Index (Watset 2.8.3-SNAPSHOT API)

A B C D E F G I K L M N O P R S T V W
All Classes and Interfaces|All Packages|Constant Field Values|Serialized Form

A

ABCFormat - Class in org.nlpub.watset.util: Utilities for handling the ABC (source, target, weight) edge list format.
alwaysFalse() - Static method in class org.nlpub.watset.util.Maximizer: A predicate that is always false.
alwaysTrue() - Static method in class org.nlpub.watset.util.Maximizer: A predicate that is always true.
Application - Class in org.nlpub.watset.cli: Watset command-line interface.
Application() - Constructor for class org.nlpub.watset.cli.Application: Create an instance of the Watset command-line interface.
Application.ParseStatus - Enum Class in org.nlpub.watset.cli: Status of command-line argument parsing.
apply(Graph<V, E>) - Method in class org.nlpub.watset.graph.ChineseWhispers.Builder
apply(Graph<V, E>) - Method in class org.nlpub.watset.graph.ComponentsClustering.Builder
apply(Graph<V, E>) - Method in class org.nlpub.watset.graph.EmptyClustering.Builder
apply(Graph<V, E>) - Method in class org.nlpub.watset.graph.MarkovClustering.Builder
apply(Graph<V, E>) - Method in class org.nlpub.watset.graph.MarkovClusteringExternal.Builder
apply(Graph<V, E>) - Method in class org.nlpub.watset.graph.MaxMax.Builder
apply(Graph<V, E>) - Method in class org.nlpub.watset.graph.SingletonClustering.Builder
apply(Graph<V, E>) - Method in class org.nlpub.watset.graph.SpectralClustering.Builder
apply(Graph<V, E>) - Method in class org.nlpub.watset.graph.TogetherClustering.Builder
apply(Graph<V, E>) - Method in class org.nlpub.watset.graph.Watset.Builder
apply(Graph<V, E>) - Method in class org.nlpub.watset.util.ClusteringAlgorithmProvider
apply(Graph<V, E>, Map<V, Integer>, V, V) - Method in interface org.nlpub.watset.graph.NodeWeighting: Compute the weight of the node in the neighborhood graph.
apply(Graph<V, E>, Map<V, Integer>, V, V) - Method in class org.nlpub.watset.graph.NodeWeightings.LabelNodeWeighting
apply(Graph<V, E>, Map<V, Integer>, V, V) - Method in class org.nlpub.watset.graph.NodeWeightings.LinearNodeWeighting
apply(Graph<V, E>, Map<V, Integer>, V, V) - Method in class org.nlpub.watset.graph.NodeWeightings.LogNodeWeighting
apply(Graph<V, E>, Map<V, Integer>, V, V) - Method in class org.nlpub.watset.graph.NodeWeightings.TopNodeWeighting
argmax(Iterable<V>, Function<V, S>) - Static method in class org.nlpub.watset.util.Maximizer: Find the first argument of the maximum (argmax) of the function.
argmax(Iterable<V>, Predicate<V>, Function<V, S>) - Static method in class org.nlpub.watset.util.Maximizer: Find the first argument of the maximum (argmax) of the function.
argrandmax(Iterable<V>, Function<V, S>, Random) - Static method in class org.nlpub.watset.util.Maximizer: Find the arguments of the maxima (argmax) of the function and randomly choose any of them.

B

buildAdjacencyMatrix(Graph<V, E>, VertexToIntegerMapping<V>, boolean) - Static method in class org.nlpub.watset.util.Matrices: Construct an adjacency matrix for the given graph.
buildArcs() - Method in class org.nlpub.watset.graph.MaxMax.Implementation: Build the intermediate directed graph.
buildDegreeMatrix(Graph<V, E>, VertexToIntegerMapping<V>) - Static method in class org.nlpub.watset.util.Matrices: Construct a degree matrix for the given graph.
builder() - Static method in class org.nlpub.watset.graph.ChineseWhispers: Create a builder.
builder() - Static method in class org.nlpub.watset.graph.ComponentsClustering: Create a builder.
builder() - Static method in class org.nlpub.watset.graph.EmptyClustering: Create a builder.
builder() - Static method in class org.nlpub.watset.graph.MarkovClustering: Create a builder.
builder() - Static method in class org.nlpub.watset.graph.MarkovClusteringExternal: Create a builder.
builder() - Static method in class org.nlpub.watset.graph.MaxMax: Create a builder.
builder() - Static method in class org.nlpub.watset.graph.SingletonClustering: Create a builder.
builder() - Static method in class org.nlpub.watset.graph.SpectralClustering: Create a builder.
builder() - Static method in class org.nlpub.watset.graph.TogetherClustering: Create a builder.
builder() - Static method in class org.nlpub.watset.graph.Watset: Create a builder.
Builder() - Constructor for class org.nlpub.watset.graph.ChineseWhispers.Builder: Create an instance of ChineseWhispers builder.
Builder() - Constructor for class org.nlpub.watset.graph.ComponentsClustering.Builder
Builder() - Constructor for class org.nlpub.watset.graph.EmptyClustering.Builder
Builder() - Constructor for class org.nlpub.watset.graph.MarkovClustering.Builder
Builder() - Constructor for class org.nlpub.watset.graph.MarkovClusteringExternal.Builder
Builder() - Constructor for class org.nlpub.watset.graph.MaxMax.Builder
Builder() - Constructor for class org.nlpub.watset.graph.SingletonClustering.Builder
Builder() - Constructor for class org.nlpub.watset.graph.SpectralClustering.Builder
Builder() - Constructor for class org.nlpub.watset.graph.TogetherClustering.Builder
Builder() - Constructor for class org.nlpub.watset.graph.Watset.Builder
buildInventory() - Method in class org.nlpub.watset.graph.Watset.Implementation: Build a node sense inventory; fill in variables senses and inventory.
buildSenseGraph() - Method in class org.nlpub.watset.graph.Watset.Implementation: Build an intermediate sense-aware representation of the input graph called the node sense graph.
buildSymmetricLaplacian(RealMatrix, RealMatrix) - Static method in class org.nlpub.watset.util.Matrices: Construct a symmetric Laplacian for the given graph.

