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().
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
lists Your participation is much appreciated.
[email protected] - General discussion
http://bioperl.org/wiki/Mailing_lists - About the mailing lists
Please direct usage questions or support issues to the mailing list:
[email protected]
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.
Report bugs to the Bioperl bug tracking system to help us keep track the bugs
and their resolution. Bug reports can be submitted via the web:
https://github.com/bioperl/bioperl-live/issues
Hilmar Lapp <[email protected]>
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 :