A B C D E F G H I J K L M N O P Q R S T U V

A

AbstractFactor - Class in cc.kave.repackaged.jayes.factor

AbstractFactor() - Constructor for class cc.kave.repackaged.jayes.factor.AbstractFactor

AbstractInferer - Class in cc.kave.repackaged.jayes.inference

AbstractInferer() - Constructor for class cc.kave.repackaged.jayes.inference.AbstractInferer

add(T) - Method in class cc.kave.repackaged.jayes.util.sharing.CanonicalSet

addAssign(int, double) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.DoubleArrayWrapper

addAssign(int, float) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.DoubleArrayWrapper

addAssign(int, IArrayWrapper, int) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.DoubleArrayWrapper

addAssign(int, double) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.FloatArrayWrapper

addAssign(int, float) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.FloatArrayWrapper

addAssign(int, IArrayWrapper, int) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.FloatArrayWrapper

addAssign(int, double) - Method in interface cc.kave.repackaged.jayes.factor.arraywrapper.IArrayWrapper

addAssign(int, float) - Method in interface cc.kave.repackaged.jayes.factor.arraywrapper.IArrayWrapper

addAssign(int, IArrayWrapper, int) - Method in interface cc.kave.repackaged.jayes.factor.arraywrapper.IArrayWrapper

addEdge(int, int) - Method in class cc.kave.repackaged.jayes.util.Graph

addEvidence(BayesNode, String) - Method in class cc.kave.repackaged.jayes.inference.AbstractInferer

addEvidence(BayesNode, String) - Method in interface cc.kave.repackaged.jayes.inference.IBayesInferer

addNode(BayesNode) - Method in class cc.kave.repackaged.jayes.BayesNet

Deprecated.

use createNode instead

addOutcome(String) - Method in class cc.kave.repackaged.jayes.BayesNode

addOutcomes(String...) - Method in class cc.kave.repackaged.jayes.BayesNode

AddressCalc - Class in cc.kave.repackaged.jayes.internal.util

apply(int) - Method in class cc.kave.repackaged.jayes.factor.opcache.DivisionCache

apply(int) - Method in interface cc.kave.repackaged.jayes.factor.opcache.IOperationCache

apply(int) - Method in class cc.kave.repackaged.jayes.factor.opcache.ModuloCache

arrayCopy(IArrayWrapper, int, int, int) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.DoubleArrayWrapper

arrayCopy(IArrayWrapper, int, int, int) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.FloatArrayWrapper

arrayCopy(IArrayWrapper, int, int, int) - Method in interface cc.kave.repackaged.jayes.factor.arraywrapper.IArrayWrapper

ArrayUtils - Class in cc.kave.repackaged.jayes.internal.util

B

BasicSampler - Class in cc.kave.repackaged.jayes.sampling

BasicSampler() - Constructor for class cc.kave.repackaged.jayes.sampling.BasicSampler

BayesNet - Class in cc.kave.repackaged.jayes

BayesNet() - Constructor for class cc.kave.repackaged.jayes.BayesNet

BayesNode - Class in cc.kave.repackaged.jayes

BayesNode(String) - Constructor for class cc.kave.repackaged.jayes.BayesNode

Deprecated.

use BayesNet.createNode instead

beliefs - Variable in class cc.kave.repackaged.jayes.inference.AbstractInferer

beliefsValid - Variable in class cc.kave.repackaged.jayes.inference.AbstractInferer

BidirectionalMap<K,V> - Class in cc.kave.repackaged.jayes.internal.util

BidirectionalMap() - Constructor for class cc.kave.repackaged.jayes.internal.util.BidirectionalMap

bothNullOrEqual(Object, Object) - Static method in class cc.kave.repackaged.jayes.util.Pair

boxArray(Object) - Static method in class cc.kave.repackaged.jayes.internal.util.ArrayUtils

buildJunctionTree(BayesNet) - Method in class cc.kave.repackaged.jayes.inference.junctionTree.JunctionTreeBuilder

C

CanonicalArrayWrapperManager - Class in cc.kave.repackaged.jayes.util.sharing

CanonicalArrayWrapperManager() - Constructor for class cc.kave.repackaged.jayes.util.sharing.CanonicalArrayWrapperManager

CanonicalIntArrayManager - Class in cc.kave.repackaged.jayes.util.sharing

CanonicalIntArrayManager() - Constructor for class cc.kave.repackaged.jayes.util.sharing.CanonicalIntArrayManager

CanonicalIntArraySet - Class in cc.kave.repackaged.jayes.util.sharing

This class uses the Arrays.hashCode and Arrays.equals methods as basis for the equality relation between it's members.

CanonicalIntArraySet() - Constructor for class cc.kave.repackaged.jayes.util.sharing.CanonicalIntArraySet

CanonicalSet<T> - Class in cc.kave.repackaged.jayes.util.sharing

Set to support managing canonical, shared instances.

