recipe gffmunger

Munges GFF3 files exported from Chado database to make them suitable for loading into WebApollo



GPL / GPL-3.0



package gffmunger

(downloads) docker_gffmunger



depends biopython:


depends genometools-genometools:

depends gffutils:

depends python:


depends pyyaml:



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 gffmunger

and update with::

   mamba update gffmunger

To create a new environment, run:

mamba create --name myenvname gffmunger

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

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