[Bioperl-l] Bio::SeqFeature::Gene::*

Jason Stajich jason at cgt.duhs.duke.edu
Mon Jun 23 20:10:08 EDT 2003

The SeqFeature::Gene is definitely ripe for an overhaul with the new
Sequence Ontology (song.sourceforge.net) stuff but as for their current

Bio::Tools::Prediction::Gene and Bio::Tools::Prediction::Exon implement
Bio::SeqFeature::Gene objects (GeneStructure and Exon respectively).

These objects are instantiated by the gene prediction parsers:


On Mon, 23 Jun 2003, Josh Lauricha wrote:

> Is there any documents on how to create any of the
> Bio::SeqFeature::Gene::* objects? Specifically the Intron, Exon and UTR?
> Looking through bioperl 1.2.1-1 it doesn't seem like anyone uses it in
> there, though I could be missing something. Is it used more in CVS?
> What I need to do is create them and attach them to a seq object for the
> TIGR parser I'm working on.
> Thanks

Jason Stajich
Duke University
jason at cgt.mc.duke.edu

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