recipe bioconductor-rlseq

RLSeq: An analysis package for R-loop mapping data

Homepage

https://bioconductor.org/packages/3.14/bioc/html/RLSeq.html

License

MIT + file LICENSE

Recipe

/bioconductor-rlseq/meta.yaml

RLSeq is a toolkit for analyzing and evaluating R-loop mapping datasets. RLSeq serves two primary purposes: (1) to facilitate the evaluation of dataset quality, and (2) to enable R-loop analysis in the context of publicly-available data sets from RLBase. The package is intended to provide a simple pipeline, called with the `RLSeq()` function, which performs all main analyses. Individual functions are also accessible and provide custom analysis capabilities. Finally an HTML report is generated with `report()`.

package bioconductor-rlseq

Versions

1.0.0-0

Depends

• bioconductor-annotationhub >=3.2.0,<3.3.0

• bioconductor-complexheatmap >=2.10.0,<2.11.0

• bioconductor-genomeinfodb >=1.30.0,<1.31.0

• bioconductor-genomicfeatures >=1.46.0,<1.47.0

• bioconductor-genomicranges >=1.46.0,<1.47.0

• bioconductor-regioner >=1.26.0,<1.27.0

• bioconductor-rlhub >=1.0.0,<1.1.0

• bioconductor-rtracklayer >=1.54.0,<1.55.0

• r-aws.s3

• r-base >=4.1,<4.2.0a0

• r-callr

• r-caretensemble

• r-circlize

• r-dplyr

• r-ggplot2

• r-ggplotify

• r-ggprism

• r-pheatmap

• r-rcolorbrewer

• r-valr

• r-venndiagram

Required By

Installation

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

conda install bioconductor-rlseq

and update with:

conda update bioconductor-rlseq

or use the docker container:

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

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