Uses of Interface
org.ginsim.core.graph.dynamicgraph.DynamicGraph

Packages that use DynamicGraph

Package	Description
org.ginsim.core.graph.dynamicgraph	State Transition Graphs, representing dynamical behaviours.
org.ginsim.core.graph.regulatorygraph	The regulatory graph is the main graph, it represents the model.
org.ginsim.gui.graph.dynamicgraph	Specialised GUI for the State Transition Graphs
org.ginsim.service.layout
org.ginsim.service.tool.avatar.simulation
org.ginsim.service.tool.graphcomparator
org.ginsim.service.tool.localgraph
org.ginsim.service.tool.polytopesViz
org.ginsim.service.tool.reg2dyn.helpers
org.ginsim.service.tool.reg2dyn.limitedsimulation
org.ginsim.service.tool.simulation
org.ginsim.servicegui.layout
org.ginsim.servicegui.tool.dynamicanalyser	the state transition graph
org.ginsim.servicegui.tool.pathfinding
org.ginsim.servicegui.tool.polytopesViz
org.ginsim.servicegui.tool.regulatorygraphanimation	animate the regulatory graph (by simply changing nodes and edge's colors) according to a path/state in the state transition graph.

Uses of DynamicGraph in org.ginsim.core.graph.dynamicgraph

Classes in org.ginsim.core.graph.dynamicgraph that implement DynamicGraph

Modifier and Type	Class and Description
class	DynamicGraphImpl Implementation of dynamical graphs.

Methods in org.ginsim.core.graph.dynamicgraph that return DynamicGraph

Modifier and Type	Method and Description
DynamicGraph	DynamicGraphFactory.create()
DynamicGraph	DynamicGraphFactory.create(List<?> node_order)

Methods in org.ginsim.core.graph.dynamicgraph with parameters of type DynamicGraph

Modifier and Type	Method and Description
EdgeStyle<DynamicNode,DynamicEdge>	DynamicGraphFactory.createDefaultEdgeStyle(DynamicGraph graph)
NodeStyle<DynamicNode>	DynamicGraphFactory.createDefaultNodeStyle(DynamicGraph graph)

Constructors in org.ginsim.core.graph.dynamicgraph with parameters of type DynamicGraph

Constructor and Description
DefaultDynamicNodeStyle(DynamicGraph graph)
DynamicEdge(DynamicGraph g, DynamicNode source, DynamicNode target)
DynamicGINMLWriter(DynamicGraph graph)

Uses of DynamicGraph in org.ginsim.core.graph.regulatorygraph

Methods in org.ginsim.core.graph.regulatorygraph with parameters of type DynamicGraph

Modifier and Type	Method and Description
static boolean	RegulatoryGraphImpl.associationValid(RegulatoryGraph regGraph, DynamicGraph dynGraph) Test if an association between a regulatory graph and a state transition graph is valid: all what we can do is checking the node-order to see if they obviously differ (by size of node's name).

Uses of DynamicGraph in org.ginsim.gui.graph.dynamicgraph

Methods in org.ginsim.gui.graph.dynamicgraph that return types with arguments of type DynamicGraph

Modifier and Type	Method and Description
Class<DynamicGraph>	DynamicGraphGUIHelper.getGraphClass()
GUIEditor<DynamicGraph>	DynamicGraphGUIHelper.getMainEditionPanel(DynamicGraph graph)

Methods in org.ginsim.gui.graph.dynamicgraph with parameters of type DynamicGraph

Modifier and Type	Method and Description
boolean	DynamicGraphGUIHelper.canCopyPaste(DynamicGraph graph)
GUIEditor<DynamicEdge>	DynamicGraphGUIHelper.getEdgeEditionPanel(DynamicGraph graph)
List<EditAction>	DynamicGraphGUIHelper.getEditActions(DynamicGraph graph)
String	DynamicGraphGUIHelper.getEditingTabLabel(DynamicGraph graph)
JPanel	DynamicGraphGUIHelper.getInfoPanel(DynamicGraph graph)
GUIEditor<DynamicGraph>	DynamicGraphGUIHelper.getMainEditionPanel(DynamicGraph graph)
GUIEditor<DynamicNode>	DynamicGraphGUIHelper.getNodeEditionPanel(DynamicGraph graph)
JPanel	DynamicGraphGUIHelper.getSaveOptionPanel(DynamicGraph graph) Create a panel containing the option for graph saving
GraphEventCascade	StateTransitionGraphEditor.graphChanged(DynamicGraph g, GraphChangeType type, Object data)
void	StateTransitionGraphEditor.setEditedItem(DynamicGraph g)

Constructors in org.ginsim.gui.graph.dynamicgraph with parameters of type DynamicGraph

Constructor and Description
DynamicItemAttributePanel(DynamicGraph graph)
DynamicItemModel(DynamicGraph graph)
StateTransitionGraphEditor(DynamicGraph graph)

Uses of DynamicGraph in org.ginsim.service.layout

Methods in org.ginsim.service.layout with parameters of type DynamicGraph

Modifier and Type	Method and Description
void	DynamicLayout3D.layout(DynamicGraph graph)
static void	DynamicLayout3D.runLayout(DynamicGraph graph)

Constructors in org.ginsim.service.layout with parameters of type DynamicGraph

Constructor and Description
DynamicLayoutMultidimention(DynamicGraph graph, byte[] nodeOrder, boolean straightEdges, Color[] colorPalette)

