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## Uses of Package
biouml.standard.type

Packages that use biouml.standard.type
biouml.model |
biouml.modules.genenet |
biouml.modules.genenet.type |
biouml.modules.kegg |
biouml.modules.kegg.type |
biouml.modules.transpath |
biouml.modules.transpath.type |
biouml.standard |
biouml.standard.diagram.pathway |
biouml.standard.type |

Classes in biouml.standard.type used by biouml.model
Compartment General definition of the compartment as a container for nodes and edges between them.
DefaultSemanticController
Diagram
DiagramElement Common definition of diagram element.
Edge Edge is directed relation between two diagram nodes, called "input" and "output".
EquivalentNodeGroup Group of equivalent nodes.
Node Diagram node element
QueryEngine
SemanticController

Classes in biouml.standard.type used by biouml.modules.genenet
GeneNetQueryEngine
GeneNetSemanticController

Classes in biouml.standard.type used by biouml.modules.genenet.type
Cell Definition of entry for GeneNet 'Cell' table.
CellBeanInfo
Compartment Definition of entry for GeneNet 'Compartment' table.
CompartmentBeanInfo
DiagramDescription Definition of entry for GeneNet 'Scheme' table.
Gene Definition of entry for GeneNet 'Gene' table.
GeneBeanInfo
Proces Definition of entry for GeneNet 'Process' table.
ProcesBeanInfo
Protein Definition of entry for GeneNet 'Protein' table.
ProteinBeanInfo
Reaction Definition of entry for GeneNet 'Relation' table.
ReactionBeanInfo
RNA Definition of entry for GeneNet 'RNA' table.
RNABeanInfo
Substance Definition of entry for GeneNet 'Substance' table.
SubstanceBeanInfo

Classes in biouml.standard.type used by biouml.modules.kegg
KeggPathwayQueryEngine
KeggPathwaySemanticController

Classes in biouml.standard.type used by biouml.modules.kegg.type
Compound Stub
Enzyme Stub

Classes in biouml.standard.type used by biouml.modules.transpath
TranspathQueryEngine
TranspathSemanticController

Classes in biouml.standard.type used by biouml.modules.transpath.type
Molecule Stub
MoleculeBeanInfo
Reaction

Classes in biouml.standard.type used by biouml.standard
StandardQueryEngine

Classes in biouml.standard.type used by biouml.standard.diagram.pathway
PathwayDiagramViewBuilder Default implementation of `DiagramViewBuilder`.
PathwaySemanticController

Classes in biouml.standard.type used by biouml.standard.type
Base General interface to be implemented by all classes to be used as BioUML diagram elements.
BaseSupport Base class for all data element types.
Biopolimer
BiopolimerBeanInfo Utility class containing common metada for all molecules.
Cell Stub
CellBeanInfo Utility class containing common metada for all molecules.
Compartment Stub
CompartmentBeanInfo
DiagramDescription Defines coomon properties for diagram description.
EnzymaticReaction Stub
Expression Stub
Gene Stub
GeneBeanInfo
GenericEntity
Molecule
MoleculeBeanInfo Utility class containing common metada for all molecules.
Protein Stub
ProteinBeanInfo
Reaction
ReactionBeanInfo
Referrer Extention of GenericEntity that contains references to other databases and literature sources.
ReferrerBeanInfo
Relation Intermediary class to generalize what is common for all relations/edges.
RelationBeanInfo
RNA Stub
RNABeanInfo
SpeciesSpecific General interface for species specific entities.
Substance Stub
SubstanceBeanInfo
Transport Stub

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