- checkNode(Node) - Method in class edu.claflin.finder.logic.Graph
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Verifies that the node is NOT in the graph.
- checkNodeGroupings(Graph) - Method in class edu.claflin.finder.algo.MatrixPatternAnalyzer
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Deprecated.
Step 2: Iterate on Step 1 through all contiguous node groupings.
- checkNodeIndex(int) - Method in class edu.claflin.finder.logic.Graph
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- checkSubGraphs(Graph, int) - Method in class edu.claflin.finder.algo.MatrixPatternAnalyzer
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Deprecated.
Step 3: Repeat Step 2 for each "Cornered" Sub-matrix of the original
Graph.
- checkZeroMatrices(Graph, int) - Method in class edu.claflin.finder.algo.MatrixPatternAnalyzer
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Deprecated.
Step 1: Check for valid 0 Sub-matrices.
- CliqueCondition - Class in edu.claflin.finder.logic.cond
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Represents a Clique condition.
- CliqueCondition() - Constructor for class edu.claflin.finder.logic.cond.CliqueCondition
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- COMMON_ARGS(String) - Constructor for enum edu.claflin.finder.algo.ArgumentsBundle.COMMON_ARGS
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- CommunicationListener - Interface in edu.claflin.finder.logic.cygrouper
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- Communicator - Class in edu.claflin.finder.logic.cygrouper
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- Communicator() - Constructor for class edu.claflin.finder.logic.cygrouper.Communicator
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- communicator - Static variable in class edu.claflin.finder.logic.cygrouper.Communicator
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- compare(Graph, Graph) - Method in class edu.claflin.finder.algo.Algorithm
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Compares the two graphs based on edges.
- compare(Edge, Edge) - Method in class edu.claflin.finder.logic.comp.EdgeWeightComparator
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Compares the edges based on the D data held by the edge.
- compare(Graph, Graph) - Method in class edu.claflin.finder.logic.cygrouper.GraphAverageWeightComparator
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- compare(Graph, Graph) - Method in class edu.claflin.finder.logic.cygrouper.GraphSizeComparator
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- Condition - Class in edu.claflin.finder.logic
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Represents a graph condition in memory.
- Condition() - Constructor for class edu.claflin.finder.logic.Condition
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- ConditionedGraph - Class in edu.claflin.finder.logic
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Represents a "conditioned" graph.
- ConditionedGraph(String) - Constructor for class edu.claflin.finder.logic.ConditionedGraph
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Public constructor for creating a simple ConditionedGraph.
- ConditionedGraph(String, Collection<Condition>) - Constructor for class edu.claflin.finder.logic.ConditionedGraph
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Public constructor for creating a ConditionedGraph.
- ConditionedGraph(String, Collection<Condition>, boolean) - Constructor for class edu.claflin.finder.logic.ConditionedGraph
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Public constructor for creating a ConditionedGraph.
- ConditionedGraph(Graph, Collection<Condition>) - Constructor for class edu.claflin.finder.logic.ConditionedGraph
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Private constructor used to create copies of ConditionedGraph objects.
- conditionOther(Graph) - Method in class edu.claflin.finder.logic.ConditionedGraph
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Private method used for copying the ConditionedGraph.
- conditions - Variable in class edu.claflin.finder.logic.ConditionedGraph
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The List of Conditions applied to this Graph.
- conditionsList - Variable in class edu.claflin.finder.algo.ArgumentsBundle
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The List of conditions to apply to the Algorithm.
- connections - Variable in class edu.claflin.finder.logic.cygrouper.CygrouperNode
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- constructArrayList(Set<Node>, Set<Node>) - Static method in class edu.claflin.finder.logic.BronKerboschBipartiteUtils
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Constructs array list of array lists from sets.
- containsNode(Node) - Method in class edu.claflin.finder.logic.Graph
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Checks if the graph contains the given node.
- convertCyfinderEdge(String, String) - Method in class edu.claflin.finder.logic.cygrouper.CygrouperAssembler
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- copy() - Method in class edu.claflin.finder.logic.ConditionedGraph
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Copies this Graph object using the getSubGraph() method.
- copy() - Method in class edu.claflin.finder.logic.Graph
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Copies this Graph object using the getSubGraph() method.
- counter - Variable in class edu.claflin.finder.algo.Algorithm
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- cull(ArrayList<Graph>) - Method in class edu.claflin.finder.algo.Algorithm
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Removes duplicate subGraphs from the provided ArrayList.
- CygrouperAssembler - Class in edu.claflin.finder.logic.cygrouper
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- CygrouperAssembler(List<Edge>) - Constructor for class edu.claflin.finder.logic.cygrouper.CygrouperAssembler
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- CygrouperEdge - Class in edu.claflin.finder.logic.cygrouper
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- CygrouperEdge(String, String) - Constructor for class edu.claflin.finder.logic.cygrouper.CygrouperEdge
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- CygrouperNode - Class in edu.claflin.finder.logic.cygrouper
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- CygrouperNode(String) - Constructor for class edu.claflin.finder.logic.cygrouper.CygrouperNode
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- CytogrouperMain - Class in edu.claflin.finder.logic.cygrouper
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- CytogrouperMain(List<Graph>, CommunicationListener, int) - Constructor for class edu.claflin.finder.logic.cygrouper.CytogrouperMain
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