recipe virulencefinder

VirulenceFinder identifies virulence genes in total or partial sequenced isolates of bacteria

Homepage:

https://bitbucket.org/genomicepidemiology/virulencefinder

License:

APACHE / Apache-2.0

Recipe:

/virulencefinder/meta.yaml

Links:

doi: 10.1128/JCM.03617-13

package virulencefinder

(downloads) docker_virulencefinder

versions:

2.0.4-1,  2.0.4-0

depends biopython:

depends blast:

depends cgecore:

depends git:

depends kma:

depends python:

>=3

depends tabulate:

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 virulencefinder

and update with::

   mamba update virulencefinder

To create a new environment, run:

mamba create --name myenvname virulencefinder

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/virulencefinder:<tag>

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

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Link to this page

Render an install-with-bioconda badge with the following MarkDown:

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