TargetOrdering

Value Members

1. final def !=(arg0: Any): Boolean

   

   Definition Classes

   AnyRef → Any

2. final def ##(): Int

   

   Definition Classes

   AnyRef → Any

3. final def ==(arg0: Any): Boolean

   

   Definition Classes

   AnyRef → Any

4. final def asInstanceOf[T0]: T0

   

   Definition Classes

   Any

5. def clone(): AnyRef

   

   Attributes

   protected[java.lang]

   Definition Classes

   AnyRef

   Annotations

   @throws( ... )

6. def compare(a: IndelRealignmentTarget, b: IndelRealignmentTarget): Int

   

   Order two indel realignment targets by earlier starting position.

   Order two indel realignment targets by earlier starting position.

   a

   Indel realignment target to compare.

   b

   Indel realignment target to compare.

   returns

   Comparison done by starting position.

   Definition Classes

   TargetOrdering → Ordering → Comparator

7. def contains(target: IndelRealignmentTarget, read: AlignmentRecord): Boolean

   

   Check to see if an indel realignment target contains the given read.

   Check to see if an indel realignment target contains the given read.

   target

   Realignment target to compare.

   read

   Read to compare.

   returns

   True if read alignment is contained in target span.

8. final def eq(arg0: AnyRef): Boolean

   

   Definition Classes

   AnyRef

9. def equals(arg0: Any): Boolean

   

   Definition Classes

   AnyRef → Any

10. def equiv(x: IndelRealignmentTarget, y: IndelRealignmentTarget): Boolean

    

    Definition Classes

    Ordering → PartialOrdering → Equiv

11. def finalize(): Unit

    

    Attributes

    protected[java.lang]

    Definition Classes

    AnyRef

    Annotations

    @throws( classOf[java.lang.Throwable] )

12. final def getClass(): Class[_]

    

    Definition Classes

    AnyRef → Any

13. def gt(x: IndelRealignmentTarget, y: IndelRealignmentTarget): Boolean

    

    Definition Classes

    Ordering → PartialOrdering

14. def gteq(x: IndelRealignmentTarget, y: IndelRealignmentTarget): Boolean

    

    Definition Classes

    Ordering → PartialOrdering

15. def hashCode(): Int

    

    Definition Classes

    AnyRef → Any

16. final def isInstanceOf[T0]: Boolean

    

    Definition Classes

    Any

17. def lt(target: IndelRealignmentTarget, read: RichAlignmentRecord): Boolean

    

    Compares a read to an indel realignment target to see if it starts before the start of the indel realignment target.

    Compares a read to an indel realignment target to see if it starts before the start of the indel realignment target.

    target

    Realignment target to compare.

    read

    Read to compare.

    returns

    True if start of read is before the start of the indel alignment target.

18. def lt(x: IndelRealignmentTarget, y: IndelRealignmentTarget): Boolean

    

    Definition Classes

    Ordering → PartialOrdering

19. def lteq(x: IndelRealignmentTarget, y: IndelRealignmentTarget): Boolean

    

    Definition Classes

    Ordering → PartialOrdering

20. def max(x: IndelRealignmentTarget, y: IndelRealignmentTarget): IndelRealignmentTarget

    

    Definition Classes

    Ordering

21. def min(x: IndelRealignmentTarget, y: IndelRealignmentTarget): IndelRealignmentTarget

    

    Definition Classes

    Ordering

22. implicit def mkOrderingOps(lhs: IndelRealignmentTarget): Ops

    

    Definition Classes

    Ordering

23. final def ne(arg0: AnyRef): Boolean

    

    Definition Classes

    AnyRef

24. final def notify(): Unit

    

    Definition Classes

    AnyRef

25. final def notifyAll(): Unit

    

    Definition Classes

    AnyRef

26. def on[U](f: (U) ⇒ IndelRealignmentTarget): Ordering[U]

    

    Definition Classes

    Ordering

27. def overlap(a: IndelRealignmentTarget, b: IndelRealignmentTarget): Boolean

    

    Compares two indel realignment targets to see if they overlap.

    Compares two indel realignment targets to see if they overlap.

    a

    Indel realignment target to compare.

    b

    Indel realignment target to compare.

    returns

    True if two targets overlap.

28. def reverse: Ordering[IndelRealignmentTarget]

    

    Definition Classes

    Ordering → PartialOrdering

29. final def synchronized[T0](arg0: ⇒ T0): T0

    

    Definition Classes

    AnyRef

30. def toString(): String

    

    Definition Classes

    AnyRef → Any

31. def tryCompare(x: IndelRealignmentTarget, y: IndelRealignmentTarget): Some[Int]

    

    Definition Classes

    Ordering → PartialOrdering

32. final def wait(): Unit

    

    Definition Classes

    AnyRef

    Annotations

    @throws( ... )

33. final def wait(arg0: Long, arg1: Int): Unit

    

    Definition Classes

    AnyRef

    Annotations

    @throws( ... )

34. final def wait(arg0: Long): Unit

    

    Definition Classes

    AnyRef

    Annotations

    @throws( ... )