Hi,

I built a de novo genome of a wild mammal and I want to extract only the protein sequences. I am running Augustus like this:

augustus --gff3=on --protein=on --codingseq=off --introns=off --start=off --stop=off --cds=off --species=human genome.fa > proteins.gff

Would this usage output only protein sequences it found in my genome? That is what I need as an output. I am worried I am using the flags incorrectly. Thank you