Package methods.scores.go

Interface Summary
FunctionalSimilarities This interface is implemented by classes which calculate a semantic similarity score of two given proteins based on GO information.
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.
FunctionalSimilaritiesSchlicker Implements the calculation of functional similarites between proteins as described in Schlicker, A.; Domingues, F.
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 Schlicker, A.; Domingues, F.
 

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.