waba2gff3.pl - convert waba output into GFF3 suitable for Gbrowse
This script turns WABA output into GFF3 output for the query sequence. If you need to get this where the Hit sequence is the reference sequence you'll want to flip-flop the code to use hit instead of query. I didn't try and make it that general yet.
I don't (yet) know how the 'score' field is calculate by Wormbase folks for WABA data in their GFF dumps. I'm checking on that but it shouldn't make a difference for Gbrowse.
Jason Stajich, jason-at-bioperl-dot-org Duke University,
This script is available under the Perl Artistic License meaning you can do with it what you wish.
Please do tell me about bugs or improvements so I can roll those back in for other people to use.