recipe bioconductor-chromswitch

An R package to detect chromatin state switches from epigenomic data

Homepage

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

License

MIT + file LICENSE

Recipe

/bioconductor-chromswitch/meta.yaml

Chromswitch implements a flexible method to detect chromatin state switches between samples in two biological conditions in a specific genomic region of interest given peaks or chromatin state calls from ChIP-seq data.

package bioconductor-chromswitch

Versions

1.10.0-0,  1.8.0-0,  1.6.0-1,  1.4.1-0,  1.4.0-0

Depends

• bioconductor-biobase >=2.48.0,<2.49.0

• bioconductor-biocparallel >=1.22.0,<1.23.0

• bioconductor-genomicranges >=1.40.0,<1.41.0

• bioconductor-iranges >=2.22.0,<2.23.0

• bioconductor-rtracklayer >=1.48.0,<1.49.0

• bioconductor-s4vectors >=0.26.0,<0.27.0

• r-base >=4.0,<4.1.0a0

• r-cluster >=2.0.6

• r-dplyr >=0.5.0

• r-gplots >=3.0.1

• r-lazyeval >=0.2.0

• r-magrittr >=1.5

• r-matrixstats >=0.52

• r-nmf >=0.20.6

• r-tidyr >=0.6.3

Required By

Installation

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

conda install bioconductor-chromswitch

and update with:

conda update bioconductor-chromswitch

or use the docker container:

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

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