Uses of Interface
toxTree.core.IDecisionCategory

Packages that use IDecisionCategory
com.molecularnetworks.start.categories   
eye.categories The package contains implementations of IDecisionCategory categories for EyeIrritationRules decision tree. 
mic.categories   
michaelacceptors.categories   
mutant.categories   
mutant.rules   
sicret.categories The package contains implementations of IDecisionCategory categories for SicretRules decision tree. 
toxTree.apps.toxForest   
toxTree.core This packages contains only interface definitions, defining essential classes in toxTree application. 
toxTree.data Classes that hold the data used in ToxTreeApp 
toxTree.exceptions Exceptions defined for toxTree classes 
toxtree.plugins.dnabinding.categories   
toxtree.plugins.func.categories   
toxtree.plugins.kroes.categories   
toxtree.plugins.lewis.categories   
toxtree.plugins.moa.categories   
toxtree.plugins.proteinbinding.categories   
toxtree.plugins.search.categories   
toxtree.plugins.skinsensitisation.categories   
toxtree.plugins.smartcyp   
toxtree.plugins.smartcyp.categories   
toxTree.tree This packages contains abstract and default classes implementing the interfaces defined in toxTree.core package. 
toxTree.tree.categories The package contains default implementations of IDecisionCategory categories. 
toxTree.tree.cramer Class CramerRules is the implementation of Cramer rules [Cramer et al,78]. 
toxTree.ui   
toxtree.ui.editors   
toxtree.ui.tree User interface for viewing and editing a decision tree IDecisionMethod 
toxtree.ui.tree.actions Actions (derived from AbstractAction for the decision tree user interface toxTree.ui.tree 
toxtree.ui.tree.categories User interface for viewing and editing categories IDecisionCategory in a decision tree IDecisionMethod 
verhaar.categories The package contains implementations of IDecisionCategory categories for VerhaarScheme decision tree. 
 

Uses of IDecisionCategory in com.molecularnetworks.start.categories
 

Classes in com.molecularnetworks.start.categories that implement IDecisionCategory
 class CategoryBiodegradable
          Class 1 (easily biodegradable chemical).
 class CategoryPersistent
          Class 2 (persistent chemical).
 

Uses of IDecisionCategory in eye.categories
 

Classes in eye.categories that implement IDecisionCategory
 class CategoryCorrosiveEye
          Assigned when compound is estimated to be corrosive to skin.
 class CategoryCorrosiveSkin
           
 class CategoryModerateIrritation2Eye
           
 class CategoryNotCorrosive2Eye
           
 class CategoryNotCorrosive2Skin
          Assigned when compound is estimated to be not corrosive to skin.
 class CategoryNotCorrosive2SkinAndIrritating2Eye
           
 class CategoryNotCorrosive2SkinEye
           
 class CategoryNotCorrosive2SkinOrIrritating2Eye
           
 class CategoryNotIrritating2Eye
          Assigned when compound is estimated to be not irritating to skin.
 class CategoryNotIrritatingOrCorrosive2Eye
          Assigned when compound is estimated to be not Irritating or corrosive to skin.
 

Uses of IDecisionCategory in mic.categories
 

Classes in mic.categories that implement IDecisionCategory
 class micronucleusClass1
           
 class micronucleusClass2
           
 

Uses of IDecisionCategory in michaelacceptors.categories
 

Classes in michaelacceptors.categories that implement IDecisionCategory
 class CategoryMichaelAcceptor
           
 

Uses of IDecisionCategory in mutant.categories
 

Classes in mutant.categories that implement IDecisionCategory
 class CategoryCarcinogen
           
 class CategoryError
           
 class CategoryMutagenTA100
           
 class CategoryNoGenotoxicAlert
           
 class CategoryNonMutagen
           
 class CategoryNoNongenotoxicAlert
           
 class CategoryNotCarcinogen
           
 class CategoryPositiveAlertGenotoxic
           
 class CategoryPositiveAlertNongenotoxic
           
 class MutantCategory
           
 class QSARApplicable
           
 

