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## Uses of Package
biouml.standard.type

Packages that use biouml.standard.type
biouml.model |
biouml.model.util |
biouml.plugins.cellml |
biouml.plugins.ginsim |
biouml.plugins.sbml |
biouml.standard |
biouml.standard.diagram |
biouml.standard.type |
biouml.workbench.diagram |

Classes in biouml.standard.type used by biouml.model
Compartment General definition of the compartment as a container for nodes and edges between them.
DefaultDiagramViewBuilder Default implementation of `DiagramViewBuilder`.
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
NodeInfo Utility class for QueryEngine.
QueryEngineSupport

Classes in biouml.standard.type used by biouml.model.util
DiagramXmlReader

Classes in biouml.standard.type used by biouml.plugins.cellml
DiagramInfo
Reaction
Species This is a wrapper class to handle RDF elemenet assotiated with CellML component.

Classes in biouml.standard.type used by biouml.plugins.ginsim
GinSimEdgeKernel
GinSimNodeKernel

Classes in biouml.standard.type used by biouml.plugins.sbml
Specie

Classes in biouml.standard.type used by biouml.standard
PathwayQueryEngine Created by IntelliJ IDEA.

Classes in biouml.standard.type used by biouml.standard.diagram
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.
Biopolymer
BiopolymerBeanInfo Utility class containing common metada for all molecules.
Cell Stub
CellBeanInfo Utility class containing common metada for all molecules.
Compartment Stub
CompartmentBeanInfo
Concept
ConceptBeanInfo
Constant Some constant that can be used in kinetic or other equations.
ConstantBeanInfo
DatabaseInfo Many data elements can refer to other databases through its database references field.
DatabaseInfoBeanInfo
DatabaseReference General defintion of reference to external database.
DiagramInfo Defines common properties for diagram description.
DiagramInfoBeanInfo
DiagramReference
Function Molecular function is an activity or task performed by a gene product or other biological entity.
FunctionBeanInfo
Gene Stub
GeneBeanInfo
GenericEntity
KineticLaw
KineticType Definition of KinetReactionType defines: - meta information about reaction
KineticTypeBeanInfo Utility class containing common metada for all generic entities.
Molecule
MoleculeBeanInfo Utility class containing common metada for all molecules.
Process Biological process is a biological goal that requires more than one function.
ProcessBeanInfo
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 as well as to define common constants.
RNA Stub
RNABeanInfo
SemanticRelation SemanticRelatio specified semantic relationships between concepts (kernels) assotiated with two nodes on the diagram.
SemanticRelationBeanInfo
SpecieReference SpecieReference specifies role of molecule involved in the Reaction.
SpecieReferenceBeanInfo
SpeciesSpecific General interface for species specific entities.
State State, stage or variant of biological system or its subunits.
StateBeanInfo
Stub
Stub.Note
Stub.NoteLink
Substance Stub
SubstanceBeanInfo
UnitBeanInfo

Classes in biouml.standard.type used by biouml.workbench.diagram
DiagramElementInfo Utility class for QueryEngine.

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