recipe bioconductor-genomicinteractions

Utilities for handling genomic interaction data

Homepage:

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

License:

GPL-3

Recipe:

/bioconductor-genomicinteractions/meta.yaml

Links:

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

Utilities for handling genomic interaction data such as ChIA-PET or Hi-C, annotating genomic features with interaction information, and producing plots and summary statistics.

package bioconductor-genomicinteractions

Versions:

1.32.0-0,  1.28.0-0,  1.26.0-0,  1.24.0-1,  1.24.0-0,  1.22.0-0,  1.20.0-0,  1.18.0-1,  1.16.0-1, 

1.32.0-0,  1.28.0-0,  1.26.0-0,  1.24.0-1,  1.24.0-0,  1.22.0-0,  1.20.0-0,  1.18.0-1,  1.16.0-1,  1.16.0-0,  1.14.0-0,  1.12.0-0,  1.10.0-0

Depends:

• bioconductor-biobase >=2.58.0,<2.59.0

• bioconductor-biocgenerics >=0.44.0,<0.45.0

• bioconductor-genomeinfodb >=1.34.0,<1.35.0

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-gviz >=1.42.0,<1.43.0

• bioconductor-interactionset >=1.26.0,<1.27.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-rsamtools >=2.14.0,<2.15.0

• bioconductor-rtracklayer >=1.58.0,<1.59.0

• bioconductor-s4vectors >=0.36.0,<0.37.0

• r-base >=4.2,<4.3.0a0

• r-data.table

• r-dplyr

• r-ggplot2

• r-gridextra

• r-igraph

• r-stringr

Required By:

• bioconductor-spatzie

• bioconductor-cagefightr

• bioconductor-extrachips

• bioconductor-hicontacts

• bioconductor-hicdcplus

Installation

With an activated Bioconda channel (see 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>)

Download stats

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)