Package | Description |
---|---|
com.bayesserver | |
com.bayesserver.analysis | |
com.bayesserver.causal | |
com.bayesserver.inference | |
com.bayesserver.learning.parameters | |
com.bayesserver.learning.structure |
Modifier and Type | Method and Description |
---|---|
Node |
Node.copy()
Makes a copy of this instance.
|
Node |
NetworkNodeCollection.get(int index)
Gets the
Node object at the specified index. |
Node |
NetworkNodeCollection.get(String name)
Performs a case sensitive lookup.
|
Node |
NetworkNodeCollection.get(String name,
boolean throwIfNotFound)
Performs a case sensitive lookup.
|
Node |
Link.getFrom()
The parent node of the directed link.
|
Node |
NodeDistributionExpressions.getNode()
Gets the node that this instance belongs to.
|
Node |
NodeDistributionOptions.getNode()
The node this instance belongs to.
|
Node |
NodeDistributions.getNode()
Gets the node that this instance belongs to.
|
Node |
NodeGroupCollection.getNode()
The
Node the collection belongs to. |
Node |
NodeLinkCollection.getNode()
Gets the
Node to which the collection belongs to. |
Node |
NodeVariableCollection.getNode()
The
Node the collection belongs to. |
Node |
TopologicalSortNodeInfo.getNode()
Gets the node in the network.
|
Node |
UnrollOutput.NodeTime.getNode()
Gets the node.
|
Node |
Variable.getNode()
Gets the
Node this instance belongs to, if any. |
Node |
CLGaussian.getOwner()
Gets the current owner, if assigned to a node.
|
Node |
Distribution.getOwner()
Gets the current owner, if assigned to a node.
|
Node |
DistributionExpression.getOwner()
Gets the current owner, if assigned to a node.
|
Node |
Table.getOwner()
Gets the current owner, if assigned to a node.
|
Node |
TableExpression.getOwner()
Gets the current owner, if assigned to a node.
|
Node |
NodeDistributionKey.getRelatedNode()
Gets the parent of the noisy node this distribution refers to, or the noisy node itself to identify the leak distribution.
|
Node |
Link.getTo()
The child node of the directed link.
|
Node |
UnrollOutput.getUnrolledNode(Node dbnNode,
Integer time)
Maps between a node in the original Dynamic Bayesian network, and the corresponding node in the unrolled network.
|
Node |
NetworkNodeCollection.remove(int index)
Removes an element from the collection at the specified index, and any links that it has.
|
Node |
NetworkNodeCollection.set(int index,
Node value)
Sets the
Node object at the specified index. |
static Node[] |
TopologicalSort.sort(Network network)
Returns the nodes in a Bayesian network sorted in topological order.
|
Modifier and Type | Method and Description |
---|---|
void |
NetworkNodeCollection.add(int index,
Node item)
Inserts an element into the collection at the specified index.
|
void |
NetworkMonitor.causalObservabilityChanged(Node node,
CausalObservability newCausalObservability,
CausalObservability oldCausalObservability)
For internal use.
|
Link |
Link.copy(Node from,
Node to,
int temporalOrder)
Creates a new link, copying the properties from this instance, such as
Link.getDescription() and Link.getCustomProperties() . |
void |
NetworkMonitor.distributionChanged(Node node,
NodeDistributionKey key,
NodeDistributionKind kind,
Distribution newDistribution,
Distribution oldDistribution)
For internal use.
|
Link |
NetworkLinkCollection.find(Node from,
Node to)
Finds a link from one node to another if it exists, otherwise returns null.
|
Link |
NetworkLinkCollection.find(Node from,
Node to,
int temporalOrder)
Finds a link from one node to another if it exists, otherwise returns null.
|
UnrollOutput.NodeTime |
UnrollOutput.getDbnNode(Node unrolledNode)
Maps from a node in the unrolled network to the corresponding node in the original Dynamic Bayesian network.
|
static double |
ParameterCounter.getParameterCount(Node node,
int order)
Gets the parameter count for an individual node distribution.
|
static double |
ParameterCounter.getParameterCount(Node node,
NodeDistributionKey key)
Gets the parameter count for an individual node distribution.
|
Node |
UnrollOutput.getUnrolledNode(Node dbnNode,
Integer time)
Maps between a node in the original Dynamic Bayesian network, and the corresponding node in the unrolled network.
