io.improbable.keanu.network

Class BayesianNetwork

java.lang.Object

io.improbable.keanu.network.BayesianNetwork

public class BayesianNetwork
extends java.lang.Object

Constructor Summary

Constructors

Constructor and Description
BayesianNetwork(java.util.Collection<? extends Vertex> vertices)
BayesianNetwork(java.util.Set<? extends Vertex> vertices)

Method Summary

Modifier and Type	Method and Description
void	cascadeObservations()
java.util.List<Vertex>	getAllVertices()
double	getAverageVertexDegree()
java.util.List<Vertex<DoubleTensor>>	getContinuousLatentVertices()
java.util.List<Vertex>	getDiscreteLatentVertices()
int	getIndentation()
java.util.List<Vertex>	getLatentOrObservedVertices()
java.util.List<Vertex>	getLatentVertices()
double	getLogOfMasterP()
java.util.List<Vertex>	getObservedVertices()
java.util.Set<Vertex>	getSubgraph(Vertex vertex, int degree) Method for traversing a graph and returning a subgraph of vertices within the given degree of the specified vertex.
java.util.List<Vertex>	getTopLevelLatentOrObservedVertices()
java.util.List<Vertex>	getTopLevelLatentVertices()
java.util.List<Vertex>	getTopLevelObservedVertices()
Vertex	getVertexByLabel(VertexLabel label)
int	getVertexCount()
java.util.List<Vertex>	getVerticesIgnoringNamespace(java.lang.String innerNamespace)
java.util.List<Vertex>	getVerticesInNamespace(java.lang.String... namespace)
void	incrementIndentation()
boolean	isInImpossibleState()
void	probeForNonZeroProbability(int attempts)
void	probeForNonZeroProbability(int attempts, KeanuRandom random) Attempt to find a non-zero master probability by naively sampling vertices in order of data dependency
void	save(NetworkSaver networkSaver)
void	saveValues(NetworkSaver networkSaver)
static void	setFromSampleAndCascade(java.util.List<? extends Vertex> vertices)
static void	setFromSampleAndCascade(java.util.List<? extends Vertex> vertices, KeanuRandom random)
void	setState(NetworkState state)

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

BayesianNetwork

public BayesianNetwork(java.util.Set<? extends Vertex> vertices)

BayesianNetwork

public BayesianNetwork(java.util.Collection<? extends Vertex> vertices)

Method Detail

getVertexByLabel

public Vertex getVertexByLabel(VertexLabel label)

getVerticesInNamespace

public java.util.List<Vertex> getVerticesInNamespace(java.lang.String... namespace)

getVerticesIgnoringNamespace

public java.util.List<Vertex> getVerticesIgnoringNamespace(java.lang.String innerNamespace)

getVertexCount

public int getVertexCount()

getAverageVertexDegree

public double getAverageVertexDegree()

setState

public void setState(NetworkState state)

getAllVertices

public java.util.List<Vertex> getAllVertices()

Returns:

A list of all vertices in the network.

getLatentOrObservedVertices

public java.util.List<Vertex> getLatentOrObservedVertices()

Returns:

All vertices that are latent or observed

getTopLevelLatentOrObservedVertices

public java.util.List<Vertex> getTopLevelLatentOrObservedVertices()

getLatentVertices

public java.util.List<Vertex> getLatentVertices()

Returns:

All vertices that are latent (i.e. probabilistic non-observed)

getTopLevelLatentVertices

public java.util.List<Vertex> getTopLevelLatentVertices()

getObservedVertices

public java.util.List<Vertex> getObservedVertices()

Returns:

All vertices that are observed - which may be probabilistic or non-probabilistic

getTopLevelObservedVertices

public java.util.List<Vertex> getTopLevelObservedVertices()

getLogOfMasterP

public double getLogOfMasterP()

cascadeObservations

public void cascadeObservations()

probeForNonZeroProbability

public void probeForNonZeroProbability(int attempts)

probeForNonZeroProbability

public void probeForNonZeroProbability(int attempts,
                                       KeanuRandom random)

Attempt to find a non-zero master probability by naively sampling vertices in order of data dependency

Parameters:

attempts - sampling attempts to get non-zero probability

random - random source for sampling

isInImpossibleState

public boolean isInImpossibleState()

setFromSampleAndCascade

public static void setFromSampleAndCascade(java.util.List<? extends Vertex> vertices)

setFromSampleAndCascade

public static void setFromSampleAndCascade(java.util.List<? extends Vertex> vertices,
                                           KeanuRandom random)

getContinuousLatentVertices

public java.util.List<Vertex<DoubleTensor>> getContinuousLatentVertices()

getDiscreteLatentVertices

public java.util.List<Vertex> getDiscreteLatentVertices()

getIndentation

public int getIndentation()

incrementIndentation

public void incrementIndentation()

save

public void save(NetworkSaver networkSaver)

saveValues

public void saveValues(NetworkSaver networkSaver)

getSubgraph

public java.util.Set<Vertex> getSubgraph(Vertex vertex,
                                         int degree)

Method for traversing a graph and returning a subgraph of vertices within the given degree of the specified vertex.

Parameters:

vertex - vertex that the subgraph will be centered around

degree - degree of connections from the vertex to be included in the subgraph

Returns:

a set of vertices within the specified degree from the given vertex