recipe pygmes

Run GeneMark-ES using pretrained models



GPL3 / GNU General Public v3 (GPLv3)



package pygmes

(downloads) docker_pygmes



depends diamond:


depends ete3:

depends prodigal:


depends pyfaidx:


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 pygmes

and update with::

   mamba update pygmes

To create a new environment, run:

mamba create --name myenvname pygmes

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 `pygmes/tags`_ for valid values for ``<tag>``)

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