Uses of Interface
edu.uconn.mcb.lineageevolver.graph.GraphEdge

Packages that use GraphEdge

edu.uconn.mcb.lineageevolver	Provides all basic, universal LineageEvolver classes directly, and serves as a parent for all other LineageEvolver packages.
edu.uconn.mcb.lineageevolver.graph	Provides graph data structure interface and implementation.

Uses of GraphEdge in edu.uconn.mcb.lineageevolver

Fields in edu.uconn.mcb.lineageevolver declared as GraphEdge

private GraphEdge

LineageFork._edge The node to fork

Constructors in edu.uconn.mcb.lineageevolver with parameters of type GraphEdge

LineageFork(GraphEdge e)
Constructor for Objects of type LineageFork provided an edge on which to fork.

Uses of GraphEdge in edu.uconn.mcb.lineageevolver.graph

Classes in edu.uconn.mcb.lineageevolver.graph that implement GraphEdge

class

EdgeListEdge GraphEdge implementation for use with EdgeListGraph objects.

Methods in edu.uconn.mcb.lineageevolver.graph that return GraphEdge

GraphEdge	GraphTopology.getEdge(GraphTopologyEvent event) Returns the edge associated to a given event.
GraphEdge	EdgeListGraphTopology.getEdge(GraphTopologyEvent event)
GraphEdge	EdgeListGraphTopology.addEdge(java.lang.Object data, GraphNode origin, GraphNode destination)
GraphEdge[]	EdgeListGraph.getEdges(GraphNode v)
GraphEdge	EdgeListGraph.addEdge(java.lang.Object data, GraphNode origin, GraphNode destination)
GraphEdge[]	DirectedGraph.getEdges(GraphNode v) Retrieves all edges outgoing from a given node.
GraphEdge	DirectedGraph.addEdge(java.lang.Object data, GraphNode origin, GraphNode destination) Adds an edge to this graph.

Methods in edu.uconn.mcb.lineageevolver.graph with parameters of type GraphEdge

int	GraphTopology.nextEventTime(GraphEdge e) Gets the evolutionary distance between the current position and the next event on the given edge, in time intervals.
float	GraphTopology.substitutionsPerTime(GraphEdge e) Returns the number of substitutions per time interval for the given edge.
GraphTopologyEvent	GraphTopology.getEvent(GraphEdge e) Returns the next event on the given edge corresponding to the current position on that edge.
void	GraphTopology.addEvent(GenomeVisitor v, GraphEdge edge, int time) Adds an event to a given edge, provided a time interval and a GenomeVisitor.
void	GraphTopology.substitute(GraphEdge e, int time) Processes substitution on a given edge for a given amount of time.
void	GraphTopology.setSubstitutions(GraphEdge e, int substitutions) Sets the branch length for the given edge.
void	GraphTopology.setTime(GraphEdge e, int time) Sets the time associated to the given edge.
int	EdgeListGraphTopology.nextEventTime(GraphEdge e)
float	EdgeListGraphTopology.substitutionsPerTime(GraphEdge e)
GraphTopologyEvent	EdgeListGraphTopology.getEvent(GraphEdge e)
void	EdgeListGraphTopology.addEvent(GenomeVisitor v, GraphEdge edge, int time)
java.lang.Object	EdgeListGraphTopology.getData(GraphEdge e)
void	EdgeListGraphTopology.setData(GraphEdge e, java.lang.Object data)
void	EdgeListGraphTopology.substitute(GraphEdge e, int time)
void	EdgeListGraphTopology.setSubstitutions(GraphEdge e, int substitutions)
void	EdgeListGraphTopology.setTime(GraphEdge e, int time)
GraphNode[]	EdgeListGraph.getNodes(GraphEdge e)
java.lang.Object	EdgeListGraph.getData(GraphEdge e)
void	EdgeListGraph.setData(GraphEdge e, java.lang.Object data)
GraphNode[]	DirectedGraph.getNodes(GraphEdge e) Retrieves the two nodes connected by a given edge.
java.lang.Object	DirectedGraph.getData(GraphEdge e) Returns the data stored inside a given edge.
void	DirectedGraph.setData(GraphEdge e, java.lang.Object data) Sets the data for a given edge.