C

cache - Variable in class org.nlpub.watset.eval.CachedNormalizedModifiedPurity: The cache.
CachedNormalizedModifiedPurity<V> - Class in org.nlpub.watset.eval: Cached normalized modified purity evaluation measure for overlapping clustering.
CachedNormalizedModifiedPurity() - Constructor for class org.nlpub.watset.eval.CachedNormalizedModifiedPurity: Construct a cached normalized modified purity calculator.
CachedNormalizedModifiedPurity(boolean, boolean) - Constructor for class org.nlpub.watset.eval.CachedNormalizedModifiedPurity: Construct a cached normalized modified purity calculator that allows turning normalized and/or modified options off.
CHINESE_WHISPERS - Enum constant in enum class org.nlpub.watset.util.ClusteringAlgorithmProvider.ProvidingAlgorithm: Label for ChineseWhispers.
ChineseWhispers<V,E> - Class in org.nlpub.watset.graph: Implementation of the Chinese Whispers algorithm.
ChineseWhispers(Graph<V, E>, NodeWeighting<V, E>, int, Random) - Constructor for class org.nlpub.watset.graph.ChineseWhispers: Create an instance of the Chinese Whispers algorithm.
ChineseWhispers.Builder<V,E> - Class in org.nlpub.watset.graph: Builder for ChineseWhispers.
ChineseWhispers.Implementation<V,E> - Class in org.nlpub.watset.graph: Actual implementation of Chinese Whispers.
clusterer - Variable in class org.nlpub.watset.graph.SpectralClustering.Implementation: The underlying clustering algorithm.
clustering - Variable in class org.nlpub.watset.graph.ChineseWhispers: The cached clustering result.
clustering - Variable in class org.nlpub.watset.graph.MarkovClustering: The cached clustering result.
clustering - Variable in class org.nlpub.watset.graph.MarkovClusteringExternal: The cached clustering result.
clustering - Variable in class org.nlpub.watset.graph.Watset: The cached clustering result.
clustering(V) - Method in class org.nlpub.watset.graph.SenseInduction: Get the induced sense clusters.
ClusteringAlgorithmBuilder<V,E,C extends org.jgrapht.alg.interfaces.ClusteringAlgorithm<V>> - Interface in org.nlpub.watset.graph: A builder for constructing the ClusteringAlgorithm instances.
ClusteringAlgorithmProvider<V,E> - Class in org.nlpub.watset.util: A utility class that creates instances of the graph clustering algorithms.
ClusteringAlgorithmProvider(String, Map<String, String>, JDKRandomGenerator) - Constructor for class org.nlpub.watset.util.ClusteringAlgorithmProvider: Create an instance of this utility class.
ClusteringAlgorithmProvider.ProvidingAlgorithm - Enum Class in org.nlpub.watset.util: Clustering algorithms that ClusteringAlgorithmProvider knows how to provide.
ColumnNormalizeVisitor(RealVector) - Constructor for class org.nlpub.watset.util.Matrices.ColumnNormalizeVisitor: Create an instance of the normalizer.
ColumnSumVisitor(RealVector) - Constructor for class org.nlpub.watset.util.Matrices.ColumnSumVisitor: Create an instance of the normalizer.
combination(Collection<V>) - Static method in class org.nlpub.watset.eval.Pairwise: Return a stream of pairs generated as 2-combinations of the cluster elements.
COMMAND - Enum constant in enum class org.nlpub.watset.cli.Application.ParseStatus: A command has been parsed successfully.
COMPONENTS - Enum constant in enum class org.nlpub.watset.util.ClusteringAlgorithmProvider.ProvidingAlgorithm: Label for ComponentsClustering.
ComponentsClustering<V,E> - Class in org.nlpub.watset.graph: A trivial clustering algorithm that treats every connected component as a cluster.
ComponentsClustering(Graph<V, E>) - Constructor for class org.nlpub.watset.graph.ComponentsClustering: Set up the trivial clustering algorithm that treats every connected component as a cluster.
ComponentsClustering.Builder<V,E> - Class in org.nlpub.watset.graph: Builder for ComponentsClustering.
compute() - Method in class org.nlpub.watset.graph.ChineseWhispers.Implementation: Perform clustering with Chinese Whispers.
compute() - Method in class org.nlpub.watset.graph.MarkovClustering.Implementation: Perform clustering with Markov Clustering.
compute() - Method in class org.nlpub.watset.graph.MarkovClusteringExternal.Implementation: Perform clustering with Markov Clustering.
compute() - Method in class org.nlpub.watset.graph.MaxMax.Implementation: Perform clustering with MaxMax.
compute() - Method in class org.nlpub.watset.graph.SpectralClustering.Implementation: Perform clustering with Spectral Clustering.
compute() - Method in class org.nlpub.watset.graph.Watset.Implementation: Perform clustering with Watset.
computeRowNorms(RealMatrix) - Static method in class org.nlpub.watset.util.Matrices: Compute row norms of the given matrix.
computeSpectralEmbedding(RealMatrix, VertexToIntegerMapping<V>, int) - Static method in class org.nlpub.watset.util.Matrices: Compute spectral embedding of the graph nodes using the pre-computed Laplacian.
computeSpectralEmbedding(Graph<V, ?>, VertexToIntegerMapping<V>, int) - Static method in class org.nlpub.watset.util.Matrices: Compute spectral embedding of the graph nodes.
contexts(V) - Method in class org.nlpub.watset.graph.SenseInduction: Get the induced senses and their non-disambiguated contexts.

