recipe varcode

Variant annotation in Python

Homepage:

https://github.com/openvax/varcode

License:

APACHE / Apache-2.0

Recipe:

/varcode/meta.yaml

package varcode

versions:

1.2.1-0,  1.2.0-0,  1.1.0-0

depends biopython:

>=1.64

depends memoized-property:

>=1.0.2

depends numpy:

>=1.7

depends pandas:

>=0.15

depends pyensembl:

>=1.8.1

depends python:

depends pyvcf3:

>=1.0.0

depends sercol:

>=0.1.4

depends serializable:

>=0.2.1

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 varcode

and update with::

   mamba update varcode

To create a new environment, run:

mamba create --name myenvname varcode

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/varcode:<tag>

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

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Link to this page

Render an 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/varcode/README.html)