Uses of Package
toxTree.tree.rules

Packages that use toxTree.tree.rules
cramer2.rules   
eye.rules The package contains implementations of IDecisionRule rules for SicretRules decision tree. 
mic.rules   
michaelacceptors.rules   
mutant.rules   
sicret.rules The package contains implementations of IDecisionRule rules for SicretRules decision tree. 
toxTree.tree.cramer Class CramerRules is the implementation of Cramer rules [Cramer et al,78]. 
toxTree.tree.rules The package contains several generic implementations of IDecisionRule rules 
toxtree.plugins.dnabinding.rules   
toxtree.plugins.func.rules   
toxtree.plugins.kroes.rules   
toxtree.plugins.lewis.rules   
toxtree.plugins.moa.rules   
toxtree.plugins.proteinbinding.rules   
toxtree.plugins.skinsensitisation.rules   
toxtree.tree.rules   
toxtree.ui Base classes for ToxTreeApp user interface 
toxtree.ui.editors   
toxtree.ui.tree.rules   
verhaar.rules The package contains implementations of IDecisionRule rules for VerhaarScheme decision tree. 
verhaar.rules.helper   
 

Classes in toxTree.tree.rules used by cramer2.rules
RuleReadilyHydrolised
          Verifies if a compound is readily hydrolised
 

Classes in toxTree.tree.rules used by eye.rules
RuleVerifyProperty
          Verifies if property is >, < or = to a RuleVerifyProperty.getProperty() value.
 

Classes in toxTree.tree.rules used by mic.rules
IAlertCounter
           
RuleAnySubstructure
          Verifies if the molecule has at least one substructure of the list
RuleAromatic
          Verifies if the molecule is aromatic by applying the Hueckel rule
RuleInitAlertCounter
           
RuleSubstructures
          An abstract class to implement substructure rules
RuleVerifyProperty
          Verifies if property is >, < or = to a RuleVerifyProperty.getProperty() value.
StructureAlert
           
StructureAlertCDK
           
 

Classes in toxTree.tree.rules used by michaelacceptors.rules
IAlertCounter
           
StructureAlertAmbit
           
 

Classes in toxTree.tree.rules used by mutant.rules
IAlertCounter
           
RuleAromatic
          Verifies if the molecule is aromatic by applying the Hueckel rule
RuleInitAlertCounter
           
RuleRings
           
RuleRingSubstituents
          A rule to analyze ring substituents
RuleSubstructures
          An abstract class to implement substructure rules
RuleVerifyAlertsCounter
           
RuleVerifyProperty
          Verifies if property is >, < or = to a RuleVerifyProperty.getProperty() value.
StructureAlert
           
StructureAlertAmbit
           
StructureAlertCDK
           
UserInputRule
           
 

Classes in toxTree.tree.rules used by sicret.rules
RuleAllAllowedElements
           
RuleAllSubstructures
          Verifies if all of the fragments are a substructure of moleclue
RuleAnySubstructure
          Verifies if the molecule has at least one substructure of the list
RuleElements
          Verifies if the molecule consists of only allowed elements
RuleSubstructures
          An abstract class to implement substructure rules
RuleVerifyProperty
          Verifies if property is >, < or = to a RuleVerifyProperty.getProperty() value.
 

Classes in toxTree.tree.rules used by toxTree.tree.cramer
RuleAnySubstituents
          Verifies if the molecule consists of only allowed substituents
RuleAnySubstructure
          Verifies if the molecule has at least one substructure of the list
RuleAromatic
          Verifies if the molecule is aromatic by applying the Hueckel rule
RuleCarbohydrate
          Verifies if the molecule is a carbohydrate
RuleCommonTerpene
          Verifies if the molecule is a common terpene
RuleElements
          Verifies if the molecule consists of only allowed elements
RuleHeterocyclic
          Verifies if the molecule is heterocyclic
RuleManyAromaticRings
          Verifies if there are many aromatic rings
RuleOnlyAllowedSubstructures
          Verifies if the structure contains only allowed substructures
RuleOpenChain
          Verifies if the moleucle is open chain
RuleReadilyHydrolised
          Verifies if a compound is readily hydrolised
RuleRingAllowedSubstituents
          A rule to analyze ring substituents
RuleRingOtherThanAllowedSubstituents
          A rule to analyze ring substituents
RuleRings
           
RuleRingSubstituents
          A rule to analyze ring substituents
RuleStructuresList
          A rule, which returns true if the query is isomorphic to one of the structures read from a preconfigured file of a type SDF, SMI, CSV
RuleSubstructures
          An abstract class to implement substructure rules
 

Classes in toxTree.tree.rules used by toxTree.tree.rules
IAlertCounter
           
ILookupFile
           
RuleDescriptor
          An abstract class to allow for descriptor analysis
RuleDescriptorRange
          Verifies if the descriptor is within a range
RuleElements
          Verifies if the molecule consists of only allowed elements
RuleInitAlertCounter
           
RuleRings
           
RuleRingSubstituents
          A rule to analyze ring substituents
RuleSubstructures
          An abstract class to implement substructure rules
RuleVerifyProperty
          Verifies if property is >, < or = to a RuleVerifyProperty.getProperty() value.
 