D

DELIMITER - Static variable in class org.nlpub.watset.util.ILEFormat: The default delimiter, expressed by comma and space.
delta(Map<V, Double>, Map<V, Double>) - Method in class org.nlpub.watset.eval.NormalizedModifiedPurity: Compute the fuzzy overlap between two clusters, cluster and klass.
digraph - Variable in class org.nlpub.watset.graph.MaxMax.Implementation: The directed graph.

E

e - Variable in class org.nlpub.watset.graph.MarkovClustering: The expansion parameter.
e - Variable in class org.nlpub.watset.graph.MarkovClustering.Implementation: The expansion parameter.
E - Static variable in class org.nlpub.watset.graph.MarkovClustering.Builder: The default value of the expansion parameter.
embeddings - Variable in class org.nlpub.watset.graph.SpectralClustering.Implementation: The node embeddings.
EMPTY - Enum constant in enum class org.nlpub.watset.cli.Application.ParseStatus: No command has been found.
EMPTY - Enum constant in enum class org.nlpub.watset.util.ClusteringAlgorithmProvider.ProvidingAlgorithm: Label for EmptyClustering.
EMPTY_BUT_VERSION - Enum constant in enum class org.nlpub.watset.cli.Application.ParseStatus: No command has been found, but the version has been requested.
EmptyClustering<V> - Class in org.nlpub.watset.graph: A trivial clustering algorithm that returns no clusters.
EmptyClustering() - Constructor for class org.nlpub.watset.graph.EmptyClustering
EmptyClustering.Builder<V,E> - Class in org.nlpub.watset.graph: Builder for EmptyClustering.
evaluate(Collection<? extends Collection<V>>, Collection<? extends Collection<V>>) - Method in class org.nlpub.watset.eval.Pairwise: Transform the clusters to pairs and compute a pairwise precision, recall, and F-score.
evaluate(Set<Pair<V, V>>, Set<Pair<V, V>>) - Method in class org.nlpub.watset.eval.Pairwise: Compute a pairwise precision, recall, and F-score.
evaluate(NormalizedModifiedPurity<V>, NormalizedModifiedPurity<V>, Collection<Map<V, Double>>, Collection<Map<V, Double>>) - Static method in class org.nlpub.watset.eval.NormalizedModifiedPurity: Compute a precision and recall using purity and inverse purity, correspondingly.
expand() - Method in class org.nlpub.watset.graph.MarkovClustering.Implementation: Perform the expansion step.
extractClusters() - Method in class org.nlpub.watset.graph.MaxMax.Implementation: Extract the quasi-strongly connected subgraphs from the intermediate directed graph.

F

FAIL - Enum constant in enum class org.nlpub.watset.util.Word2VecFormat.SpaceStrategy: Throw a IllegalStateException when space occurs.

G

get() - Method in class org.nlpub.watset.graph.NodeEmbedding
get() - Method in class org.nlpub.watset.util.IndexedSense
getClustering() - Method in class org.nlpub.watset.graph.ChineseWhispers
getClustering() - Method in class org.nlpub.watset.graph.ComponentsClustering
getClustering() - Method in class org.nlpub.watset.graph.EmptyClustering
getClustering() - Method in class org.nlpub.watset.graph.MarkovClustering
getClustering() - Method in class org.nlpub.watset.graph.MarkovClusteringExternal
getClustering() - Method in class org.nlpub.watset.graph.MaxMax
getClustering() - Method in class org.nlpub.watset.graph.SingletonClustering
getClustering() - Method in class org.nlpub.watset.graph.SpectralClustering
getClustering() - Method in class org.nlpub.watset.graph.TogetherClustering
getClustering() - Method in class org.nlpub.watset.graph.Watset
getClusters() - Method in class org.nlpub.watset.eval.Measurer: Return the list of the measured number of clusters.
getContexts() - Method in interface org.nlpub.watset.graph.WatsetClustering: Get the disambiguated contexts built during Watset.getClustering().
getContexts() - Method in class org.nlpub.watset.graph.WatsetClustering.WatsetClusteringImpl
getDigraph() - Method in interface org.nlpub.watset.graph.MaxMaxClustering: Return the directed graph representation of the input graph.
getDigraph() - Method in class org.nlpub.watset.graph.MaxMaxClustering.MaxMaxClusteringImpl
getDurations() - Method in class org.nlpub.watset.eval.Measurer: Return the list of the measured graph clustering durations in milliseconds.
getF1Score() - Method in class org.nlpub.watset.eval.PrecisionRecall: Compute the F₁-score using precision and recall.
getFScore(double) - Method in class org.nlpub.watset.eval.PrecisionRecall: Compute the F_β-score using precision and recall.
getGraph() - Method in class org.nlpub.watset.eval.Measurer: Return the input graph.
getInventory() - Method in class org.nlpub.watset.graph.WatsetClustering.WatsetClusteringImpl: Get the sense inventory built during Watset.getClustering().
getIterations() - Method in class org.nlpub.watset.graph.ChineseWhispers.Implementation: Return the number of iterations specified in the constructor
getPrecision() - Method in class org.nlpub.watset.eval.PrecisionRecall: Get the value of precision.
getRecall() - Method in class org.nlpub.watset.eval.PrecisionRecall: Get the value of recall.
getRoots() - Method in interface org.nlpub.watset.graph.MaxMaxClustering: Return the set of root nodes.
getRoots() - Method in class org.nlpub.watset.graph.MaxMaxClustering.MaxMaxClusteringImpl
getSense() - Method in class org.nlpub.watset.util.IndexedSense: Get the sense identifier.
getSenseGraph() - Method in interface org.nlpub.watset.graph.WatsetClustering: Get the intermediate node sense graph built during Watset.getClustering().
getSenseGraph() - Method in class org.nlpub.watset.graph.WatsetClustering.WatsetClusteringImpl
getSteps() - Method in class org.nlpub.watset.graph.ChineseWhispers.Implementation: Return the number of iterations actually performed during ChineseWhispers.getClustering().
GIRVAN_NEWMAN - Enum constant in enum class org.nlpub.watset.util.ClusteringAlgorithmProvider.ProvidingAlgorithm: Label for GirvanNewmanClustering.
global - Variable in class org.nlpub.watset.graph.Watset: The global clustering algorithm supplier.
global - Variable in class org.nlpub.watset.graph.Watset.Implementation: The global clustering algorithm supplier.
graph - Variable in class org.nlpub.watset.graph.ChineseWhispers: The graph.
graph - Variable in class org.nlpub.watset.graph.ChineseWhispers.Implementation: The graph.
graph - Variable in class org.nlpub.watset.graph.MarkovClustering: The graph.
graph - Variable in class org.nlpub.watset.graph.MarkovClustering.Implementation: The graph.
graph - Variable in class org.nlpub.watset.graph.MarkovClusteringExternal: The graph.
graph - Variable in class org.nlpub.watset.graph.MarkovClusteringExternal.Implementation: The graph.
graph - Variable in class org.nlpub.watset.graph.MaxMax.Implementation: The graph.
graph - Variable in class org.nlpub.watset.graph.SenseInduction: The graph.
graph - Variable in class org.nlpub.watset.graph.SingletonClustering: The graph.
graph - Variable in class org.nlpub.watset.graph.TogetherClustering: The graph.
graph - Variable in class org.nlpub.watset.graph.Watset: The graph.
graph - Variable in class org.nlpub.watset.graph.Watset.Implementation: The graph.
graph(Graph<V, E>, V) - Static method in class org.nlpub.watset.util.Neighbors: Extract the neighborhood graph for the given node.

