recipe bioconductor-rbwa

R wrapper for BWA-backtrack and BWA-MEM aligners

Homepage:

https://bioconductor.org/packages/3.18/bioc/html/Rbwa.html

License:

MIT + file LICENSE

Recipe:

/bioconductor-rbwa/meta.yaml

Provides an R wrapper for BWA alignment algorithms. Both BWA-backtrack and BWA-MEM are available. Convenience function to build a BWA index from a reference genome is also provided. Currently not supported for Windows machines.

package bioconductor-rbwa

(downloads) docker_bioconductor-rbwa

versions:

1.6.0-0,  1.4.0-0,  1.2.0-2,  1.2.0-1,  1.2.0-0

depends libblas:

>=3.9.0,<4.0a0

depends libgcc-ng:

>=12

depends liblapack:

>=3.9.0,<4.0a0

depends libzlib:

>=1.2.13,<1.3.0a0

depends r-base:

>=4.3,<4.4.0a0

depends zlib:

requirements:

Installation

You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).

While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.

Given that you already have a conda environment in which you want to have this package, install with:

   mamba install bioconductor-rbwa

and update with::

   mamba update bioconductor-rbwa

To create a new environment, run:

mamba create --name myenvname bioconductor-rbwa

with myenvname being a reasonable name for the environment (see e.g. the mamba docs for details and further options).

Alternatively, use the docker container:

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

(see `bioconductor-rbwa/tags`_ for valid values for ``<tag>``)

Download stats

Link to this page

Render an install-with-bioconda 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-rbwa/README.html)