org.hammerlab.guacamole.readsets.io

ReadFilterArgs

trait ReadFilterArgs extends CallLociArgs

Linear Supertypes
CallLociArgs, AnyRef, Any
Known Subclasses
Arguments, Arguments, Arguments, Arguments, Arguments, Arguments, Arguments, Base, GermlineCallerArgs, PartitionLociArgs, PartitionReadsArgs, SingleSampleArgs, TumorNormalReadsArgs
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  1. ReadFilterArgs
  2. CallLociArgs
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  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. final def asInstanceOf[T0]: T0

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  7. def clone(): AnyRef

    Attributes
    protected[java.lang]
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    @throws( ... )

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

    Definition Classes
    AnyRef

  9. def equals(arg0: Any): Boolean

    Definition Classes
    AnyRef → Any

  10. def finalize(): Unit

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    protected[java.lang]
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    @throws( classOf[java.lang.Throwable] )

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

    Definition Classes
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  12. def hashCode(): Int

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  13. var includeDuplicates: Boolean

  14. var includeFailedQualityChecks: Boolean

  15. var includeSingleEnd: Boolean

  16. final def isInstanceOf[T0]: Boolean

    Definition Classes
    Any

  17. var lociFile: String

    Attributes
    protected
    Definition Classes
    CallLociArgs

  18. def lociFileOpt: Option[String]

    Definition Classes
    CallLociArgs

  19. var lociStr: String

    Attributes
    protected
    Definition Classes
    CallLociArgs

  20. def lociStrOpt: Option[String]

    Definition Classes
    CallLociArgs

  21. var minAlignmentQuality: Int

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

    Definition Classes
    AnyRef

  23. final def notify(): Unit

    Definition Classes
    AnyRef

  24. final def notifyAll(): Unit

    Definition Classes
    AnyRef

  25. var onlyMappedReads: Boolean

  26. def parseFilters(hadoopConfiguration: Configuration): InputFilters

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

    Definition Classes
    AnyRef

  28. def toString(): String

    Definition Classes
    AnyRef → Any

  29. final def wait(): Unit

    Definition Classes
    AnyRef
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    @throws( ... )

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

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    @throws( ... )

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

    Definition Classes
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    @throws( ... )

Inherited from CallLociArgs

Inherited from AnyRef

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