I

IGNORE - Enum constant in enum class org.nlpub.watset.util.Word2VecFormat.SpaceStrategy: Do nothing when space occurs.
ILEFormat - Class in org.nlpub.watset.util: Utilities for handling the ILE (identifier, length, elements) file format.
Implementation(Graph<V, E>) - Constructor for class org.nlpub.watset.graph.MaxMax.Implementation: Create an instance of the MaxMax clustering algorithm implementation.
Implementation(Graph<V, E>, int, double, int) - Constructor for class org.nlpub.watset.graph.MarkovClustering.Implementation: Create an instance of the Markov Clustering algorithm implementation.
Implementation(Graph<V, E>, Path, double, int) - Constructor for class org.nlpub.watset.graph.MarkovClusteringExternal.Implementation: Create an instance of the Markov Clustering algorithm wrapper implementation.
Implementation(Graph<V, E>, Clusterer<NodeEmbedding<V>>, int) - Constructor for class org.nlpub.watset.graph.SpectralClustering.Implementation: Create an instance of the Spectral Clustering algorithm implementation.
Implementation(Graph<V, E>, NodeWeighting<V, E>, int, Random) - Constructor for class org.nlpub.watset.graph.ChineseWhispers.Implementation: Create an instance of the Chinese Whispers clustering algorithm implementation.
Implementation(Graph<V, E>, SenseInduction<V, E>, ClusteringAlgorithmBuilder<Sense<V>, DefaultWeightedEdge, ?>) - Constructor for class org.nlpub.watset.graph.Watset.Implementation: Create an instance of the Watset clustering algorithm implementation.
IndexedSense<V> - Class in org.nlpub.watset.util: An integer sense identifier.
IndexedSense(V, Integer) - Constructor for class org.nlpub.watset.util.IndexedSense: Create a sense of an object.
inducer - Variable in class org.nlpub.watset.graph.Watset.Implementation: The node sense induction approach.
inducer - Variable in class org.nlpub.watset.graph.Watset: The node sense induction approach.
inflate() - Method in class org.nlpub.watset.graph.MarkovClustering.Implementation: Perform the inflation step.
inflateVisitor - Variable in class org.nlpub.watset.graph.MarkovClustering.Implementation: The inflation visitor that raises each element of matrix to the power of r.
InflateVisitor(double) - Constructor for class org.nlpub.watset.util.Matrices.InflateVisitor: Create an instance of the inflator.
inspector - Variable in class org.nlpub.watset.graph.ComponentsClustering: The connectivity inspector.
inventory - Variable in class org.nlpub.watset.graph.Watset.Implementation: The sense inventory.
iterations - Variable in class org.nlpub.watset.graph.ChineseWhispers.Implementation: The number of iterations.
iterations - Variable in class org.nlpub.watset.graph.ChineseWhispers: The number of iterations.
iterations - Variable in class org.nlpub.watset.graph.MarkovClustering.Implementation: The maximal number of iterations.
iterations - Variable in class org.nlpub.watset.graph.MarkovClustering: The maximal number of iterations.
ITERATIONS - Static variable in class org.nlpub.watset.graph.ChineseWhispers.Builder: The default number of Chinese Whispers iterations.
ITERATIONS - Static variable in class org.nlpub.watset.graph.MarkovClustering.Builder: The default number of Markov Clustering iterations.

K

K_SPANNING_TREE - Enum constant in enum class org.nlpub.watset.util.ClusteringAlgorithmProvider.ProvidingAlgorithm: Label for KSpanningTreeClustering.

