when using: genomer view table --generate_encoded_features
tRNA and rRNA features are added as a CDS features. Is there a way to add tRNA and rRNA as the correct feature (i.e. as rRNA and tRNA features)?
Adding feature_type=rRNA or feature_type=tRNA to the ninth column of your gff file should generate these features. Please write back if this doesn't work.
Could you provide more information on what you're aiming to do? What is the source of the Genbank file?