NAME

Bio::DB::GFF::Aggregator::orf -- An aggregator for orf regions

SYNOPSIS

            

              
              
 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
---------------------------
            
          

DESCRIPTION

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".

method

            

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

part_names

            

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

BUGS

None reported.

SEE ALSO

Bio::DB::GFF, Bio::DB::GFF::coding, Bio::DB::GFF::Aggregator, Bio::Graphics::Glyph::cds

AUTHOR

Lincoln Stein <lstein@cshl.org>.

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.