L

label() - Static method in class org.nlpub.watset.graph.NodeWeightings: A static factory method providing a convenient way to create an instance of NodeWeightings.LabelNodeWeighting.
LABEL - Enum constant in enum class org.nlpub.watset.graph.NodeWeightings.WeightingMode: Weighting mode label.
LabelNodeWeighting() - Constructor for class org.nlpub.watset.graph.NodeWeightings.LabelNodeWeighting
labels - Variable in class org.nlpub.watset.graph.ChineseWhispers.Implementation: The mapping of nodes to labels.
LIN - Enum constant in enum class org.nlpub.watset.graph.NodeWeightings.WeightingMode: Weighting mode lin.
linear() - Static method in class org.nlpub.watset.graph.NodeWeightings: A static factory method providing a convenient way to create an instance of NodeWeightings.LinearNodeWeighting.
LinearNodeWeighting() - Constructor for class org.nlpub.watset.graph.NodeWeightings.LinearNodeWeighting
load(ClassDict) - Static method in class org.nlpub.watset.util.NetworkXFormat: Reconstruct a Graph object from the unpickled NetworkX graph.
local - Variable in class org.nlpub.watset.graph.SenseInduction: The local clustering algorithm supplier.
log() - Static method in class org.nlpub.watset.graph.NodeWeightings: A static factory method providing a convenient way to create an instance of NodeWeightings.LogNodeWeighting.
LOG - Enum constant in enum class org.nlpub.watset.graph.NodeWeightings.WeightingMode: Weighting mode log.
LogNodeWeighting() - Constructor for class org.nlpub.watset.graph.NodeWeightings.LogNodeWeighting

M

main(String[]) - Static method in class org.nlpub.watset.cli.Application: Watset command-line interface entry point.
mapping - Variable in class org.nlpub.watset.graph.MarkovClustering.Implementation: The mapping of graph nodes to the columns of matrix.
mapping - Variable in class org.nlpub.watset.graph.MarkovClusteringExternal.Implementation: The mapping of nodes to indices.
mapping - Variable in class org.nlpub.watset.graph.SpectralClustering.Implementation: The mapping of graph nodes to the columns of the graph Laplacian.
MARKOV_CLUSTERING - Enum constant in enum class org.nlpub.watset.util.ClusteringAlgorithmProvider.ProvidingAlgorithm: Label for MarkovClustering.
MARKOV_CLUSTERING_EXTERNAL - Enum constant in enum class org.nlpub.watset.util.ClusteringAlgorithmProvider.ProvidingAlgorithm: Label for MarkovClusteringExternal.
MarkovClustering<V,E> - Class in org.nlpub.watset.graph: Naïve implementation of the Markov Clustering (MCL) algorithm.
MarkovClustering(Graph<V, E>, int, double, int) - Constructor for class org.nlpub.watset.graph.MarkovClustering: Create an instance of the Markov Clustering algorithm.
MarkovClustering.Builder<V,E> - Class in org.nlpub.watset.graph: Builder for MarkovClustering.
MarkovClustering.Implementation<V,E> - Class in org.nlpub.watset.graph: Actual implementation of Markov Clustering.
MarkovClusteringExternal<V,E> - Class in org.nlpub.watset.graph: A wrapper for the official implementation of the Markov Clustering (MCL) algorithm in C.
MarkovClusteringExternal(Graph<V, E>, Path, double, int) - Constructor for class org.nlpub.watset.graph.MarkovClusteringExternal: Create an instance of the Markov Clustering algorithm wrapper.
MarkovClusteringExternal.Builder<V,E> - Class in org.nlpub.watset.graph: Builder for MarkovClusteringExternal.
MarkovClusteringExternal.Implementation<V,E> - Class in org.nlpub.watset.graph: Actual implementation of the Markov Clustering wrapper.
Matrices - Class in org.nlpub.watset.util: Utilities for working with matrices.
Matrices.ColumnNormalizeVisitor - Class in org.nlpub.watset.util: Visitor that normalizes columns.
Matrices.ColumnSumVisitor - Class in org.nlpub.watset.util: Visitor that computes column sums.
Matrices.InflateVisitor - Class in org.nlpub.watset.util: Visitor that raises each element to the specified power.
Matrices.RowNormalizeVisitor - Class in org.nlpub.watset.util: Visitor that normalizes rows.
matrix - Variable in class org.nlpub.watset.graph.MarkovClustering.Implementation: The stochastic matrix.
Maximizer - Class in org.nlpub.watset.util: Utilities for searching arguments of the maxima of the function.
MaxMax<V,E> - Class in org.nlpub.watset.graph: Implementation of the MaxMax soft clustering algorithm.
MaxMax(Graph<V, E>) - Constructor for class org.nlpub.watset.graph.MaxMax: Create an instance of the MaxMax algorithm.
MAXMAX - Enum constant in enum class org.nlpub.watset.util.ClusteringAlgorithmProvider.ProvidingAlgorithm: Label for MaxMax.
MaxMax.Builder<V,E> - Class in org.nlpub.watset.graph: Builder for MaxMax.
MaxMax.Implementation<V,E> - Class in org.nlpub.watset.graph: Actual implementation of MaxMax.
MaxMaxClustering<V> - Interface in org.nlpub.watset.graph: A MaxMax clustering.
MaxMaxClustering.MaxMaxClusteringImpl<V> - Class in org.nlpub.watset.graph: Default implementation of the MaxMax clustering.
MaxMaxClusteringImpl(List<Set<V>>, Graph<V, DefaultEdge>, Set<V>) - Constructor for class org.nlpub.watset.graph.MaxMaxClustering.MaxMaxClusteringImpl: Construct a new MaxMax clustering.
Measurement(Duration, ClusteringAlgorithm.Clustering<V>) - Constructor for class org.nlpub.watset.eval.Measurer.Measurement: Create a performance measurement result.
Measurer<V,E> - Class in org.nlpub.watset.eval: A clustering algorithm performance measurement class.
Measurer(ClusteringAlgorithmBuilder<V, E, ?>, Graph<V, E>) - Constructor for class org.nlpub.watset.eval.Measurer: Create an instance of Measurer.
Measurer(ClusteringAlgorithmBuilder<V, E, ?>, Graph<V, E>, int, int) - Constructor for class org.nlpub.watset.eval.Measurer: Create an instance of Measurer.
Measurer.Measurement<V> - Class in org.nlpub.watset.eval: A performance measurement result.

