in reply to BioPerl Question

You'll get better answers from Lincoln or others if you post the question to the bioperl list.

If what you are trying to do is get the exons which should be subfeatures as made by the gene aggregator, then you call the old method sub_SeqFeature 

for my $exon ( $gene->sub_SeqFeature ) {
}

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get_SeqFeatures is part of the newer bioperl interface and I don't think Lincoln has updated the DB::GFF code to implement the additions to the interface.

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Re^2: BioPerl Question
by tucano (Scribe) on Jun 05, 2004 at 11:30 UTC
    Great and impressive. But the bioperl list is outside this site? where i can find it?
    AnyWAy i take the terrible decision to cut off the
    BIO::DB::GFF from my system and try to make another connection module starting from zero.
    So now my task is the module DBI for conection to a mySQL server. Thanks for help anyway, probably i will ask more Bio::Perl questions to you
[reply]
      The mailing list is mentioned in the POD for every single module. Try the main website Bioperl Site.

      I would strongly suggest trying out the existing code that is used in production environments as part of GMOD before reinventing this from scratch. You get a LOT for free if you use the existing schemas including a Genome Browser.

[reply]
        Finally I choose to connect to DB directly with DBI.... Thanks for help.
[reply]

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