I'm new for the PASA software. I've been dealing with gene annotation in drosophila recently and I faced a problem when dealing transcriptome annotation with PASA. The question is about the TRANSDECODER parameter. When I added this parameter in the step "Performing an annotation comparison and generating an updated gene set" of the script ../scripts/Launch_PASA_pipeline.pl, it didn't add novel gene comparing to the one without adding TRANSDECODER parameter. The thing is, I am wondering if it can help me to find new gene of from transcript alignment that the existing annotation don't have and add those genes to updated GFF files.