recipe binge

A Python process for clustering transcripts based on locus orthology.

Homepage:

https://github.com/zkstewart/BINge

Documentation:

https://github.com/zkstewart/BINge/wiki

License:

GPL / GPL-3.0-only

Recipe:

/binge/meta.yaml

package binge

versions:

1.1.0-0

depends biopython:

depends cd-hit:

depends gmap:

depends goatools:

depends intervaltree:

depends mmseqs2:

depends ncls:

>=0.0.68

depends networkx:

depends numpy:

depends pyfaidx:

depends python:

>=3.9,<=3.13

depends salmon:

depends scikit-learn:

requirements:

additional platforms:

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 binge

and update with::

   mamba update binge

To create a new environment, run:

mamba create --name myenvname binge

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/binge:<tag>

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

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