recipe genoflu

Influenza data pipeline to automate genotyping assignment.

Homepage:

https://github.com/USDA-VS/GenoFLU

License:

GPL-3.0-or-later

Recipe:

/genoflu/meta.yaml

package genoflu

versions:

1.05-0,  1.04-0,  1.03-0,  1.02-0,  1.01-0,  1.0-0

depends biopython:

depends blast:

depends openpyxl:

depends pandas:

depends python:

>=3.7

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 genoflu

and update with::

   mamba update genoflu

To create a new environment, run:

mamba create --name myenvname genoflu

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/genoflu:<tag>

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

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