N

Neighbors - Class in org.nlpub.watset.util: Utilities for extracting neighborhood graphs and iterating over them.
NetworkXFormat - Class in org.nlpub.watset.util: Utilities for handling pickled NetworkX graphs.
NodeEmbedding<V> - Class in org.nlpub.watset.graph: Coordinates of the graph node.
NodeEmbedding(V, double[]) - Constructor for class org.nlpub.watset.graph.NodeEmbedding: Create an instance of node coordinates.
NodeWeighting<V,E> - Interface in org.nlpub.watset.graph: Node weighting for Chinese Whispers.
NodeWeightings - Class in org.nlpub.watset.graph: Useful implementations of NodeWeighting.
NodeWeightings.LabelNodeWeighting<V,E> - Class in org.nlpub.watset.graph: A trivial and not particularly useful node weighting approach that assigns the current node label as the weight.
NodeWeightings.LinearNodeWeighting<V,E> - Class in org.nlpub.watset.graph: The node weighting approach that chooses the label with the highest total edge weight in the neighborhood divided by the neighbor node degree.
NodeWeightings.LogNodeWeighting<V,E> - Class in org.nlpub.watset.graph: The node weighting approach that chooses the label with the highest total edge weight in the neighborhood divided by the logarithm of the neighbor node degree.
NodeWeightings.TopNodeWeighting<V,E> - Class in org.nlpub.watset.graph: The node weighting approach that chooses the label with the highest total edge weight in the neighborhood.
NodeWeightings.WeightingMode - Enum Class in org.nlpub.watset.graph: Weighting modes.
NOLOG - Enum constant in enum class org.nlpub.watset.graph.NodeWeightings.WeightingMode: Deprecated.
Replaced with LIN
normalize() - Method in class org.nlpub.watset.graph.MarkovClustering.Implementation: Normalize the matrix.
normalize(String) - Method in class org.nlpub.watset.util.ClusteringAlgorithmProvider: Normalize the name of the requested algorithm.
normalize(Collection<Map<V, Double>>) - Static method in class org.nlpub.watset.eval.NormalizedModifiedPurity: Normalize weights of the cluster elements to allow using normalized (modified) purity.
NormalizedModifiedPurity<V> - Class in org.nlpub.watset.eval: Normalized modified purity evaluation measure for overlapping clustering.
NormalizedModifiedPurity() - Constructor for class org.nlpub.watset.eval.NormalizedModifiedPurity: Construct a normalized modified purity calculator.
NormalizedModifiedPurity(boolean, boolean) - Constructor for class org.nlpub.watset.eval.NormalizedModifiedPurity: Construct a normalized modified purity calculator that allows turning normalized and/or modified options off.

O

org.nlpub.watset.cli - package org.nlpub.watset.cli: Command-line interface.
org.nlpub.watset.eval - package org.nlpub.watset.eval: Clustering and performance evaluation tools.
org.nlpub.watset.graph - package org.nlpub.watset.graph: Graph processing and clustering.
org.nlpub.watset.util - package org.nlpub.watset.util: Utility classes and helpers.
output - Variable in class org.nlpub.watset.graph.MarkovClusteringExternal.Implementation: The output file.

P

pairOf(V, V) - Static method in class org.nlpub.watset.eval.Pairwise: Create a pair of elements ordered by hashCode.
Pairwise<V> - Class in org.nlpub.watset.eval: Pairwise precision, recall, and F-score for cluster evaluation.
Pairwise() - Constructor for class org.nlpub.watset.eval.Pairwise
parse(InputStream) - Static method in class org.nlpub.watset.util.NetworkXFormat: Unpickle the NetworkX graph from the input stream.
parse(String) - Static method in class org.nlpub.watset.graph.NodeWeightings: Construct a node weighting instance corresponding to the given mode.
parse(String...) - Method in class org.nlpub.watset.cli.Application: Parse the command-line arguments.
parse(Stream<String>) - Static method in class org.nlpub.watset.util.ABCFormat: Parse the string stream of ABC-formatted edges.
parse(Stream<String>) - Static method in class org.nlpub.watset.util.ILEFormat: Read the ILE-formatted file representing the clusters.
parse(Stream<String>, String) - Static method in class org.nlpub.watset.util.ABCFormat: Parse the string stream of ABC-formatted edges.
path - Variable in class org.nlpub.watset.graph.MarkovClusteringExternal.Implementation: The path to the MCL binary.
path - Variable in class org.nlpub.watset.graph.MarkovClusteringExternal: The path to the MCL binary.
PrecisionRecall - Class in org.nlpub.watset.eval: A wrapper for precision and recall values that computes F-score.
PrecisionRecall(double, double) - Constructor for class org.nlpub.watset.eval.PrecisionRecall: Wrap the precision and recall values.
process() - Method in class org.nlpub.watset.graph.MarkovClusteringExternal.Implementation: Run the Markov Clustering binary and read its output.
purity(Collection<Map<V, Double>>, Collection<Map<V, Double>>) - Method in class org.nlpub.watset.eval.NormalizedModifiedPurity: Computes the (modified) purity of the given clusters as according to the gold standard clustering, classes.

R

r - Variable in class org.nlpub.watset.graph.MarkovClustering: The inflation parameter.
r - Variable in class org.nlpub.watset.graph.MarkovClusteringExternal.Implementation: The inflation parameter.
r - Variable in class org.nlpub.watset.graph.MarkovClusteringExternal: The inflation parameter.
R - Static variable in class org.nlpub.watset.graph.MarkovClustering.Builder: The default value of the inflation parameter.
R - Static variable in class org.nlpub.watset.graph.MarkovClusteringExternal.Builder: The default value of the inflation parameter.
random - Variable in class org.nlpub.watset.graph.ChineseWhispers.Implementation: The random number generator.
random - Variable in class org.nlpub.watset.graph.ChineseWhispers: The random number generator.
REPETITIONS - Static variable in class org.nlpub.watset.eval.Measurer: The default number of repetitions.
REPLACE - Enum constant in enum class org.nlpub.watset.util.Word2VecFormat.SpaceStrategy: Replace spaces with underscores (_).
RowNormalizeVisitor(RealVector) - Constructor for class org.nlpub.watset.util.Matrices.RowNormalizeVisitor: Create an instance of the normalizer.
run() - Method in class org.nlpub.watset.cli.Application: Run the parsed command.
run() - Method in class org.nlpub.watset.eval.Measurer: Perform the measurement.
run(String) - Method in class org.nlpub.watset.cli.Application: Run the specified command.

