Package org.snpsift.caseControl

Class VariantCounter

java.lang.Object
org.snpsift.caseControl.VariantCounter
public class VariantCounter extends Object
A counnter for genotypes
Author:
pcingola

  • Constructor Details

    • VariantCounter

      public VariantCounter(int size)

  • Method Details

    • addEffect

      public void addEffect(String effStr)

    • countNonZeroGenotypes

      public int countNonZeroGenotypes()

    • getGenotype

      public int getGenotype(int idx)

    • incGenotype

      public void incGenotype(int idx)

    • incGenotype

      public void incGenotype(int idx, int value)

    • parseGenotypes

      public void parseGenotypes(org.snpeff.vcf.VcfEntry ve)
      Update genotype counts
      Parameters:
      ve -

    • setGenotype

      public void setGenotype(int idx, int value)

    • toString

      public String toString()
      Overrides:
      toString in class Object