I was thinking about the ID=, Name=, and Alias= tags in column 9. However, to be honest I'm not sure if/how you'd want to plumb those tags into DAS queries/responses!
Just getting ahead of myself really! Cheers, Dan. On 7 January 2013 13:51, Andy Jenkinson <[email protected]> wrote: > Hi Dan, > > I doubt the old CVS repo has a gff3 dedicated adapter. > > Not too familiar with BioPerl's GFF3 support, what does it give you, besides > a sequential parser? What you need to be able to do is index by location for > fast random access, either with an index file or in memory. The parent/part > stuff does add a layer of complexity. I had plans to write one some time ago > but didn't work on it much. > > Cheers, > Andy > > On 7 Jan 2013, at 13:25, Dan Bolser <[email protected]> wrote: > >> Sorry, I omitted to mention that this is using ProServer. >> >> On 7 January 2013 13:25, Dan Bolser <[email protected]> wrote: >>> Hi, >>> >>> Has anyone written a dedicated GFF3 adaptor? Getting GFF3 via the file >>> adaptor seems a bit of a hack, especially as BioPerl has good GFF3 >>> support. >>> >>> I read that "Customised extensions are also still available in the old >>> CVS repository." Could that be where the GFF3 adaptor is maintained? >>> >>> Would be good to add this to the SVN if anyone has one :-) >>> >>> >>> Cheers, >>> Dan. >> >> _______________________________________________ >> proserver-users mailing list >> [email protected] >> http://lists.sanger.ac.uk/mailman/listinfo/proserver-users > _______________________________________________ DAS mailing list [email protected] http://lists.open-bio.org/mailman/listinfo/das
