recipe bioconductor-scater

A collection of tools for doing various analyses of single-cell RNA-seq gene expression data, with a focus on quality control and visualization.

Homepage

https://bioconductor.org/packages/3.9/bioc/html/scater.html

License

GPL-3

Recipe

/bioconductor-scater/meta.yaml

Links

biotools: scater

package bioconductor-scater

Versions

1.12.2-0, 1.10.1-0, 1.10.0-0, 1.8.4-0, 1.6.0-0, 1.4.0-0

Depends

• bioconductor-beachmat >=2.0.0,<2.1.0

• bioconductor-biocgenerics >=0.30.0,<0.31.0

• bioconductor-biocneighbors >=1.2.0,<1.3.0

• bioconductor-biocparallel >=1.18.0,<1.19.0

• bioconductor-biocsingular >=1.0.0,<1.1.0

• bioconductor-delayedarray >=0.10.0,<0.11.0

• bioconductor-delayedmatrixstats >=1.6.0,<1.7.0

• bioconductor-s4vectors >=0.22.0,<0.23.0

• bioconductor-singlecellexperiment >=1.6.0,<1.7.0

• bioconductor-summarizedexperiment >=1.14.0,<1.15.0

• libgcc-ng >=7.3.0

• libstdcxx-ng >=7.3.0

• r-base >=3.6,<3.7.0a0

• r-dplyr

• r-ggbeeswarm

• r-ggplot2

• r-matrix

• r-rcpp

• r-viridis

Required By

• scater-scripts

• bioconductor-catalyst

• bioconductor-netsmooth

• bioconductor-batchelor

• bioconductor-cellmixs

• bioconductor-splatter

• bioconductor-scran

Installation

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

conda install bioconductor-scater

and update with:

conda update bioconductor-scater

or use the docker container:

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

(see bioconductor-scater/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-scater/README.html)