celaref

DOI: 10.18129/B9.bioc.celaref    

This is the development version of celaref; for the stable release version, see celaref.

Single-cell RNAseq cell cluster labelling by reference

Bioconductor version: Development (3.9)

After the clustering step of a single-cell RNAseq experiment, this package aims to suggest labels/cell types for the clusters, on the basis of similarity to a reference dataset. It requires a table of read counts per cell per gene, and a list of the cells belonging to each of the clusters, (for both test and reference data).

Author: Sarah Williams [aut, cre]

Maintainer: Sarah Williams <sarah.williams1 at monash.edu>

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

Installation

To install this package, start R and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("celaref", version = "3.9")

Documentation

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

browseVignettes("celaref")

 

HTML R Script Manual
PDF   Reference Manual
Text   NEWS

Details

biocViews SingleCell, Software
Version 1.1.0
License GPL-3
Depends R (>= 3.5.0), SummarizedExperiment
Imports MAST, ggplot2, Matrix, dplyr, magrittr, stats, utils, rlang, BiocGenerics, S4Vectors, readr, tibble
LinkingTo
Suggests limma, parallel, knitr, rmarkdown, ExperimentHub
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

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

Source Package celaref_1.1.0.tar.gz
Windows Binary celaref_1.1.0.zip
Mac OS X 10.11 (El Capitan) celaref_1.1.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/celaref
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/celaref
Package Short Url http://bioconductor.org/packages/celaref/
Package Downloads Report Download Stats

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