- recipe gff3toembl
Submitting annotated genomes to EMBL is a very difficult and time consuming process. This software converts GFF3 files from the most commonly use prokaryote annotation tool Prokka into a format that is suitable for submission to EMBL. It has been used to prepare more than 30% of all annotated genomes in EMBL/GenBank.
- package gff3toembl¶
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 gff3toembl and update with:: mamba update gff3toembl
To create a new environment, run:
mamba create --name myenvname gff3toembl
myenvnamebeing 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/gff3toembl:<tag> (see `gff3toembl/tags`_ for valid values for ``<tag>``)