org.bdgenomics.adam.rich.DecadentRead

Residue

class Residue extends AnyRef

In biochemistry and molecular biology, a "residue" refers to a specific monomer within a polymeric chain, such as DNA.

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

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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 base: Char

    Nucleotide at this offset.

    Nucleotide at this offset.

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

  6. def clone(): AnyRef

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

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  11. def hashCode(): Int

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  12. def isInsertion: Boolean

  13. final def isInstanceOf[T0]: Boolean

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

  15. def isRegularBase: Boolean

  16. def isSNP: Boolean

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

    Definition Classes
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  18. final def notify(): Unit

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  19. final def notifyAll(): Unit

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  20. val offset: Int

  21. def quality: QualityScore

  22. def read: DecadentRead

  23. def referencePosition: ReferencePosition

  24. def referencePositionOption: Option[ReferencePosition]

  25. def referenceSequenceContext: Option[ReferenceSequenceContext]

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

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  27. def toString(): String

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  28. final def wait(): Unit

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

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

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