Parameterized Bayesian Networks, Abstract Classes

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Documentation for package ‘Peanut’ version 0.4-1

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A B C D G I M O P Q R T U W

Peanut-package Parameterized Bayesian Networks, Abstract Classes

-- A --

as.Pnet A Parameterized Bayesian network
as.Pnode A Parameterized Bayesian network node

-- B --

BuildAllTables Builds the conditional probability table for a Pnode
BuildNetManifest Builds a network manifest from a list of Pnets
BuildNodeManifest Builds a table describing a set of Pnodes
BuildTable Builds the conditional probability table for a Pnode

-- C --

calcExpTables Calculate expected tables for a parameterized network
calcPnetLLike Calculates the log likelihood for a set of data under a Pnet model
ClearWarehouse A cache for Pnets or Pnodes
CompensatoryGadget Shiny gadget for editing parameterized nodes (PNodes)

-- D --

defaultAlphas Reshapes alpha or beta vector based on rule and parents
defaultBetas Reshapes alpha or beta vector based on rule and parents
DPCGadget Shiny gadget for editing parameterized nodes (PNodes)

-- G --

GEMfit Fits the parameters of a parameterized network using the GEM algorithm
GetPriorWeight Gets the weight to be associated with the prior table during EM learning

-- I --

is.Pnet A Parameterized Bayesian network
is.PnetWarehouse A cache for Pnets or Pnodes
is.Pnode A Parameterized Bayesian network node
is.PnodeWarehouse A cache for Pnets or Pnodes

-- M --

maxAllTableParams Find optimal parameters of Pnet or Pnode to match expected tables
maxAllTableParams.default Find optimal parameters of Pnet or Pnode to match expected tables
maxCPTParam Find optimal parameters of Pnet or Pnode to match expected tables

-- O --

OffsetGadget Shiny gadget for editing parameterized nodes (PNodes)
Omega2Pnet Constructs a parameterized network from an Omega matrix.

-- P --

Peanut Parameterized Bayesian Networks, Abstract Classes
Pnet A Parameterized Bayesian network
Pnet.default A Parameterized Bayesian network
Pnet2Omega Constructs an Omega matrix from a parameterized network.
Pnet2Qmat Makes an augmented Q-matrix from a collection of parameterized nets
PnetAdjoin Merges (or separates) two Pnets with common variables
PnetDescription Gets the title or comments associated with a parameterized network.
PnetDescription<- Gets the title or comments associated with a parameterized network.
PnetDetach Merges (or separates) two Pnets with common variables
PnetFindNode Finds nodes in a parameterized network.
PnetHub Returns the name of the hub net if this is a spoke net.
PnetHub<- Returns the name of the hub net if this is a spoke net.
PnetMakeStubNodes Creates (or removes) references to nodes in a network
PnetName Gets or Sets the name of a Netica network.
PnetName<- Gets or Sets the name of a Netica network.
PnetPathname Returns the path associated with a network.
PnetPathname<- Returns the path associated with a network.
PnetPnodes Returns a list of Pnodes associated with a Pnet
PnetPnodes<- Returns a list of Pnodes associated with a Pnet
PnetPriorWeight Gets the weight to be associated with the prior table during EM learning
PnetPriorWeight<- Gets the weight to be associated with the prior table during EM learning
PnetRemoveStubNodes Creates (or removes) references to nodes in a network
PnetSerialize Writes/restores network from a string.
PnetTitle Gets the title or comments associated with a parameterized network.
PnetTitle<- Gets the title or comments associated with a parameterized network.
PnetUnserialize Writes/restores network from a string.
Pnode A Parameterized Bayesian network node
PnodeAlphas Access the combination function slope parameters for a Pnode
PnodeAlphas.default Access the combination function slope parameters for a Pnode
PnodeAlphas<- Access the combination function slope parameters for a Pnode
PnodeAlphas<-.default Access the combination function slope parameters for a Pnode
PnodeBetas Access the combination function slope parameters for a Pnode
PnodeBetas<- Access the combination function slope parameters for a Pnode
PnodeDescription Gets the title or Description associated with a parameterized node node.
PnodeDescription<- Gets the title or Description associated with a parameterized node node.
PnodeLabels Lists or changes the labels associated with a parameterize node.
PnodeLabels<- Lists or changes the labels associated with a parameterize node.
PnodeLink Accesses the link function associated with a Pnode
PnodeLink<- Accesses the link function associated with a Pnode
PnodeLinkScale Accesses the link function scale parameter associated with a Pnode
PnodeLinkScale<- Accesses the link function scale parameter associated with a Pnode
PnodeLnAlphas Access the combination function slope parameters for a Pnode
PnodeLnAlphas<- Access the combination function slope parameters for a Pnode
PnodeName Gets or sets name of a parameterized node.
PnodeName<- Gets or sets name of a parameterized node.
PnodeNet Returns a list of Pnodes associated with a Pnet
PnodeNumParents Aliases for generic Bayesian network functions.
PnodeNumStates Aliases for generic Bayesian network functions.
PnodeParentNames Aliases for generic Bayesian network functions.
PnodeParents Gets or sets the parents of a parameterized node.
PnodeParents<- Gets or sets the parents of a parameterized node.
PnodeParentTvals Fetches a list of numeric variables corresponding to parent states
PnodePriorWeight Gets the weight to be associated with the prior table during EM learning
PnodePriorWeight<- Gets the weight to be associated with the prior table during EM learning
PnodeQ Accesses a state-wise Q-matrix associated with a Pnode
PnodeQ<- Accesses a state-wise Q-matrix associated with a Pnode
PnodeRules Accesses the combination rules for a Pnode
PnodeRules<- Accesses the combination rules for a Pnode
PnodeStateDescriptions Accessors for the titles and descriptions associated with states of a parameterized node.
PnodeStateDescriptions<- Accessors for the titles and descriptions associated with states of a parameterized node.
PnodeStates Accessor for states of a parameterized node.
PnodeStates<- Accessor for states of a parameterized node.
PnodeStateTitles Accessors for the titles and descriptions associated with states of a parameterized node.
PnodeStateTitles<- Accessors for the titles and descriptions associated with states of a parameterized node.
PnodeStateValues Accesses the numeric values associated with the state of a parameterized node.
PnodeStateValues<- Accesses the numeric values associated with the state of a parameterized node.
PnodeTitle Gets the title or Description associated with a parameterized node node.
PnodeTitle<- Gets the title or Description associated with a parameterized node node.

-- Q --

Qmat2Pnet Makes or adjusts parameterized networks based on augmented Q-matrix

-- R --

RegressionGadget Shiny gadget for editing parameterized nodes (PNodes)

-- T --

topsort Topologically sorts the rows and columns of an Omega matrix

-- U --

unserializePnet Writes/restores network from a string.

-- W --

Warehouse A cache for Pnets or Pnodes
WarehouseData Manipulates the manifest for a warehouse
WarehouseFetch A cache for Pnets or Pnodes
WarehouseFree A cache for Pnets or Pnodes
WarehouseMake A cache for Pnets or Pnodes
WarehouseManifest Manipulates the manifest for a warehouse
WarehouseManifest<- Manipulates the manifest for a warehouse
WarehouseSupply A cache for Pnets or Pnodes