Package owltools.gaf.lego

Class Summary
GafToLegoTranslator Given a set of gene associations, this procedure will generate LEGO individuals.
LegoModelGenerator Generates an augmented Minimal Model (aka LEGO) graph for a given process, given an ontology and a set of annotations.
ManchesterSyntaxTool Wrapper for parsing OWL Manchester Syntax using a OWLGraphWrapper.
MolecularModelJsonRenderer A Renderer that takes a MolecularModel (an OWL ABox) and generates Map objects that can be translated to JSON using Gson.
MolecularModelManager Manager object for operations on collections of MolecularModels (aka lego diagrams) any number of models can be loaded at any time (todo - impose some limit to avoid using too much memory) each model has a generator, an OWLOntology (containing the set of class assertions) and a reasoner associated with it (todo - test memory requirements) This manager is designed to be used within a web server.
NetworkInferenceEngine Deprecated.
 

Enum Summary
MolecularModelJsonRenderer.KEY JSON-LD keywords for elements of different vocabularies: RDF OWL GO RO TODO: use a complex enum to generate IRIs for each
MolecularModelJsonRenderer.VAL merge with KEY?
MolecularModelManager.LegoAnnotationType  
 

Exception Summary
MolecularModelManager.UnknownIdentifierException  
 



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