recipe bioconductor-scater

Single-Cell Analysis Toolkit for Gene Expression Data in R

Homepage

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

License

GPL-3

Recipe

/bioconductor-scater/meta.yaml

Links

biotools: 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.

package bioconductor-scater

Versions

1.16.0-0,  1.14.0-0,  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 >=2.4.0,<2.5.0

• bioconductor-biocgenerics >=0.34.0,<0.35.0

• bioconductor-biocneighbors >=1.6.0,<1.7.0

• bioconductor-biocparallel >=1.22.0,<1.23.0

• bioconductor-biocsingular >=1.4.0,<1.5.0

• bioconductor-delayedarray >=0.14.0,<0.15.0

• bioconductor-delayedmatrixstats >=1.10.0,<1.11.0

• bioconductor-s4vectors >=0.26.0,<0.27.0

• bioconductor-singlecellexperiment >=1.10.0,<1.11.0

• bioconductor-summarizedexperiment >=1.18.0,<1.19.0

• libblas >=3.8.0,<4.0a0

• libgcc-ng >=7.3.0

• liblapack >=3.8.0,<3.9.0a0

• libstdcxx-ng >=7.3.0

• r-base >=4.0,<4.1.0a0

• r-ggbeeswarm

• r-ggplot2

• r-matrix

• r-rcpp

• r-rlang

• r-viridis

Required By

• bioconductor-batchelor

• bioconductor-celda

• scater-scripts

• bioconductor-spatiallibd

• bioconductor-cellmixs

• bioconductor-splatter

• bioconductor-scdblfinder

• bioconductor-spaniel

• bioconductor-peco

• bioconductor-catalyst

• bioconductor-scpipe

• bioconductor-muscat

• bioconductor-scran

• seurat-scripts

• bioconductor-netsmooth

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)