Class

nl.biopet.tools.digenicsearch

VariantCombination

Related Doc: package digenicsearch

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case class VariantCombination(v1: Variant, v2: Variant, alleles: List[AlleleCombination]) extends Product with Serializable

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Serializable, Serializable, Product, Equals, AnyRef, Any
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  1. VariantCombination
  2. Serializable
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Instance Constructors

  1. new VariantCombination(v1: Variant, v2: Variant, alleles: List[AlleleCombination])

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

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  4. val alleles: List[AlleleCombination]

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  5. final def asInstanceOf[T0]: T0

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  6. def cleanResults(keep: List[AlleleCombination]): VariantCombination

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    This method will remove alleles that are not used anymore in detection result because of filtering

  7. def cleanResults: VariantCombination

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  8. def clone(): AnyRef

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    Attributes
    protected[java.lang]
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    @throws( ... )

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

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  10. def externalFractions(idx: Int): Map[AlleleCombination, Option[Double]]

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    returns external fractions of they exist for each combination

  11. def filterExternalPair(broadcasts: Broadcasts): Option[VariantCombination]

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    Filter based on external fractions

  12. def filterPairFraction(broadcasts: Broadcasts, familyId: Option[Int] = None): Option[VariantCombination]

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    Filter based on fractions

  13. def finalize(): Unit

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

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

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  15. def getFractions(broadcasts: Broadcasts, familyId: Option[Int] = None): Map[AlleleCombination, Fraction]

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    Returns fractions for each allele combination

  16. final def isInstanceOf[T0]: Boolean

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

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  18. final def notify(): Unit

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  19. final def notifyAll(): Unit

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

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  21. def toResultLine(broadcasts: Broadcasts): ResultLineCsv

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    Convert to a result line

  22. val v1: Variant

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  23. val v2: Variant

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  24. final def wait(): Unit

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

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

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Inherited from Serializable

Inherited from Serializable

Inherited from Product

Inherited from Equals

Inherited from AnyRef

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