recipe bioconductor-cnvranger

Summarization and expression/phenotype association of CNV ranges

Homepage:

https://bioconductor.org/packages/3.16/bioc/html/CNVRanger.html

License:

Artistic-2.0

Recipe:

/bioconductor-cnvranger/meta.yaml

The CNVRanger package implements a comprehensive tool suite for CNV analysis. This includes functionality for summarizing individual CNV calls across a population, assessing overlap with functional genomic regions, and association analysis with gene expression and quantitative phenotypes.

package bioconductor-cnvranger

Versions:

1.14.0-0,  1.10.0-0,  1.8.0-0,  1.6.1-0,  1.6.0-0,  1.4.0-0,  1.2.0-0,  1.0.0-1

Depends:

• bioconductor-biocgenerics >=0.44.0,<0.45.0

• bioconductor-biocparallel >=1.32.0,<1.33.0

• bioconductor-edger >=3.40.0,<3.41.0

• bioconductor-gdsarray >=1.18.0,<1.19.0

• bioconductor-gdsfmt >=1.34.0,<1.35.0

• bioconductor-genomeinfodb >=1.34.0,<1.35.0

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-limma >=3.54.0,<3.55.0

• bioconductor-raggedexperiment >=1.22.0,<1.23.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• bioconductor-snprelate >=1.32.0,<1.33.0

• bioconductor-summarizedexperiment >=1.28.0,<1.29.0

• r-base >=4.2,<4.3.0a0

• r-data.table

• r-lattice

• r-plyr

• r-qqman

• r-rappdirs

• r-reshape2

Required By:

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install bioconductor-cnvranger

and update with:

conda update bioconductor-cnvranger

or use the docker container:

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

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

Download stats

Link to this page

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