CanonicalSet() - Constructor for class cc.kave.repackaged.jayes.util.sharing.CanonicalSet

cc.kave.repackaged.jayes - package cc.kave.repackaged.jayes

cc.kave.repackaged.jayes.factor - package cc.kave.repackaged.jayes.factor

cc.kave.repackaged.jayes.factor.arraywrapper - package cc.kave.repackaged.jayes.factor.arraywrapper

cc.kave.repackaged.jayes.factor.opcache - package cc.kave.repackaged.jayes.factor.opcache

cc.kave.repackaged.jayes.inference - package cc.kave.repackaged.jayes.inference

cc.kave.repackaged.jayes.inference.junctionTree - package cc.kave.repackaged.jayes.inference.junctionTree

cc.kave.repackaged.jayes.internal.util - package cc.kave.repackaged.jayes.internal.util

cc.kave.repackaged.jayes.sampling - package cc.kave.repackaged.jayes.sampling

cc.kave.repackaged.jayes.util - package cc.kave.repackaged.jayes.util

cc.kave.repackaged.jayes.util.sharing - package cc.kave.repackaged.jayes.util.sharing

cc.kave.repackaged.jayes.util.triangulation - package cc.kave.repackaged.jayes.util.triangulation

clear() - Method in class cc.kave.repackaged.jayes.internal.util.BidirectionalMap

clone() - Method in class cc.kave.repackaged.jayes.factor.AbstractFactor

clone() - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.DoubleArrayWrapper

clone() - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.FloatArrayWrapper

clone() - Method in interface cc.kave.repackaged.jayes.factor.arraywrapper.IArrayWrapper

clone() - Method in class cc.kave.repackaged.jayes.factor.Cut

clone() - Method in class cc.kave.repackaged.jayes.factor.SparseFactor

clone() - Method in class cc.kave.repackaged.jayes.util.Graph

clustersHavingEvidence - Variable in class cc.kave.repackaged.jayes.inference.junctionTree.JunctionTreeAlgorithm

computeHash(T) - Method in class cc.kave.repackaged.jayes.util.sharing.Entry

computeLinearMap(AbstractFactor, int...) - Static method in class cc.kave.repackaged.jayes.internal.util.AddressCalc

computes a mapping from the factors' addresses to the corresponding index of the flat value array of a factor consisting of the dimensions with the given dimensionIDs.

concernedClusters - Variable in class cc.kave.repackaged.jayes.inference.junctionTree.JunctionTreeAlgorithm

contains(Object) - Method in class cc.kave.repackaged.jayes.util.sharing.CanonicalSet

containsKey(Object) - Method in class cc.kave.repackaged.jayes.internal.util.BidirectionalMap

containsValue(Object) - Method in class cc.kave.repackaged.jayes.internal.util.BidirectionalMap

copy(double...) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.DoubleArrayWrapper

copy(float...) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.DoubleArrayWrapper

copy(IArrayWrapper) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.DoubleArrayWrapper

copy(double...) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.FloatArrayWrapper

copy(float...) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.FloatArrayWrapper

copy(IArrayWrapper) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.FloatArrayWrapper

copy(double...) - Method in interface cc.kave.repackaged.jayes.factor.arraywrapper.IArrayWrapper

copy(float...) - Method in interface cc.kave.repackaged.jayes.factor.arraywrapper.IArrayWrapper

copy(IArrayWrapper) - Method in interface cc.kave.repackaged.jayes.factor.arraywrapper.IArrayWrapper

copyValues(IArrayWrapper) - Method in class cc.kave.repackaged.jayes.factor.AbstractFactor

copyValues(IArrayWrapper) - Method in class cc.kave.repackaged.jayes.factor.DenseFactor

copyValues(IArrayWrapper) - Method in class cc.kave.repackaged.jayes.factor.SparseFactor

create(List<Integer>, List<AbstractFactor>) - Method in class cc.kave.repackaged.jayes.factor.FactorFactory

creates a factor, the class of which is dependent on different criteria defined in the concrete subclasses.

createArray(int) - Static method in class cc.kave.repackaged.jayes.internal.util.UnionFind

createEntry(int[]) - Method in class cc.kave.repackaged.jayes.util.sharing.CanonicalIntArraySet

createEntry(T) - Method in class cc.kave.repackaged.jayes.util.sharing.CanonicalSet

createNode(String) - Method in class cc.kave.repackaged.jayes.BayesNet

cut - Variable in class cc.kave.repackaged.jayes.factor.AbstractFactor

Cut - Class in cc.kave.repackaged.jayes.factor

represents a cut through a decision tree as described in "Static and dynamic speedup techniques for the Junction Tree Algorithm" (Kutschke, 2011) (my Bachelor's thesis).