Methods in mutant.categories with parameters of type IDecisionCategory
 int MutantCategory.compareTo(IDecisionCategory o)
           
 

Uses of IDecisionCategory in mutant.rules
 

Methods in mutant.rules with parameters of type IDecisionCategory
protected  boolean MutantTreeResult.acceptCategory(IDecisionCategory category)
           
protected  void MutantTreeResult.removeCategory(IDecisionCategory category)
           
 

Uses of IDecisionCategory in sicret.categories
 

Classes in sicret.categories that implement IDecisionCategory
 class CategoryCorrosive
          Assigned when compound is estimated to be corrosive to skin.
 class CategoryIrritating
          Assigned when compound is estimated to be irritating to skin.
 class CategoryIrritatingOrCorrosive
          Assigned when compound is estimated to be irritating or corrosive to skin.
 class CategoryNotCorrosive
          Assigned when compound is estimated to be not corrosive to skin.
 class CategoryNotIrritating
          Assigned when compound is estimated to be not irritating to skin.
 class CategoryNotIrritatingOrCorrosive
          Assigned when compound is estimated to be not Irritating or corrosive to skin.
 class CategoryUnknown
          Assigned when SicretRules are not able to estimate skin irritation or corrosive potential.
 

Uses of IDecisionCategory in toxTree.apps.toxForest
 

Methods in toxTree.apps.toxForest with parameters of type IDecisionCategory
protected  void ToxForestDataModulePanel.viewCategory(IDecisionCategory category)
           
 

Uses of IDecisionCategory in toxTree.core
 

Methods in toxTree.core that return IDecisionCategory
 IDecisionCategory IDecisionCategoryEditor.edit(java.awt.Component owner, IDecisionCategory category)
           
 IDecisionCategory IDecisionResult.getCategory()
           
 IDecisionCategory IDecisionCategoryEditor.getCategory()
           
 IDecisionCategory IDecisionTransition.getCategory(boolean answer)
           
 IDecisionCategory IDecisionCategories.getCategory(IDecisionCategory key)
           
 IDecisionCategory IDecisionMethod.getCategory(IDecisionRule rule, boolean answer)
           
 IDecisionCategory IDecisionResult.getCategory(int index)
           
 

Methods in toxTree.core with parameters of type IDecisionCategory
 void IDecisionCategories.addCategory(IDecisionCategory category)
           
 IDecisionCategory IDecisionCategoryEditor.edit(java.awt.Component owner, IDecisionCategory category)
           
 IDecisionCategory IDecisionCategories.getCategory(IDecisionCategory key)
           
 void IDecisionResult.setCategory(IDecisionCategory classID)
           
 void IDecisionCategoryEditor.setCategory(IDecisionCategory category)
           
 void IDecisionCategories.setSelected(IDecisionCategory category)
           
 

Uses of IDecisionCategory in toxTree.data
 

Constructors in toxTree.data with parameters of type IDecisionCategory
CategoryFilter(java.lang.Object property, IDecisionCategory category)
           
 

Uses of IDecisionCategory in toxTree.exceptions
 

Fields in toxTree.exceptions declared as IDecisionCategory
protected  IDecisionCategory DRuleException.category2assign
           
 

Methods in toxTree.exceptions that return IDecisionCategory
 IDecisionCategory DRuleException.getCategory2assign()
           
 

Methods in toxTree.exceptions with parameters of type IDecisionCategory
 void DRuleException.setCategory2assign(IDecisionCategory category2assign)
           
 

Constructors in toxTree.exceptions with parameters of type IDecisionCategory
DRuleException(IDecisionCategory c, boolean answer)
           
DRuleException(java.lang.String message, IDecisionCategory c, boolean answer)
           
DRuleException(java.lang.String message, java.lang.Throwable cause, IDecisionCategory c, boolean answer)
           
