recipe bioconductor-ripat

Retroviral Integration Pattern Analysis Tool (RIPAT)

Homepage:

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

License:

Artistic-2.0

Recipe:

/bioconductor-ripat/meta.yaml

RIPAT is developed as an R package for retroviral integration sites annotation and distribution analysis. RIPAT needs local alignment results from BLAST and BLAT. Specific input format is depicted in RIPAT manual. RIPAT provides RV integration pattern analysis result as forms of R objects, excel file with multiple sheets and plots.

package bioconductor-ripat

Versions:

1.8.0-0,  1.4.0-0,  1.2.0-0,  1.0.0-2,  1.0.0-1

Depends:

• bioconductor-biomart >=2.54.0,<2.55.0

• bioconductor-genomicranges >=1.50.0,<1.51.0

• bioconductor-iranges >=2.32.0,<2.33.0

• bioconductor-karyoploter >=1.24.0,<1.25.0

• bioconductor-regioner >=1.30.0,<1.31.0

• bioconductor-rtracklayer >=1.58.0,<1.59.0

• r-base >=4.2,<4.3.0a0

• r-ggplot2 >=3.1.0

• r-openxlsx >=4.1.4

• r-plyr >=1.8.4

• r-stringr >=1.3.1

Required By:

Installation

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

conda install bioconductor-ripat

and update with:

conda update bioconductor-ripat

or use the docker container:

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

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