Class VariantCounter


  • public class VariantCounter
    extends java.lang.Object
    A counnter for genotypes
    Author:
    pcingola
    • Constructor Detail

      • VariantCounter

        public VariantCounter​(int size)
    • Method Detail

      • addEffect

        public void addEffect​(java.lang.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 java.lang.String toString()
        Overrides:
        toString in class java.lang.Object