org.bdgenomics.adam.rich.DecadentRead

Residue

class Residue extends AnyRef

A "residue" is an individual monomer of a polymeric chain, such as DNA.

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  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 base: Char

    Nucleotide at this position.

    Nucleotide at this position.

    TODO: Return values of meaningful type, e.g. DNABase' or Deoxyribonucleotide'.

  8. def clone(): AnyRef

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

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  10. def equals(arg0: Any): Boolean

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  11. def finalize(): Unit

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

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  13. def hashCode(): Int

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  14. def isInsertion: Boolean

  15. final def isInstanceOf[T0]: Boolean

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  16. def isMismatch(includeInsertions: Boolean = true): Boolean

  17. def isRegularBase: Boolean

  18. def isSNP: Boolean

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

    Definition Classes
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  20. final def notify(): Unit

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  21. final def notifyAll(): Unit

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  22. val position: Int

  23. def quality: QualityScore

  24. def read: DecadentRead

  25. def referenceLocation: ReferenceLocation

  26. def referenceLocationOption: Option[ReferenceLocation]

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

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  28. def toString(): String

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  29. final def wait(): Unit

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

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

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