org.bdgenomics.adam.models

Coverage

case class Coverage(contigName: String, start: Long, end: Long, count: Double) extends Product with Serializable

Coverage record for CoverageRDD. Contains Region indexed by contig name, start and end, as well as count of coverage at each base pair in that region.

contigName

Specifies chromosomal location of coverage

start

Specifies start position of coverage

end

Specifies end position of coverage

count

Specifies count of coverage at location

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Serializable, Serializable, Product, Equals, AnyRef, Any
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Instance Constructors

  1. new Coverage(contigName: String, start: Long, end: Long, count: Double)

    contigName

    Specifies chromosomal location of coverage

    start

    Specifies start position of coverage

    end

    Specifies end position of coverage

    count

    Specifies count of coverage at location

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. def clone(): AnyRef

    Attributes
    protected[java.lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

  8. val contigName: String

    Specifies chromosomal location of coverage

  9. val count: Double

    Specifies count of coverage at location

  10. val end: Long

    Specifies end position of coverage

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

    Definition Classes
    AnyRef

  12. def finalize(): Unit

    Attributes
    protected[java.lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( classOf[java.lang.Throwable] )

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

    Definition Classes
    AnyRef → Any

  14. final def isInstanceOf[T0]: Boolean

    Definition Classes
    Any

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

    Definition Classes
    AnyRef

  16. final def notify(): Unit

    Definition Classes
    AnyRef

  17. final def notifyAll(): Unit

    Definition Classes
    AnyRef

  18. val start: Long

    Specifies start position of coverage

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

    Definition Classes
    AnyRef

  20. def toFeature: Feature

    Converts Coverage to Feature, setting Coverage count in the score attribute.

    Converts Coverage to Feature, setting Coverage count in the score attribute.

    returns

    Feature built from Coverage

  21. final def wait(): Unit

    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

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

    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

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

    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

Inherited from Serializable

Inherited from Serializable

Inherited from Product

Inherited from Equals

Inherited from AnyRef

Inherited from Any

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