Uses of Class
bio.singa.simulation.model.graphs.AutomatonNode

Packages that use AutomatonNode

Package	Description
bio.singa.simulation.events
bio.singa.simulation.model.agents.linelike
bio.singa.simulation.model.agents.pointlike
bio.singa.simulation.model.agents.surfacelike
bio.singa.simulation.model.graphs
bio.singa.simulation.model.modules.qualitative.implementations
bio.singa.simulation.model.rules
bio.singa.simulation.renderer
bio.singa.simulation.trajectories

Uses of AutomatonNode in bio.singa.simulation.events

Methods in bio.singa.simulation.events with parameters of type AutomatonNode

Modifier and Type	Method and Description
void	EpochUpdateWriter.addNodeToObserve(AutomatonNode node) Initializes a node that will be observed during simulation.

Uses of AutomatonNode in bio.singa.simulation.model.agents.linelike

Methods in bio.singa.simulation.model.agents.linelike that return types with arguments of type AutomatonNode

Modifier and Type	Method and Description
Set<AutomatonNode>	LineLikeAgent.getAssociatedNodes()

Method parameters in bio.singa.simulation.model.agents.linelike with type arguments of type AutomatonNode

Modifier and Type	Method and Description
void	LineLikeAgent.setAssociatedNodes(Set<AutomatonNode> associatedNodes)

Uses of AutomatonNode in bio.singa.simulation.model.agents.pointlike

Methods in bio.singa.simulation.model.agents.pointlike that return types with arguments of type AutomatonNode

Modifier and Type	Method and Description
Map<AutomatonNode,Double>	Vesicle.getAssociatedNodes()

Methods in bio.singa.simulation.model.agents.pointlike with parameters of type AutomatonNode

Modifier and Type	Method and Description
void	Vesicle.addAssociatedNode(AutomatonNode node, double relativeArea)

Uses of AutomatonNode in bio.singa.simulation.model.agents.surfacelike

Methods in bio.singa.simulation.model.agents.surfacelike that return AutomatonNode

Modifier and Type	Method and Description
AutomatonNode	MembraneSegment.getNode()

Methods in bio.singa.simulation.model.agents.surfacelike with parameters of type AutomatonNode

Modifier and Type	Method and Description
void	Membrane.addSegment(AutomatonNode node, LineSegment segment)

Constructors in bio.singa.simulation.model.agents.surfacelike with parameters of type AutomatonNode

Constructor and Description
MembraneSegment(AutomatonNode node, LineSegment segment)

Uses of AutomatonNode in bio.singa.simulation.model.graphs

Methods in bio.singa.simulation.model.graphs that return AutomatonNode

Modifier and Type	Method and Description
AutomatonNode	AutomatonNode.getCopy()

Methods in bio.singa.simulation.model.graphs that return types with arguments of type AutomatonNode

Modifier and Type	Method and Description
static Set<AutomatonNode>	AutomatonGraphs.circleRegion(AutomatonGraph graph, CellRegion membraneRegion, RectangularCoordinate centre, int radius)

Methods in bio.singa.simulation.model.graphs with parameters of type AutomatonNode

Modifier and Type	Method and Description
int	AutomatonGraph.addEdgeBetween(AutomatonNode source, AutomatonNode target)
int	AutomatonGraph.addEdgeBetween(int identifier, AutomatonNode source, AutomatonNode target)

Uses of AutomatonNode in bio.singa.simulation.model.modules.qualitative.implementations

Methods in bio.singa.simulation.model.modules.qualitative.implementations that return AutomatonNode

Modifier and Type	Method and Description
AutomatonNode	ClathrinMediatedEndocytosis.Pit.getAssociatedNode()

Constructors in bio.singa.simulation.model.modules.qualitative.implementations with parameters of type AutomatonNode

Constructor and Description
Pit(javax.measure.Quantity<javax.measure.quantity.Time> checkpointTime, Vector2D spawnSite, javax.measure.Quantity<javax.measure.quantity.Length> spawnRadius, tec.uom.se.ComparableQuantity<MolarConcentration> cargoConcentration, AutomatonNode associatedNode, ConcentrationDelta additionDelta)

Uses of AutomatonNode in bio.singa.simulation.model.rules

Methods in bio.singa.simulation.model.rules with parameters of type AutomatonNode

Modifier and Type	Method and Description
void	AssignmentRule.applyRule(AutomatonNode node)

Uses of AutomatonNode in bio.singa.simulation.renderer

Methods in bio.singa.simulation.renderer with parameters of type AutomatonNode

Modifier and Type	Method and Description
protected void	AutomatonGraphRenderer.drawNode(AutomatonNode node)

Uses of AutomatonNode in bio.singa.simulation.trajectories

Method parameters in bio.singa.simulation.trajectories with type arguments of type AutomatonNode

Modifier and Type	Method and Description
static TrajectoryData	TrajectoryData.of(Collection<AutomatonNode> updatables, javax.measure.Unit<MolarConcentration> concentrationUnit)