fern.network

Interface ComplexDependenciesPropensityCalculator

All Superinterfaces:

PropensityCalculator

All Known Implementing Classes:

SBMLPropensityCalculator

public interface ComplexDependenciesPropensityCalculator
extends PropensityCalculator

In a SBML network, the propensities of reaction are calculated by using the kineticLaw tag, which contains a MathML expression. Since therein arbitrary species can be included, there must be a way to fetch dependencies between the reactions in order to create the DependencyGraph.

Author:

Florian Erhard

Method Summary

Modifier and Type	Method and Description
List<Integer>	getKineticLawSpecies(int reaction) Gets the indices of the species that are included in the calculation of the given reaction.

Methods inherited from interface fern.network.PropensityCalculator

calculatePropensity

Method Detail

getKineticLawSpecies

List<Integer> getKineticLawSpecies(int reaction)

Gets the indices of the species that are included in the calculation of the given reaction.

Parameters:

reaction - index of the reaction

Returns:

indices of the species included in the reaction's kinetic law