recipe plasmidhawk

Plasmidhawk is a program for detecting lab-of-origin of input plasmids by building an annotated pangenome of training plasmids.

Homepage:

https://gitlab.com/treangenlab/plasmidhawk

License:

MIT

Recipe:

/plasmidhawk/meta.yaml

package plasmidhawk

versions:

1.0.3-0,  1.0.2-1,  1.0.2-0

depends biopython:

depends mummer4:

depends pan-plaster:

>=1.1.2

depends python:

>=3

depends tqdm:

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 plasmidhawk

and update with::

   mamba update plasmidhawk

To create a new environment, run:

mamba create --name myenvname plasmidhawk

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/plasmidhawk:<tag>

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

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