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G

g - Variable in class edu.claflin.finder.algo.jungutils.Functions.FunctionComposition

g - Variable in class edu.claflin.finder.logic.communities.Communities

get(int, int) - Method in class edu.claflin.finder.logic.communities.struct.fast_greedy_struct.SparseMatrix

get number at index or null if not set.

get(T) - Method in class edu.claflin.finder.logic.communities.struct.BinarySearchTree

get(T, TreeNode<T>) - Method in class edu.claflin.finder.logic.communities.struct.BinarySearchTree

get_c1sigma() - Method in class edu.claflin.finder.algo.clustering.Walktrap.MutualConnectionsRecord

get_c2sigma() - Method in class edu.claflin.finder.algo.clustering.Walktrap.MutualConnectionsRecord

get_mutual_index() - Method in class edu.claflin.finder.algo.clustering.Walktrap.MutualConnectionsRecord

getA() - Method in class edu.claflin.finder.logic.communities.struct.fast_greedy_struct.VectorValue

getAdjacencyList(Node) - Method in class edu.claflin.finder.logic.Graph

Obtains an adjacency list for the supplied node based on the Graph.

getAverageWeight(Graph) - Static method in class edu.claflin.finder.logic.cygrouper.GraphAverageWeight

getBoolean(String) - Method in class edu.claflin.finder.algo.ArgumentsBundle

Gets a boolean from the booleanList.

getCommunity() - Method in class edu.claflin.finder.logic.communities.struct.fast_greedy_struct.VectorValue

getConditionsList() - Method in class edu.claflin.finder.algo.ArgumentsBundle

Gets a copy of the conditionsList that will not structurally modify the one owned by the bundle.

getConditionsList() - Method in class edu.claflin.finder.logic.ConditionedGraph

Returns an accessible list of conditions.

getConnectedComponents(Graph) - Method in class edu.claflin.finder.algo.ConnectedComponentsDFS

Gets a list of this Graph's Connected Components.

getConnectionsList() - Method in class edu.claflin.finder.logic.cygrouper.CygrouperNode

getData() - Method in class edu.claflin.finder.logic.Edge

Access method for the Edge's data (such as weight).

getDefaultEdgeType() - Method in class edu.claflin.finder.algo.jungutils.AbstractTypedGraph

Returns this graph's edge type.

getDefaultEdgeType() - Method in interface edu.claflin.finder.algo.jungutils.Hypergraph

Returns the default edge type for this graph.

getDefaultEdgeType() - Method in class edu.claflin.finder.algo.jungutils.SparseGraph

getDegree(Node) - Method in class edu.claflin.finder.logic.Graph

getDest(E) - Method in interface edu.claflin.finder.algo.jungutils.Graph

If directed_edge is a directed edge in this graph, returns the destination; otherwise returns null.

getDest(E) - Method in interface edu.claflin.finder.algo.jungutils.Hypergraph

If directed_edge is a directed edge in this graph, returns the destination; otherwise returns null.

getDest(E) - Method in class edu.claflin.finder.algo.jungutils.SparseGraph

getDest(E) - Method in class edu.claflin.finder.algo.jungutils.UndirectedSparseGraph

getDestination() - Method in class edu.claflin.finder.logic.Edge

Access method for the Edge's destination.

getDouble(String) - Method in class edu.claflin.finder.algo.ArgumentsBundle

Gets a double from the doubleList.

getEdge() - Method in class edu.claflin.finder.algo.Prim.DistanceRecord

getEdge(int, int) - Method in class edu.claflin.finder.logic.Graph

Deprecated.

Outdated since v3. No replacement. Obtain the edge first, then obtain the data from the Edge object.

getEdge(Node, Node) - Method in class edu.claflin.finder.logic.Graph

Locates an Edge object in the edgeList and returns it.

getEdge(String, String) - Method in class edu.claflin.finder.logic.Graph

Deprecated.