DRuleException(java.lang.Throwable cause, IDecisionCategory c, boolean answer)
           
 

Uses of IDecisionCategory in toxtree.plugins.dnabinding.categories
 

Classes in toxtree.plugins.dnabinding.categories that implement IDecisionCategory
 class DNABindingCategory
           
 class SN1Alerts
          Substrate has structural alerts for Nucleophilic Aromatic Substitution
 

Uses of IDecisionCategory in toxtree.plugins.func.categories
 

Classes in toxtree.plugins.func.categories that implement IDecisionCategory
 class FuncCat1
           
 class FuncCat2
           
 

Uses of IDecisionCategory in toxtree.plugins.kroes.categories
 

Classes in toxtree.plugins.kroes.categories that implement IDecisionCategory
 class NegligibleRisk
           
 class NotASafetyConcern
          Substance would not be expected to be a safety concern
 class RequireCompoundSpecificToxicityData
           
 

Uses of IDecisionCategory in toxtree.plugins.lewis.categories
 

Classes in toxtree.plugins.lewis.categories that implement IDecisionCategory
 class CYP1A2
           
 class CYP2A
           
 class CYP2B
           
 class CYP2C
           
 class CYP2D
           
 class CYP2E
           
 class CYP3A4
           
 

Uses of IDecisionCategory in toxtree.plugins.moa.categories
 

Classes in toxtree.plugins.moa.categories that implement IDecisionCategory
 class CategoryAcetylcholinesteraseInhibitors
           
 class CategoryCentralNervousSystemSeizureAgents
           
 class CategoryElectrophileProelectrophileReactivity
           
 class CategoryNarcosis1
          Assigned when compound is estimated to be corrosive to skin.
 class CategoryNarcosis2
           
 class CategoryNarcosis3
           
 class CategoryOxidativePhosphorylationUncouplers
           
 

Uses of IDecisionCategory in toxtree.plugins.proteinbinding.categories
 

Classes in toxtree.plugins.proteinbinding.categories that implement IDecisionCategory
 class ProteinBindingCategory
           
 

Uses of IDecisionCategory in toxtree.plugins.search.categories
 

Classes in toxtree.plugins.search.categories that implement IDecisionCategory
 class Found
          Not found
 class NotFound
          Not found
 

Uses of IDecisionCategory in toxtree.plugins.skinsensitisation.categories
 

Classes in toxtree.plugins.skinsensitisation.categories that implement IDecisionCategory
 class AcylTransferAlerts
          Acyl transfer
 class MichaelAcceptors
          Michael Acceptors
 class NoAlerts
          No alerts
 class ShiffBaseAlerts
          Shiff base
 class SkinSensitisationCategory
           
 class SN2Alerts
          second order nucleophilic aliphatic substitution reaction
 class SNArAlerts
          Substrate has structural alerts for Nucleophilic Aromatic Substitution
 

Uses of IDecisionCategory in toxtree.plugins.smartcyp
 

Methods in toxtree.plugins.smartcyp with parameters of type IDecisionCategory
protected  boolean SMARTCypTreeResult.acceptCategory(IDecisionCategory category)
           
 

Uses of IDecisionCategory in toxtree.plugins.smartcyp.categories
 

Classes in toxtree.plugins.smartcyp.categories that implement IDecisionCategory
 class NoSites
           
 class SitesHigherRank
           
 class SitesRank1
           
 class SitesRank2
           
 class SitesRank3
           
 

Uses of IDecisionCategory in toxTree.tree
 

Classes in toxTree.tree that implement IDecisionCategory
 class DefaultCategory
          The default class implementing IDecisionCategory interface
 

Fields in toxTree.tree declared as IDecisionCategory
protected  IDecisionCategory[] DecisionNode.categories
           
protected  IDecisionCategory TreeResult.category
           
protected  IDecisionCategory RuleResult.category
           
protected  IDecisionCategory CategoriesList.selected
           
 

