recipe mkdesigner

Genome-wide design of markers for PCR-based genotyping from NGS data.

Homepage:

https://github.com/KChigira/mkdesigner

License:

MIT / MIT

Recipe:

/mkdesigner/meta.yaml

package mkdesigner

versions:

0.5.1-0,  0.4.4-0,  0.4.3-0,  0.4.2-0,  0.4.1-1,  0.4.1-0,  0.3.4-0,  0.3.1-0,  0.2.1-0, 

0.5.1-0,  0.4.4-0,  0.4.3-0,  0.4.2-0,  0.4.1-1,  0.4.1-0,  0.3.4-0,  0.3.1-0,  0.2.1-0,  0.1.1-0,  0.0.1-0

depends bcftools:

>=1.5,<2.0

depends blast:

>=2.14.0,<3.0.0

depends gatk4:

>=4.4.0.0,<5.0.0.0

depends matplotlib-base:

depends pandas:

>=2.0.2,<3.0.0

depends picard-slim:

>=2.18.29,<3.0.0

depends primer3:

>=2.6.1,<3.0.0

depends python:

>=3.8,<4.0

depends samtools:

>=1.6,<2.0

depends timeout-decorator:

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 mkdesigner

and update with::

   mamba update mkdesigner

To create a new environment, run:

mamba create --name myenvname mkdesigner

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/mkdesigner:<tag>

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

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