Cut(AbstractFactor) - Constructor for class cc.kave.repackaged.jayes.factor.Cut

D

defaultFactory() - Static method in class cc.kave.repackaged.jayes.factor.FactorFactory

DenseFactor - Class in cc.kave.repackaged.jayes.factor

DenseFactor() - Constructor for class cc.kave.repackaged.jayes.factor.DenseFactor

dimensionIDs - Variable in class cc.kave.repackaged.jayes.factor.AbstractFactor

dimensions - Variable in class cc.kave.repackaged.jayes.factor.AbstractFactor

DivisionCache - Class in cc.kave.repackaged.jayes.factor.opcache

This class is to be used when divisions are a performance-critical part of the code, and the sequence of divisions is such that many subsequent divisions will have the same result (using the same divisor).

DivisionCache(int) - Constructor for class cc.kave.repackaged.jayes.factor.opcache.DivisionCache

DoubleArrayWrapper - Class in cc.kave.repackaged.jayes.factor.arraywrapper

DoubleArrayWrapper(double...) - Constructor for class cc.kave.repackaged.jayes.factor.arraywrapper.DoubleArrayWrapper

E

Edge(Integer, Integer) - Constructor for class cc.kave.repackaged.jayes.util.Graph.Edge

eliminate(int) - Method in class cc.kave.repackaged.jayes.util.triangulation.QuotientGraph

Entry<T> - Class in cc.kave.repackaged.jayes.util.sharing

Entry(T) - Constructor for class cc.kave.repackaged.jayes.util.sharing.Entry

entry - Variable in class cc.kave.repackaged.jayes.util.sharing.Entry

entrySet() - Method in class cc.kave.repackaged.jayes.internal.util.BidirectionalMap

equals(Object) - Method in class cc.kave.repackaged.jayes.util.OrderIgnoringPair

equals(Object) - Method in class cc.kave.repackaged.jayes.util.Pair

equals(Object) - Method in class cc.kave.repackaged.jayes.util.sharing.Entry

equals(T, T) - Method in class cc.kave.repackaged.jayes.util.sharing.Entry

evidence - Variable in class cc.kave.repackaged.jayes.inference.AbstractInferer

exp(double[]) - Static method in class cc.kave.repackaged.jayes.util.MathUtils

exp(IArrayWrapper) - Static method in class cc.kave.repackaged.jayes.util.MathUtils

F

FactorFactory - Class in cc.kave.repackaged.jayes.factor

FactorFactory() - Constructor for class cc.kave.repackaged.jayes.factor.FactorFactory

factory - Variable in class cc.kave.repackaged.jayes.inference.AbstractInferer

fill(double) - Method in class cc.kave.repackaged.jayes.factor.AbstractFactor

fill(double) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.DoubleArrayWrapper

fill(float) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.DoubleArrayWrapper

fill(double) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.FloatArrayWrapper

fill(float) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.FloatArrayWrapper

fill(double) - Method in interface cc.kave.repackaged.jayes.factor.arraywrapper.IArrayWrapper

fill(float) - Method in interface cc.kave.repackaged.jayes.factor.arraywrapper.IArrayWrapper

fill(double) - Method in class cc.kave.repackaged.jayes.factor.DenseFactor

fill(double) - Method in class cc.kave.repackaged.jayes.factor.SparseFactor

find() - Method in class cc.kave.repackaged.jayes.internal.util.UnionFind

FloatArrayWrapper - Class in cc.kave.repackaged.jayes.factor.arraywrapper

FloatArrayWrapper(float...) - Constructor for class cc.kave.repackaged.jayes.factor.arraywrapper.FloatArrayWrapper

forHeuristic(IEliminationHeuristic) - Static method in class cc.kave.repackaged.jayes.inference.junctionTree.JunctionTreeBuilder

fromFactor(AbstractFactor) - Static method in class cc.kave.repackaged.jayes.factor.SparseFactor

G

get(Object) - Method in class cc.kave.repackaged.jayes.internal.util.BidirectionalMap

get(T) - Method in class cc.kave.repackaged.jayes.util.sharing.CanonicalSet

getAdjacency() - Method in class cc.kave.repackaged.jayes.util.Graph

getBackEdge() - Method in class cc.kave.repackaged.jayes.util.Graph.Edge

getBeliefs(BayesNode) - Method in class cc.kave.repackaged.jayes.inference.AbstractInferer

getBeliefs(BayesNode) - Method in interface cc.kave.repackaged.jayes.inference.IBayesInferer

getBeliefs(BayesNode) - Method in class cc.kave.repackaged.jayes.inference.junctionTree.JunctionTreeAlgorithm

getChildren() - Method in class cc.kave.repackaged.jayes.BayesNode

getClusters() - Method in class cc.kave.repackaged.jayes.inference.junctionTree.JunctionTree

getDimensionFromID(int) - Method in class cc.kave.repackaged.jayes.factor.AbstractFactor

getDimensionIDs() - Method in class cc.kave.repackaged.jayes.factor.AbstractFactor

getDimensions() - Method in class cc.kave.repackaged.jayes.factor.AbstractFactor

getDouble(int) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.DoubleArrayWrapper

getDouble(int) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.FloatArrayWrapper

getDouble(int) - Method in interface cc.kave.repackaged.jayes.factor.arraywrapper.IArrayWrapper