Uses of DynamicGraph in org.ginsim.service.tool.avatar.simulation

Methods in org.ginsim.service.tool.avatar.simulation that return DynamicGraph

Modifier and Type	Method and Description
static DynamicGraph	SimulationUtils.getGraphFromAttractor(DynamicGraph graph, AbstractStateSet attractor, org.colomoto.biolqm.LogicalModel model) Generates a drawable dynamic graph from a complex attractor

Methods in org.ginsim.service.tool.avatar.simulation with parameters of type DynamicGraph

Modifier and Type	Method and Description
static DynamicGraph	SimulationUtils.getGraphFromAttractor(DynamicGraph graph, AbstractStateSet attractor, org.colomoto.biolqm.LogicalModel model) Generates a drawable dynamic graph from a complex attractor

Uses of DynamicGraph in org.ginsim.service.tool.graphcomparator

Methods in org.ginsim.service.tool.graphcomparator with parameters of type DynamicGraph

Modifier and Type	Method and Description
protected DynamicEdge	DynamicGraphComparator.copyEdge(DynamicGraph g, DynamicEdge e1)
protected DynamicNode	DynamicGraphComparator.copyNode(DynamicGraph g, DynamicNode v1)
static List<String>	DynamicGraphComparator.getNodeOrder(DynamicGraph g1, DynamicGraph g2) Return a common nodeOrder for g1 and g2.

Constructors in org.ginsim.service.tool.graphcomparator with parameters of type DynamicGraph

Constructor and Description
DynamicGraphComparator(DynamicGraph g1, DynamicGraph g2)

Uses of DynamicGraph in org.ginsim.service.tool.localgraph

Methods in org.ginsim.service.tool.localgraph that return DynamicGraph

Modifier and Type	Method and Description
DynamicGraph	LocalGraphConfig.getDynamic()

Constructors in org.ginsim.service.tool.localgraph with parameters of type DynamicGraph

Constructor and Description
LocalGraphConfig(RegulatoryGraph graph, DynamicGraph dyn)

Uses of DynamicGraph in org.ginsim.service.tool.polytopesViz

Methods in org.ginsim.service.tool.polytopesViz with parameters of type DynamicGraph

Modifier and Type	Method and Description
void	PolytopesService.run(DynamicGraph graph, StatesSet polytope)
void	PolytopesService.run(DynamicGraph graph, String logical_formulae)

Uses of DynamicGraph in org.ginsim.service.tool.reg2dyn.helpers

Fields in org.ginsim.service.tool.reg2dyn.helpers declared as DynamicGraph

Modifier and Type	Field and Description
protected DynamicGraph	STGSimulationHelper.stateTransitionGraph

Uses of DynamicGraph in org.ginsim.service.tool.reg2dyn.limitedsimulation

Methods in org.ginsim.service.tool.reg2dyn.limitedsimulation that return DynamicGraph

Modifier and Type	Method and Description
DynamicGraph	LimitedSimulationService.run(HierarchicalTransitionGraph htg, SimulationConstraint constraint, org.colomoto.biolqm.LogicalModel model, SimulationParameters params) Construct the dynamic graph correponding the contraint on the HTG.

Methods in org.ginsim.service.tool.reg2dyn.limitedsimulation with parameters of type DynamicGraph

Modifier and Type	Method and Description
static HashMap<DynamicNode,HierarchicalNode>	LimitedSimulationService.getStatesToHierarchicalNodes(DynamicGraph dynamicGraph)

Constructors in org.ginsim.service.tool.reg2dyn.limitedsimulation with parameters of type DynamicGraph

Constructor and Description
StatesToHierarchicalEditTab(DynamicGraph graph, HierarchicalTransitionGraph htg)

Uses of DynamicGraph in org.ginsim.service.tool.simulation

Methods in org.ginsim.service.tool.simulation that return DynamicGraph

Modifier and Type	Method and Description
DynamicGraph	STGSimulation.getGraph()

Uses of DynamicGraph in org.ginsim.servicegui.layout

Methods in org.ginsim.servicegui.layout with parameters of type DynamicGraph

Modifier and Type	Method and Description
void	MultidimensionLayoutGUI.initGUI(DynamicGraph graph)

Uses of DynamicGraph in org.ginsim.servicegui.tool.dynamicanalyser

Constructors in org.ginsim.servicegui.tool.dynamicanalyser with parameters of type DynamicGraph

Constructor and Description
DynamicAnalyserPathModel(DynamicGraph graph, List v_path, List v_inPath, DynamicSearchPathConfig config)
DynamicSearchPathConfig(JFrame main, DynamicGraph graph) get ready

Uses of DynamicGraph in org.ginsim.servicegui.tool.pathfinding

Constructors in org.ginsim.servicegui.tool.pathfinding with parameters of type DynamicGraph

Constructor and Description
DynamicAnalyserPathModel(DynamicGraph graph)

Uses of DynamicGraph in org.ginsim.servicegui.tool.polytopesViz

Constructors in org.ginsim.servicegui.tool.polytopesViz with parameters of type DynamicGraph

Constructor and Description
PolytopesVizFrame(DynamicGraph graph)

Uses of DynamicGraph in org.ginsim.servicegui.tool.regulatorygraphanimation

Methods in org.ginsim.servicegui.tool.regulatorygraphanimation with parameters of type DynamicGraph

Modifier and Type	Method and Description
static void	RegulatoryAnimator.animate(JFrame frame, DynamicGraph dynGraph)

Constructors in org.ginsim.servicegui.tool.regulatorygraphanimation with parameters of type DynamicGraph

Constructor and Description
STGPathStyleProvider(DynamicGraph stg, RegulatoryAnimator animator)