|
void |
NetworkMonitor.nodeCollectionChange(int index,
Node add,
Node remove,
CollectionAction action,
boolean complete)
For internal use.
|
void |
NetworkMonitor.noisyNodeTypeChanged(Node node,
NoisyType newNoisyType,
NoisyType oldNoisyType)
For internal use.
|
boolean |
NetworkNodeCollection.remove(Node item)
Removes the
Node from the collection. |
Node |
NetworkNodeCollection.set(int index,
Node value)
Sets the
Node object at the specified index. |
Constructor and Description |
---|
CLGaussian(Node node)
Initializes a new instance of the
CLGaussian class with the variables of a single node. |
CLGaussian(Node node,
Integer time)
Initializes a new instance of the
CLGaussian class with the variables of a single node at the specified time. |
Link(Node from,
Node to)
Initializes a new instance of the
Link class with the parent node specified in [from] and the child in [to]. |
Link(Node from,
Node to,
int temporalOrder)
Initializes a new instance of the
Link class with a specified [temporalOrder], the parent node specified in [from] and the child in [to]. |
NodeDistributionKey(int order,
Node relatedNode)
Initializes a new instance of a
NodeDistributionKey . |
NodeDistributionKey(Node relatedNode)
Initializes a new instance of a
NodeDistributionKey . |
Table(Node... nodes)
Initializes a new instance of the
Table class with all the variables from the supplied nodes. |
Table(Node node)
Initializes a new instance of the
Table class with the specified node variables. |
Table(Node[] nodes,
HeadTail headTail)
Initializes a new instance of the
Table class with all the variables from the supplied nodes. |
Table(Node node,
Integer time)
Initializes a new instance of the
Table class with the specified node variable at the specified time. |
TableAccessor(Table table,
Node[] order)
Initializes a new instance of the
TableAccessor class, allowing random access to [table] with a specified [order] for the node variables. |
TableAccessor(Table table,
Node[] order,
Integer[] times)
Initializes a new instance of the
TableAccessor class, allowing random access to [table] with a specified [order] for the node variables. |
TableIterator(Table table,
Node[] order)
Initializes a new instance of the
TableIterator class, allowing sequential access to [table] with a specified [order] for the node variables. |
TableIterator(Table table,
Node[] order,
Integer[] times)
Initializes a new instance of the
TableIterator class, allowing sequential access to [table] with a specified [order] for the node variables. |
VariableMap(VariableContextCollection sortedVariables,
Node[] order)
Initializes a new instance of the
VariableMap class. |
Modifier and Type | Method and Description |
---|---|
Node |
DSeparationTestResult.getNode()
The test node.
|
Node |
ParameterReference.getNode()
Gets the node whose distribution parameter is being referenced.
|
Modifier and Type | Method and Description |
---|---|
static DSeparationOutput |
DSeparation.calculate(Network network,
List<Node> sourceNodes,
List<Integer> sourceNodeTimes,
List<Node> testNodes,
List<Integer> testTimes,
Evidence evidence,
DSeparationOptions options)
Calculates whether sets of nodes are D-Separated, given any evidence, and associated times for any temporal nodes.
|
static DSeparationOutput |
DSeparation.calculate(Network network,
List<Node> sourceNodes,
List<Integer> sourceNodeTimes,
List<Node> testNodes,
List<Integer> testTimes,
Evidence evidence,
DSeparationOptions options)
Calculates whether sets of nodes are D-Separated, given any evidence, and associated times for any temporal nodes.
|
static DSeparationOutput |
DSeparation.calculate(Network network,
List<Node> sourceNodes,
List<Node> testNodes,
Evidence evidence,
DSeparationOptions options)
Calculates whether sets of nodes are D-Separated, given any evidence.
|
static DSeparationOutput |
DSeparation.calculate(Network network,
List<Node> sourceNodes,
List<Node> testNodes,
Evidence evidence,
DSeparationOptions options)
Calculates whether sets of nodes are D-Separated, given any evidence.
|
Constructor and Description |
---|
AssociationPair(Node x,
Node y)
Initializes a new instance of the
AssociationPair class with individual nodes. |
ParameterReference(Node node,
NodeDistributionKey key,
State[] states)
Initializes a new instance of the
ParameterReference class . |
ParameterReference(Node node,
State[] states)
Initializes a new instance of the
ParameterReference class. |
Modifier and Type | Method and Description |
---|---|
Node |
AdjustmentSetNode.getNode()
Gets the node.
