Uses of Package
fern.network

Packages that use fern.network

Package	Description
fern.analysis
fern.benchmark
fern.example
fern.network
fern.network.creation
fern.network.fernml
fern.network.modification
fern.network.sbml
fern.simulation
fern.simulation.algorithm
fern.tools
org.simulator.sbml	Classes for storing and interpreting an SBML model.

Classes in fern.network used by fern.analysis

Class and Description
Network The central interface of the whole framework.

Classes in fern.network used by fern.benchmark

Class and Description
Network The central interface of the whole framework.

Classes in fern.network used by fern.example

Class and Description
FeatureNotSupportedException

Classes in fern.network used by fern.network

Class and Description
AbstractKineticConstantPropensityCalculator Base implementation of a PropensityCalculator.
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.
FeatureNotSupportedException
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.

Classes in fern.network used by fern.network.creation

Class and Description
AbstractNetworkImpl Base implementation for the Network interface.
Network The central interface of the whole framework.
PropensityCalculator A PropensityCalculator is the way, a Network tells a Simulator how to calculate propensities for the reactions.

Classes in fern.network used by fern.network.fernml

Class and Description
AbstractNetworkImpl Base implementation for the Network interface.
AnnotationManager AnnotationManager objects are the places, where static (or quasi-static) properties of a network are stored.
ArrayKineticConstantPropensityCalculator Implementation of an AbstractKineticConstantPropensityCalculator which uses an array to store the constants for each reaction.
Network The central interface of the whole framework.

Classes in fern.network used by fern.network.modification

Class and Description
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.
Network The central interface of the whole framework.
PropensityCalculator A PropensityCalculator is the way, a Network tells a Simulator how to calculate propensities for the reactions.

Classes in fern.network used by fern.network.sbml

Class and Description
AbstractNetworkImpl Base implementation for the Network interface.
AmountManager The AmountManager is one of the most important connections between a Network and a Simulator.
ComplexDependenciesPropensityCalculator In a SBML network, the propensities of reaction are calculated by using the kineticLaw tag, which contains a MathML expression.
FeatureNotSupportedException
Network The central interface of the whole framework.
PropensityCalculator A PropensityCalculator is the way, a Network tells a Simulator how to calculate propensities for the reactions.

Classes in fern.network used by fern.simulation

Class and Description
Network The central interface of the whole framework.
PropensityCalculator A PropensityCalculator is the way, a Network tells a Simulator how to calculate propensities for the reactions.

Classes in fern.network used by fern.simulation.algorithm

Class and Description
Network The central interface of the whole framework.

Classes in fern.network used by fern.tools

Class and Description
FeatureNotSupportedException
Network The central interface of the whole framework.

Classes in fern.network used by org.simulator.sbml

Class and Description
AmountManager The AmountManager is one of the most important connections between a Network and a Simulator.