Matthew Parker

Hi @ploy-np, I've noticed a similar problem with Arabidopsis transcripts at the moment - the naming convention is e.g. AT1G01010.1 where AT1G01010 is the gene name and 1 is the...

this would also be useful for RNA samples as when there are multiple similar isoforms of the same gene in the transcriptome there will be a number of potential alignments...

Yeah exactly. I agree that simple is better, but something more human readable would also be good. I will explore the code and maybe submit a pull request for you...

OK, thanks - I was not aware of GeMoMa. Perhaps a script for postprocessing of miniprot alignments might achieve a similar result. I might try this.