recipe breakseq2

BreakSeq2: Ultrafast and accurate nucleotide-resolution analysis of structural variants.

Homepage:

http://bioinform.github.io/breakseq2

License:

BSD-2-Clause

Recipe:

/breakseq2/meta.yaml

package breakseq2

(downloads) docker_breakseq2

versions:

2.2-2,  2.2-1,  2.2-0

depends biopython:

1.65

depends bwa:

depends cython:

depends pysam:

0.7.7

depends python:

>=2.7,<2.8.0a0

depends samtools:

0.1.19

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 breakseq2

and update with::

   mamba update breakseq2

To create a new environment, run:

mamba create --name myenvname breakseq2

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/breakseq2:<tag>

(see `breakseq2/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/breakseq2/README.html)