Uses of Class
org.evoludo.simulator.geometries.AbstractGeometry

Packages that use AbstractGeometry

Package	Description
org.evoludo.graphics	The GWT graphics for rendering and visualizing evolutionary models.
org.evoludo.simulator	The toolkit to explore interactive evolutionary models.
org.evoludo.simulator.geometries	Geometries for population interaction and competition graphs used by the simulator.
org.evoludo.simulator.models	The models that generate evolutionary trajectories based on the specifications of each module.
org.evoludo.simulator.modules	The modules to implement various evolutionary models.
org.evoludo.simulator.views	The views to visualize results and interact with evolutionary models.

Uses of AbstractGeometry in org.evoludo.graphics

Fields in org.evoludo.graphics declared as AbstractGeometry

Modifier and Type	Field	Description
protected AbstractGeometry	GenericPopGraph.geometry	The structure of the population.

Methods in org.evoludo.graphics that return AbstractGeometry

Modifier and Type	Method	Description
AbstractGeometry	GenericPopGraph.getGeometry()	Get the geometry backing the graph.

Methods in org.evoludo.graphics with parameters of type AbstractGeometry

Modifier and Type	Method	Description
void	GenericPopGraph.setGeometry(AbstractGeometry geometry)	Set the geometry backing the graph.
void	PopGraph2D.setGeometry(AbstractGeometry geometry)

Constructors in org.evoludo.graphics with parameters of type AbstractGeometry

Modifier	Constructor	Description
	Network2DGWT(EvoLudo engine, AbstractGeometry geometry)	Create a new network in 2D for the given engine and geometry with a layouting process optimzed for GWT.
	Network3DGWT(EvoLudo engine, AbstractGeometry geometry)	Create a new network in 3D for the given engine and geometry with a layouting process optimzed for GWT.

Uses of AbstractGeometry in org.evoludo.simulator

Fields in org.evoludo.simulator declared as AbstractGeometry

Modifier and Type	Field	Description
protected AbstractGeometry	Network.geometry	The structure of the population.

Methods in org.evoludo.simulator that return AbstractGeometry

Modifier and Type	Method	Description
AbstractGeometry	Network.getGeometry()	Get the geometry that is backing this network.

Methods in org.evoludo.simulator with parameters of type AbstractGeometry

Modifier and Type	Method	Description
abstract Network2D	EvoLudo.createNetwork2D(AbstractGeometry geometry)	Generate 2D network.
Network2D	EvoLudoGWT.createNetwork2D(AbstractGeometry geometry)
abstract Network3D	EvoLudo.createNetwork3D(AbstractGeometry geometry)	Generate 3D network.
Network3D	EvoLudoGWT.createNetwork3D(AbstractGeometry geometry)

Constructors in org.evoludo.simulator with parameters of type AbstractGeometry

Modifier	Constructor	Description
protected	Network(EvoLudo engine, AbstractGeometry geometry)	Create a new network for the given engine and geometry.
protected	Network2D(EvoLudo engine, AbstractGeometry geometry)	Create a new network in 2D for the given engine and geometry.
protected	Network3D(EvoLudo engine, AbstractGeometry geometry)	Create a new network in 3D for the given engine and geometry.

