Class VariantTypeCounters

java.lang.Object
org.snpsift.annotate.mem.variantTypeCounter.VariantTypeCounters

public class VariantTypeCounters extends Object
Variant type counters for each chromosome
  • Constructor Details

    • VariantTypeCounters

      public VariantTypeCounters(boolean verbose)
    • VariantTypeCounters

      public VariantTypeCounters(Fields fields, boolean verbose)
  • Method Details

    • load

      public static VariantTypeCounters load(String fileName)
      Load from file
    • count

      public void count(String vcfFileName)
      Count the number of variants in a VCF file
    • count

      public void count(org.snpeff.fileIterator.VcfFileIterator vcfFile)
    • count

      public void count(org.snpeff.vcf.VcfEntry vcfEntry)
      Count the number of variants in a VCF file
    • get

      public VariantTypeCounter get(String chr)
    • getFields

      public Fields getFields()
    • save

      public void save(String fileName)
    • setVerbose

      public void setVerbose(boolean verbose)
    • toString

      public String toString()
      Overrides:
      toString in class Object