org.bdgenomics.adam.rich

RichCigar

class RichCigar extends AnyRef

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Instance Constructors

  1. new RichCigar(cigar: Cigar)

Value Members

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

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

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  3. final def ##(): Int

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

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

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  6. final def asInstanceOf[T0]: T0

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  7. def clone(): AnyRef

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

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  9. def equals(arg0: Any): Boolean

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  10. def finalize(): Unit

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

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  12. def getLength(): Int

  13. def hashCode(): Int

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  14. final def isInstanceOf[T0]: Boolean

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  15. def isWellFormed(readLength: Int): Boolean

    Checks to see if Cigar is well formed.

    Checks to see if Cigar is well formed. We assume that it is well formed if the cigar lenmgth matches the read length.

    readLength

    Length of the read sequence.

  16. def moveLeft(index: Int): Cigar

    Moves a single element in the cigar left by one position.

    Moves a single element in the cigar left by one position.

    index

    Index of the element to move.

    returns

    New cigar with this element moved left.

  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. lazy val numAlignmentBlocks: Int

  21. lazy val numElements: Int

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

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  23. def toString(): String

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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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