Uses of AbstractGeometry in org.evoludo.simulator.geometries

Subclasses of AbstractGeometry in org.evoludo.simulator.geometries

Modifier and Type	Class	Description
class	AbstractLattice	Base class for lattice-based geometries providing shared handling of fixed boundary flags and parsing utilities.
class	AbstractNetwork	Base class for geometries constructed from specific degree distributions.
class	BarabasiAlbertGeometry	Scale-free network following the Barabási & Albert preferential attachment process.
class	CompleteGeometry	Geometry implementation for complete graphs where every node connects to every other node.
class	CubicGeometry	Cubic lattice geometry (3D) with optional fixed boundaries.
class	DesarguesGeometry	Geometry implementation for the Desargues (Truncated Petersen) graph.
class	DodekahedronGeometry	Geometry implementation for the dodecahedral graph.
class	DynamicGeometry	Geometry wrapper representing dynamically changing structures provided by the simulation modules.
class	FranklinGeometry	Geometry implementation for the Franklin graph (a 12-node cubic cage).
class	FruchtGeometry	Frucht graph implementation.
class	HeawoodGeometry	Geometry implementation for the Heawood graph (14-node cubic symmetric graph).
class	HexagonalGeometry	Honeycomb/hexagonal lattice geometry with optional fixed boundaries.
class	HierarchicalGeometry	Hierarchical meta-population structure implementation.
class	IcosahedronGeometry	Geometry implementation for the icosahedral graph (12 nodes, degree 5).
class	KlemmEguiluzGeometry	Scale-free/small-world network following the Klemm & Eguíluz growth process.
class	LinearGeometry	Linear (1D lattice) geometry that supports asymmetric neighbourhoods and optional fixed boundaries.
class	MooreGeometry	Square lattice with Moore neighbourhood (first and second nearest neighbours).
class	RandomDirectedGeometry	Random directed graph geometry that wires a spanning tree first to ensure connectivity before adding remaining edges uniformly at random.
class	RandomGeometry	Random (undirected) graph geometry that ensures the generated network is connected before sprinkling additional random edges.
class	RandomRegularGeometry	Random regular graph geometry that repeatedly samples degree distributions until a connected realization is found.
class	ScalefreeGeometry	Scale-free network that samples a power-law degree distribution and then constructs a matching undirected graph.
class	SecondNeighbourGeometry	Square lattice with second-neighbour von Neumann connectivity (diagonals only).
class	SquareGeometry	Square lattice with arbitrary neighbourhood sizes.
class	StarGeometry	Star geometry with node 0 as the hub connected to all leaves.
class	StrongAmplifierGeometry	Strong undirected amplifier graph based on Giakkoupis (2016).
class	StrongSuppressorGeometry	Geometry implementation for the strong suppressor graphs of Giakkoupis (2016).
class	SuperstarGeometry	Directed super-star geometry with configurable petals and amplification.
class	TietzeGeometry	Geometry implementation for the Tietze graph (a cubic 12-node graph).
class	TriangularGeometry	Triangular (hexagonal) lattice geometry supporting periodic or fixed boundaries.
class	VonNeumannGeometry	Square lattice with von Neumann neighbourhood (four nearest neighbours).
class	WellmixedGeometry	Geometry implementation for well-mixed (mean-field) populations.
class	WheelGeometry	Wheel geometry: ring lattice plus central hub node 0 connected to every rim node.

Methods in org.evoludo.simulator.geometries that return AbstractGeometry

Modifier and Type	Method	Description
AbstractGeometry	AbstractGeometry.clone()	Clone geometry.
static AbstractGeometry	AbstractGeometry.create(EvoLudo engine, String cli)	Instantiate the requested geometry based on cli.
static AbstractGeometry	AbstractGeometry.create(EvoLudo engine, GeometryType type)	Factory method for creating geometry instances by type.
AbstractGeometry	AbstractGeometry.deriveCompetitionGeometry()	Derive competition geometry from current (interaction) geometry for inter-species interactions with isSingle == true.

Methods in org.evoludo.simulator.geometries with parameters of type AbstractGeometry

Modifier and Type	Method	Description
static boolean	AbstractGeometry.displaySingle(AbstractGeometry interaction, AbstractGeometry competition)	Checks whether a single graphical representation can be used for the interaction and competition graphs.

Constructors in org.evoludo.simulator.geometries with parameters of type AbstractGeometry

Modifier	Constructor	Description
	GeometryFeatures(AbstractGeometry geometry)	Evaluate geometry features for the given geometry.

Uses of AbstractGeometry in org.evoludo.simulator.models

Fields in org.evoludo.simulator.models declared as AbstractGeometry

Modifier and Type	Field	Description
protected AbstractGeometry	IBSPopulation.competition	The geometry of the competition graph.
(package private) AbstractGeometry	IBSGroup.geometry	The geometry associated with this group.
protected AbstractGeometry	IBSPopulation.interaction	The geometry of the interaction graph.
protected AbstractGeometry	PDE.space	AbstractGeometry representing the spatial dimensions of this PDE.

