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

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

Modifier and Type	Method and Description
EpochUpdateWriter.ConcentrationUnitStep	EpochUpdateWriter.ModulesStep.modules(Set<ConcentrationBasedModule> observedModules)
EpochUpdateWriter.ConcentrationUnitStep	EpochUpdateWriter.EpochUpdateWriterBuilder.modules(Set<ConcentrationBasedModule> observedModules)

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

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

Modifier and Type	Interface and Description
interface	ModuleBuilder<ModuleType extends ConcentrationBasedModule>

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.

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 Diffusion is the fundamental force governing the random movement of molecules in cells.
class	DynamicReaction
class	MembraneDiffusion The membrane diffusion module describes the movement of chemical entities across Membranes driven by the MembranePermeability of the cargo.
class	MichaelisMentenReaction
class	NthOrderReaction
class	Reaction Reactions in general are ConcentrationBasedModules following the laws of chemical kinetics.
class	ReversibleReaction Reversible reactions are Reactions where the substrates form products, and products can also from substrates.
class	SingleFileChannelMembraneTransport The single file channel transport describes the movement of cargo molecules through Transporter proteins, so called membrane channels.

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.