Outdated since v3. No replacement. Obtain the edge first, then obtain the data from the Edge object.

getEdgeCount() - Method in interface edu.claflin.finder.algo.jungutils.Hypergraph

Returns the number of edges in this graph.

getEdgeCount() - Method in class edu.claflin.finder.algo.jungutils.SparseGraph

getEdgeCount() - Method in class edu.claflin.finder.algo.jungutils.UndirectedSparseGraph

getEdgeCount(EdgeType) - Method in class edu.claflin.finder.algo.jungutils.AbstractTypedGraph

Returns the edge count for this graph if edge_type matches the edge type for this graph, and 0 otherwise.

getEdgeCount(EdgeType) - Method in interface edu.claflin.finder.algo.jungutils.Hypergraph

Returns the number of edges of type edge_type in this graph.

getEdgeCount(EdgeType) - Method in class edu.claflin.finder.algo.jungutils.SparseGraph

getEdgeList() - Method in class edu.claflin.finder.logic.Graph

Returns the list of edges in the graph.

getEdges() - Method in interface edu.claflin.finder.algo.jungutils.Hypergraph

Returns a view of all edges in this graph.

getEdges() - Method in class edu.claflin.finder.algo.jungutils.SparseGraph

getEdges() - Method in class edu.claflin.finder.algo.jungutils.UndirectedSparseGraph

getEdges(EdgeType) - Method in class edu.claflin.finder.algo.jungutils.AbstractTypedGraph

Returns the edge set for this graph if edgeType matches the edge type for this graph, and an empty set otherwise.

getEdges(EdgeType) - Method in interface edu.claflin.finder.algo.jungutils.Hypergraph

Returns the collection of edges in this graph which are of type edge_type.

getEdges(EdgeType) - Method in class edu.claflin.finder.algo.jungutils.SparseGraph

getEdgesBack(List<Node>) - Method in class edu.claflin.finder.logic.Graph

Gets the list edges of this Graph that involve the nodes in the given list

getEdgeScore(E) - Method in class edu.claflin.finder.algo.jungutils.BetweennessCentrality

getEdgeScore(E) - Method in interface edu.claflin.finder.algo.jungutils.EdgeScorer

getEdgesRemoved() - Method in class edu.claflin.finder.algo.jungutils.EdgeBetweennessClusterer

Retrieves the list of all edges that were removed (assuming extract(...) was previously called).

getEdgeType(E) - Method in class edu.claflin.finder.algo.jungutils.AbstractTypedGraph

Returns this graph's edge type, or null if e is not in this graph.

getEdgeType(E) - Method in interface edu.claflin.finder.algo.jungutils.Hypergraph

Returns the edge type of edge in this graph.

getEdgeType(E) - Method in class edu.claflin.finder.algo.jungutils.SparseGraph

getEndpoints(E) - Method in interface edu.claflin.finder.algo.jungutils.Graph

Returns the endpoints of edge as a Pair.

getEndpoints(E) - Method in class edu.claflin.finder.algo.jungutils.SparseGraph

getEndpoints(E) - Method in class edu.claflin.finder.algo.jungutils.UndirectedSparseGraph

getEnum(String) - Method in class edu.claflin.finder.algo.ArgumentsBundle

Gets an enum from the enumList.

getFirst() - Method in class edu.claflin.finder.algo.jungutils.Pair

getGraphSortOrder() - Method in class edu.claflin.finder.algo.Algorithm

getHeight() - Method in class edu.claflin.finder.logic.communities.struct.BinarySearchTree

getHeight(TreeNode<T>) - Method in class edu.claflin.finder.logic.communities.struct.BinarySearchTree

getI() - Method in class edu.claflin.finder.logic.communities.struct.fast_greedy_struct.IndexedHeapNode

getIdentifier() - Method in class edu.claflin.finder.logic.Node

Access method for the Node's identifier.

getIncidentCount(E) - Method in class edu.claflin.finder.algo.jungutils.AbstractGraph

getIncidentCount(E) - Method in interface edu.claflin.finder.algo.jungutils.Hypergraph

Returns the number of vertices that are incident to edge.

getIncidentEdges(V) - Method in interface edu.claflin.finder.algo.jungutils.Hypergraph

Returns the collection of edges in this graph which are connected to vertex.

getIncidentEdges(V) - Method in class edu.claflin.finder.algo.jungutils.SparseGraph

getIncidentEdges(V) - Method in class edu.claflin.finder.algo.jungutils.UndirectedSparseGraph

getIncidentVertices(E) - Method in class edu.claflin.finder.algo.jungutils.AbstractGraph

getIncidentVertices(E) - Method in interface edu.claflin.finder.algo.jungutils.Hypergraph

