recipe mapcaller

MapCaller: combined short-read mapper and variant caller

Homepage:

https://github.com/hsinnan75/MapCaller

License:

MIT

Recipe:

/mapcaller/meta.yaml

Links:

doi: 10.1101/783605

An efficient and versatile approach for short-read mapping and variant identification using high-throughput sequenced data.

package mapcaller

(downloads) docker_mapcaller

versions:
0.9.9.41-6,  0.9.9.41-5,  0.9.9.41-4,  0.9.9.41-3,  0.9.9.41-2,  0.9.9.41-1,  0.9.9.41-0,  0.9.9.40-0,  0.9.9.39-0, 

0.9.9.41-6,  0.9.9.41-5,  0.9.9.41-4,  0.9.9.41-3,  0.9.9.41-2,  0.9.9.41-1,  0.9.9.41-0,  0.9.9.40-0,  0.9.9.39-0,  0.9.9.38-0,  0.9.9.37-0,  0.9.9.35-0,  0.9.9.34-0,  0.9.9.33-0,  0.9.9.32-0,  0.9.9.31-0,  0.9.9.30-0,  0.9.9.29-0,  0.9.9.28-0,  0.9.9.27-0,  0.9.9.26-0,  0.9.9.25-0,  0.9.9.23-0,  0.9.9.22-0,  0.9.9.21-0,  0.9.9.19-0,  0.9.9.18-0,  0.9.9.17-0,  0.9.9.16-0,  0.9.9.15-0,  0.9.9.7-0,  0.9.9.6-0

depends boost-cpp:

depends bzip2:

>=1.0.8,<2.0a0

depends libgcc:

>=13

depends liblzma:

>=5.6.3,<6.0a0

depends libstdcxx:

>=13

depends libzlib:

>=1.3.1,<2.0a0

depends xz:

depends zlib:

requirements:

additional platforms:

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 mapcaller

and update with::

   mamba update mapcaller

To create a new environment, run:

mamba create --name myenvname mapcaller

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/mapcaller:<tag>

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

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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/mapcaller/README.html)