getEnd() - Method in class cc.kave.repackaged.jayes.factor.Cut

getEvidence() - Method in class cc.kave.repackaged.jayes.inference.AbstractInferer

getEvidence() - Method in interface cc.kave.repackaged.jayes.inference.IBayesInferer

getFactor() - Method in class cc.kave.repackaged.jayes.BayesNode

getFactory() - Method in class cc.kave.repackaged.jayes.inference.AbstractInferer

getFirst() - Method in class cc.kave.repackaged.jayes.util.Pair

getFloat(int) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.DoubleArrayWrapper

getFloat(int) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.FloatArrayWrapper

getFloat(int) - Method in interface cc.kave.repackaged.jayes.factor.arraywrapper.IArrayWrapper

getGraph() - Method in class cc.kave.repackaged.jayes.inference.junctionTree.JunctionTree

getHeuristicValue(QuotientGraph, int) - Method in interface cc.kave.repackaged.jayes.util.triangulation.IEliminationHeuristic

getHeuristicValue(QuotientGraph, int) - Method in class cc.kave.repackaged.jayes.util.triangulation.MinDegree

getHeuristicValue(QuotientGraph, int) - Method in class cc.kave.repackaged.jayes.util.triangulation.MinFillIn

getId() - Method in class cc.kave.repackaged.jayes.BayesNode

getIncidentEdges(int) - Method in class cc.kave.repackaged.jayes.util.Graph

getInstance(IArrayWrapper) - Method in class cc.kave.repackaged.jayes.util.sharing.CanonicalArrayWrapperManager

getInstance(int[]) - Method in class cc.kave.repackaged.jayes.util.sharing.CanonicalIntArrayManager

getKey(V) - Method in class cc.kave.repackaged.jayes.internal.util.BidirectionalMap

getLength() - Method in class cc.kave.repackaged.jayes.factor.Cut

getName() - Method in class cc.kave.repackaged.jayes.BayesNet

getName() - Method in class cc.kave.repackaged.jayes.BayesNode

getNeighbors(int) - Method in class cc.kave.repackaged.jayes.util.triangulation.QuotientGraph

getNode(String) - Method in class cc.kave.repackaged.jayes.BayesNet

getNode(int) - Method in class cc.kave.repackaged.jayes.BayesNet

getNodes() - Method in class cc.kave.repackaged.jayes.BayesNet

getOutcomeCount() - Method in class cc.kave.repackaged.jayes.BayesNode

getOutcomeIndex(String) - Method in class cc.kave.repackaged.jayes.BayesNode

getOutcomeName(int) - Method in class cc.kave.repackaged.jayes.BayesNode

getOutcomes() - Method in class cc.kave.repackaged.jayes.BayesNode

getOverhead() - Method in class cc.kave.repackaged.jayes.factor.AbstractFactor

getOverhead() - Method in class cc.kave.repackaged.jayes.factor.DenseFactor

getOverhead() - Method in class cc.kave.repackaged.jayes.factor.SparseFactor

getParents() - Method in class cc.kave.repackaged.jayes.BayesNode

getProbabilities() - Method in class cc.kave.repackaged.jayes.BayesNode

getRealPosition(int) - Method in class cc.kave.repackaged.jayes.factor.AbstractFactor

getRealPosition(int) - Method in class cc.kave.repackaged.jayes.factor.DenseFactor

getRealPosition(int) - Method in class cc.kave.repackaged.jayes.factor.SparseFactor

getSecond() - Method in class cc.kave.repackaged.jayes.util.Pair

getSepSets() - Method in class cc.kave.repackaged.jayes.inference.junctionTree.JunctionTree

getStart() - Method in class cc.kave.repackaged.jayes.factor.Cut

getStepSize() - Method in class cc.kave.repackaged.jayes.factor.Cut

getSubCut() - Method in class cc.kave.repackaged.jayes.factor.Cut

getSubtreeStepsize() - Method in class cc.kave.repackaged.jayes.factor.Cut

getUseLogScale(AbstractFactor) - Method in class cc.kave.repackaged.jayes.factor.FactorFactory

getValue(int) - Method in class cc.kave.repackaged.jayes.factor.AbstractFactor

getValues() - Method in class cc.kave.repackaged.jayes.factor.AbstractFactor

Graph - Class in cc.kave.repackaged.jayes.util

Graph() - Constructor for class cc.kave.repackaged.jayes.util.Graph

Graph.Edge - Class in cc.kave.repackaged.jayes.util

GraphElimination - Class in cc.kave.repackaged.jayes.util.triangulation

Graph elimination based on greedy minimum fill-in heuristic.

