recipe bioconductor-celaref

Single-cell RNAseq cell cluster labelling by reference

Homepage

https://bioconductor.org/packages/3.11/bioc/html/celaref.html

License

GPL-3

Recipe

/bioconductor-celaref/meta.yaml

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).

package bioconductor-celaref

Versions

1.6.0-0,  1.4.0-0,  1.2.0-1,  1.0.0-0

Depends

• bioconductor-biocgenerics >=0.34.0,<0.35.0

• bioconductor-delayedarray >=0.14.0,<0.15.0

• bioconductor-mast >=1.14.0,<1.15.0

• bioconductor-s4vectors >=0.26.0,<0.27.0

• bioconductor-summarizedexperiment >=1.18.0,<1.19.0

• r-base >=4.0,<4.1.0a0

• r-dplyr

• r-ggplot2

• r-magrittr

• r-matrix

• r-readr

• r-rlang

• r-tibble

Required By

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-celaref

and update with:

conda update bioconductor-celaref

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-celaref:<tag>

(see bioconductor-celaref/tags for valid values for <tag>)

Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-celaref/README.html)