Class/Object

org.hammerlab.genomics.reads

MateAlignmentProperties

Related Docs: object MateAlignmentProperties | package reads

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case class MateAlignmentProperties(contigName: ContigName, start: Locus, inferredInsertSize: Option[Int], isPositiveStrand: Boolean) extends Product with Serializable

Details of the mate read alignment

contigName

Contig/chromosome of the mate read

start

0-based start position of the mate read

inferredInsertSize

Insert size between the reads if defined

isPositiveStrand

Whether the mate is on the positive strand

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Serializable, Serializable, Product, Equals, AnyRef, Any
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  1. MateAlignmentProperties
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Instance Constructors

  1. new MateAlignmentProperties(contigName: ContigName, start: Locus, inferredInsertSize: Option[Int], isPositiveStrand: Boolean)

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    contigName

    Contig/chromosome of the mate read

    start

    0-based start position of the mate read

    inferredInsertSize

    Insert size between the reads if defined

    isPositiveStrand

    Whether the mate is on the positive strand

Value Members

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

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    Definition Classes
    AnyRef → Any

  2. final def ##(): Int

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    Definition Classes
    AnyRef → Any

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

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    Definition Classes
    AnyRef → Any

  4. final def asInstanceOf[T0]: T0

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    Definition Classes
    Any

  5. def clone(): AnyRef

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

  6. val contigName: ContigName

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    Contig/chromosome of the mate read

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

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    Definition Classes
    AnyRef

  8. def finalize(): Unit

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

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

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    Definition Classes
    AnyRef → Any

  10. val inferredInsertSize: Option[Int]

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    Insert size between the reads if defined

  11. final def isInstanceOf[T0]: Boolean

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    Definition Classes
    Any

  12. val isPositiveStrand: Boolean

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    Whether the mate is on the positive strand

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

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    Definition Classes
    AnyRef

  14. final def notify(): Unit

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    Definition Classes
    AnyRef

  15. final def notifyAll(): Unit

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    Definition Classes
    AnyRef

  16. val start: Locus

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    0-based start position of the mate read

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

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    Definition Classes
    AnyRef

  18. final def wait(): Unit

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    AnyRef
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    @throws( ... )

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

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    @throws( ... )

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

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    Definition Classes
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Inherited from Serializable

Inherited from Serializable

Inherited from Product

Inherited from Equals

Inherited from AnyRef

Inherited from Any

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