Uses of Class
bio.singa.simulation.model.modules.concentration.ConcentrationBasedModule

Packages that use ConcentrationBasedModule

Package	Description
bio.singa.simulation.events
bio.singa.simulation.model.modules.concentration
bio.singa.simulation.model.modules.concentration.imlementations
bio.singa.simulation.model.modules.concentration.scope
bio.singa.simulation.model.modules.concentration.specifity

Uses of ConcentrationBasedModule in bio.singa.simulation.events

Constructor parameters in bio.singa.simulation.events with type arguments of type ConcentrationBasedModule

Constructor and Description
EpochUpdateWriter(Path workspacePath, Path folder, Set<ChemicalEntity> entitiesToObserve, Set<ConcentrationBasedModule> modulesToObserve) Creates a new EpochUpdateWriter.
EpochUpdateWriter(Path workspacePath, Path folder, Set<ChemicalEntity> entitiesToObserve, Set<ConcentrationBasedModule> modulesToObserve, boolean printHeader) Creates a new EpochUpdateWriter.

Uses of ConcentrationBasedModule in bio.singa.simulation.model.modules.concentration

Methods in bio.singa.simulation.model.modules.concentration with type parameters of type ConcentrationBasedModule

Modifier and Type	Method and Description
static <ModuleImplementation extends ConcentrationBasedModule> ModuleImplementation	ModuleFactory.setupModule(Class<ModuleImplementation> moduleCLass, ModuleFactory.Scope scope, ModuleFactory.Specificity specificity) Creates a new module with the specified setup.

Methods in bio.singa.simulation.model.modules.concentration that return ConcentrationBasedModule

Modifier and Type	Method and Description
ConcentrationBasedModule	ConcentrationDelta.getModule() Returns the module, that calculated this delta.

Constructors in bio.singa.simulation.model.modules.concentration with parameters of type ConcentrationBasedModule

Constructor and Description
ConcentrationDelta(ConcentrationBasedModule module, CellSubsection cellSubsection, ChemicalEntity chemicalEntity, javax.measure.Quantity<MolarConcentration> quantity) Creates a new concentration delta.

Uses of ConcentrationBasedModule in bio.singa.simulation.model.modules.concentration.imlementations

Subclasses of ConcentrationBasedModule in bio.singa.simulation.model.modules.concentration.imlementations

Modifier and Type	Class and Description
class	ComplexBuildingReaction Complex building or breaking reactions are a special kind of ReversibleReaction.
class	Diffusion
class	DynamicReaction
class	MembraneDiffusion A permeant is crossing a membrane from side 1 to side 2.
class	MichaelisMentenReaction
class	NthOrderReaction
class	Reaction
class	ReversibleReaction
class	SingleFileChannelMembraneTransport

Uses of ConcentrationBasedModule in bio.singa.simulation.model.modules.concentration.scope

Constructors in bio.singa.simulation.model.modules.concentration.scope with parameters of type ConcentrationBasedModule

Constructor and Description
DependentUpdate(ConcentrationBasedModule<?> module) Initializes the update scope for the corresponding module.
IndependentUpdate(ConcentrationBasedModule module) Initializes the update scope for the corresponding module.
SemiDependentUpdate(ConcentrationBasedModule module) Initializes the update scope for the corresponding module.

Uses of ConcentrationBasedModule in bio.singa.simulation.model.modules.concentration.specifity

Constructors in bio.singa.simulation.model.modules.concentration.specifity with parameters of type ConcentrationBasedModule

Constructor and Description
EntitySpecific(ConcentrationBasedModule<EntityDeltaFunction> module) Initializes the update specificity for the corresponding module.
SectionSpecific(ConcentrationBasedModule module) Initializes the update specificity for the corresponding module.
UpdatableSpecific(ConcentrationBasedModule module) Initializes the update specificity for the corresponding module.