GraphElimination(Graph, double[], IEliminationHeuristic) - Constructor for class cc.kave.repackaged.jayes.util.triangulation.GraphElimination

H

hashCode() - Method in class cc.kave.repackaged.jayes.util.OrderIgnoringPair

hashCode() - Method in class cc.kave.repackaged.jayes.util.Pair

hashCode() - Method in class cc.kave.repackaged.jayes.util.sharing.Entry

hasProperType(Object) - Method in class cc.kave.repackaged.jayes.util.sharing.CanonicalIntArraySet

hasProperType(Object) - Method in class cc.kave.repackaged.jayes.util.sharing.CanonicalSet

I

IArrayWrapper - Interface in cc.kave.repackaged.jayes.factor.arraywrapper

IBayesInferer - Interface in cc.kave.repackaged.jayes.inference

IEliminationHeuristic - Interface in cc.kave.repackaged.jayes.util.triangulation

incrementMultiDimensionalCounter(int[], int[]) - Static method in class cc.kave.repackaged.jayes.internal.util.AddressCalc

initializations - Variable in class cc.kave.repackaged.jayes.inference.junctionTree.JunctionTreeAlgorithm

initialize() - Method in class cc.kave.repackaged.jayes.factor.Cut

initialize(int) - Method in class cc.kave.repackaged.jayes.util.Graph

initializeBackEdge() - Method in class cc.kave.repackaged.jayes.util.Graph.Edge

IOperationCache - Interface in cc.kave.repackaged.jayes.factor.opcache

ISampler - Interface in cc.kave.repackaged.jayes.sampling

isBeliefValid - Variable in class cc.kave.repackaged.jayes.inference.junctionTree.JunctionTreeAlgorithm

isEmpty() - Method in class cc.kave.repackaged.jayes.internal.util.BidirectionalMap

isInCache(int) - Method in class cc.kave.repackaged.jayes.factor.opcache.DivisionCache

isLogScale() - Method in class cc.kave.repackaged.jayes.factor.AbstractFactor

isObserved - Variable in class cc.kave.repackaged.jayes.inference.junctionTree.JunctionTreeAlgorithm

isSuitable(int, AbstractFactor...) - Static method in class cc.kave.repackaged.jayes.factor.SparseFactor

approximates whether creating a sparse factor will save memory compared to a dense factor

iterator() - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.DoubleArrayWrapper

iterator() - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.FloatArrayWrapper

iterator() - Method in class cc.kave.repackaged.jayes.util.sharing.CanonicalSet

iterator() - Method in class cc.kave.repackaged.jayes.util.triangulation.GraphElimination

J

JunctionTree - Class in cc.kave.repackaged.jayes.inference.junctionTree

JunctionTree(Graph) - Constructor for class cc.kave.repackaged.jayes.inference.junctionTree.JunctionTree

junctionTree - Variable in class cc.kave.repackaged.jayes.inference.junctionTree.JunctionTreeAlgorithm

JunctionTreeAlgorithm - Class in cc.kave.repackaged.jayes.inference.junctionTree

JunctionTreeAlgorithm() - Constructor for class cc.kave.repackaged.jayes.inference.junctionTree.JunctionTreeAlgorithm

junctionTreeBuilder - Variable in class cc.kave.repackaged.jayes.inference.junctionTree.JunctionTreeAlgorithm

JunctionTreeBuilder - Class in cc.kave.repackaged.jayes.inference.junctionTree

JunctionTreeBuilder(IEliminationHeuristic) - Constructor for class cc.kave.repackaged.jayes.inference.junctionTree.JunctionTreeBuilder

K

keySet() - Method in class cc.kave.repackaged.jayes.internal.util.BidirectionalMap

L

length() - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.DoubleArrayWrapper

length() - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.FloatArrayWrapper

length() - Method in interface cc.kave.repackaged.jayes.factor.arraywrapper.IArrayWrapper

LikelihoodWeightedSampling - Class in cc.kave.repackaged.jayes.inference

LikelihoodWeightedSampling() - Constructor for class cc.kave.repackaged.jayes.inference.LikelihoodWeightedSampling

log(double[]) - Static method in class cc.kave.repackaged.jayes.util.MathUtils

log(IArrayWrapper) - Static method in class cc.kave.repackaged.jayes.util.MathUtils

M

marginalize(Map<BayesNode, String>) - Method in class cc.kave.repackaged.jayes.BayesNode

marginalizeAllBut(int) - Method in class cc.kave.repackaged.jayes.factor.AbstractFactor

marginalizes out all variables except the one with id sumDimensionID

MathUtils - Class in cc.kave.repackaged.jayes.util

MathUtils() - Constructor for class cc.kave.repackaged.jayes.util.MathUtils

merge(UnionFind) - Method in class cc.kave.repackaged.jayes.internal.util.UnionFind

Unites the sets.

merge(Graph, int, int) - Method in class cc.kave.repackaged.jayes.util.triangulation.QuotientGraph

MinDegree - Class in cc.kave.repackaged.jayes.util.triangulation

MinDegree() - Constructor for class cc.kave.repackaged.jayes.util.triangulation.MinDegree

MinFillIn - Class in cc.kave.repackaged.jayes.util.triangulation

MinFillIn() - Constructor for class cc.kave.repackaged.jayes.util.triangulation.MinFillIn

ModuloCache - Class in cc.kave.repackaged.jayes.factor.opcache

This class is to be used when modulo operations are performance critical, and appear in sequence such that many subsequent values would result in the same value, if divided by the divisor.

