Uses of Interface
toxTree.core.IDecisionCategory

Packages that use IDecisionCategory

Package	Description
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.ames.categories
toxtree.plugins.ames.rules
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

Modifier and Type	Class and Description
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

Modifier and Type	Class and Description
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

Modifier and Type	Class and Description
class	micronucleusClass1
class	micronucleusClass2

Uses of IDecisionCategory in michaelacceptors.categories

Classes in michaelacceptors.categories that implement IDecisionCategory

Modifier and Type	Class and Description
class	CategoryMichaelAcceptor

Uses of IDecisionCategory in mutant.categories

Classes in mutant.categories that implement IDecisionCategory

Modifier and Type	Class and Description
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

Modifier and Type	Method and Description
int	MutantCategory.compareTo(IDecisionCategory o)

Uses of IDecisionCategory in mutant.rules

Methods in mutant.rules with parameters of type IDecisionCategory

Modifier and Type	Method and Description
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

Modifier and Type	Class and Description
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

Modifier and Type	Method and Description
protected void	ToxForestDataModulePanel.viewCategory(IDecisionCategory category)

Uses of IDecisionCategory in toxTree.core

Methods in toxTree.core that return IDecisionCategory

Modifier and Type	Method and Description
IDecisionCategory	IDecisionCategoryEditor.edit(Component owner, IDecisionCategory category)
IDecisionCategory	IDecisionCategoryEditor.getCategory()
IDecisionCategory	IDecisionResult.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

Modifier and Type	Method and Description
void	IDecisionCategories.addCategory(IDecisionCategory category)
IDecisionCategory	IDecisionCategoryEditor.edit(Component owner, IDecisionCategory category)
IDecisionCategory	IDecisionCategories.getCategory(IDecisionCategory key)
void	IDecisionCategoryEditor.setCategory(IDecisionCategory category)
void	IDecisionResult.setCategory(IDecisionCategory classID)
void	IDecisionCategories.setSelected(IDecisionCategory category)

Uses of IDecisionCategory in toxTree.data

Constructors in toxTree.data with parameters of type IDecisionCategory

Constructor and Description
CategoryFilter(Object property, IDecisionCategory category)

Uses of IDecisionCategory in toxTree.exceptions

Fields in toxTree.exceptions declared as IDecisionCategory

Modifier and Type	Field and Description
protected IDecisionCategory	DRuleException.category2assign

Methods in toxTree.exceptions that return IDecisionCategory

Modifier and Type	Method and Description
IDecisionCategory	DRuleException.getCategory2assign()

Methods in toxTree.exceptions with parameters of type IDecisionCategory

Modifier and Type	Method and Description
void	DRuleException.setCategory2assign(IDecisionCategory category2assign)

Constructors in toxTree.exceptions with parameters of type IDecisionCategory

Constructor and Description
DRuleException(IDecisionCategory c, boolean answer)
DRuleException(String message, IDecisionCategory c, boolean answer)
DRuleException(String message, Throwable cause, IDecisionCategory c, boolean answer)
DRuleException(Throwable cause, IDecisionCategory c, boolean answer)

Uses of IDecisionCategory in toxtree.plugins.ames.categories

Classes in toxtree.plugins.ames.categories that implement IDecisionCategory

Modifier and Type	Class and Description
class	AmesMutagenicityCategory
class	CategoryNoAlertAmes
class	CategoryPositiveAlertAmes

Methods in toxtree.plugins.ames.categories with parameters of type IDecisionCategory

Modifier and Type	Method and Description
int	AmesMutagenicityCategory.compareTo(IDecisionCategory o)

Uses of IDecisionCategory in toxtree.plugins.ames.rules

Methods in toxtree.plugins.ames.rules with parameters of type IDecisionCategory

Modifier and Type	Method and Description
protected boolean	AmesMutagenicityTreeResult.acceptCategory(IDecisionCategory category)
protected void	AmesMutagenicityTreeResult.removeCategory(IDecisionCategory category)

Uses of IDecisionCategory in toxtree.plugins.dnabinding.categories

Classes in toxtree.plugins.dnabinding.categories that implement IDecisionCategory

Modifier and Type	Class and Description
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

Modifier and Type	Class and Description
class	FuncCat1
class	FuncCat2

Uses of IDecisionCategory in toxtree.plugins.kroes.categories

Classes in toxtree.plugins.kroes.categories that implement IDecisionCategory

Modifier and Type	Class and Description
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

