recipe vcf2variants

Convert vcf files to varda variant files.

Homepage:

https://github.com/varda/varda2_preprocessing

License:

MIT / MIT

Recipe:

/vcf2variants/meta.yaml

package vcf2variants

versions:

1.3-0,  1.2-0,  0.3-0,  0.2-0

depends natsort:

depends pysam:

depends python:

>=3.6

depends vcfphasesets:

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 vcf2variants

and update with::

   mamba update vcf2variants

To create a new environment, run:

mamba create --name myenvname vcf2variants

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/vcf2variants:<tag>

(see `vcf2variants/tags`_ for valid values for ``<tag>``)

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