recipe pgdspider

An automated data conversion tool for connecting population genetics and genomics programs

Homepage:

http://www.cmpg.unibe.ch/software/PGDSpider/

License:

BSD / BSD-3-clause

Recipe:

/pgdspider/meta.yaml

Links:

doi: 10.1093/bioinformatics/btr642

PGDSpider is a powerful automated data conversion tool for population genetic and genomics programs. It facilitates the data exchange possibilities between programs for a vast range of data types (e.g. DNA, RNA, NGS, microsatellite, SNP, RFLP, AFLP, multi-allelic data, allele frequency or genetic distances).

package pgdspider

(downloads) docker_pgdspider

versions:

2.1.1.5-1,  2.1.1.5-0

depends openjdk:

>=8,<9

depends python:

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 pgdspider

and update with::

   mamba update pgdspider

To create a new environment, run:

mamba create --name myenvname pgdspider

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/pgdspider:<tag>

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

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Link to this page

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