recipe cojac

Command-line tools to analyse co-occurrence of mutations on amplicons.

Homepage:

https://github.com/cbg-ethz/cojac

License:

GPL3 / GNU General Public License v3 or later (GPLv3+)

Recipe:

/cojac/meta.yaml

Links:

biotools: cojac, doi: 10.1038/s41564-022-01185-x

package cojac

versions:

0.9.2-0,  0.9.1-0,  0.9-0,  0.2-0,  0.1-0

depends click:

depends numpy:

depends pandas:

depends pysam:

>=0.17

depends python:

depends pyyaml:

depends requests:

depends strictyaml:

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 cojac

and update with::

   mamba update cojac

To create a new environment, run:

mamba create --name myenvname cojac

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/cojac:<tag>

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

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