Enum Class Transition

java.lang.Object
java.lang.Enum<Transition>
picard.analysis.artifacts.Transition
All Implemented Interfaces:
Serializable, Comparable<Transition>, Constable

public enum Transition extends Enum<Transition>
Enum representation of a transition from one base to any other.
  • Enum Constant Details

  • Field Details

    • baseIndexMap

      protected static final int[] baseIndexMap
  • Method Details

    • values

      public static Transition[] values()
      Returns an array containing the constants of this enum class, in the order they are declared.
      Returns:
      an array containing the constants of this enum class, in the order they are declared
    • valueOf

      public static Transition valueOf(String name)
      Returns the enum constant of this class with the specified name. The string must match exactly an identifier used to declare an enum constant in this class. (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 class has no constant with the specified name
      NullPointerException - if the argument is null
    • transitionOf

      public static Transition transitionOf(char ref, char call)
      Gets a the enum representing the transition from a 'reference' to a 'call' base.

      For example, a transtion from 'A' to 'T' would return AtoT.

      Parameters:
      ref - reference base (one of of {A, C, T, G}).
      call - call base (one of of {A, C, T, G}).
      Returns:
      enum representation for the transition.
    • altValues

      public static Transition[] altValues()
      Like values(), but ignores the ref:ref "transitions".
    • complement

      public Transition complement()
      Return the complementary transition. Both ref and call must be complemented.
    • ref

      public char ref()
      Gets the reference for the transition.
    • call

      public char call()
      Gets the call for the transition.
    • toString

      public String toString()
      Overrides:
      toString in class Enum<Transition>