recipe bgreat

BGREAT2 is a read mapping tool for NGS sequencing data that align reads on a de Bruijn graph. Preliminary version described at https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-016-1103-9 and used in Bcool a short read corrector (https://arxiv.org/abs/1711.03336)

Homepage:

https://github.com/Malfoy/BGREAT2

License:

AGPL-3.0

Recipe:

/bgreat/meta.yaml

package bgreat

(downloads) docker_bgreat

versions:

2.0.0-62.0.0-52.0.0-42.0.0-32.0.0-22.0.0-12.0.0-0

depends libgcc-ng:

>=12

depends libstdcxx-ng:

>=12

depends libzlib:

>=1.2.13,<1.3.0a0

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 bgreat

and update with::

   mamba update bgreat

To create a new environment, run:

mamba create --name myenvname bgreat

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/bgreat:<tag>

(see `bgreat/tags`_ for valid values for ``<tag>``)

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