Modifier and Type	Class and Description
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

Modifier and Type	Class and Description
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

Modifier and Type	Class and Description
class	ProteinBindingCategory

Uses of IDecisionCategory in toxtree.plugins.search.categories

Classes in toxtree.plugins.search.categories that implement IDecisionCategory

Modifier and Type	Class and Description
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

Modifier and Type	Class and Description
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

Modifier and Type	Method and Description
protected boolean	SMARTCypTreeResult.acceptCategory(IDecisionCategory category)

Uses of IDecisionCategory in toxtree.plugins.smartcyp.categories

Classes in toxtree.plugins.smartcyp.categories that implement IDecisionCategory

Modifier and Type	Class and Description
class	NoSites
class	SitesHigherRank
class	SitesRank1
class	SitesRank2
class	SitesRank3

Uses of IDecisionCategory in toxTree.tree

Classes in toxTree.tree that implement IDecisionCategory

Modifier and Type	Class and Description
class	DefaultCategory The default class implementing IDecisionCategory interface
class	NonToxicCategory A non toxic category
class	ToxicCategory A toxic category

Fields in toxTree.tree declared as IDecisionCategory

Modifier and Type	Field and Description
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

Modifier and Type	Field and Description
protected ArrayList<IDecisionCategory>	CategoriesList.storage

Methods in toxTree.tree that return IDecisionCategory

Modifier and Type	Method and Description
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

Modifier and Type	Method and Description
Iterator<IDecisionCategory>	CategoriesList.iterator()
ListIterator<IDecisionCategory>	CategoriesList.listIterator()
ListIterator<IDecisionCategory>	CategoriesList.listIterator(int arg0)
List<IDecisionCategory>	CategoriesList.subList(int arg0, int arg1)

Methods in toxTree.tree with parameters of type IDecisionCategory

Modifier and Type	Method and Description
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

Modifier and Type	Method and Description
void	CategoriesList.setStorage(ArrayList<IDecisionCategory> storage)

Constructors in toxTree.tree with parameters of type IDecisionCategory

Constructor and Description
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

Modifier and Type	Class and Description
class	DefaultClass1
class	DefaultClass2

Uses of IDecisionCategory in toxTree.tree.cramer

Classes in toxTree.tree.cramer that implement IDecisionCategory

Modifier and Type	Class and Description
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

Modifier and Type	Method and Description
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

Modifier and Type	Method and Description
IDecisionCategoryEditor	SwingEditorFactory.createCategoryEditor(IDecisionCategory category)

Uses of IDecisionCategory in toxtree.ui.tree

Methods in toxtree.ui.tree that return IDecisionCategory

Modifier and Type	Method and Description
static IDecisionCategory	SelectListDialog.selectNewCategory(Component parent, 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

Modifier and Type	Method and Description
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

Modifier and Type	Field and Description
protected IDecisionCategory	EditCategoryAction.category

Methods in toxtree.ui.tree.actions that return IDecisionCategory

Modifier and Type	Method and Description
IDecisionCategory	EditCategoryAction.getCategory()
IDecisionCategory	ICategoryAction.getCategory()

Methods in toxtree.ui.tree.actions with parameters of type IDecisionCategory

Modifier and Type	Method and Description
void	EditCategoryAction.setCategory(IDecisionCategory category)
void	ICategoryAction.setCategory(IDecisionCategory category)

Uses of IDecisionCategory in toxtree.ui.tree.categories

Fields in toxtree.ui.tree.categories declared as IDecisionCategory

Modifier and Type	Field and Description
protected IDecisionCategory	CategoryPanel.category

Methods in toxtree.ui.tree.categories that return IDecisionCategory

Modifier and Type	Method and Description
IDecisionCategory	CategoryPanel.edit(Component owner, IDecisionCategory category)
IDecisionCategory	CategoryPanel.getCategory()
IDecisionCategory	CategoriesTableModel.getCategory(int index)

Methods in toxtree.ui.tree.categories with parameters of type IDecisionCategory

Modifier and Type	Method and Description
IDecisionCategory	CategoryPanel.edit(Component owner, IDecisionCategory category)
void	CategoryPanel.setCategory(IDecisionCategory category)

Constructors in toxtree.ui.tree.categories with parameters of type IDecisionCategory

Constructor and Description
CategoryPanel(IDecisionCategory category)

Uses of IDecisionCategory in verhaar.categories

Classes in verhaar.categories that implement IDecisionCategory

Modifier and Type	Class and Description
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.