Methods in org.evoludo.simulator.models that return AbstractGeometry

Modifier and Type	Method	Description
AbstractGeometry	IBSPopulation.getCompetitionGeometry()	Gets the competition geometry.
AbstractGeometry	PDE.getGeometry()	Gets the geometry representing the spatial structure of this PDE.
AbstractGeometry	IBSPopulation.getInteractionGeometry()	Gets the interaction geometry.

Methods in org.evoludo.simulator.models with parameters of type AbstractGeometry

Modifier and Type	Method	Description
private void	PDEInitialize.initFunction(double[][] density, double[] y0, AbstractGeometry space)	Dispatch initialization based on the dimensionality of the geometry.
private void	PDEInitialize.initFunction1D(double[][] density, double[] y0, AbstractGeometry space)	Initialization for GeometryType.LINEAR geometries extracted to reduce complexity.
private void	PDEInitialize.initFunction2D(double[][] density, double[] y0, AbstractGeometry space)	Initialization for square/triangular/hexagonal lattice geometries extracted to reduce cognitive complexity.
private void	PDEInitialize.initFunction3D(double[][] density, double[] y0, AbstractGeometry space)	Initialization for GeometryType.CUBE geometries extracted to reduce complexity.
private void	PDEInitialize.initPerturbation(double[][] density, double[] y0, AbstractGeometry space)	Initialize a uniform background with a single perturbed site at the center.
private void	PDEInitialize.initRandom(double[][] density, double[] y0, AbstractGeometry space)	Initialize each site independently at random (normalized if needed).
private void	PDEInitialize.initUniform(double[][] density, double[] y0, AbstractGeometry space)	Initialize every lattice point with the same state.
void	IBSGroup.setGeometry(AbstractGeometry geometry)	Set the geometry associated with this group.

Uses of AbstractGeometry in org.evoludo.simulator.modules

Fields in org.evoludo.simulator.modules declared as AbstractGeometry

Modifier and Type	Field	Description
protected AbstractGeometry	Module.structure	The geometry of population (interaction and competition graphs are the same)

Methods in org.evoludo.simulator.modules that return AbstractGeometry

Modifier and Type	Method	Description
AbstractGeometry	Module.getGeometry()	Gets the geometry of the population.

Uses of AbstractGeometry in org.evoludo.simulator.views

Methods in org.evoludo.simulator.views that return AbstractGeometry

Modifier and Type	Method	Description
private AbstractGeometry	Distribution.createGeometry(int nTraits)	Create a geometry for the given number of traits.

Methods in org.evoludo.simulator.views with parameters of type AbstractGeometry

Modifier and Type	Method	Description
private static StringBuilder	GenericPop.appendCompNeighborsAt(int node, AbstractGeometry geom, StringBuilder tip)	Append competition neighbours at the given node.
private static StringBuilder	GenericPop.appendInterNeighborsAt(int node, AbstractGeometry geom, StringBuilder tip)	Append interaction neighbours at the given node.
private StringBuilder	GenericPop.appendOppTraitsAt(int node, AbstractGeometry geom, G graph, StringBuilder tip)	Append opponent traits at the given node.
private double[][]	Histogram.ensureDegreeData(HistoGraph graph, AbstractGeometry inter, AbstractGeometry comp, double[][] data)	Ensure the provided data buffer is sized appropriately for the given interaction/competition geometries, update the histogram data and set axis limits on the graph; returns the (possibly new) data buffer.
private int	Histogram.getDegreeBins(AbstractGeometry inter, AbstractGeometry comp)	Determine the number of bins required for the degree distributions of the interaction and competition geometries.
private int	Histogram.getDegreeGraphs(AbstractGeometry inter, AbstractGeometry comp)	Determine the number of histograms required for the degree distributions of the interaction and competition geometries.
private void	Histogram.getDegreeHistogramData(double[][] data, AbstractGeometry geometry, int idx, double ibinwidth)	Generate the degree histogram data for the given geometry.
private void	Histogram.getDegreeHistogramData(double[][] data, AbstractGeometry inter, AbstractGeometry comp)	Generate the degree histogram data for the given interaction and competition geometries.
private String	GenericPop.tooltipForPDE(int node, int nNodes, AbstractGeometry geometry, Module<?> module, G graph, StringBuilder tip)	Assemble tooltip for PDE models.