Classes in toxTree.tree.rules used by toxtree.plugins.dnabinding.rules
IAlertCounter
           
RuleInitAlertCounter
           
RuleVerifyAlertsCounter
           
RuleVerifyProperty
          Verifies if property is >, < or = to a RuleVerifyProperty.getProperty() value.
StructureAlert
           
 

Classes in toxTree.tree.rules used by toxtree.plugins.func.rules
IAlertCounter
           
RuleInitAlertCounter
           
RuleVerifyProperty
          Verifies if property is >, < or = to a RuleVerifyProperty.getProperty() value.
StructureAlert
           
StructureAlertCDK
           
 

Classes in toxTree.tree.rules used by toxtree.plugins.kroes.rules
RuleInitAlertCounter
           
RuleSubstructures
          An abstract class to implement substructure rules
RuleVerifyAlertsCounter
           
RuleVerifyProperty
          Verifies if property is >, < or = to a RuleVerifyProperty.getProperty() value.
 

Classes in toxTree.tree.rules used by toxtree.plugins.lewis.rules
RuleDescriptor
          An abstract class to allow for descriptor analysis
RuleDescriptorRange
          Verifies if the descriptor is within a range
 

Classes in toxTree.tree.rules used by toxtree.plugins.moa.rules
RuleInitAlertCounter
           
RuleVerifyAlertsCounter
           
RuleVerifyProperty
          Verifies if property is >, < or = to a RuleVerifyProperty.getProperty() value.
 

Classes in toxTree.tree.rules used by toxtree.plugins.proteinbinding.rules
IAlertCounter
           
RuleInitAlertCounter
           
RuleVerifyAlertsCounter
           
RuleVerifyProperty
          Verifies if property is >, < or = to a RuleVerifyProperty.getProperty() value.
StructureAlert
           
 

Classes in toxTree.tree.rules used by toxtree.plugins.skinsensitisation.rules
IAlertCounter
           
RuleInitAlertCounter
           
RuleVerifyAlertsCounter
           
RuleVerifyProperty
          Verifies if property is >, < or = to a RuleVerifyProperty.getProperty() value.
StructureAlert
           
 

Classes in toxTree.tree.rules used by toxtree.tree.rules
UserInputRule
           
 

Classes in toxTree.tree.rules used by toxtree.ui
RuleVerifyProperty
          Verifies if property is >, < or = to a RuleVerifyProperty.getProperty() value.
 

Classes in toxTree.tree.rules used by toxtree.ui.editors
RuleDescriptorRange
          Verifies if the descriptor is within a range
RuleManyAromaticRings
          Verifies if there are many aromatic rings
RuleMolecularMassRange
          Molecular mass in [RuleDescriptorRange.getMinValue(),RuleDescriptorRange.getMaxValue()] TODO add description
RuleStructuresList
          A rule, which returns true if the query is isomorphic to one of the structures read from a preconfigured file of a type SDF, SMI, CSV
RuleSubstructures
          An abstract class to implement substructure rules
RuleVerifyProperty
          Verifies if property is >, < or = to a RuleVerifyProperty.getProperty() value.
 

Classes in toxTree.tree.rules used by toxtree.ui.tree.rules
RuleStructuresList
          A rule, which returns true if the query is isomorphic to one of the structures read from a preconfigured file of a type SDF, SMI, CSV
RuleVerifyProperty
          Verifies if property is >, < or = to a RuleVerifyProperty.getProperty() value.
 

Classes in toxTree.tree.rules used by verhaar.rules
IAlertCounter
           
RuleDescriptor
          An abstract class to allow for descriptor analysis
RuleDescriptorRange
          Verifies if the descriptor is within a range
RuleElements
          Verifies if the molecule consists of only allowed elements
RuleInitAlertCounter
           
RuleMolecularMassRange
          Molecular mass in [RuleDescriptorRange.getMinValue(),RuleDescriptorRange.getMaxValue()] TODO add description
RuleOnlyAllowedSubstructures
          Verifies if the structure contains only allowed substructures
RuleOpenChain
          Verifies if the moleucle is open chain
RuleRingAllowedSubstituents
          A rule to analyze ring substituents
RuleRings
           
RuleRingSubstituents
          A rule to analyze ring substituents
RuleSubstructures
          An abstract class to implement substructure rules
RuleVerifyAlertsCounter
           
RuleVerifyProperty
          Verifies if property is >, < or = to a RuleVerifyProperty.getProperty() value.
StructureAlert
           
 

Classes in toxTree.tree.rules used by verhaar.rules.helper
IAlertCounter
           
RuleAnySubstructure
          Verifies if the molecule has at least one substructure of the list
RuleElements
          Verifies if the molecule consists of only allowed elements
RuleOnlyAllowedSubstructures
          Verifies if the structure contains only allowed substructures
RuleSubstructures
          An abstract class to implement substructure rules
 



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