTML
Reference Manual	PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	ImmunoOncologyWorkflow, SingleCellWorkflow, Software, Workflow
Version	1.22.0
In Bioconductor since	BioC 3.23 (R-4.6) (< 6 months)
License	CC BY
Depends	AnnotationHub, BiocNeighbors, BiocParallel, BiocStyle, bluster, celldex, gridExtra, igraph, knitr, ontoProc, pheatmap, rebook, rmarkdown, scater, scran, scrapper, scRNAseq, scuttle, SingleR, TENxPBMCData, viridis
Imports
System Requirements
URL	https://github.com/LTLA/SingleRBook

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Build Report	Build Report, r-universe

Package Archives

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

Source Package
Windows Binary (x86_64)
macOS Binary (big-sur-x86_64)
macOS Binary (sonoma-arm64)
Source Repository	git clone https://git.bioconductor.org/packages/SingleRBook
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/SingleRBook
Package Short Url	https://bioconductor.org/packages/SingleRBook/
Package Downloads Report	Download Stats