Contig

Value Members

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

   Definition Classes

   AnyRef

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

   Definition Classes

   Any

3. final def ##(): Int

   Definition Classes

   AnyRef → Any

4. final def ==(arg0: AnyRef): Boolean

   Definition Classes

   AnyRef

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

   Definition Classes

   Any

6. final def asInstanceOf[T0]: T0

   Definition Classes

   Any

7. lazy val asMap: SortedMap[Interval, T]

   This map as a regular scala immutable map from exclusive numeric ranges to values.

8. def clone(): AnyRef

   Attributes

   protected[java.lang]

   Definition Classes

   AnyRef

   Annotations

   @throws( ... )

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

   Definition Classes

   AnyRef

10. def finalize(): Unit

    Attributes

    protected[java.lang]

    Definition Classes

    AnyRef

    Annotations

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

11. def get(locus: Locus): Option[T]

    Get the value associated with the given locus.

    Get the value associated with the given locus. Returns Some(value) if the given locus is in this map, None otherwise.

12. def getAll(start: Locus, end: Locus): Set[T]

    Given a loci interval, return the set of all values mapped to by any loci in the interval.

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

    Definition Classes

    AnyRef → Any

14. lazy val inverse: Map[T, set.Contig]

    Map from each value found in this Contig to a LociSet Contig representing the loci that map to that value.

15. final def isInstanceOf[T0]: Boolean

    Definition Classes

    Any

16. val name: ContigName

    The contig name

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

    Definition Classes

    AnyRef

18. final def notify(): Unit

    Definition Classes

    AnyRef

19. final def notifyAll(): Unit

    Definition Classes

    AnyRef

20. def stringPieces: Iterator[String]

    Iterator over string representations of each range in the map.

    Iterator over string representations of each range in the map.

    Definition Classes

    Contig → TruncatedToString

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

    Definition Classes

    AnyRef

22. def toString(): String

    Definition Classes

    TruncatedToString → AnyRef → Any

23. def truncatedString(maxLength: Int = 500): String

    String representation, truncated to maxLength characters.

    String representation, truncated to maxLength characters.

    Definition Classes

    TruncatedToString

24. final def wait(): Unit

    Definition Classes

    AnyRef

    Annotations

    @throws( ... )

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

    Definition Classes

    AnyRef

    Annotations

    @throws( ... )

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

    Definition Classes

    AnyRef

    Annotations

    @throws( ... )