LiftOverVariantsTransformer

Value Members

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

   

   Definition Classes

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2. final def ##(): Int

   

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

   

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4. final def asInstanceOf[T0]: T0

   

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5. def clone(): AnyRef

   

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   protected[java.lang]

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   @throws( ... )

6. val conversionErrorMessage: String

   

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

   

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8. def equals(arg0: Any): Boolean

   

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9. val errorMessageColName: String

   

10. def finalize(): Unit

    

    Attributes

    protected[java.lang]

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

11. def getArrayFields(fields: Seq[StructField]): Seq[String]

    

12. def getAttributesToSwap(variantSchema: StructType): Seq[String]

    

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

    

    Definition Classes

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14. def getExtendedAttributesToSwap(variantSchema: StructType): Seq[String]

    

15. def getLiftOver(options: Map[String, String]): LiftOver

    

16. def getMinMatchRatio(options: Map[String, String]): Double

    

17. def getOutputSchema(inputSchema: StructType): StructType

    

18. def getRefSeqMap(options: Map[String, String]): Map[String, ReferenceSequence]

    

19. def hashCode(): Int

    

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20. final def isInstanceOf[T0]: Boolean

    

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21. val liftOverStatusColName: String

    

22. def liftVariantContext(inputVc: VariantContext, liftOver: LiftOver, minMatchRatio: Double, refSeqMap: Map[String, ReferenceSequence], infoFieldsToSwap: Seq[String], formatFieldsToSwap: Seq[String]): (Option[VariantContext], Option[String])

    

23. lazy val logger: Logger

    

    Attributes

    protected

    Definition Classes

    LazyLogging → Logging

24. def makeMutableProjection(inputSchema: StructType): MutableProjection

    

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

    

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26. final def notify(): Unit

    

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27. final def notifyAll(): Unit

    

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28. val successColName: String

    

29. def swapRefAlt(vc: VariantContext, infoFieldsToSwap: Seq[String], formatFieldsToSwap: Seq[String]): VariantContext

    

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

    

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31. def toString(): String

    

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32. final def wait(): Unit

    

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    @throws( ... )

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

    

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    @throws( ... )

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

    

    Definition Classes

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    @throws( ... )