Uses of Class
broadwick.graph.Edge

Packages that use Edge

Package	Description
broadwick.graph	This package contains classes for reading and manipulating graphs.
broadwick.graph.algorithms	This package contains several useful algorithms for acting on graphs.
broadwick.graph.writer	This package contains classes for saving graphs in various formats.
broadwick.phylo	This package contains parsers for phylogenetic trees.

Uses of Edge in broadwick.graph

Classes in broadwick.graph with type parameters of type Edge

Modifier and Type	Class and Description
class	DepthFirstIterator<V extends Vertex,E extends Edge<V>> Iterator over all the vertices in a graph using a depth first traversal algorithm.
class	DirectedGraph<V extends Vertex,E extends Edge<V>> A DirectedGraph, suitable for sparse graphs, that permits parallel edges..
interface	Graph<V extends Vertex,E extends Edge<V>> A graph consisting of a set of vertices of type V set and a set of edges of type E.
class	Tree<V extends Vertex,E extends Edge<V>> A subtype of Graph which is a (directed, rooted) tree.
class	UndirectedGraph<V extends Vertex,E extends Edge<V>> A DirectedGraph, suitable for sparse graphs, that permits parallel edges..

Uses of Edge in broadwick.graph.algorithms

Classes in broadwick.graph.algorithms with type parameters of type Edge

Modifier and Type	Class and Description
class	ShortestPath<V extends Vertex,E extends Edge<V>> Calculates distances in a specified graph, using Dijkstra's single-source-shortest-path algorithm.

Uses of Edge in broadwick.graph.writer

Methods in broadwick.graph.writer with parameters of type Edge

Modifier and Type	Method and Description
private static void	GraphMl.addEdge(Edge edge, org.jdom2.Element element) Add an edge to the graphML document.

Method parameters in broadwick.graph.writer with type arguments of type Edge

Modifier and Type	Method and Description
void	GraphWriter.save(String file, Graph<? extends Vertex,? extends Edge<Vertex>> network) Write the XML document into file.
static void	GraphViz.save(String file, Graph<? extends Vertex,? extends Edge<Vertex>> network) Save the graph as in graphviz format in the given file.
static void	GraphMl.save(String file, Graph<? extends Vertex,? extends Edge<Vertex>> network) Save the graph as in graphML format in the given file.
static void	EdgeList.save(String file, Graph<? extends Vertex,? extends Edge<Vertex>> network) Save the graph as in edge list format in the given file.
String	GraphWriter.toString(Graph<? extends Vertex,? extends Edge<?>> network) Print the content of the graph.
static String	GraphViz.toString(Graph<? extends Vertex,? extends Edge<?>> network) Print the content of the graph.
static String	GraphMl.toString(Graph<? extends Vertex,? extends Edge<?>> network) Get the string representation of the network.
static String	EdgeList.toString(Graph<? extends Vertex,? extends Edge<?>> network) Print the content of the graph.
static String	GraphMl.toString(Graph<? extends Vertex,? extends Edge<?>> network, boolean directed) Get the string representation of the network.

Uses of Edge in broadwick.phylo

Methods in broadwick.phylo that return types with arguments of type Edge

Modifier and Type	Method and Description
Tree<PhyloNode,Edge<PhyloNode>>	NewickTreeParser.parse() Parse a string from a Newick file.
Tree<PhyloNode,Edge<PhyloNode>>	NewickTreeParser.parse(String newickStr) Parse a given string that MUST be a valid Newick format.

Method parameters in broadwick.phylo with type arguments of type Edge

Modifier and Type	Method and Description
private PhyloNode	NewickTreeParser.addNodeToTree(String node, Tree<PhyloNode,Edge<PhyloNode>> tree, PhyloNode parent, boolean createUniqueName) Given a string that represents a node in the tree, split in into its constituent name and distance components and add it to the tree.
private void	NewickTreeParser.parseNode(String node, Tree<PhyloNode,Edge<PhyloNode>> tree, PhyloNode parent) Parse a string containing information on a node in Newick format and attach it to a given tree.
private void	NewickTreeParser.parseString(String stringToParse, PhyloNode parent, Tree<PhyloNode,Edge<PhyloNode>> tree) Parse a string in Newick format (where the root node has been removed) recursively.