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.
With an activated Bioconda channel (see 2. Set up channels), install with:
conda install gff3toembl
and update with:
conda update gff3toembl
or use the docker container:
docker pull quay.io/biocontainers/gff3toembl:<tag>
(see gff3toembl/tags for valid values for