Package org.snpsift.lang.expression
Class FieldEff
java.lang.Object
org.snpsift.lang.expression.Expression
org.snpsift.lang.expression.Field
org.snpsift.lang.expression.FieldSub
org.snpsift.lang.expression.FieldEff
An 'EFF' field form SnpEff:
E.g.: 'EFF[2].GENE'
- Author:
- pablocingolani
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Field Summary
Fields inherited from class org.snpsift.lang.expression.Field
exceptionIfNotFound, name, number, returnType, TYPE_ALL, TYPE_ANY, vcfInfo, vcfInfoNumber
Fields inherited from class org.snpsift.lang.expression.Expression
debug, negated, operator
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Constructor Summary
ConstructorsConstructorDescriptionFieldEff
(String name, Expression idxExpr, org.snpeff.vcf.EffFormatVersion formatVersion, String fieldName) Constructor -
Method Summary
Modifier and TypeMethodDescriptiongetFieldString
(org.snpeff.vcf.VcfEntry vcfEntry) Get a field from VcfEntrygetName()
org.snpeff.vcf.VcfInfoType
getReturnType
(org.snpeff.vcf.VcfEntry vcfEntry) toString()
Methods inherited from class org.snpsift.lang.expression.FieldSub
evalIndex, evalIndex, evalIndex, evalIndex, getFieldString, isSub
Methods inherited from class org.snpsift.lang.expression.Field
eval, eval, fieldHeaderNotFound, fieldNotFound, getReturnType, getSampleNum, gtFieldNotFound, indexStr, isSampleName, returnType, returnType, setExceptionIfNotFound
Methods inherited from class org.snpsift.lang.expression.Expression
setNegated
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Constructor Details
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FieldEff
public FieldEff(String name, Expression idxExpr, org.snpeff.vcf.EffFormatVersion formatVersion, String fieldName) Constructor- Parameters:
formatVersion
- : Can be null (it will be guessed)
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Method Details