Just want to check before I go and implement a sma...
# meta-omicsj
Jim Downie
12/03/2025, 9:23 AMJust want to check before I go and implement a small wrapper myself... is there a Nextflow pipeline (nf-core or not) that will just take in prokaryotic genome FASTA files and annotate them using Prokka/Bakta? I want to chunk in ~10k genomes and get GFFs for all of them.
j
Joon Klaps
12/03/2025, 9:27 AMBactopia is the way
party this 1
j
James Fellows Yates
12/03/2025, 9:28 AMfuncscan can also theoretically do it but maybe kill
James Fellows Yates
12/03/2025, 9:28 AMfuncscan can take in a genome, and runs annotation as a first tep
j
Jim Downie
12/03/2025, 9:35 AMThanks folks - Bactopia definitely looks interesting!