Package | Description |
---|---|
owltools.gaf.lego |
Class and Description |
---|
CoreMolecularModelManager
Manager and core operations for in memory MolecularModels (aka lego diagrams).
|
FileBasedMolecularModelManager
Layer for retrieving and storing models as OWL files.
|
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
Convenience layer for operations on collections of MolecularModels (aka lego diagrams)
This manager is intended to be used within a web server.
|
MolecularModelManager.LegoAnnotationType |
MolecularModelManager.UnknownIdentifierException |
NetworkInferenceEngine.Activity
Deprecated.
A ⊆ G x TA
An instance of an activity that is enabled by some gene/product
|
NetworkInferenceEngine.ActivityNetwork
Deprecated.
NA = (A, EA)
A network/graph of activity nodes
|
NetworkInferenceEngine.Edge
Deprecated.
EdgeType can be null for unknown (i.e.
|
NetworkInferenceEngine.InstanceNode
Deprecated.
|
NetworkInferenceEngine.Partonomy
Deprecated.
M : Merelogy (partonomy), from activity instances to process instances, and between process instances.
|
ReverseChangeGenerator
Create the reverse of an
OWLOntologyChange . |
UndoAwareMolecularModelManager.ChangeEvent
Details for a change in a model.
|
UndoAwareMolecularModelManager.UndoMetadata |
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