reference

Type Members

1. class ContigIterator[+T] extends BufferedIterator[T]

   Given some elements and a function for extracting a ContigName from them, return an iterator that is restricted to the given contig.

2. type ContigLengths = Map[ContigName, NumLoci]

3. type ContigName = String

4. trait ContigSequence extends AnyRef

5. trait HasContig extends AnyRef

6. trait HasLocus extends AnyRef

7. trait Interval extends Ordered[Interval]

8. type Locus = Long

9. type NumLoci = Long

10. trait Position extends ReferenceRegion with HasLocus with PartiallyOrdered[Position]

    Base trait for classes that logically exist at one genomic locus.

11. trait ReferenceRegion extends HasContig with Interval

    Trait for objects that are associated with an interval on a genomic contig.

12. case class Slice(contigName: ContigName, start: Locus, bases: Seq[Byte]) extends ReferenceRegion with Product with Serializable