NAME

package Bio::DB::GFF::Aggregator::reftranscript -- Aggregates references transcripts

SYNOPSIS

use Bio::DB::GFF::Aggregator;

DESCRIPTION

Bio::DB::GFF::Aggregator::retranscript was written to make the compound feature, "reftranscript" for use with Gbrowse editing software developed outside of the GMOD development group. It can be used to aggregate "reftranscripts" from "refexons", loaded as second copy features. These features, in contrast to "transcripts", are usually implemented as features which cannot be edited and serve as starting point references for annotations added using Gbrowse for feature visualization.

Adding features to the compound feature, "reftranscript", can be done by adding to the "part_names" call (i.e. "refCDS").

method

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

part_names

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

main_name

Title   : main_name
Usage   : $aggregator->main_name
Function: return the method for the main component
Returns : the string "reftranscript"
Args    : none
Status  : Public

BUGS

None reported.

SEE ALSO

Bio::DB::GFF, Bio::DB::GFF::Aggregator

AUTHOR

Paul Rudnick <rudnick@ncifcrf.gov>.

Copyright (c) 2002 Advanced Biomedical Computing Center, SAIC/NCI-Frederick.

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