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Bio::Ontology::TermFactory.3pm

NAME

Bio::Ontology::TermFactory - Instantiates a new Bio::Ontology::TermI (or derived class) through a factory

SYNOPSIS

     use Bio::Ontology::TermFactory;
 
     # the default type is Bio::Ontology::Term
     my $factory = Bio::Ontology::TermFactory->new(
                         -type => 'Bio::Ontology::GOterm');
     my $term = $factory->create_object(-name => 'peroxisome',
                                        -ontology => 'Gene Ontology',
                                        -identifier => 'GO:0005777');
 
 

DESCRIPTION

This object will build Bio::Ontology::TermI objects generically.

FEEDBACK

Mailing Lists

User feedback is an integral part of the evolution of this and other Bioperl modules. Send your comments and suggestions preferably to the Bioperl mailing list. Your participation is much appreciated.

   bioperl-l@bioperl.org                  - General discussion
   http://bioperl.org/wiki/Mailing_lists  - About the mailing lists
 
 

Support

Please direct usage questions or support issues to the mailing list:

bioperl-l@bioperl.org

rather than to the module maintainer directly. Many experienced and reponsive experts will be able look at the problem and quickly address it. Please include a thorough description of the problem with code and data examples if at all possible.

Reporting Bugs

Report bugs to the Bioperl bug tracking system to help us keep track of the bugs and their resolution. Bug reports can be submitted via the web:

   http://bugzilla.open-bio.org/
 
 

AUTHOR - Hilmar Lapp

Email hlapp at gmx.net

APPENDIX

The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _

new

  Title   : new
  Usage   : my $obj = Bio::Ontology::TermFactory->new();
  Function: Builds a new Bio::Ontology::TermFactory object 
  Returns : Bio::Ontology::TermFactory
  Args    : -type => string, name of a Bio::Ontology::TermI derived class.
                     The default is Bio::Ontology::Term.
 
 

See Bio::Ontology::TermI, Bio::Ontology::Term.

create_object

  Title   : create_object
  Usage   : my $term = $factory->create_object(<named parameters>);
  Function: Instantiates new Bio::Ontology::TermI (or one of its child classes)
 
            This object allows us to genericize the instantiation of
            Term objects.
 
  Returns : Bio::Ontology::TermI compliant object
            The return type is configurable using new(-type =>"...").
  Args    : initialization parameters specific to the type of term
            object we want.  Typically 
            -name        => $name
            -identifier  => identifier for the term
            -ontology    => ontology for the term
 
 

See Bio::Ontology::TermI.