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Packages that use DistanceGraph | |
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nct.graph | |
nct.networkblast |
Uses of DistanceGraph in nct.graph |
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Subinterfaces of DistanceGraph in nct.graph | |
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interface |
SequenceGraph<NodeType extends Comparable<? super NodeType>,WeightType extends Comparable<? super WeightType>>
An interface that describes accessing a sequence database associated with the graph. |
Classes in nct.graph that implement DistanceGraph | |
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class |
BasicDistanceGraph<NodeType extends Comparable<? super NodeType>,WeightType extends Comparable<? super WeightType>>
An extension of BasicGraph that calculates the minimum distance between nodes. |
class |
BlastGraph<NodeType extends Comparable<? super NodeType>,WeightType extends Comparable<? super WeightType>>
An extension of BasicDistanceGraph that implements SequenceGraph and contains a pointer to a Blast database. |
class |
FastaGraph<NodeType extends Comparable<? super NodeType>,WeightType extends Comparable<? super WeightType>>
An extension of BasicDistanceGraph that implements the SequenceGraph interface and contains a (pointer to a) fasta database. |
Uses of DistanceGraph in nct.networkblast |
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Classes in nct.networkblast that implement DistanceGraph | |
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class |
InteractionGraph
An implementation of a SequenceGraph that is specified by a SIF file. |
Fields in nct.networkblast with type parameters of type DistanceGraph | |
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protected KPartiteGraph<java.lang.String,java.lang.Double,? extends DistanceGraph<java.lang.String,java.lang.Double>> |
CompatibilityGraph.homologyGraph
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protected java.util.List<? extends DistanceGraph<java.lang.String,java.lang.Double>> |
CompatibilityGraph.interactionGraphs
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Constructor parameters in nct.networkblast with type arguments of type DistanceGraph | |
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CompatibilityGraph(KPartiteGraph<java.lang.String,java.lang.Double,? extends DistanceGraph<java.lang.String,java.lang.Double>> homologyGraph,
java.util.List<? extends DistanceGraph<java.lang.String,java.lang.Double>> interactionGraphs,
ScoreModel<java.lang.String,java.lang.Double> scoreModel)
Constructor. |
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CompatibilityGraph(KPartiteGraph<java.lang.String,java.lang.Double,? extends DistanceGraph<java.lang.String,java.lang.Double>> homologyGraph,
java.util.List<? extends DistanceGraph<java.lang.String,java.lang.Double>> interactionGraphs,
ScoreModel<java.lang.String,java.lang.Double> scoreModel)
Constructor. |
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