recipe bioconductor-genomicinteractions

R package for handling Genomic interaction data, such as ChIA-PET/Hi-C, annotating genomic features with interaction information and producing various plots / statistics.

Homepage

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

License

GPL-3

Recipe

/bioconductor-genomicinteractions/meta.yaml

Links

biotools: genomicinteractions, doi: 10.1186/s12864-015-2140-x

package bioconductor-genomicinteractions

Versions

1.16.0-1, 1.16.0-0, 1.14.0-0, 1.12.0-0, 1.10.0-0

Depends

• bioconductor-biobase >=2.42.0,<2.43.0

• bioconductor-biocgenerics >=0.28.0,<0.29.0

• bioconductor-genomeinfodb >=1.18.0,<1.19.0

• bioconductor-genomicranges >=1.34.0,<1.35.0

• bioconductor-gviz >=1.26.0,<1.27.0

• bioconductor-interactionset >=1.10.0,<1.11.0

• bioconductor-iranges >=2.16.0,<2.17.0

• bioconductor-rsamtools >=1.34.0,<1.35.0

• bioconductor-rtracklayer >=1.42.0,<1.43.0

• bioconductor-s4vectors >=0.20.0,<0.21.0

• r-base >=3.5.1,<3.5.2.0a0

• r-data.table

• r-dplyr

• r-ggplot2

• r-gridextra

• r-igraph

• r-stringr

Required By

• bioconductor-cagefightr

Installation

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

conda install bioconductor-genomicinteractions

and update with:

conda update bioconductor-genomicinteractions

or use the docker container:

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

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