Christopher Fields > BioPerl-1.6.901 > Bio::Ontology::Path



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Module Version: 1.006901   Source   Latest Release: BioPerl-1.6.924


Bio::Ontology::Path - a path for an ontology term graph


  $path = Bio::Ontology::Path->new( -identifier     => "16847",
                                    -subject_term   => $subj,
                                    -object_term    => $obj,
                                    -predicate_term => $pred,
                                    -distance       => 3 );


This is a basic implementation of Bio::Ontology::PathI.

Essiantially this is a very thin extension of Bio::Ontology::Relationship. It basically adds a method distance().


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 Hilmar Lapp <>


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


 Title   : new
 Usage   : $rel = Bio::Ontology::Path->new(-identifier   => "16847",
                                           -subject_term => $subject,
                                           -object_term  => $object,
                                           -predicate_term => $type );
                                           -distance     => 3 );
 Function: Creates a new Bio::Ontology::Path.
 Returns : A new Bio::Ontology::Path object.
 Args    : -identifier     => the identifier of this relationship [scalar]
           -subject_term   => the subject term [Bio::Ontology::TermI]
           -object_term    => the object term [Bio::Ontology::TermI]  
           -predicate_term => the predicate term [Bio::Ontology::TermI]
           -distance       => the distance between subject and object


 Title   : init()
 Usage   : $rel->init();   
 Function: Initializes this Path to all undef.
 Returns : 
 Args    :


 Title   : distance
 Usage   : $obj->distance($newval)
 Function: Get/set the distance between the two terms connected
           by this path.

           Note that modifying the distance may not be meaningful. The
           implementation here is not connected to any graph engine,
           so changing an existing value may simply render the
           attribute's value wrong.

 Example : 
 Returns : value of distance (a scalar)
 Args    : on set, new value (a scalar or undef, optional)


 Title   : to_string()
 Usage   : print $rel->to_string();
 Function: to_string method for Path.
 Returns : A string representation of this Path.
 Args    :
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