Bio::DB::GFF::Aggregator coding
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Summary
Bio::DB::GFF::Aggregator::coding -- The Coding Region Aggregator
Package variables
No package variables defined.
Inherit
Bio::DB::GFF::Aggregator
Synopsis
  use Bio::DB::GFF;
# Open the sequence database my $db = Bio::DB::GFF->new( -adaptor => 'dbi:mysql', -dsn => 'dbi:mysql:elegans42', -aggregator => ['coding'], ); ------------------------------------------------------------------------ Aggregator method: coding Main method: mRNA Sub methods: CDS ------------------------------------------------------------------------
Description
Bio::DB::GFF::Aggregator::coding aggregates "CDS" features into a
feature called "coding" and was written to be compatible with the
Sequence Ontology canonical gene. The CDS features are expected to
belong to a parent of type "mRNA," but the aggregator will work even
if this isn't the case.
Methods
methodDescriptionCode
part_namesDescriptionCode
main_nameDescriptionCode
Methods description
methodcode    nextTop
 Title   : method
Usage : $aggregator->method
Function: return the method for the composite object
Returns : the string "coding"
Args : none
Status : Public
part_namescodeprevnextTop
 Title   : part_names
Usage : $aggregator->part_names
Function: return the methods for the sub-parts
Returns : the list (CDS cds)
Args : none
Status : Public
main_namecodeprevnextTop
 Title   : main_name
Usage : $aggregator->main_name
Function: return the method for the main component
Returns : the string "mRNA"
Args : none
Status : Public
Methods code
methoddescriptionprevnextTop
sub method {
 'coding'
}
part_namesdescriptionprevnextTop
sub part_names {
  return qw(CDS cds);
}
main_namedescriptionprevnextTop
sub main_name {
  return 'mRNA';
}

1;
__END__
}
General documentation
BUGSTop
None reported.
SEE ALSOTop
Bio::DB::GFF, Bio::DB::GFF::Aggregator
AUTHORTop
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.