recipe bioconductor-rbowtie

R bowtie wrapper

Homepage

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

License

Artistic-2.0 | file LICENSE

Recipe

/bioconductor-rbowtie/meta.yaml

Links

biotools: rbowtie, doi: 10.1038/nmeth.3252

This package provides an R wrapper around the popular bowtie short read aligner and around SpliceMap, a de novo splice junction discovery and alignment tool. The package is used by the QuasR bioconductor package. We recommend to use the QuasR package instead of using Rbowtie directly.

package bioconductor-rbowtie

Versions

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

Depends

• libblas >=3.8.0,<4.0a0

• libgcc-ng >=7.3.0

• liblapack >=3.8.0,<3.9.0a0

• libstdcxx-ng >=7.3.0

• r-base >=4.0,<4.1.0a0

Required By

• bioconductor-quasr

• bioconductor-macpet

Installation

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

conda install bioconductor-rbowtie

and update with:

conda update bioconductor-rbowtie

or use the docker container:

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

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