ModuloCache(int) - Constructor for class cc.kave.repackaged.jayes.factor.opcache.ModuloCache

mulAssign(int, double) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.DoubleArrayWrapper

mulAssign(int, float) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.DoubleArrayWrapper

mulAssign(int, IArrayWrapper, int) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.DoubleArrayWrapper

mulAssign(int, double) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.FloatArrayWrapper

mulAssign(int, float) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.FloatArrayWrapper

mulAssign(int, IArrayWrapper, int) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.FloatArrayWrapper

mulAssign(int, double) - Method in interface cc.kave.repackaged.jayes.factor.arraywrapper.IArrayWrapper

mulAssign(int, float) - Method in interface cc.kave.repackaged.jayes.factor.arraywrapper.IArrayWrapper

mulAssign(int, IArrayWrapper, int) - Method in interface cc.kave.repackaged.jayes.factor.arraywrapper.IArrayWrapper

multiplyCompatible(AbstractFactor) - Method in class cc.kave.repackaged.jayes.factor.AbstractFactor

multiply the factors.

multiplyCompatible(AbstractFactor) - Method in class cc.kave.repackaged.jayes.factor.SparseFactor

multiplyCompatibleToLog(AbstractFactor) - Method in class cc.kave.repackaged.jayes.factor.AbstractFactor

multiplyPrepared(IArrayWrapper, int[]) - Method in class cc.kave.repackaged.jayes.factor.AbstractFactor

N

net - Variable in class cc.kave.repackaged.jayes.factor.FactorFactory

newArray(int) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.DoubleArrayWrapper

newArray(int) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.FloatArrayWrapper

newArray(int) - Method in interface cc.kave.repackaged.jayes.factor.arraywrapper.IArrayWrapper

newPair(S1, S2) - Static method in class cc.kave.repackaged.jayes.util.Pair

nodePotentials - Variable in class cc.kave.repackaged.jayes.inference.junctionTree.JunctionTreeAlgorithm

normalize(double[]) - Static method in class cc.kave.repackaged.jayes.util.MathUtils

normalizeLog(double[]) - Static method in class cc.kave.repackaged.jayes.util.MathUtils

NumericalInstabilityException - Exception in cc.kave.repackaged.jayes.util

NumericalInstabilityException() - Constructor for exception cc.kave.repackaged.jayes.util.NumericalInstabilityException

NumericalInstabilityException(String) - Constructor for exception cc.kave.repackaged.jayes.util.NumericalInstabilityException

NumericalInstabilityException(Throwable) - Constructor for exception cc.kave.repackaged.jayes.util.NumericalInstabilityException

NumericalInstabilityException(String, Throwable) - Constructor for exception cc.kave.repackaged.jayes.util.NumericalInstabilityException

O

OrderIgnoringPair<T> - Class in cc.kave.repackaged.jayes.util

OrderIgnoringPair(T, T) - Constructor for class cc.kave.repackaged.jayes.util.OrderIgnoringPair

P

Pair<T1,T2> - Class in cc.kave.repackaged.jayes.util

simple pair class

Pair(T1, T2) - Constructor for class cc.kave.repackaged.jayes.util.Pair

preparedMultiplications - Variable in class cc.kave.repackaged.jayes.inference.junctionTree.JunctionTreeAlgorithm

preparedQueries - Variable in class cc.kave.repackaged.jayes.inference.junctionTree.JunctionTreeAlgorithm

prepareMultiplication(AbstractFactor) - Method in class cc.kave.repackaged.jayes.factor.AbstractFactor

prepareMultiplication(AbstractFactor) - Method in class cc.kave.repackaged.jayes.factor.DenseFactor

prepares multiplication by precomputing the corresponding array positions in the compatible Factor

prepareMultiplication(AbstractFactor) - Method in class cc.kave.repackaged.jayes.factor.SparseFactor

product(int[]) - Static method in class cc.kave.repackaged.jayes.util.MathUtils

productOfRange(int[], int, int) - Static method in class cc.kave.repackaged.jayes.util.MathUtils

product of the values in the array, from index start (inclusive) to end (exclusive)

put(K, V) - Method in class cc.kave.repackaged.jayes.internal.util.BidirectionalMap

putAll(Map<? extends K, ? extends V>) - Method in class cc.kave.repackaged.jayes.internal.util.BidirectionalMap

Q

queryFactorReverseMapping - Variable in class cc.kave.repackaged.jayes.inference.junctionTree.JunctionTreeAlgorithm

queryFactors - Variable in class cc.kave.repackaged.jayes.inference.junctionTree.JunctionTreeAlgorithm

QuotientGraph - Class in cc.kave.repackaged.jayes.util.triangulation

Quotient graphs are special data structures for the perfect elimination order problem.