Returns the collection of vertices in this graph which are connected to edge.

getIndex() - Method in class edu.claflin.finder.algo.Prim.DistanceRecord

getIndex() - Method in class edu.claflin.finder.logic.communities.struct.TreeNodeInfo

getIndex1() - Method in class edu.claflin.finder.logic.communities.struct.walk_trap_struct.HeapNodeWT

getIndex2() - Method in class edu.claflin.finder.logic.communities.struct.walk_trap_struct.HeapNodeWT

getInEdges(V) - Method in interface edu.claflin.finder.algo.jungutils.Graph

Returns a Collection view of the incoming edges incident to vertex in this graph.

getInEdges(V) - Method in interface edu.claflin.finder.algo.jungutils.Hypergraph

Returns a Collection view of the incoming edges incident to vertex in this graph.

getInEdges(V) - Method in class edu.claflin.finder.algo.jungutils.SparseGraph

getInEdges(V) - Method in class edu.claflin.finder.algo.jungutils.UndirectedSparseGraph

getInfo() - Method in class edu.claflin.finder.logic.communities.struct.TreeNode

getInteger(String) - Method in class edu.claflin.finder.algo.ArgumentsBundle

Gets an integer from the integerList.

getJ() - Method in class edu.claflin.finder.logic.communities.struct.fast_greedy_struct.HeapNodeFG

getLeftChild() - Method in class edu.claflin.finder.logic.communities.struct.TreeNode

Get the left child TreeNode.

getList() - Method in class edu.claflin.finder.logic.communities.Communities

getLogger() - Static method in class edu.claflin.finder.Global

Gets the logger.

getM2() - Method in class edu.claflin.finder.logic.communities.Communities

getMax() - Method in class edu.claflin.finder.logic.communities.struct.BinarySearchTree

getMax(int) - Method in class edu.claflin.finder.logic.communities.struct.fast_greedy_struct.SparseMatrix

Get the maximum q value at row i

getMax(TreeNode<T>) - Method in class edu.claflin.finder.logic.communities.struct.BinarySearchTree

getMin() - Method in class edu.claflin.finder.logic.communities.struct.BinarySearchTree

getMin(TreeNode<T>) - Method in class edu.claflin.finder.logic.communities.struct.BinarySearchTree

getName() - Method in class edu.claflin.finder.logic.Graph

Gets the name of the graph.

getNeighborCount(V) - Method in class edu.claflin.finder.algo.jungutils.AbstractGraph

getNeighborCount(V) - Method in interface edu.claflin.finder.algo.jungutils.Hypergraph

Returns the number of vertices that are adjacent to vertex (that is, the number of vertices that are incident to edges in vertex's incident edge set).

getNeighbors(V) - Method in interface edu.claflin.finder.algo.jungutils.Hypergraph

Returns the collection of vertices which are connected to vertex via any edges in this graph.

getNeighbors(V) - Method in class edu.claflin.finder.algo.jungutils.SparseGraph

getNeighbors(V) - Method in class edu.claflin.finder.algo.jungutils.UndirectedSparseGraph

getNode(String) - Method in class edu.claflin.finder.logic.Graph

Gets a node based on its name.

getNodeCount() - Method in class edu.claflin.finder.logic.Graph

Gets the number of nodes in the graph.

getNodeIndex(Node) - Method in class edu.claflin.finder.logic.Graph

Gets the index of a Node object in memory.

getNodeIndex(String) - Method in class edu.claflin.finder.logic.Graph

Deprecated.

Outdated since v3. Replaced by {}

getNodeList() - Method in class edu.claflin.finder.logic.Graph

Returns the list of nodes in the graph.

getNodeName(int) - Method in class edu.claflin.finder.logic.Graph

Deprecated.