Fields in toxTree.tree with type parameters of type IDecisionCategory
protected  java.util.ArrayList<IDecisionCategory> CategoriesList.storage
           
 

Methods in toxTree.tree that return IDecisionCategory
 IDecisionCategory CategoriesList.get(int arg0)
           
 IDecisionCategory[] DecisionNode.getCategories()
           
 IDecisionCategory TreeResult.getCategory()
           
 IDecisionCategory RuleResult.getCategory()
           
 IDecisionCategory BatchDecisionResultsList.getCategory()
           
 IDecisionCategory DecisionNode.getCategory(boolean answer)
          returns the decision category at the branch No if answer==false or the category at the branch Yes if answer =true
 IDecisionCategory CategoriesList.getCategory(IDecisionCategory key)
           
 IDecisionCategory UserDefinedTree.getCategory(IDecisionRule rule, boolean answer)
           
 IDecisionCategory BatchDecisionResultsList.getCategory(IDecisionRule rule, boolean answer)
           
 IDecisionCategory TreeResult.getCategory(int index)
           
 IDecisionCategory BatchDecisionResultsList.getCategory(int index)
           
 IDecisionCategory UserDefinedTree.getCategory(int ruleId, boolean answer)
           
 IDecisionCategory CategoriesList.getSelected()
           
 IDecisionCategory CategoriesList.remove(int arg0)
           
 IDecisionCategory CategoriesList.set(int arg0, IDecisionCategory arg1)
           
 

Methods in toxTree.tree that return types with arguments of type IDecisionCategory
 java.util.Iterator<IDecisionCategory> CategoriesList.iterator()
           
 java.util.ListIterator<IDecisionCategory> CategoriesList.listIterator()
           
 java.util.ListIterator<IDecisionCategory> CategoriesList.listIterator(int arg0)
           
 java.util.List<IDecisionCategory> CategoriesList.subList(int arg0, int arg1)
           
 

Methods in toxTree.tree with parameters of type IDecisionCategory
protected  boolean TreeResult.acceptCategory(IDecisionCategory category)
           
 boolean CategoriesList.add(IDecisionCategory arg0)
           
 void CategoriesList.add(int arg0, IDecisionCategory arg1)
           
protected  void TreeResult.addCategory(IDecisionCategory category)
           
 void CategoriesList.addCategory(IDecisionCategory category)
           
 int DefaultCategory.compareTo(IDecisionCategory o)
           
 IDecisionCategory CategoriesList.getCategory(IDecisionCategory key)
           
 IDecisionCategory CategoriesList.set(int arg0, IDecisionCategory arg1)
           
 void DecisionNode.setCategories(IDecisionCategory[] categories)
           
 void MultiLabelDecisionNode.setCategory(boolean answer, IDecisionCategory category)
           
 void DecisionNode.setCategory(boolean answer, IDecisionCategory category)
          /** Sets the category at the branch No if answer==false or the category at the branch Yes if answer =true
 void TreeResult.setCategory(IDecisionCategory category)
           
 void RuleResult.setCategory(IDecisionCategory category)
           
 void BatchDecisionResultsList.setCategory(IDecisionCategory classID)
           
 void CategoriesList.setSelected(IDecisionCategory category)
           
 

Method parameters in toxTree.tree with type arguments of type IDecisionCategory
 void CategoriesList.setStorage(java.util.ArrayList<IDecisionCategory> storage)
           
 

Constructors in toxTree.tree with parameters of type IDecisionCategory
CategoriesList(IDecisionCategory[] classes)
           
CategoriesList(IDecisionCategory[] classes, boolean multilabel)
           
DecisionNode(IDecisionRule rule, DecisionNode nodeNo, DecisionNode nodeYes, IDecisionCategory categoryNo, IDecisionCategory categoryYes)
           
RuleResult(IDecisionRule rule, boolean result, IDecisionCategory category)
           
 

Uses of IDecisionCategory in toxTree.tree.categories
 

Classes in toxTree.tree.categories that implement IDecisionCategory
 class DefaultClass1
           
 class DefaultClass2
           
 

