recipe bwa

The BWA read mapper.

Homepage:

https://github.com/lh3/bwa

Documentation:

https://github.com/lh3/bwa/blob/v0.7.19/README.md

License:

GPL3 / GPL-3.0-or-later

Recipe:

/bwa/meta.yaml

Links:

biotools: bwa, usegalaxy-eu: bwa_mem, usegalaxy-eu: bwa, doi: 10.1093/bioinformatics/btp324, doi: 10.1093/bioinformatics/btp698, doi: 10.48550/arXiv.1303.3997

package bwa

(downloads) docker_bwa

versions:
0.7.19-1,  0.7.19-0,  0.7.18-2,  0.7.18-1,  0.7.18-0,  0.7.17-11,  0.7.17-10,  0.7.17-9,  0.7.17-8, 

0.7.19-1,  0.7.19-0,  0.7.18-2,  0.7.18-1,  0.7.18-0,  0.7.17-11,  0.7.17-10,  0.7.17-9,  0.7.17-8,  0.7.17-7,  0.7.17-6,  0.7.17-5,  0.7.17-4,  0.7.17-3,  0.7.17-2,  0.7.17-1,  0.7.17-0,  0.7.16-0,  0.7.15-1,  0.7.15-0,  0.7.13-1,  0.7.13-0,  0.7.12-1,  0.7.12-0,  0.7.8-10,  0.7.8-9,  0.7.8-8,  0.7.8-7,  0.7.8-6,  0.7.8-5,  0.7.8-4,  0.7.8-3,  0.7.8-2,  0.7.8-1,  0.7.8-0,  0.7.4-8,  0.7.4-7,  0.7.4-6,  0.7.4-5,  0.7.4-4,  0.7.4-3,  0.7.4-2,  0.7.4-1,  0.7.4-0,  0.7.3a-10,  0.7.3a-9,  0.7.3a-8,  0.7.3a-7,  0.7.3a-6,  0.7.3a-5,  0.7.3a-4,  0.7.3a-3,  0.7.3a-2,  0.7.3a-1,  0.7.3a-0,  0.6.2-2,  0.6.2-1,  0.6.2-0,  0.5.9-2,  0.5.9-1,  0.5.9-0

depends libgcc:

>=13

depends libzlib:

>=1.3.1,<2.0a0

depends perl:

requirements:

additional platforms:
linux-aarch64,  osx-arm64

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 bwa

and update with::

   mamba update bwa

To create a new environment, run:

mamba create --name myenvname bwa

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/bwa:<tag>

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

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Link to this page

Render an install-with-bioconda badge with the following MarkDown:

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