recipe refgenie

Refgenie creates a standardized folder structure for reference genome files and indexes. You can download pre-built genomes or build your own for any fasta file

Homepage:

http://refgenie.databio.org

License:

BSD / BSD-2-Clause

Recipe:

/refgenie/meta.yaml

package refgenie

versions:

0.12.1-0,  0.12.0-0,  0.11.0-0,  0.10.0-0,  0.9.3-0,  0.9.2-1,  0.9.2-0,  0.9.1-0,  0.9.0-0, 

0.12.1-0,  0.12.0-0,  0.11.0-0,  0.10.0-0,  0.9.3-0,  0.9.2-1,  0.9.2-0,  0.9.1-0,  0.9.0-0,  0.8.2-0,  0.8.1-0,  0.8.0-0,  0.7.2-0

depends logmuse:

>=0.2.6

depends piper:

>=0.12.1

depends pyfaidx:

>=0.5.5.2

depends python:

>=3.6

depends refgenconf:

>=0.10.0

depends yacman:

>=0.8.0

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 refgenie

and update with::

   mamba update refgenie

To create a new environment, run:

mamba create --name myenvname refgenie

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/refgenie:<tag>

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

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