Uses of IDecisionCategory in toxTree.tree.cramer
 

Classes in toxTree.tree.cramer that implement IDecisionCategory
 class CramerClass1
          A DefaultCategory descendant, implementation of Cramer class 1 (see CramerRules)
 class CramerClass2
          A DefaultCategory descendant, implementation of Cramer class 2 (see CramerRules)
 class CramerClass3
          A DefaultCategory descendant, implementation of Cramer class 3 (see CramerRules)
 

Uses of IDecisionCategory in toxTree.ui
 

Methods in toxTree.ui with parameters of type IDecisionCategory
 IDecisionCategoryEditor IEditorFactory.createCategoryEditor(IDecisionCategory category)
           
 IDecisionCategoryEditor EditorFactory.createCategoryEditor(IDecisionCategory category)
           
 

Uses of IDecisionCategory in toxtree.ui.editors
 

Methods in toxtree.ui.editors with parameters of type IDecisionCategory
 IDecisionCategoryEditor SwingEditorFactory.createCategoryEditor(IDecisionCategory category)
           
 

Uses of IDecisionCategory in toxtree.ui.tree
 

Methods in toxtree.ui.tree that return IDecisionCategory
static IDecisionCategory SelectListDialog.selectNewCategory(java.awt.Component parent, java.lang.ClassLoader classLoader)
          Provides a list of names of the classes implementing IDecisionCategory If the user selects an object, the tree is created and returned
Uses Introspection.getAvailableCategoryTypes(ClassLoader)
 

Methods in toxtree.ui.tree with parameters of type IDecisionCategory
 void EditTreeActions.setCategory(IDecisionCategory category)
           
protected  void TreeEditorPanel.showCategory(IDecisionCategory c)
           
 

Uses of IDecisionCategory in toxtree.ui.tree.actions
 

Fields in toxtree.ui.tree.actions declared as IDecisionCategory
protected  IDecisionCategory EditCategoryAction.category
           
 

Methods in toxtree.ui.tree.actions that return IDecisionCategory
 IDecisionCategory ICategoryAction.getCategory()
           
 IDecisionCategory EditCategoryAction.getCategory()
           
 

Methods in toxtree.ui.tree.actions with parameters of type IDecisionCategory
 void ICategoryAction.setCategory(IDecisionCategory category)
           
 void EditCategoryAction.setCategory(IDecisionCategory category)
           
 

Uses of IDecisionCategory in toxtree.ui.tree.categories
 

Fields in toxtree.ui.tree.categories declared as IDecisionCategory
protected  IDecisionCategory CategoryPanel.category
           
 

Methods in toxtree.ui.tree.categories that return IDecisionCategory
 IDecisionCategory CategoryPanel.edit(java.awt.Component owner, IDecisionCategory category)
           
 IDecisionCategory CategoryPanel.getCategory()
           
 IDecisionCategory CategoriesTableModel.getCategory(int index)
           
 

Methods in toxtree.ui.tree.categories with parameters of type IDecisionCategory
 IDecisionCategory CategoryPanel.edit(java.awt.Component owner, IDecisionCategory category)
           
 void CategoryPanel.setCategory(IDecisionCategory category)
           
 

Constructors in toxtree.ui.tree.categories with parameters of type IDecisionCategory
CategoryPanel(IDecisionCategory category)
           
 

Uses of IDecisionCategory in verhaar.categories
 

Classes in verhaar.categories that implement IDecisionCategory
 class Class1BaselineToxicity
          Class 1 (narcosis or baseline toxicity).
 class Class2LessInertCompounds
          Class 2 (less inert compounds).
 class Class3UnspecificReactivity
          Class 3 (unspecific reactivity).
 class Class4SpecificMechanism
          Class 4 (compounds and groups of compounds acting by a specific mechanism).
 class Class5Unknown
          Class 5 Not possible to classify according to these rules.
 



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