public class GoAnnotationPredictionRule extends AbstractAnnotationRule
Modifier and Type | Field and Description |
---|---|
static String |
PERMANENT_JAVA_ID
The string to identify this class in the annotation_qc.xml and related factories.
|
Constructor and Description |
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GoAnnotationPredictionRule(OWLGraphWrapper source) |
Modifier and Type | Method and Description |
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List<Prediction> |
getPredictedAnnotations(GafDocument gafDoc,
OWLGraphWrapper graph)
Given a whole
GafDocument in plan and OWL format, check for
possible new inferred annotations (Prediction ). |
Set<AnnotationRuleViolation> |
getRuleViolations(GeneAnnotation a)
Given an annotation, find the set of violations using the rule
|
boolean |
isAnnotationLevel() |
boolean |
isInferringAnnotations() |
getDate, getDescription, getGrandFatheringDate, getName, getRuleId, getRuleViolations, getRuleViolations, getStatus, hasGrandFathering, isDocumentLevel, isOwlDocumentLevel, setDate, setDescription, setGrandFatheringDate, setName, setRuleId, setStatus
public static final String PERMANENT_JAVA_ID
public GoAnnotationPredictionRule(OWLGraphWrapper source)
public Set<AnnotationRuleViolation> getRuleViolations(GeneAnnotation a)
AnnotationRule
getRuleViolations
in interface AnnotationRule
getRuleViolations
in class AbstractAnnotationRule
a
- annotationAnnotationRule.isAnnotationLevel()
public boolean isAnnotationLevel()
isAnnotationLevel
in interface AnnotationRule
isAnnotationLevel
in class AbstractAnnotationRule
GeneAnnotation
.AnnotationRule.getRuleViolations(GeneAnnotation)
public List<Prediction> getPredictedAnnotations(GafDocument gafDoc, OWLGraphWrapper graph)
AnnotationRule
GafDocument
in plan and OWL format, check for
possible new inferred annotations (Prediction
).getPredictedAnnotations
in interface AnnotationRule
getPredictedAnnotations
in class AbstractAnnotationRule
public boolean isInferringAnnotations()
isInferringAnnotations
in interface AnnotationRule
isInferringAnnotations
in class AbstractAnnotationRule
AnnotationRule.getPredictedAnnotations(GafDocument, OWLGraphWrapper)
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