|
Node |
CausalNode.getNode()
Gets the Bayesian network node.
|
Node |
DisjunctiveCauseSetNode.getNode()
Gets the node.
|
Node |
FrontDoorSetNode.getNode()
Gets the node.
|
Node |
NodeSetItem.getNode()
Gets the node.
|
Constructor and Description |
---|
AdjustmentSetNode(Node node)
Initializes a new instance of the
AdjustmentSetNode class. |
AdjustmentSetNode(Node node,
Integer time)
Initializes a new instance of the
AdjustmentSetNode class. |
CausalNode(Node node)
Initializes a new instance of the
CausalNode class. |
CausalNode(Node node,
Integer time)
Initializes a new instance of the
CausalNode class. |
DisjunctiveCauseSetNode(Node node)
Initializes a new instance of the
DisjunctiveCauseSetNode class. |
DisjunctiveCauseSetNode(Node node,
Integer time)
Initializes a new instance of the
DisjunctiveCauseSetNode class. |
FrontDoorSetNode(Node node)
Initializes a new instance of the
FrontDoorSetNode class. |
FrontDoorSetNode(Node node,
Integer time)
Initializes a new instance of the
FrontDoorSetNode class. |
Modifier and Type | Method and Description |
---|---|
void |
DefaultEvidence.clear(Node node)
Clears evidence on a node's variables.
|
void |
Evidence.clear(Node node)
Clears evidence on a node's variables.
|
void |
DefaultEvidence.clear(Node node,
Integer time)
Clears evidence on a node's single variable.
|
void |
Evidence.clear(Node node,
Integer time)
Clears evidence on a node's single variable.
|
Double |
DefaultEvidence.get(Node node)
Gets the hard evidence value for a particular node's variable, or returns null if the
EvidenceType equals EvidenceType.NONE or EvidenceType.SOFT . |
Double |
Evidence.get(Node node)
Gets the hard evidence value for a particular node's variable, or returns null if the
EvidenceType equals EvidenceType.NONE or EvidenceType.SOFT . |
void |
DefaultEvidence.get(Node node,
Double[] destination,
int destinationStart,
int startTime,
int count)
Gets the evidence for a node's single temporal variable.
|
void |
Evidence.get(Node node,
Double[] destination,
int destinationStart,
int startTime,
int count)
Gets the evidence for a node's single temporal variable.
|
Double |
DefaultEvidence.get(Node node,
Integer time)
Gets the evidence for a node with a single variable at the specified time.
|
Double |
Evidence.get(Node node,
Integer time)
Gets the evidence for a node with a single variable at the specified time.
|
EvidenceType |
DefaultEvidence.getEvidenceType(Node node)
Returns the type of evidence currently set for a node with a single variable.
|
EvidenceType |
Evidence.getEvidenceType(Node node)
Returns the type of evidence currently set for a node with a single variable.
|
EvidenceType |
DefaultEvidence.getEvidenceType(Node node,
Integer time)
Returns the type of evidence currently set for a node with a single variable at a given time.
|
EvidenceType |
Evidence.getEvidenceType(Node node,
Integer time)
Returns the type of evidence currently set for a node with a single variable at a given time.
|
EvidenceTypes |
DefaultEvidence.getEvidenceTypes(Node node)
Gets the type of evidence (if any) and whether or not it is an intervention (do-operator).
|
EvidenceTypes |
Evidence.getEvidenceTypes(Node node)
Gets the type of evidence (if any) and whether or not it is an intervention (do-operator).
|
EvidenceTypes |
DefaultEvidence.getEvidenceTypes(Node node,
Integer time)
Gets the type of evidence (if any) and whether or not it is an intervention (do-operator).
|
EvidenceTypes |
Evidence.getEvidenceTypes(Node node,
Integer time)
Gets the type of evidence (if any) and whether or not it is an intervention (do-operator).
|
Integer |
DefaultEvidence.getState(Node node)
Gets the hard evidence state for node with a single variable, or returns null if the
EvidenceType equals EvidenceType.NONE or EvidenceType.SOFT . |
Integer |
Evidence.getState(Node node)
Gets the hard evidence state for node with a single variable, or returns null if the
EvidenceType equals EvidenceType.NONE or EvidenceType.SOFT . |
Integer |
DefaultEvidence.getState(Node node,
Integer time)
Gets the hard evidence state for node with a single variable, or returns null if the
EvidenceType equals EvidenceType.NONE or EvidenceType.SOFT . |
Integer |
Evidence.getState(Node node,
Integer time)
Gets the hard evidence state for node with a single variable, or returns null if the
EvidenceType equals EvidenceType.NONE or EvidenceType.SOFT . |
void |
DefaultEvidence.getStates(Node node,
double[] buffer)
Fills out a buffer containing the soft evidence for a node with a single variable.
