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
