Uses of Class
org.expasy.mzjava.core.ms.cluster.SimEdge

Packages that use SimEdge

Package	Description
org.expasy.mzjava.core.ms.cluster

Uses of SimEdge in org.expasy.mzjava.core.ms.cluster

Methods in org.expasy.mzjava.core.ms.cluster that return SimEdge

Modifier and Type	Method and Description
SimEdge<V>	DenseSimilarityGraph.AbstractBuilder.add(V vertex1, V vertex2, double score)
SimEdge<V>	SimilarityGraphBuilder.add(V vertex1, V vertex2, double score) Create and add an edge from vertex1 to vertex2 with similarity equal to score to the graph.
SimEdge<V>	SparseSimilarityGraph.Builder.add(V vertex1, V vertex2, double score)
SimEdge<V>	JungSimGraphWrapper.findEdge(V v1, V v2)

Methods in org.expasy.mzjava.core.ms.cluster that return types with arguments of type SimEdge

Modifier and Type	Method and Description
com.google.common.base.Optional<SimEdge<V>>	SimilarityGraph.findEdge(V vertex1, V vertex2) Find the edge between vertex1 and vertex2.
com.google.common.base.Optional<SimEdge<V>>	DenseSimilarityGraph.findEdge(V vertex1, V vertex2)
com.google.common.base.Optional<SimEdge<V>>	SparseSimilarityGraph.findEdge(V vertex1, V vertex2)
Iterable<SimEdge<V>>	SimilarityGraph.getEdges() Return an Iterable that iterates over the SimEdge's in this graph.
Iterable<SimEdge<V>>	DenseSimilarityGraph.getEdges()
Collection<SimEdge<V>>	JungSimGraphWrapper.getEdges()
Iterable<SimEdge<V>>	SparseSimilarityGraph.getEdges()
Iterable<SimEdge<V>>	SimilarityGraph.getEdges(V vertex) Return an Iterable that iterates over all the edges connected to vertex.
Iterable<SimEdge<V>>	DenseSimilarityGraph.getEdges(V vertex)
Iterable<SimEdge<V>>	SparseSimilarityGraph.getEdges(V vertex)
Collection<SimEdge<V>>	JungSimGraphWrapper.getIncidentEdges(V vertex)
Collection<SimEdge<V>>	JungSimGraphWrapper.getInEdges(V vertex)
Collection<SimEdge<V>>	JungSimGraphWrapper.getOutEdges(V vertex)

Methods in org.expasy.mzjava.core.ms.cluster with parameters of type SimEdge

Modifier and Type	Method and Description
SimilarityGraphBuilder<V,G>	DenseSimilarityGraph.AbstractBuilder.add(SimEdge<V> simEdge)
SimilarityGraphBuilder<V,G>	SimilarityGraphBuilder.add(SimEdge<V> simEdge) Add the simEdge to the graph.
SparseSimilarityGraph.Builder<V>	SparseSimilarityGraph.Builder.add(SimEdge<V> edge)
boolean	JungSimGraphWrapper.addEdge(SimEdge<V> edge, edu.uci.ics.jung.graph.util.Pair<? extends V> endpoints, edu.uci.ics.jung.graph.util.EdgeType edgeType)
boolean	JungSimGraphWrapper.containsEdge(SimEdge<V> edge)
protected DenseSimilarityGraph<V>	DenseSimilarityGraph.Builder.doBuild(gnu.trove.map.TObjectIntMap<V> vertexIndexMap, int edgeCount, SimEdge<V>[][] adjacencyList)
protected abstract G	DenseSimilarityGraph.AbstractBuilder.doBuild(gnu.trove.map.TObjectIntMap<V> vertexIndexMap, int edgeCount, SimEdge<V>[][] adjacencyList)
V	JungSimGraphWrapper.getDest(SimEdge<V> directedEdge)
edu.uci.ics.jung.graph.util.Pair<V>	JungSimGraphWrapper.getEndpoints(SimEdge<V> edge)
V	JungSimGraphWrapper.getSource(SimEdge<V> directedEdge)
boolean	JungSimGraphWrapper.isDest(V vertex, SimEdge<V> edge)
boolean	JungSimGraphWrapper.isSource(V vertex, SimEdge<V> edge)
boolean	JungSimGraphWrapper.removeEdge(SimEdge<V> edge)

Method parameters in org.expasy.mzjava.core.ms.cluster with type arguments of type SimEdge

Modifier and Type	Method and Description
void	SimilarityGraph.forEachEdge(Procedure<SimEdge<V>> procedure) Applies the procedure to each edge in this graph
void	DenseSimilarityGraph.forEachEdge(Procedure<SimEdge<V>> procedure)
void	SparseSimilarityGraph.forEachEdge(Procedure<SimEdge<V>> procedure)
void	SimilarityGraph.forEachEdge(V vertex, Procedure<SimEdge<V>> procedure) Applies the procedure to each edge that is connected to vertex
void	DenseSimilarityGraph.forEachEdge(V vertex, Procedure<SimEdge<V>> procedure)
void	SparseSimilarityGraph.forEachEdge(V vertex, Procedure<SimEdge<V>> procedure)

Constructors in org.expasy.mzjava.core.ms.cluster with parameters of type SimEdge

Constructor and Description
DenseSimilarityGraph(gnu.trove.map.TObjectIntMap<V> vertexIndexMap, SimEdge<V>[][] adjacencyList, int edgeCount)

Constructor parameters in org.expasy.mzjava.core.ms.cluster with type arguments of type SimEdge

Constructor and Description
MSTClusterBuilder(double scoreThreshold, DoubleFunction<SimEdge<V>> scoreMapper)