
******
Manual
******

This manual describes the HUGIN Graphical User Interface.
All topics covered by this manual can be found in the index below.

You can also go to the Main Window topic, the Edit Mode topic, or the Run Mode topic and use their clickable images to find the information that you need:

* :ref:`Main Window<main_window>`
* :ref:`Edit Mode<Edit_mode>`
* :ref:`Run Mode<Run_mode>`

Functions and Tools
-------------------

.. toctree::
   :maxdepth: 1



   FunctionsAndTools/GaussianDistributionFunction
   FunctionsAndTools/Continuous_DiscreteNodeValueTransferFunction
   FunctionsAndTools/LevelOfSignificance
   FunctionsAndTools/TraverseInstance
   FunctionsAndTools/Simulation
   FunctionsAndTools/MarkovBlanket

   FunctionsAndTools/RunMode
   FunctionsAndTools/EditMode

   FunctionsAndTools/Compress
   FunctionsAndTools/Approximate
   FunctionsAndTools/Compile
   FunctionsAndTools/ReCompile  
   FunctionsAndTools/AutoPropagation
   FunctionsAndTools/AutoUpdateGraphs    

   FunctionsAndTools/TemporalClone
   FunctionsAndTools/InstanceNodeReplaceClass
   FunctionsAndTools/TextLabel
   FunctionsAndTools/ImageComponent
   FunctionsAndTools/SelectState
   FunctionsAndTools/SelectAll
   FunctionsAndTools/BeliefPrecision
   FunctionsAndTools/Constraints
   FunctionsAndTools/Prediction
   FunctionsAndTools/EnterLikelihood
   FunctionsAndTools/Align
   FunctionsAndTools/TileWindowsHorizontally
   FunctionsAndTools/TileWindowsVertically
   FunctionsAndTools/CascadeWindows
   FunctionsAndTools/ColorChart
   FunctionsAndTools/ComponentTree
   FunctionsAndTools/ResizeNode
   FunctionsAndTools/LayoutNetworkNodes
   FunctionsAndTools/LockDisplayOfEvidence
   FunctionsAndTools/RetractEvidence
   FunctionsAndTools/ShowClass
   FunctionsAndTools/Link
   FunctionsAndTools/CasualLink
   FunctionsAndTools/BindingLink
   FunctionsAndTools/LinkOrArcReversal
   FunctionsAndTools/ToggleNodeList
   FunctionsAndTools/PanToNode

   FunctionsAndTools/Expressions
   FunctionsAndTools/ShowHideNodeLocator
   FunctionsAndTools/Information
   FunctionsAndTools/Initialize
   FunctionsAndTools/UpdateGlobalNodeAndLinkGroups
   FunctionsAndTools/UpdateMonitorGraphs
   FunctionsAndTools/Toolbar

   FunctionsAndTools/FunctionNodeTool
   FunctionsAndTools/InstanceTool
   FunctionsAndTools/SelectTool
   FunctionsAndTools/ContinuousChanceTool
   FunctionsAndTools/DiscreteChanceTool
   FunctionsAndTools/DecisionTool
   FunctionsAndTools/DiscreteFunctionTool
   FunctionsAndTools/UtilityTool
   FunctionsAndTools/ChangeLinkTool
   FunctionsAndTools/LinkTool
   FunctionsAndTools/ReverseLinkTool   
   FunctionsAndTools/TablesPaneButton
   FunctionsAndTools/AdaptationButton
   FunctionsAndTools/CaseGeneratorButton

   FunctionsAndTools/EM_LearningButton

   FunctionsAndTools/SaveAs
   FunctionsAndTools/Save
   FunctionsAndTools/SaveAll
   FunctionsAndTools/SaveEliminationOrder
   FunctionsAndTools/SaveAllClassesInSingleFileAs
   FunctionsAndTools/Copy
   FunctionsAndTools/Paste
   FunctionsAndTools/Cut
   FunctionsAndTools/Delete
   FunctionsAndTools/DeleteState
   FunctionsAndTools/Close
   FunctionsAndTools/CloseAll
   FunctionsAndTools/Open
   FunctionsAndTools/New
   FunctionsAndTools/Exit   
   FunctionsAndTools/Zooming
   FunctionsAndTools/Print
   FunctionsAndTools/PrintNetwork
   FunctionsAndTools/PrintNodeTable
   FunctionsAndTools/PrintProbabilities   
   FunctionsAndTools/GenerateHTML_Documentation
   FunctionsAndTools/Statistics
   FunctionsAndTools/RecallPolicies
   FunctionsAndTools/StorePolicies
   FunctionsAndTools/ResetUninstantiatedPolicies
   FunctionsAndTools/RenameNetwork
   FunctionsAndTools/ShowLastError
   FunctionsAndTools/BugReport
   FunctionsAndTools/ReportBeliefs

