Genotype

Instance Constructors

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

final def !=(arg0: Any): Boolean

Definition Classes
AnyRef → Any
final def ##(): Int

Definition Classes
AnyRef → Any
final def ==(arg0: Any): Boolean

Definition Classes
AnyRef → Any
val alleles: Seq[String]
val alternateReadDepth: Option[Int]
final def asInstanceOf[T0]: T0

Definition Classes
Any
def canEqual(that: Any): Boolean

Definition Classes
Genotype → Equals
def clone(): AnyRef

Attributes
protected[java.lang]
Definition Classes
AnyRef
Annotations
@throws( ... )
val contigName: Option[String]
val end: Option[Long]
final def eq(arg0: AnyRef): Boolean

Definition Classes
AnyRef
def equals(arg0: Any): Boolean

Definition Classes
AnyRef → Any
val expectedAlleleDosage: Option[Float]
def finalize(): Unit

Attributes
protected[java.lang]
Definition Classes
AnyRef
Annotations
@throws( classOf[java.lang.Throwable] )
val genotypeLikelihoods: Seq[Double]
val genotypeQuality: Option[Int]
final def getClass(): Class[_]

Definition Classes
AnyRef → Any
def hashCode(): Int

Definition Classes
AnyRef → Any
final def isInstanceOf[T0]: Boolean

Definition Classes
Any
val minReadDepth: Option[Int]
final def ne(arg0: AnyRef): Boolean

Definition Classes
AnyRef
val nonReferenceLikelihoods: Seq[Double]
final def notify(): Unit

Definition Classes
AnyRef
final def notifyAll(): Unit

Definition Classes
AnyRef
val phaseQuality: Option[Int]
val phaseSetId: Option[Int]
val phased: Option[Boolean]
val processingDescription: Option[String]
def productArity: Int

Definition Classes
Genotype → Product
def productElement(i: Int): Any

Definition Classes
Genotype → Product
def productIterator: Iterator[Any]

Definition Classes
Product
def productPrefix: String

Definition Classes
Product
val readDepth: Option[Int]
val referenceReadDepth: Option[Int]
val sampleDescription: Option[String]
val sampleId: Option[String]
val splitFromMultiAllelic: Option[Boolean]
val start: Option[Long]
val strandBiasComponents: Seq[Int]
final def synchronized[T0](arg0: ⇒ T0): T0

Definition Classes
AnyRef
def toAvro: formats.avro.Genotype
def toString(): String

Definition Classes
AnyRef → Any
val variant: Option[Variant]
val variantCallingAnnotations: Option[VariantCallingAnnotations]
final def wait(): Unit

Definition Classes
AnyRef
Annotations
@throws( ... )
final def wait(arg0: Long, arg1: Int): Unit

Definition Classes
AnyRef
Annotations
@throws( ... )
final def wait(arg0: Long): Unit

Definition Classes
AnyRef
Annotations
@throws( ... )

Related Docs: object Genotype | package sql

class Genotype extends Product

Instance Constructors

Value Members

final def !=(arg0: Any): Boolean

final def ##(): Int

final def ==(arg0: Any): Boolean

val alleles: Seq[String]

val alternateReadDepth: Option[Int]

final def asInstanceOf[T0]: T0

def canEqual(that: Any): Boolean

def clone(): AnyRef

val contigName: Option[String]

val end: Option[Long]

final def eq(arg0: AnyRef): Boolean

def equals(arg0: Any): Boolean

val expectedAlleleDosage: Option[Float]

def finalize(): Unit

val genotypeLikelihoods: Seq[Double]

val genotypeQuality: Option[Int]

final def getClass(): Class[_]

def hashCode(): Int

final def isInstanceOf[T0]: Boolean

val minReadDepth: Option[Int]

final def ne(arg0: AnyRef): Boolean

val nonReferenceLikelihoods: Seq[Double]

final def notify(): Unit

final def notifyAll(): Unit

val phaseQuality: Option[Int]

val phaseSetId: Option[Int]

val phased: Option[Boolean]

val processingDescription: Option[String]

def productArity: Int

def productElement(i: Int): Any

def productIterator: Iterator[Any]

def productPrefix: String

val readDepth: Option[Int]

val referenceReadDepth: Option[Int]

val sampleDescription: Option[String]

val sampleId: Option[String]

val splitFromMultiAllelic: Option[Boolean]

val start: Option[Long]

val strandBiasComponents: Seq[Int]

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

def toAvro: formats.avro.Genotype

def toString(): String

val variant: Option[Variant]

val variantCallingAnnotations: Option[VariantCallingAnnotations]

final def wait(): Unit

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

final def wait(arg0: Long): Unit

Inherited from Product

Inherited from Equals

Inherited from AnyRef

Inherited from Any

Ungrouped