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 (3.20)
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("celaref")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("celaref")
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("celaref")
Manual | HTML | R Script |
Reference Manual | ||
NEWS | Text |
Details
biocViews | SingleCell, Software |
Version | 1.23.0 |
In Bioconductor since | BioC 3.8 (R-3.5) (6 years) |
License | GPL-3 |
Depends | R (>= 3.5.0), SummarizedExperiment |
Imports | MAST, ggplot2, Matrix, dplyr, magrittr, stats, utils, rlang, BiocGenerics, S4Vectors, readr, tibble, DelayedArray |
System Requirements | |
URL |
See More
Suggests | limma, parallel, knitr, rmarkdown, ExperimentHub, testthat |
Linking To | |
Enhances | |
Depends On Me | |
Imports Me | |
Suggests Me | |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | celaref_1.23.0.tar.gz |
Windows Binary | celaref_1.23.0.zip |
macOS Binary (x86_64) | celaref_1.23.0.tgz |
macOS Binary (arm64) | celaref_1.23.0.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/celaref |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/celaref |
Bioc Package Browser | https://code.bioconductor.org/browse/celaref/ |
Package Short Url | https://bioconductor.org/packages/celaref/ |
Package Downloads Report | Download Stats |