|
void |
Evidence.getStates(Node node,
double[] buffer)
Fills out a buffer containing the soft evidence for a node with a single variable.
|
void |
DefaultEvidence.getStates(Node node,
double[] buffer,
Integer time)
Fills out a buffer containing the soft evidence for a node with a single variable at a specified time.
|
void |
Evidence.getStates(Node node,
double[] buffer,
Integer time)
Fills out a buffer containing the soft evidence for a node with a single variable at a specified time.
|
void |
DefaultEvidence.set(Node node,
Double value)
Sets a node's variable to a particular value (hard evidence).
|
void |
Evidence.set(Node node,
Double value)
Sets a node's variable to a particular value (hard evidence).
|
void |
DefaultEvidence.set(Node node,
Double[] source,
int sourceStart,
int startTime,
int count)
Sets temporal evidence on a node with a single variable.
|
void |
Evidence.set(Node node,
Double[] source,
int sourceStart,
int startTime,
int count)
Sets temporal evidence on a node with a single variable.
|
void |
DefaultEvidence.set(Node node,
Double value,
Integer time)
Sets evidence on a node's single variable at a specified time.
|
void |
Evidence.set(Node node,
Double value,
Integer time)
Sets evidence on a node's single variable at a specified time.
|
void |
DefaultEvidence.setState(Node node,
Integer state)
Sets evidence on a node with a single discrete variable to a particular state (hard evidence).
|
void |
Evidence.setState(Node node,
Integer state)
Sets evidence on a node with a single discrete variable to a particular state (hard evidence).
|
void |
DefaultEvidence.setState(Node node,
Integer state,
Integer time)
Sets evidence on a node with a single discrete variable to a particular state (hard evidence) specifiying a time if the node is temporal.
|
void |
Evidence.setState(Node node,
Integer state,
Integer time)
Sets evidence on a node with a single discrete variable to a particular state (hard evidence) specifiying a time if the node is temporal.
|
void |
DefaultEvidence.setStates(Node node,
double[] values)
Sets soft evidence for a discrete node with a single variable.
|
void |
Evidence.setStates(Node node,
double[] values)
Sets soft evidence for a discrete node with a single variable.
|
void |
DefaultEvidence.setStates(Node node,
double[] values,
Integer time)
Sets soft evidence for a discrete node with a single variable, at a specified time.
|
void |
Evidence.setStates(Node node,
double[] values,
Integer time)
Sets soft evidence for a discrete node with a single variable, at a specified time.
|
Modifier and Type | Method and Description |
---|---|
Node |
DistributionSpecification.getNode()
Gets the
Node this distribution specification refers to. |
Node |
DistributionSpecification.getRelatedNode()
Gets the related node (if any) of the distribution.
|
Modifier and Type | Method and Description |
---|---|
Distribution |
ParameterLearningProgressInfo.getMonitoredDistribution(Node node)
Gets a copy of the current distribution assigned to the [node].
|
Distribution |
ParameterLearningProgressInfo.getMonitoredDistribution(Node node,
Integer order)
Gets a copy of the current distribution assigned to the [node] at the requested order.
|
Distribution |
ParameterLearningProgressInfo.getMonitoredDistribution(Node node,
NodeDistributionKey key)
Gets a copy of the current distribution assigned to the [node] at the requested order.
|
Constructor and Description |
---|
DistributionSpecification(Node node)
Initializes a new instance of the
DistributionSpecification class. |
DistributionSpecification(Node node,
int order)
Initializes a new instance of the
DistributionSpecification class. |
DistributionSpecification(Node node,
NodeDistributionKey key)
Initializes a new instance of the
DistributionSpecification class. |
Modifier and Type | Method and Description |
---|---|
Node |
LinkConstraint.getA()
Gets the first node involved in the constraint.
|
Node |
LinkConstraint.getB()
Gets the second node involved in the constraint.
|
Node |
ChowLiuStructuralLearningOptions.getRoot()
Gets the root of the Chow-Liu tree.