S

sample(T[], Random) - Static method in class org.nlpub.watset.eval.Sampling: Creates a bootstrapped dataset using sampling with replacement from the given dataset.
Sampling - Class in org.nlpub.watset.eval: Utilities for statistical evaluation of computational experiments.
score(Map<V, Double>, Collection<Map<V, Double>>) - Method in class org.nlpub.watset.eval.CachedNormalizedModifiedPurity
score(Map<V, Double>, Collection<Map<V, Double>>) - Method in class org.nlpub.watset.eval.NormalizedModifiedPurity: Compute the (modified) cluster score on a defined collection of classes.
score(V) - Method in class org.nlpub.watset.graph.ChineseWhispers.Implementation: Score the label weights in the given neighborhood graph, which is a subgraph of ChineseWhispers.Implementation.graph.
Sense<V> - Interface in org.nlpub.watset.util: A monad that provides the wrapped value with a sense identifier.
SenseInduction<V,E> - Class in org.nlpub.watset.graph: A simple graph-based word sense induction approach that clusters node neighborhoods.
SenseInduction(Graph<V, E>, ClusteringAlgorithmBuilder<V, E, ?>) - Constructor for class org.nlpub.watset.graph.SenseInduction: Create an instance of SenseInduction.
senses - Variable in class org.nlpub.watset.graph.Watset.Implementation: The sense mapping.
SEPARATOR - Static variable in class org.nlpub.watset.util.ABCFormat: The default separator, expressed by the tab symbol.
SEPARATOR - Static variable in class org.nlpub.watset.util.ILEFormat: The default separator, expressed by the tab symbol.
setClusterer(Clusterer<NodeEmbedding<V>>) - Method in class org.nlpub.watset.graph.SpectralClustering.Builder: Set the underlying clustering algorithm.
setE(int) - Method in class org.nlpub.watset.graph.MarkovClustering.Builder: Set the expansion parameter.
setGlobal(ClusteringAlgorithmBuilder<Sense<V>, DefaultWeightedEdge, ?>) - Method in class org.nlpub.watset.graph.Watset.Builder: Set the global clustering algorithm supplier.
setIterations(int) - Method in class org.nlpub.watset.graph.ChineseWhispers.Builder: Set the maximal number of iterations.
setIterations(int) - Method in class org.nlpub.watset.graph.MarkovClustering.Builder: Set the maximal number of iterations.
setK(int) - Method in class org.nlpub.watset.graph.SpectralClustering.Builder: Set the number of clusters.
setLocal(ClusteringAlgorithmBuilder<V, E, ?>) - Method in class org.nlpub.watset.graph.Watset.Builder: Set the local clustering algorithm supplier.
setPath(Path) - Method in class org.nlpub.watset.graph.MarkovClusteringExternal.Builder: Set the path to the MCL binary.
setR(double) - Method in class org.nlpub.watset.graph.MarkovClustering.Builder: Set the inflation parameter.
setR(double) - Method in class org.nlpub.watset.graph.MarkovClusteringExternal.Builder: Set the inflation parameter.
setRandom(Random) - Method in class org.nlpub.watset.graph.ChineseWhispers.Builder: Set the random number generator.
setThreads(int) - Method in class org.nlpub.watset.graph.MarkovClusteringExternal.Builder: Set the number of threads.
setWeighting(NodeWeighting<V, E>) - Method in class org.nlpub.watset.graph.ChineseWhispers.Builder: Set the the node weighting approach.
SINGLETON - Enum constant in enum class org.nlpub.watset.util.ClusteringAlgorithmProvider.ProvidingAlgorithm: Label for SingletonClustering.
SingletonClustering<V,E> - Class in org.nlpub.watset.graph: A trivial clustering algorithm that puts every node in a separate cluster.
SingletonClustering(Graph<V, E>) - Constructor for class org.nlpub.watset.graph.SingletonClustering: Set up the trivial clustering algorithm that puts every node in a separate cluster.
SingletonClustering.Builder<V,E> - Class in org.nlpub.watset.graph: Builder for SingletonClustering.
SPACES - Static variable in class org.nlpub.watset.util.Word2VecFormat: A pattern that matches a space.
SPECTRAL - Enum constant in enum class org.nlpub.watset.util.ClusteringAlgorithmProvider.ProvidingAlgorithm: Label for SpectralClustering.
SpectralClustering<V,E> - Class in org.nlpub.watset.graph: Spectral Clustering performs clustering of the graph's Spectral Embedding.
SpectralClustering(Graph<V, E>, Clusterer<NodeEmbedding<V>>, int) - Constructor for class org.nlpub.watset.graph.SpectralClustering: Create an instance of the Spectral Clustering algorithm.
SpectralClustering.Builder<V,E> - Class in org.nlpub.watset.graph: Builder for SpectralClustering.
SpectralClustering.Implementation<V,E> - Class in org.nlpub.watset.graph: Actual implementation of Spectral Clustering.
step(List<V>) - Method in class org.nlpub.watset.graph.ChineseWhispers.Implementation: Perform one iteration of the algorithm.
steps - Variable in class org.nlpub.watset.graph.ChineseWhispers.Implementation: The number of actual algorithm iterations.

