Class GenotypeQualityFilter

  • All Implemented Interfaces:
    GenotypeFilter

    public class GenotypeQualityFilter
    extends Object
    implements GenotypeFilter
    Genotype filter that filters out genotypes below a given quality threshold.
    • Constructor Detail

      • GenotypeQualityFilter

        public GenotypeQualityFilter​(int minGq)
    • Method Detail

      • filter

        public String filter​(htsjdk.variant.variantcontext.VariantContext ctx,
                             htsjdk.variant.variantcontext.Genotype gt)
        Description copied from interface: GenotypeFilter
        Test whether or not the genotype should be filtered out. If so return a filter string, otherwise return null.
        Specified by:
        filter in interface GenotypeFilter