|
Node |
TANStructuralLearningOptions.getRoot()
Gets the root of the TAN tree.
|
Node |
TANStructuralLearningOptions.getTarget()
Gets the target of the TAN tree.
|
Modifier and Type | Method and Description |
---|---|
void |
ChowLiuStructuralLearningOptions.setRoot(Node value)
Sets the root of the Chow-Liu tree.
|
void |
TANStructuralLearningOptions.setRoot(Node value)
Sets the root of the TAN tree.
|
void |
TANStructuralLearningOptions.setTarget(Node value)
Sets the target of the TAN tree.
|
Modifier and Type | Method and Description |
---|---|
StructuralLearningOutput |
ChowLiuStructuralLearning.learn(EvidenceReaderCommandFactory readerCommandFactory,
List<Node> nodes,
StructuralLearningOptions options)
Learn the structure (links) of a Bayesian network.
|
StructuralLearningOutput |
ClusteringStructuralLearning.learn(EvidenceReaderCommandFactory readerCommandFactory,
List<Node> nodes,
StructuralLearningOptions options)
Learn a cluster / mixture model.
|
StructuralLearningOutput |
HierarchicalStructuralLearning.learn(EvidenceReaderCommandFactory readerCommandFactory,
List<Node> nodes,
StructuralLearningOptions options)
Learn the structure (links) of a Bayesian network.
|
StructuralLearningOutput |
PCStructuralLearning.learn(EvidenceReaderCommandFactory readerCommandFactory,
List<Node> nodes,
StructuralLearningOptions options)
Learn the structure (links) of a Bayesian network.
|
StructuralLearningOutput |
SearchStructuralLearning.learn(EvidenceReaderCommandFactory readerCommandFactory,
List<Node> nodes,
StructuralLearningOptions options)
Learn the structure (links) of a Bayesian network.
|
StructuralLearningOutput |
StructuralLearning.learn(EvidenceReaderCommandFactory readerCommandFactory,
List<Node> nodes,
StructuralLearningOptions options)
Learn the structure (links) of a Bayesian network.
|
StructuralLearningOutput |
TANStructuralLearning.learn(EvidenceReaderCommandFactory readerCommandFactory,
List<Node> nodes,
StructuralLearningOptions options)
Learn the structure (links) of a Bayesian network.
|
StructuralLearningOutput |
ChowLiuStructuralLearning.learn(EvidenceReaderCommand evidenceReaderCommand,
List<Node> nodes,
StructuralLearningOptions options)
Learn the structure (links) of a Bayesian network.
|
StructuralLearningOutput |
ClusteringStructuralLearning.learn(EvidenceReaderCommand evidenceReaderCommand,
List<Node> nodes,
StructuralLearningOptions options)
Learn the structure (links) of a Bayesian network.
|
StructuralLearningOutput |
HierarchicalStructuralLearning.learn(EvidenceReaderCommand evidenceReaderCommand,
List<Node> nodes,
StructuralLearningOptions options)
Learn the structure (links) of a Bayesian network.
|
StructuralLearningOutput |
PCStructuralLearning.learn(EvidenceReaderCommand evidenceReaderCommand,
List<Node> nodes,
StructuralLearningOptions options)
Learn the structure (links) of a Bayesian network.
|
StructuralLearningOutput |
SearchStructuralLearning.learn(EvidenceReaderCommand evidenceReaderCommand,
List<Node> nodes,
StructuralLearningOptions options)
Learn the structure (links) of a Bayesian network.
|
StructuralLearningOutput |
StructuralLearning.learn(EvidenceReaderCommand evidenceReaderCommand,
List<Node> nodes,
StructuralLearningOptions options)
Learn the structure (links) of a Bayesian network.
|
StructuralLearningOutput |
TANStructuralLearning.learn(EvidenceReaderCommand evidenceReaderCommand,
List<Node> nodes,
StructuralLearningOptions options)
Learn the structure (links) of a Bayesian network.
|
Constructor and Description |
---|
LinkConstraint(Node a,
Node b,
Integer temporalOrder,
LinkConstraintMethod method,
LinkConstraintFailureMode failureMode)
Initializes a new instance of the
LinkConstraint class. |
LinkConstraint(Node a,
Node b,
LinkConstraintMethod method,
LinkConstraintFailureMode failureMode)
Initializes a new instance of the
LinkConstraint class. |
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