T

threads - Variable in class org.nlpub.watset.graph.MarkovClusteringExternal.Implementation: The number of threads.
threads - Variable in class org.nlpub.watset.graph.MarkovClusteringExternal: The number of threads.
THREADS - Static variable in class org.nlpub.watset.graph.MarkovClusteringExternal.Builder: The default number of threads.
TOGETHER - Enum constant in enum class org.nlpub.watset.util.ClusteringAlgorithmProvider.ProvidingAlgorithm: Label for TogetherClustering.
TogetherClustering<V,E> - Class in org.nlpub.watset.graph: A trivial clustering algorithm that puts every node together in a single large cluster.
TogetherClustering(Graph<V, E>) - Constructor for class org.nlpub.watset.graph.TogetherClustering: Set up the trivial clustering algorithm that puts every node together in a single large cluster.
TogetherClustering.Builder<V,E> - Class in org.nlpub.watset.graph: Builder for TogetherClustering.
top() - Static method in class org.nlpub.watset.graph.NodeWeightings: A static factory method providing a convenient way to create an instance of NodeWeightings.TopNodeWeighting.
TOP - Enum constant in enum class org.nlpub.watset.graph.NodeWeightings.WeightingMode: Weighting mode top.
TopNodeWeighting() - Constructor for class org.nlpub.watset.graph.NodeWeightings.TopNodeWeighting
toString() - Method in class org.nlpub.watset.eval.PrecisionRecall: Return the textual representation of precision, recall, and F₁.
toString() - Method in class org.nlpub.watset.util.IndexedSense
transform(Collection<? extends Collection<V>>) - Static method in class org.nlpub.watset.eval.Pairwise: Transform a collection of clusters to a collection of pairs generated using 2-combinations of the cluster elements.
transform(List<? extends Collection<V>>) - Static method in class org.nlpub.watset.eval.NormalizedModifiedPurity: Transform a collection of clusters into a collection of weighted cluster elements.

V

valueOf(String) - Static method in enum class org.nlpub.watset.cli.Application.ParseStatus: Returns the enum constant of this class with the specified name.
valueOf(String) - Static method in enum class org.nlpub.watset.graph.NodeWeightings.WeightingMode: Returns the enum constant of this class with the specified name.
valueOf(String) - Static method in enum class org.nlpub.watset.util.ClusteringAlgorithmProvider.ProvidingAlgorithm: Returns the enum constant of this class with the specified name.
valueOf(String) - Static method in enum class org.nlpub.watset.util.Word2VecFormat.SpaceStrategy: Returns the enum constant of this class with the specified name.
values() - Static method in enum class org.nlpub.watset.cli.Application.ParseStatus: Returns an array containing the constants of this enum class, in the order they are declared.
values() - Static method in enum class org.nlpub.watset.graph.NodeWeightings.WeightingMode: Returns an array containing the constants of this enum class, in the order they are declared.
values() - Static method in enum class org.nlpub.watset.util.ClusteringAlgorithmProvider.ProvidingAlgorithm: Returns an array containing the constants of this enum class, in the order they are declared.
values() - Static method in enum class org.nlpub.watset.util.Word2VecFormat.SpaceStrategy: Returns an array containing the constants of this enum class, in the order they are declared.
visit(int, int, double) - Method in class org.nlpub.watset.util.Matrices.ColumnNormalizeVisitor: Divide the value of a single element by the corresponding column of sums.
visit(int, int, double) - Method in class org.nlpub.watset.util.Matrices.ColumnSumVisitor: Divide the value of a single element by the corresponding column of sums.
visit(int, int, double) - Method in class org.nlpub.watset.util.Matrices.InflateVisitor: Raise the value of a single element to the power of r.
visit(int, int, double) - Method in class org.nlpub.watset.util.Matrices.RowNormalizeVisitor: Divide the value of a single element by the corresponding column of sums.

W

WARMUP - Static variable in class org.nlpub.watset.eval.Measurer: The default number of warmup runs kept off-record before Measurer.REPETITIONS.
Watset<V,E> - Class in org.nlpub.watset.graph: Watset is a local-global meta-algorithm for fuzzy graph clustering.
Watset(Graph<V, E>, ClusteringAlgorithmBuilder<V, E, ?>, ClusteringAlgorithmBuilder<Sense<V>, DefaultWeightedEdge, ?>) - Constructor for class org.nlpub.watset.graph.Watset: Create an instance of the Watset clustering algorithm.
Watset.Builder<V,E> - Class in org.nlpub.watset.graph: Builder for Watset.
Watset.Implementation<V,E> - Class in org.nlpub.watset.graph: Actual implementation of Simplified Watset.
WatsetClustering<V> - Interface in org.nlpub.watset.graph: A Watset clustering.
WatsetClustering.WatsetClusteringImpl<V> - Class in org.nlpub.watset.graph: A Watset clustering that computes disambiguated contexts on demand.
WatsetClusteringImpl(List<Set<V>>, Map<V, Map<V, Integer>>, Graph<Sense<V>, DefaultWeightedEdge>) - Constructor for class org.nlpub.watset.graph.WatsetClustering.WatsetClusteringImpl: Construct a new Watset clustering.
weighting - Variable in class org.nlpub.watset.graph.ChineseWhispers.Implementation: The node weighting approach.
weighting - Variable in class org.nlpub.watset.graph.ChineseWhispers: The node weighting approach.
weights - Variable in class org.nlpub.watset.graph.MaxMax.Implementation: The weights.
Word2VecFormat - Class in org.nlpub.watset.util: Utilities for handling the Word2Vec text format for node embeddings.
Word2VecFormat.SpaceStrategy - Enum Class in org.nlpub.watset.util: Space character handling strategy.
write(BufferedWriter, List<NodeEmbedding<V>>, Word2VecFormat.SpaceStrategy) - Static method in class org.nlpub.watset.util.Word2VecFormat: Write the file in the Word2Vec format representing the node embeddings.
write(BufferedWriter, ClusteringAlgorithm.Clustering<String>) - Static method in class org.nlpub.watset.util.ILEFormat: Write the ILE-formatted file representing the clusters.
writeInputFile() - Method in class org.nlpub.watset.graph.MarkovClusteringExternal.Implementation: Write the input file for the Markov Clustering binary.

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