Outdated since v3. No replacement. Obtain the Node data via the Node object.

getObject(String) - Method in class edu.claflin.finder.algo.ArgumentsBundle

Gets an object from the enumList.

getOpposite(V, E) - Method in class edu.claflin.finder.algo.jungutils.AbstractGraph

getOpposite(V, E) - Method in interface edu.claflin.finder.algo.jungutils.Graph

Returns the vertex at the other end of edge from vertex.

getOppositeGroup() - Method in class edu.claflin.finder.logic.cygrouper.CygrouperNode

getOutEdges(V) - Method in interface edu.claflin.finder.algo.jungutils.Graph

Returns a Collection view of the outgoing edges incident to vertex in this graph.

getOutEdges(V) - Method in interface edu.claflin.finder.algo.jungutils.Hypergraph

Returns a Collection view of the outgoing edges incident to vertex in this graph.

getOutEdges(V) - Method in class edu.claflin.finder.algo.jungutils.SparseGraph

getOutEdges(V) - Method in class edu.claflin.finder.algo.jungutils.UndirectedSparseGraph

getOutput() - Static method in class edu.claflin.finder.Global

Gets the output directory for storing results.

getPartiteNumber() - Method in class edu.claflin.finder.algo.Algorithm

getPartiteNumber() - Method in class edu.claflin.finder.logic.cygrouper.CygrouperNode

getPredecessorCount(V) - Method in class edu.claflin.finder.algo.jungutils.AbstractGraph

getPredecessorCount(V) - Method in interface edu.claflin.finder.algo.jungutils.Graph

Returns the number of predecessors that vertex has in this graph.

getPredecessors(V) - Method in interface edu.claflin.finder.algo.jungutils.Graph

Returns a Collection view of the predecessors of vertex in this graph.

getPredecessors(V) - Method in interface edu.claflin.finder.algo.jungutils.Hypergraph

Returns a Collection view of the predecessors of vertex in this graph.

getPredecessors(V) - Method in class edu.claflin.finder.algo.jungutils.SparseGraph

getPredecessors(V) - Method in class edu.claflin.finder.algo.jungutils.UndirectedSparseGraph

getQ() - Method in class edu.claflin.finder.logic.communities.struct.fast_greedy_struct.HeapNodeFG

getRightChild() - Method in class edu.claflin.finder.logic.communities.struct.TreeNode

Get the right child TreeNode.

getSecond() - Method in class edu.claflin.finder.algo.jungutils.Pair

getSingleton() - Static method in class edu.claflin.finder.logic.cygrouper.Communicator

getSource() - Method in class edu.claflin.finder.logic.Edge

Access method for the Edge's source.

getSource(E) - Method in interface edu.claflin.finder.algo.jungutils.Graph

If directed_edge is a directed edge in this graph, returns the source; otherwise returns null.

getSource(E) - Method in interface edu.claflin.finder.algo.jungutils.Hypergraph

If directed_edge is a directed edge in this graph, returns the source; otherwise returns null.

getSource(E) - Method in class edu.claflin.finder.algo.jungutils.SparseGraph

getSource(E) - Method in class edu.claflin.finder.algo.jungutils.UndirectedSparseGraph

getSubGraph(int, int, String) - Method in class edu.claflin.finder.logic.Graph

Deprecated.

Outdated since v3. Replaced by Graph.getSubGraph(java.util.List, java.lang.String)

getSubGraph(ArrayList<String>, String) - Method in class edu.claflin.finder.logic.Graph

Deprecated.

Outdated since v3. Replaced by Graph.getSubGraph(java.util.List, java.lang.String)

getSubGraph(List<Node>, String) - Method in class edu.claflin.finder.logic.Graph

Returns a subGraph of this graph.

getSuccessorCount(V) - Method in class edu.claflin.finder.algo.jungutils.AbstractGraph

getSuccessorCount(V) - Method in interface edu.claflin.finder.algo.jungutils.Graph

Returns the number of successors that vertex has in this graph.

getSuccessors(V) - Method in interface edu.claflin.finder.algo.jungutils.Graph

Returns a Collection view of the successors of vertex in this graph.

getSuccessors(V) - Method in interface edu.claflin.finder.algo.jungutils.Hypergraph

Returns a Collection view of the successors of vertex in this graph.

