Class | Description |
---|---|
CoreMolecularModelManager<METADATA> |
Manager and core operations for in memory MolecularModels (aka lego diagrams).
|
FileBasedMolecularModelManager<METADATA> |
Layer for retrieving and storing models as OWL files.
|
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<METADATA> |
Convenience layer for operations on collections of MolecularModels (aka lego diagrams)
This manager is intended to be used within a web server.
|
NetworkInferenceEngine | Deprecated |
ReverseChangeGenerator |
Create the reverse of an
OWLOntologyChange . |
UndoAwareMolecularModelManager |
Provide undo and redo operations for the
MolecularModelManager . |
UndoAwareMolecularModelManager.ChangeEvent |
Details for a change in a model.
|
UndoAwareMolecularModelManager.UndoMetadata |
Enum | Description |
---|---|
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 | Description |
---|---|
MolecularModelManager.UnknownIdentifierException |
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