org.bdgenomics.adam.sql

Genotype

class Genotype extends Product

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Product, Equals, AnyRef, Any
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  2. Product
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Instance Constructors

  1. new Genotype(variant: Option[Variant], contigName: Option[String], start: Option[Long], end: Option[Long], variantCallingAnnotations: Option[VariantCallingAnnotations], sampleId: Option[String], sampleDescription: Option[String], processingDescription: Option[String], alleles: Seq[String], expectedAlleleDosage: Option[Float], referenceReadDepth: Option[Int], alternateReadDepth: Option[Int], readDepth: Option[Int], minReadDepth: Option[Int], genotypeQuality: Option[Int], genotypeLikelihoods: Seq[Double], nonReferenceLikelihoods: Seq[Double], strandBiasComponents: Seq[Int], splitFromMultiAllelic: Option[Boolean], phased: Option[Boolean], phaseSetId: Option[Int], phaseQuality: Option[Int])

Value Members

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

    Definition Classes
    AnyRef

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

    Definition Classes
    Any

  3. final def ##(): Int

    Definition Classes
    AnyRef → Any

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

    Definition Classes
    AnyRef

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

    Definition Classes
    Any

  6. val alleles: Seq[String]

  7. val alternateReadDepth: Option[Int]

  8. final def asInstanceOf[T0]: T0

    Definition Classes
    Any

  9. def canEqual(that: Any): Boolean

    Definition Classes
    Genotype → Equals

  10. def clone(): AnyRef

    Attributes
    protected[java.lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

  11. val contigName: Option[String]

  12. val end: Option[Long]

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

    Definition Classes
    AnyRef

  14. def equals(arg0: Any): Boolean

    Definition Classes
    AnyRef → Any

  15. val expectedAlleleDosage: Option[Float]

  16. def finalize(): Unit

    Attributes
    protected[java.lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( classOf[java.lang.Throwable] )

  17. val genotypeLikelihoods: Seq[Double]

  18. val genotypeQuality: Option[Int]

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

    Definition Classes
    AnyRef → Any

  20. def hashCode(): Int

    Definition Classes
    AnyRef → Any

  21. final def isInstanceOf[T0]: Boolean

    Definition Classes
    Any

  22. val minReadDepth: Option[Int]

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

    Definition Classes
    AnyRef

  24. val nonReferenceLikelihoods: Seq[Double]

  25. final def notify(): Unit

    Definition Classes
    AnyRef

  26. final def notifyAll(): Unit

    Definition Classes
    AnyRef

  27. val phaseQuality: Option[Int]

  28. val phaseSetId: Option[Int]

  29. val phased: Option[Boolean]

  30. val processingDescription: Option[String]

  31. def productArity: Int

    Definition Classes
    Genotype → Product

  32. def productElement(i: Int): Any

    Definition Classes
    Genotype → Product

  33. def productIterator: Iterator[Any]

    Definition Classes
    Product

  34. def productPrefix: String

    Definition Classes
    Product

  35. val readDepth: Option[Int]

  36. val referenceReadDepth: Option[Int]

  37. val sampleDescription: Option[String]

  38. val sampleId: Option[String]

  39. val splitFromMultiAllelic: Option[Boolean]

  40. val start: Option[Long]

  41. val strandBiasComponents: Seq[Int]

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

    Definition Classes
    AnyRef

  43. def toAvro: formats.avro.Genotype

  44. def toString(): String

    Definition Classes
    AnyRef → Any

  45. val variant: Option[Variant]

  46. val variantCallingAnnotations: Option[VariantCallingAnnotations]

  47. final def wait(): Unit

    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

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

    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

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

    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

Inherited from Product

Inherited from Equals

Inherited from AnyRef

Inherited from Any

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