getSuccessors(V) - Method in class edu.claflin.finder.algo.jungutils.SparseGraph

getSuccessors(V) - Method in class edu.claflin.finder.algo.jungutils.UndirectedSparseGraph

getTree() - Method in class edu.claflin.finder.logic.cygrouper.CygrouperAssembler

getVal(T) - Method in class edu.claflin.finder.logic.communities.struct.BinarySearchTree

getValidatedEndpoints(E, Pair<? extends V>) - Method in class edu.claflin.finder.algo.jungutils.AbstractGraph

getValue() - Method in class edu.claflin.finder.logic.communities.struct.fast_greedy_struct.TreeNodeInfoFG

getValue() - Method in class edu.claflin.finder.logic.communities.struct.TreeNodeInfo

getValue() - Method in class edu.claflin.finder.logic.communities.struct.walk_trap_struct.HeapNodeWT

getVertexCount() - Method in interface edu.claflin.finder.algo.jungutils.Hypergraph

Returns the number of vertices in this graph.

getVertexCount() - Method in class edu.claflin.finder.algo.jungutils.SparseGraph

getVertexCount() - Method in class edu.claflin.finder.algo.jungutils.UndirectedSparseGraph

getVertexScore(V) - Method in class edu.claflin.finder.algo.jungutils.BetweennessCentrality

getVertexScore(V) - Method in interface edu.claflin.finder.algo.jungutils.VertexScorer

getVertices() - Method in interface edu.claflin.finder.algo.jungutils.Hypergraph

Returns a view of all vertices in this graph.

getVertices() - Method in class edu.claflin.finder.algo.jungutils.SparseGraph

getVertices() - Method in class edu.claflin.finder.algo.jungutils.UndirectedSparseGraph

getWeight(List<Edge>) - Method in class edu.claflin.finder.algo.DijkstraShortestPath

getWeight(List<Edge>) - Method in class edu.claflin.finder.algo.Kruskal

getWeight(List<Edge>) - Method in class edu.claflin.finder.algo.Prim

GirvanNewman - Class in edu.claflin.finder.algo.clustering

Edge Betweenness clustering with Girvan Newman Algorithm https://en.wikipedia.org/wiki/Girvan%E2%80%93Newman_algorithm

GirvanNewman(ArgumentsBundle) - Constructor for class edu.claflin.finder.algo.clustering.GirvanNewman

Global - Class in edu.claflin.finder

Holds "Global" data that needs to be accessed by multiple parts of the program.

Global() - Constructor for class edu.claflin.finder.Global

Private constructor for preventing instantiation of the class.

graph - Variable in class edu.claflin.finder.algo.jungutils.BetweennessCentrality

Graph - Class in edu.claflin.finder.logic

Used to represent a graph in memory.

Graph<V,E> - Interface in edu.claflin.finder.algo.jungutils

A graph consisting of a set of vertices of type V set and a set of edges of type E.

Graph(String) - Constructor for class edu.claflin.finder.logic.Graph

Initializes the graph.

Graph(String, ArrayList<Node>, ArrayList<Edge>) - Constructor for class edu.claflin.finder.logic.Graph

Private constructor used by subGraph method.

GraphAverageWeight - Class in edu.claflin.finder.logic.cygrouper

GraphAverageWeight() - Constructor for class edu.claflin.finder.logic.cygrouper.GraphAverageWeight

GraphAverageWeightComparator - Class in edu.claflin.finder.logic.cygrouper

GraphAverageWeightComparator() - Constructor for class edu.claflin.finder.logic.cygrouper.GraphAverageWeightComparator

graphName - Variable in class edu.claflin.finder.logic.Graph

The name of the Graph provided by the user.

GraphReader - Interface in edu.claflin.finder.io.graph.sub

Interface used for classes designed to read graphs from memory.

GraphSizeComparator - Class in edu.claflin.finder.logic.cygrouper

GraphSizeComparator() - Constructor for class edu.claflin.finder.logic.cygrouper.GraphSizeComparator

GraphSortOrder() - Constructor for enum edu.claflin.finder.algo.Algorithm.GraphSortOrder

GraphWriter - Interface in edu.claflin.finder.io.graph.sub

Interface used by classes that write graphs to memory.

greatestPowerOf2LessThanN(int) - Method in class edu.claflin.finder.logic.communities.struct.BinarySearchTree

.

group - Variable in class edu.claflin.finder.logic.cygrouper.CygrouperNode

groups - Static variable in class edu.claflin.finder.logic.cygrouper.Communicator

GRPH - edu.claflin.finder.log.LogType

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