Package org.snpeff.nextProt
Class NextProtXmlAnnotation
java.lang.Object
org.snpeff.nextProt.NextProtXmlNode
org.snpeff.nextProt.NextProtXmlAnnotation
Mimics the 'annotation' tag in a NextProt XML file
- Author:
- Pablo Cingolani
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Constructor Summary
Constructors -
Method Summary
Modifier and TypeMethodDescriptionvoid
addMarkers
(NextProtMarkerFactory markersFactory) Create all markers for this annotationboolean
boolean
isEmpty()
void
locationBeginPos
(Attributes attributes) void
End of location tagvoid
locationEndPos
(Attributes attributes) void
locationIsoformStart
(String accession) void
locationStart
(Attributes attributes) name()
Return an annotation "name" Clean up characters to make them compatible with VCF annotationsvoid
void
setDescription
(String description) toString()
Methods inherited from class org.snpeff.nextProt.NextProtXmlNode
getAccession
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Constructor Details
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NextProtXmlAnnotation
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Method Details
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addMarkers
Create all markers for this annotation -
description
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getCategory
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getCvTerm
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setCvTerm
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getDescription
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setDescription
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getLocations
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hasCvTerm
public boolean hasCvTerm() -
isEmpty
public boolean isEmpty() -
locationBeginPos
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locationEnd
public void locationEnd()End of location tag -
locationEndPos
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locationIsoformStart
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locationStart
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name
Return an annotation "name" Clean up characters to make them compatible with VCF annotations -
toString
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toString
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