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Single-cell RNAseq cell cluster labelling by reference

Bioconductor version: Release (3.19)

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>

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


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


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

Manual HTML R Script
Reference Manual PDF


biocViews SingleCell, Software
Version 1.22.0
In Bioconductor since BioC 3.8 (R-3.5) (5.5 years)
License GPL-3
Depends R (>= 3.5.0), SummarizedExperiment
Imports MAST, ggplot2, Matrix, dplyr, magrittr, stats, utils, rlang, BiocGenerics, S4Vectors, readr, tibble, DelayedArray
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Suggests limma, parallel, knitr, rmarkdown, ExperimentHub, testthat
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Follow Installation instructions to use this package in your R session.

Source Package celaref_1.22.0.tar.gz
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macOS Binary (x86_64) celaref_1.22.0.tgz
macOS Binary (arm64) celaref_1.22.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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