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

Interface Summary

Interface	Description
ClusterBuilder<V>	Interface for any object that can cluster the vertexes of a SimilarityGraph
SimilarityGraph<V>	Interface for a graph that represents the similarity between vertexes.
SimilarityGraphBuilder<V,G extends SimilarityGraph<V>>	Common interface for similarity graph builders.

Class Summary

Class	Description
CompoundClusterBuilder<V>	Cluster builder that uses the output of builder1 as the starting clusters of builder2.
DenseSimilarityGraph<V>	A similarity graph that is backed by a matrix
DenseSimilarityGraph.AbstractBuilder<V,G extends SimilarityGraph<V>>
DenseSimilarityGraph.Builder<V>
FMeasure
GlobalThresholdClusterBuilder<V>
JungSimGraphWrapper<V>	Wraps a SimilarityGraph in a jung.UndirectedGraph so that the JUNG algorithms can be used.
KMeansPlusPlusClusterBuilder<V>	KMeans cluster builder that uses the algorithm provided by commons math KMeansPlusPlusClusterer.
MSTClusterBuilder<V>
PeakListSimGraphFactory	A factory for building similarity graphs given a list of PeakLists that are sorted by charge and m/z.
SimEdge<V>	Class to hols an undirected edge that is weighted by a score between two vertexes.
SparseSimilarityGraph<V>
SparseSimilarityGraph.Builder<V>
SpectrumClusterEvaluator<A extends PeakAnnotation,S extends PeakList<A>>	Class to evaluate whether a set of spectra cluster together.