recipe pgr-tk

A PanGenomic Research Took Kit. This repository is a project to provide Python and Rust libraries to facilitate pangenomics analysis.

Homepage:

https://github.com/GeneDx/pgr-tk

License:

CC / CC BY-NC-SA 4.0

Recipe:

/pgr-tk/meta.yaml

package pgr-tk

versions:

0.5.1-1,  0.5.1-0,  0.3.6-2,  0.3.6-1,  0.3.6-0,  0.3.4-1,  0.3.4-0

depends graphviz:

depends libgcc-ng:

>=12

depends libstdcxx-ng:

>=12

depends minimap2:

depends numpy:

depends python:

>=3.8,<3.9.0a0

depends python_abi:

3.8.* *_cp38

depends samtools:

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 pgr-tk

and update with::

   mamba update pgr-tk

To create a new environment, run:

mamba create --name myenvname pgr-tk

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/pgr-tk:<tag>

(see `pgr-tk/tags`_ for valid values for ``<tag>``)

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