Network Windows and Menus
-------------------------

.. toctree::
   :maxdepth: 1

   NetworkWindowsAndMenus/NetworkPane
   NetworkWindowsAndMenus/NetworkProperties
   NetworkWindowsAndMenus/NetworkWindow
   NetworkWindowsAndMenus/NetworkAttributes
   NetworkWindowsAndMenus/NetworkPropertiesDBNpane   
   NetworkWindowsAndMenus/NetworkMenu  

   NetworkWindowsAndMenus/MainWindow
   NetworkWindowsAndMenus/About
   NetworkWindowsAndMenus/ViewMenu
   NetworkWindowsAndMenus/WindowMenu
   NetworkWindowsAndMenus/WizardsMenu
   NetworkWindowsAndMenus/FileMenu
   NetworkWindowsAndMenus/HelpMenu
   NetworkWindowsAndMenus/EditMenu
   NetworkWindowsAndMenus/OptionsMenu
   NetworkWindowsAndMenus/PolicyWindow
   NetworkWindowsAndMenus/MonitorWindows
   NetworkWindowsAndMenus/PreferencesMenu
   NetworkWindowsAndMenus/WindowList

   NetworkWindowsAndMenus/HuginWebSite
   NetworkWindowsAndMenus/GeneralHelp
   
   NetworkWindowsAndMenus/Display
   NetworkWindowsAndMenus/GroupsAndColors


   


Nodes and Tables
----------------

.. toctree::
   :maxdepth: 1

   NodesAndTables/Node
   NodesAndTables/NodeName
   NodesAndTables/NodeLabel
   NodesAndTables/NodeMonitorToggle
   NodesAndTables/NodeProperties
   NodesAndTables/NodeLocator
   NodesAndTables/NodeType
   NodesAndTables/NodeTab
   NodesAndTables/NodeAttributes
   NodesAndTables/NodeStateGenerator   
   NodesAndTables/NodeInterface


   NodesAndTables/DiscreteChanceNode
   NodesAndTables/ContinuousChanceNode
   NodesAndTables/DecisionNode
   NodesAndTables/InstanceNode
   NodesAndTables/FunctionNode
   NodesAndTables/UtilityNode
   NodesAndTables/InputNode   
   NodesAndTables/OutputNode
   NodesAndTables/InterfaceNode
   NodesAndTables/DiscreteFunctionNode 
   
   NodesAndTables/ExpandInstanceNode
   NodesAndTables/CollapseInstanceNode
   NodesAndTables/ExpandInstanceNodes
   NodesAndTables/CollapseAllInstanceNodes
   NodesAndTables/ExpandNodeList
   NodesAndTables/CollapseNodeList


   NodesAndTables/ExperienceTable
   NodesAndTables/FadingTable
   NodesAndTables/OpenTables
   NodesAndTables/UtilityTable
   NodesAndTables/DecisionTable
   NodesAndTables/TableTab   
   NodesAndTables/StatesTab
   NodesAndTables/AddExperienceTableToAllChanceNodes
   NodesAndTables/AddFadingTableToAllDiscreteNodes
   NodesAndTables/AddState
   NodesAndTables/CopyTable
   NodesAndTables/ManuallySpecifyTable
   NodesAndTables/ArrangeTables
   NodesAndTables/CloseTables
   NodesAndTables/TablesPane
   NodesAndTables/NodeTable
   NodesAndTables/ConditionalPropabilityTable

   NodesAndTables/AbsorbNode
   NodesAndTables/TogglePrivateNodes
   NodesAndTables/MoveInterfaceNode
   NodesAndTables/Models
   NodesAndTables/NodeListPane



Algorithms
----------

.. toctree::
   :maxdepth: 1

   Algorithms/Adaptation
   Algorithms/OnlineEM_Adaptation

   Algorithms/Propagation
   Algorithms/PC_Algorithm
   Algorithms/NPC_Algorithm
   Algorithms/PropSumNormal
   Algorithms/PropMaxFastRetract
   Algorithms/PropSumFastRetract
   Algorithms/PropMaxNormal   
   
   Algorithms/HNB_Algorithm
   Algorithms/Rebane_PearlPolytree
   Algorithms/TreeAugmentedNaiveBayesAlgorithm
   Algorithms/NB_FineTuning
   Algorithms/Chow_LiuTree
   Algorithms/JunctionTrees

   Algorithms/SinglePolicyUpdate
   Algorithms/GreedySearchAndScoreStructureLearning


