Package fern.network

Provides general classes and interfaces for storing network data.

See:
          Description

Interface Summary
AmountManager The AmountManager is one of the most important connections between a Network and a Simulator.
AnnotationManager AnnotationManager objects are the places, where static (or quasi-static) properties of a network are stored.
ComplexDependenciesPropensityCalculator In a SBML network, the propensities of reaction are calculated by using the kineticLaw tag, which contains a MathML expression.
KineticConstantPropensityCalculator  
Network The central interface of the whole framework.
PartialDerivativePropensityCalculator  
PropensityCalculator A PropensityCalculator is the way, a Network tells a Simulator how to calculate propensities for the reactions.
 

Class Summary
AbstractKineticConstantPropensityCalculator Base implementation of a PropensityCalculator.
AbstractNetworkImpl Base implementation for the Network interface.
AnnotationManagerImpl Base implementation of the AnnotationManager interface.
ArrayKineticConstantPropensityCalculator Implementation of an AbstractKineticConstantPropensityCalculator which uses an array to store the constants for each reaction.
ConstantAmountManager  
DefaultAmountManager Default implementation of an amount manager, that stores the amounts in arrays.
NetworkLoader  
 

Exception Summary
FeatureNotSupportedException  
 

Package fern.network Description

Provides general classes and interfaces for storing network data.