QuotientGraph(Graph) - Constructor for class cc.kave.repackaged.jayes.util.triangulation.QuotientGraph

R

rank() - Method in class cc.kave.repackaged.jayes.internal.util.UnionFind

RejectionSampling - Class in cc.kave.repackaged.jayes.inference

RejectionSampling() - Constructor for class cc.kave.repackaged.jayes.inference.RejectionSampling

remove(Object) - Method in class cc.kave.repackaged.jayes.internal.util.BidirectionalMap

remove(Object) - Method in class cc.kave.repackaged.jayes.util.sharing.CanonicalSet

removeEdge(Graph.Edge) - Method in class cc.kave.repackaged.jayes.util.Graph

resetSelections() - Method in class cc.kave.repackaged.jayes.factor.AbstractFactor

retainAll(Collection<?>) - Method in class cc.kave.repackaged.jayes.util.sharing.CanonicalSet

S

sample() - Method in class cc.kave.repackaged.jayes.sampling.BasicSampler

sample() - Method in interface cc.kave.repackaged.jayes.sampling.ISampler

scalarProduct(int[], int[]) - Static method in class cc.kave.repackaged.jayes.util.MathUtils

scratchpad - Variable in class cc.kave.repackaged.jayes.inference.junctionTree.JunctionTreeAlgorithm

secureDivide(double[], double[], double[]) - Static method in class cc.kave.repackaged.jayes.util.MathUtils

computes c := a / b , but avoids division by zero.

secureSubtract(double[], double[], double[]) - Static method in class cc.kave.repackaged.jayes.util.MathUtils

seed(long) - Method in class cc.kave.repackaged.jayes.inference.LikelihoodWeightedSampling

seed(long) - Method in class cc.kave.repackaged.jayes.inference.RejectionSampling

seed(long) - Method in class cc.kave.repackaged.jayes.sampling.BasicSampler

seed(long) - Method in interface cc.kave.repackaged.jayes.sampling.ISampler

select(int, int) - Method in class cc.kave.repackaged.jayes.factor.AbstractFactor

selections - Variable in class cc.kave.repackaged.jayes.factor.AbstractFactor

sepSets - Variable in class cc.kave.repackaged.jayes.inference.junctionTree.JunctionTreeAlgorithm

set(int, double) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.DoubleArrayWrapper

set(int, float) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.DoubleArrayWrapper

set(int, double) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.FloatArrayWrapper

set(int, float) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.FloatArrayWrapper

set(int, double) - Method in interface cc.kave.repackaged.jayes.factor.arraywrapper.IArrayWrapper

set(int, float) - Method in interface cc.kave.repackaged.jayes.factor.arraywrapper.IArrayWrapper

setArray(double...) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.DoubleArrayWrapper

setArray(float...) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.DoubleArrayWrapper

setArray(double...) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.FloatArrayWrapper

setArray(float...) - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.FloatArrayWrapper

setArray(double...) - Method in interface cc.kave.repackaged.jayes.factor.arraywrapper.IArrayWrapper

setArray(float...) - Method in interface cc.kave.repackaged.jayes.factor.arraywrapper.IArrayWrapper

setClusters(List<List<Integer>>) - Method in class cc.kave.repackaged.jayes.inference.junctionTree.JunctionTree

setDimensionIDs(int...) - Method in class cc.kave.repackaged.jayes.factor.AbstractFactor

tells the Factor which variables the dimensions correspond to.

setDimensions(int...) - Method in class cc.kave.repackaged.jayes.factor.AbstractFactor

setDimensions(int...) - Method in class cc.kave.repackaged.jayes.factor.SparseFactor

setEvidence(Map<BayesNode, String>) - Method in class cc.kave.repackaged.jayes.inference.AbstractInferer

setEvidence(Map<BayesNode, String>) - Method in interface cc.kave.repackaged.jayes.inference.IBayesInferer

setEvidence(Map<BayesNode, String>) - Method in class cc.kave.repackaged.jayes.sampling.BasicSampler

setEvidence(Map<BayesNode, String>) - Method in interface cc.kave.repackaged.jayes.sampling.ISampler

setFactorFactory(FactorFactory) - Method in class cc.kave.repackaged.jayes.inference.AbstractInferer

setFloatingPointType(Class<?>) - Method in class cc.kave.repackaged.jayes.factor.FactorFactory

sets the floating point precision to use.

setId(int) - Method in class cc.kave.repackaged.jayes.BayesNode

Deprecated.

