Uses of Interface
fern.network.PropensityCalculator

Packages that use PropensityCalculator
fern.cellDesigner   
fern.network Provides general classes and interfaces for storing network data. 
fern.network.creation Provides classes for the evolution of networks. 
fern.network.modification Provides classes for modifications of networks. 
fern.network.sbml Provides the classes for parsing and using sbml based networks. 
fern.simulation Provides algorithms for simulating reaction network as well as methods for observer certain aspects of a simulation. 
 

Uses of PropensityCalculator in fern.cellDesigner
 

Classes in fern.cellDesigner that implement PropensityCalculator
 class CellDesignerPropensityCalculator
          Propensity calculator which is used for SBMLNetworks.
 

Uses of PropensityCalculator in fern.network
 

Subinterfaces of PropensityCalculator in fern.network
 interface ComplexDependenciesPropensityCalculator
          In a SBML network, the propensities of reaction are calculated by using the kineticLaw tag, which contains a MathML expression.
 interface KineticConstantPropensityCalculator
           
 interface PartialDerivativePropensityCalculator
           
 

Classes in fern.network that implement PropensityCalculator
 class AbstractKineticConstantPropensityCalculator
          Base implementation of a PropensityCalculator.
 class ArrayKineticConstantPropensityCalculator
          Implementation of an AbstractKineticConstantPropensityCalculator which uses an array to store the constants for each reaction.
 

Methods in fern.network that return PropensityCalculator
 PropensityCalculator AbstractNetworkImpl.getPropensityCalculator()
           
 PropensityCalculator Network.getPropensityCalculator()
          Gets the PropensityCalculator for this network.
 

Uses of PropensityCalculator in fern.network.creation
 

Methods in fern.network.creation that return PropensityCalculator
 PropensityCalculator AutocatalyticNetwork.getReversePropensityCalculator()
          Gets the PropensityCalculator which has to be used for instantiation of the ReversibleNetwork.
 

Uses of PropensityCalculator in fern.network.modification
 

Methods in fern.network.modification that return PropensityCalculator
 PropensityCalculator ExtractSubNetwork.getPropensityCalculator()
          Gets the PropensityCalculator for the extracted subnet.
 PropensityCalculator ModifierNetwork.getPropensityCalculator()
          Gets the PropensityCalculator of the original network.
 PropensityCalculator CatalysedNetwork.getPropensityCalculator()
           
 PropensityCalculator ReversibleNetwork.getPropensityCalculator()
          Gets the PropensityCalculator for the modified network.
 PropensityCalculator MultiplierNetwork.getPropensityCalculator()
          Gets the PropensityCalculator for the modified network.
 

Constructors in fern.network.modification with parameters of type PropensityCalculator
ReversibleNetwork(Network originalNet, PropensityCalculator reversiblePropensityCalculator)
          Creates a new network from an original network and virtually creates for each reaction a new inverse reaction.
 

Uses of PropensityCalculator in fern.network.sbml
 

Classes in fern.network.sbml that implement PropensityCalculator
 class SBMLPropensityCalculator
          Propensity calculator which is used for SBMLNetworks.
 

Uses of PropensityCalculator in fern.simulation
 

Methods in fern.simulation that return PropensityCalculator
 PropensityCalculator Simulator.getPropensityCalculator()
          Gets the PropensityCalculator.