Package org.snpsift.lang.expression

Class FieldSub

java.lang.Object
org.snpsift.lang.expression.Expression
org.snpsift.lang.expression.Field
org.snpsift.lang.expression.FieldSub
Direct Known Subclasses:
FieldEff, FieldGenotype, FieldLof
public class FieldSub extends Field
A field that has sub fields (e.g. comma separated list of parameters): E.g.: 'AF1[2]'
Author:
pablocingolani

  • Constructor Details

  • Method Details

    • evalIndex

      protected int evalIndex(org.snpeff.vcf.VcfEntry vcfEntry)
      Evaluate index expression

    • evalIndex

      protected int evalIndex(org.snpeff.vcf.VcfEntry vcfEntry, Expression idxExpr)
      Evaluate index expression (VCF entry)

    • evalIndex

      protected int evalIndex(org.snpeff.vcf.VcfGenotype vcfGenotype)
      Evaluate index expression (VCF genotype)

    • evalIndex

      protected int evalIndex(org.snpeff.vcf.VcfGenotype vcfGenotype, Expression idxExpr)
      Evaluate index expression (VCF genotype)

    • getFieldString

      public String getFieldString(org.snpeff.vcf.VcfEntry vcfEntry)
      Get a field from VcfEntry

    • getFieldString

      public String getFieldString(org.snpeff.vcf.VcfGenotype vcfGenotype)
      Get a field from VcfEntry
      Overrides:
      getFieldString in class Field

    • isSub

      protected boolean isSub()
      Overrides:
      isSub in class Field

    • toString

      public String toString()
      Overrides:
      toString in class Field