internal method, don't use. visibility might change to default

setJunctionTreeBuilder(JunctionTreeBuilder) - Method in class cc.kave.repackaged.jayes.inference.junctionTree.JunctionTreeAlgorithm

setLogScale(boolean) - Method in class cc.kave.repackaged.jayes.factor.AbstractFactor

setName(String) - Method in class cc.kave.repackaged.jayes.BayesNet

setNetwork(BayesNet) - Method in class cc.kave.repackaged.jayes.inference.AbstractInferer

setNetwork(BayesNet) - Method in interface cc.kave.repackaged.jayes.inference.IBayesInferer

setNetwork(BayesNet) - Method in class cc.kave.repackaged.jayes.inference.junctionTree.JunctionTreeAlgorithm

setNetwork(BayesNet) - Method in class cc.kave.repackaged.jayes.inference.LikelihoodWeightedSampling

setNetwork(BayesNet) - Method in class cc.kave.repackaged.jayes.inference.RejectionSampling

setNetwork(BayesNet) - Method in class cc.kave.repackaged.jayes.sampling.BasicSampler

setNetwork(BayesNet) - Method in interface cc.kave.repackaged.jayes.sampling.ISampler

setParents(List<BayesNode>) - Method in class cc.kave.repackaged.jayes.BayesNode

setProbabilities(double...) - Method in class cc.kave.repackaged.jayes.BayesNode

Must be called after the parents and outcomes, and the outcome of the parents are set.

setReferenceNetwork(BayesNet) - Method in class cc.kave.repackaged.jayes.factor.FactorFactory

setSampleCount(int) - Method in class cc.kave.repackaged.jayes.inference.LikelihoodWeightedSampling

setSampleCount(int) - Method in class cc.kave.repackaged.jayes.inference.RejectionSampling

setSepSets(List<Pair<Graph.Edge, List<Integer>>>) - Method in class cc.kave.repackaged.jayes.inference.junctionTree.JunctionTree

setUseLogScale(boolean) - Method in class cc.kave.repackaged.jayes.factor.FactorFactory

using logarithmic values for computation is a lot slower, but also a lot more numerically stable

setValues(IArrayWrapper) - Method in class cc.kave.repackaged.jayes.factor.AbstractFactor

size() - Method in class cc.kave.repackaged.jayes.internal.util.BidirectionalMap

size() - Method in class cc.kave.repackaged.jayes.util.sharing.CanonicalSet

sizeOfElement() - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.DoubleArrayWrapper

sizeOfElement() - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.FloatArrayWrapper

sizeOfElement() - Method in interface cc.kave.repackaged.jayes.factor.arraywrapper.IArrayWrapper

SparseFactor - Class in cc.kave.repackaged.jayes.factor

SparseFactor() - Constructor for class cc.kave.repackaged.jayes.factor.SparseFactor

sparsify(AbstractFactor...) - Method in class cc.kave.repackaged.jayes.factor.SparseFactor

Prepares the factor in the sense that it's internal structures are optimized according to the zero/non-zero structure of the factors that will be multiplied in.

sum(double[]) - Static method in class cc.kave.repackaged.jayes.util.MathUtils

sumPrepared(IArrayWrapper, int[]) - Method in class cc.kave.repackaged.jayes.factor.AbstractFactor

T

toDoubleArray() - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.DoubleArrayWrapper

toDoubleArray() - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.FloatArrayWrapper

toDoubleArray() - Method in interface cc.kave.repackaged.jayes.factor.arraywrapper.IArrayWrapper

toDoubleArray(float[]) - Static method in class cc.kave.repackaged.jayes.internal.util.ArrayUtils

toFloatArray() - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.DoubleArrayWrapper

toFloatArray() - Method in class cc.kave.repackaged.jayes.factor.arraywrapper.FloatArrayWrapper

toFloatArray() - Method in interface cc.kave.repackaged.jayes.factor.arraywrapper.IArrayWrapper

toFloatArray(double[]) - Static method in class cc.kave.repackaged.jayes.internal.util.ArrayUtils

toIntArray(List<? extends Number>) - Static method in class cc.kave.repackaged.jayes.internal.util.ArrayUtils

toString() - Method in class cc.kave.repackaged.jayes.BayesNode

toString() - Method in class cc.kave.repackaged.jayes.util.Pair

U

unboxArray(T[]) - Static method in class cc.kave.repackaged.jayes.internal.util.ArrayUtils

UnionFind - Class in cc.kave.repackaged.jayes.internal.util

Disjoint Set Datastructure, uses Union by Rank and Path Compression heuristics.

UnionFind() - Constructor for class cc.kave.repackaged.jayes.internal.util.UnionFind

updateBeliefs() - Method in class cc.kave.repackaged.jayes.inference.AbstractInferer

updateBeliefs() - Method in class cc.kave.repackaged.jayes.inference.junctionTree.JunctionTreeAlgorithm

updateBeliefs() - Method in class cc.kave.repackaged.jayes.inference.LikelihoodWeightedSampling

updateBeliefs() - Method in class cc.kave.repackaged.jayes.inference.RejectionSampling

V

validateCut() - Method in class cc.kave.repackaged.jayes.factor.AbstractFactor

values - Variable in class cc.kave.repackaged.jayes.factor.AbstractFactor

values() - Method in class cc.kave.repackaged.jayes.internal.util.BidirectionalMap

A B C D E F G H I J K L M N O P Q R S T U V