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object SamMapping extends Serializable

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  1. SamMapping
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  1. final def !=(arg0: Any): Boolean
    Definition Classes
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  2. final def ##(): Int
    Definition Classes
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  3. final def ==(arg0: Any): Boolean
    Definition Classes
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  4. val MISSING: String
  5. final def asInstanceOf[T0]: T0
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  6. def clone(): AnyRef
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    protected[java.lang]
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    @throws( ... )
  7. final def eq(arg0: AnyRef): Boolean
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  8. def equals(arg0: Any): Boolean
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  9. def finalize(): Unit
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    protected[java.lang]
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    @throws( classOf[java.lang.Throwable] )
  10. def getBlocks(record: SAMRecord, firstOfPairStrandOnTranscript: Orientation): Region
    Attributes
    protected
  11. final def getClass(): Class[_]
    Definition Classes
    AnyRef → Any
  12. def getQname(record: SAMRecord): Option[String]
    Attributes
    protected
  13. def hashCode(): Int
    Definition Classes
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  14. final def isInstanceOf[T0]: Boolean
    Definition Classes
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  15. final def ne(arg0: AnyRef): Boolean
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  16. final def notify(): Unit
    Definition Classes
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  17. final def notifyAll(): Unit
    Definition Classes
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  18. def samToZeroBased(samPos: Int): Int

    Returns a zero-based coordinate converted from a SAM record coordinate

    Returns a zero-based coordinate converted from a SAM record coordinate

    samPos

    Position from a SAM record

    returns

    Corresponding zero-based position

  19. final def synchronized[T0](arg0: ⇒ T0): T0
    Definition Classes
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  20. def toString(): String
    Definition Classes
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  21. final def wait(): Unit
    Definition Classes
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    @throws( ... )
  22. final def wait(arg0: Long, arg1: Int): Unit
    Definition Classes
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    @throws( ... )
  23. final def wait(arg0: Long): Unit
    Definition Classes
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    @throws( ... )
  24. def zeroBasedToSam(zeroBasedPos: Int): Int

    Returns a SAM record coordinate converted from a zero-based position

    Returns a SAM record coordinate converted from a zero-based position

    zeroBasedPos

    Zero-based position

    returns

    Corresponding SAM record position

Inherited from Serializable

Inherited from Serializable

Inherited from AnyRef

Inherited from Any

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