Wizards
-------

.. toctree::
   :maxdepth: 1

   Wizards/Analysis_Wizard
   Wizards/Learning_Wizard
   Wizards/Adaptation_Wizard
   Wizards/ExpressionBuilder_Wizard
   Wizards/Code_Wizard
   Wizards/EM_Wizard
   Wizards/HiddenNodeAnalyzer
   Wizards/FeatureSelectionAnalyzer
   Wizards/ParameterSensitivityWizard

Methods Of Analysis
-------------------

.. toctree::
   :maxdepth: 1

   MethodsOfAnalysis/MethodsOfAnalysis
   MethodsOfAnalysis/DseparationOperation
   MethodsOfAnalysis/DseparationTheory
   MethodsOfAnalysis/RequisiteParents
   MethodsOfAnalysis/RequisiteAncestors
   MethodsOfAnalysis/DataConflictAnalysis
   MethodsOfAnalysis/EvidenceSensitivityAnalysis
   MethodsOfAnalysis/EvidenceSensitivityAnalysisDecision
   MethodsOfAnalysis/UtilitySensitivityAnalysis
   MethodsOfAnalysis/ValueOfInformationAnalysis
   MethodsOfAnalysis/CDVT_Function
   MethodsOfAnalysis/Convolution
   MethodsOfAnalysis/XOI_LossModel
   MethodsOfAnalysis/JointConfigurations
   MethodsOfAnalysis/CorrelationAnalysisDialog
   MethodsOfAnalysis/DistanceAnalysisDialog
   MethodsOfAnalysis/ParameterSensitivityAnalysis
   MethodsOfAnalysis/TwoWayParameterSensitivity





Bayesian Network
----------------

.. toctree::
   :maxdepth: 1

   AboutBayesianNetworks/AboutBayesianNetwork
   AboutBayesianNetworks/AboutLimitedMemoryInfluenceDiagram
   AboutBayesianNetworks/ObjectOrientedNetwork
   AboutBayesianNetworks/ConditionalIndependenceAndDependence
   AboutBayesianNetworks/ModelVerification
   AboutBayesianNetworks/OOBN_EM_Learning
   AboutBayesianNetworks/DynamicBayesianNetwork

Data Manipulation
-----------------

.. toctree::
   :maxdepth: 1

   UsingData/EM_Learning
   UsingData/Structure_Learning

   UsingData/AutoFiltering
   UsingData/AutoPrediction
   UsingData/LeaveOneOutPropagation
   UsingData/CaseFiles
   UsingData/DataFiles
   UsingData/CaseGenerator
   UsingData/DataFrame
   UsingData/DataSequences
   UsingData/DataProcessing
   UsingData/DataClassifierPerformance
   UsingData/DataAnalysis
   UsingData/DataMatrix
   UsingData/DataFrameWithDatabaseConnection
   UsingData/Discretization

   UsingData/ImportInformation
   UsingData/ImportNetworkDescriptionFromTables

   UsingData/LoadCase
   UsingData/SaveCase
   UsingData/RecentlyUsedFiles

   UsingData/saveWithoutHrAttributes
   UsingData/WriteAsBMP
   UsingData/WriteAsPDF
   UsingData/WriteAsSVG



.. toctree::
   :maxdepth: 1
   :hidden:

   Wizards/HelpPanes/LearningWizard/DataDependencies
   Wizards/HelpPanes/LearningWizard/DataSource
   Wizards/HelpPanes/LearningWizard/FeatureSelection
   Wizards/HelpPanes/LearningWizard/NodesSummary
   Wizards/HelpPanes/LearningWizard/PriorDistributionKnowledge
   Wizards/HelpPanes/LearningWizard/EM_Learning
   Wizards/HelpPanes/LearningWizard/StructureConstraints

   Wizards/HelpPanes/AnalysisWizard/AICBICLL.rst
   Wizards/HelpPanes/AnalysisWizard/CasesBeliefs
   Wizards/HelpPanes/AnalysisWizard/DataAccuracy
   Wizards/HelpPanes/AnalysisWizard/DataSource
   Wizards/HelpPanes/AnalysisWizard/Dependencies
   Wizards/HelpPanes/AnalysisWizard/Sampling




   NetworkWindowsAndMenus/HELPpanes/ApplicationUpdaterHelpPane
   NetworkWindowsAndMenus/HELPpanes/ConflictResolutionsHelpPane
   NetworkWindowsAndMenus/HELPpanes/StructuralUncertaintiesHelpPane
   NetworkWindowsAndMenus/HELPpanes/StructureLearningPane

