Bio::DB::GFF::Aggregator::orf(3) An aggregator for orf regions


use Bio::DB::GFF;
# Open the sequence database
my $db = Bio::DB::GFF->new( -adaptor => 'dbi:mysql',
-dsn => 'dbi:mysql:elegans42',
-aggregator => ['orf','clone'],
Aggregator method: orf
Main method: -none-
Sub methods: ORF


Bio::DB::GFF::Aggregator::orf was written to work with the ``cds'' glyph. GFF files. It aggregates raw ``ORF'' features into ``coding'' features. This is basically identical to the ``coding'' aggregator, except that it looks for features of type ``ORF'' rather than ``cds''.


 Title   : method
 Usage   : $aggregator->method
 Function: return the method for the composite object
 Returns : the string "orf"
 Args    : none
 Status  : Public


 Title   : part_names
 Usage   : $aggregator->part_names
 Function: return the methods for the sub-parts
 Returns : the list "CDS"
 Args    : none
 Status  : Public


None reported.


Lincoln Stein <[email protected]>.

Copyright (c) 2001 Cold Spring Harbor Laboratory.

This library is free software; you can redistribute it and/or modify it under the same terms as Perl itself.