recipe hamronization

Tool to convert and summarize AMR gene detection outputs using the hAMRonization specification




LGPL / GNU Lesser General Public v3 (LGPLv3)



package hamronization

(downloads) docker_hamronization



depends pandas:

depends python:




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 hamronization

and update with::

   mamba update hamronization

To create a new environment, run:

mamba create --name myenvname hamronization

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<tag>

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

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