Uses of Interface
owltools.gaf.rules.AnnotationRule

Packages that use AnnotationRule
owltools.gaf.rules   
owltools.gaf.rules.go   
 

Uses of AnnotationRule in owltools.gaf.rules
 

Classes in owltools.gaf.rules that implement AnnotationRule
 class AbstractAnnotationRule
           
 class AnnotationRegularExpressionFromXMLRule
          This class implements execution of the regular expression rules.
 class AnnotationTaxonRule
          Checks if an annotation is valid according to taxon constraints.
 class GenericReasonerValidationCheck
          This check using the ElkReasoner will not detect unsatisfiable classes, which result from inverse_of object properties.
 

Methods in owltools.gaf.rules that return AnnotationRule
protected  AnnotationRule AnnotationRulesFactoryImpl.getClassForName(String className)
           
 AnnotationRule AnnotationRulesEngine.getRule(String id)
          Retrieve the corresponding rule for a given rule id.
 

Methods in owltools.gaf.rules that return types with arguments of type AnnotationRule
 List<AnnotationRule> AnnotationRulesFactoryImpl.getGafDocumentRules()
           
 List<AnnotationRule> AnnotationRulesFactory.getGafDocumentRules()
          Get the list of rules, which require a global view of the GAF (GafDocument).
 List<AnnotationRule> AnnotationRulesFactoryImpl.getGeneAnnotationRules()
           
 List<AnnotationRule> AnnotationRulesFactory.getGeneAnnotationRules()
          Get the list of rules to be applied for each GeneAnnotation
 List<AnnotationRule> AnnotationRulesFactoryImpl.getOwlRules()
           
 List<AnnotationRule> AnnotationRulesFactory.getOwlRules()
          Get the list of rules, which require a global view of the GAF (GafDocument) and OWL.
 

Uses of AnnotationRule in owltools.gaf.rules.go
 

Classes in owltools.gaf.rules.go that implement AnnotationRule
 class BasicChecksRule
          This class performs basic checks.
 class GoAnnotationTaxonRule
          Checks if an annotation is valid according to GO taxon constraints.
 class GoBindingCheckWithFieldRule
          GO_AR:0000003
 class GoClassReferenceAnnotationRule
          Checks to see if an annotation uses a class that is not in the current ontology, and that the class has not been obsoleted
 class GoICAnnotationRule
          GO_AR:0000016
 class GoIDAAnnotationRule
          GO_AR:0000017
 class GoIEPRestrictionsRule
          GO_AR:0000006
 class GoIPIAnnotationRule
          GO_AR:0000018
 class GoIPICatalyticActivityRestrictionsRule
          GO_AR:0000007
 class GoMultipleTaxonRule
          GO_AR:0000015
 class GoNDAnnotationRule
          GO_AR:0000011
 class GoNoISSProteinBindingRule
          GO_AR:0000005
 class GOReciprocalAnnotationRule
          GO_AR:0000004
 

Methods in owltools.gaf.rules.go that return AnnotationRule
protected  AnnotationRule GoAnnotationRulesFactoryImpl.getClassForName(String className)
           
 



Copyright © 2010-2012. All Rights Reserved.