Enum DiploidGenotype

  • All Implemented Interfaces:
    Serializable, Comparable<DiploidGenotype>

    public enum DiploidGenotype
    extends Enum<DiploidGenotype>
    A genotype produced by one of the concrete implementations of AbstractAlleleCaller. DO NOT ADD TO OR REORDER THIS ENUM AS THAT WOULD BREAK THE GELI FILE FORMAT.
    • Method Detail

      • values

        public static DiploidGenotype[] values()
        Returns an array containing the constants of this enum type, in the order they are declared. This method may be used to iterate over the constants as follows:
        for (DiploidGenotype c : DiploidGenotype.values())
            System.out.println(c);
        
        Returns:
        an array containing the constants of this enum type, in the order they are declared
      • valueOf

        public static DiploidGenotype valueOf​(String name)
        Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (Extraneous whitespace characters are not permitted.)
        Parameters:
        name - the name of the enum constant to be returned.
        Returns:
        the enum constant with the specified name
        Throws:
        IllegalArgumentException - if this enum type has no constant with the specified name
        NullPointerException - if the argument is null
      • fromBases

        public static DiploidGenotype fromBases​(byte[] bases)
        Converts a pair of bases into a DiploidGenotype regardless of base order or case
      • fromBases

        public static DiploidGenotype fromBases​(byte base1,
                                                byte base2)
        Converts a pair of bases into a DiploidGenotype regardless of base order or case
      • isValidBase

        public static boolean isValidBase​(byte base)
        Returns:
        true if this is a valid base, i.e. one of [ACGTacgt]
      • getAllele1

        public byte getAllele1()
      • getAllele2

        public byte getAllele2()
      • isHeterozygous

        public boolean isHeterozygous()
      • isHomomozygous

        public boolean isHomomozygous()