Class/Object

nl.biopet.tools.bamstats

GroupStats

Related Docs: object GroupStats | package bamstats

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case class GroupStats(flagstat: FlagStats = new FlagStats(), mappingQualityHistogram: Histogram[Int] = new Histogram[Int](), insertSizeHistogram: Histogram[Int] = new Histogram[Int](), clippingHistogram: Histogram[Int] = new Histogram[Int](), leftClippingHistogram: Histogram[Int] = new Histogram[Int](), rightClippingHistogram: Histogram[Int] = new Histogram[Int](), _5_ClippingHistogram: Histogram[Int] = new Histogram[Int](), _3_ClippingHistogram: Histogram[Int] = new Histogram[Int]()) extends Product with Serializable

Created by pjvanthof on 05/07/16.

Linear Supertypes
Serializable, Serializable, Product, Equals, AnyRef, Any
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  1. GroupStats
  2. Serializable
  3. Serializable
  4. Product
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Instance Constructors

  1. new GroupStats(flagstat: FlagStats = new FlagStats(), mappingQualityHistogram: Histogram[Int] = new Histogram[Int](), insertSizeHistogram: Histogram[Int] = new Histogram[Int](), clippingHistogram: Histogram[Int] = new Histogram[Int](), leftClippingHistogram: Histogram[Int] = new Histogram[Int](), rightClippingHistogram: Histogram[Int] = new Histogram[Int](), _5_ClippingHistogram: Histogram[Int] = new Histogram[Int](), _3_ClippingHistogram: Histogram[Int] = new Histogram[Int]())

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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. def +=(other: GroupStats): GroupStats

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    This will add an other GroupStats inside this

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

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    Definition Classes
    AnyRef → Any

  5. val _3_ClippingHistogram: Histogram[Int]

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  6. val _5_ClippingHistogram: Histogram[Int]

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  7. final def asInstanceOf[T0]: T0

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    Definition Classes
    Any

  8. val clippingHistogram: Histogram[Int]

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  9. def clone(): AnyRef

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

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

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    Definition Classes
    AnyRef

  11. def finalize(): Unit

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

  12. val flagstat: FlagStats

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

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    Definition Classes
    AnyRef → Any

  14. val insertSizeHistogram: Histogram[Int]

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  15. final def isInstanceOf[T0]: Boolean

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    Definition Classes
    Any

  16. val leftClippingHistogram: Histogram[Int]

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  17. def loadRecord(samRecord: SAMRecord): Unit

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    Load a record into the Groupstats, which updates the histograms and flagstats.

  18. val mappingQualityHistogram: Histogram[Int]

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

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    Definition Classes
    AnyRef

  20. final def notify(): Unit

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    Definition Classes
    AnyRef

  21. final def notifyAll(): Unit

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    Definition Classes
    AnyRef

  22. val rightClippingHistogram: Histogram[Int]

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  23. def statsToData(): Data

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

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    Definition Classes
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  25. def toSummaryMap: Map[String, Map[String, Any]]

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  26. final def wait(): Unit

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    Definition Classes
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    @throws( ... )

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

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    Definition Classes
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    @throws( ... )

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

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    Definition Classes
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    @throws( ... )

  29. def writeStatsToFiles(outputDir: File): Unit

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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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