Package procope.evaluation.complexquality.go

Interface Summary
TermSimilarities This interface must be implemented by classes which calculate a semantic similarity of two GO terms.
 

Class Summary
CommonAncestors Calculates and holds common ancestors for a given GO network.
FunctionalSimilarities This class is extended by classes which calculate a semantic similarity score of two given proteins based on GO information.
FunctionalSimilaritiesSchlicker Implements the calculation of functional similarites between proteins as described in
GOAnnotationReader Contains static methods to read annotations from a GO annotations file.
GOAnnotations Represents a set of gene-product to GO-term annotations which are normally read from a file.
GONetwork Represents the ontology network of one GO namespace.
GOTerm Represents a single GO term in an ontology network.
TermSimilaritiesSchlicker Implements the calculation of similarities between two GO terms as described in
 

Enum Summary
FunctionalSimilaritiesSchlicker.FunctionalSimilarityMeasure Functional semilarity measure.
GONetwork.Namespace The GO namespaces.
GONetwork.Relationships GO ontology relationships which can be followed while constructing the ontology network.
TermSimilaritiesSchlicker.TermSimilarityMeasure The similarity to be used.