Class

org.bdgenomics.cannoli.cli

SnpEffArgs

Related Doc: package cli

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class SnpEffArgs extends Args4jBase with ADAMSaveAnyArgs with ParquetArgs

Linear Supertypes
ParquetArgs, ADAMSaveAnyArgs, SaveArgs, ParquetRDDArgs, Args4jBase, AnyRef, Any
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Inherited
  1. SnpEffArgs
  2. ParquetArgs
  3. ADAMSaveAnyArgs
  4. SaveArgs
  5. ParquetRDDArgs
  6. Args4jBase
  7. AnyRef
  8. Any
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Visibility
  1. Public
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Instance Constructors

  1. new SnpEffArgs()

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Value Members

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

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    Definition Classes
    AnyRef → Any

  2. final def ##(): Int

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    Definition Classes
    AnyRef → Any

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

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    Definition Classes
    AnyRef → Any

  4. final def asInstanceOf[T0]: T0

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    Definition Classes
    Any

  5. var asSingleFile: Boolean

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    Definition Classes
    SnpEffArgs → ADAMSaveAnyArgs

  6. var blockSize: Int

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    Definition Classes
    ParquetArgs → ParquetRDDArgs

  7. def clone(): AnyRef

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

  8. var compressionCodec: CompressionCodecName

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    Definition Classes
    ParquetArgs → ParquetRDDArgs

  9. var deferMerging: Boolean

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    Definition Classes
    SnpEffArgs → ADAMSaveAnyArgs

  10. var disableDictionaryEncoding: Boolean

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    Definition Classes
    ParquetArgs → ParquetRDDArgs

  11. var disableFastConcat: Boolean

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    Definition Classes
    SnpEffArgs → ADAMSaveAnyArgs

  12. var doPrintUsage: Boolean

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    Definition Classes
    Args4jBase

  13. var dockerImage: String

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

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    Definition Classes
    AnyRef

  15. def equals(arg0: Any): Boolean

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    Definition Classes
    AnyRef → Any

  16. def finalize(): Unit

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

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

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    Definition Classes
    AnyRef → Any

  18. def hashCode(): Int

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    Definition Classes
    AnyRef → Any

  19. var inputPath: String

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  20. final def isInstanceOf[T0]: Boolean

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    Definition Classes
    Any

  21. var logLevel: String

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    Definition Classes
    ParquetArgs

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

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    Definition Classes
    AnyRef

  23. final def notify(): Unit

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    Definition Classes
    AnyRef

  24. final def notifyAll(): Unit

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    Definition Classes
    AnyRef

  25. var outputPath: String

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    Definition Classes
    SnpEffArgs → SaveArgs

  26. var pageSize: Int

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    Definition Classes
    ParquetArgs → ParquetRDDArgs

  27. var printMetrics: Boolean

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    Definition Classes
    Args4jBase

  28. var snpEffDatabase: String

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  29. var snpEffPath: String

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  30. var sortFastqOutput: Boolean

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    Definition Classes
    SnpEffArgs → ADAMSaveAnyArgs

  31. var stringency: String

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

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    Definition Classes
    AnyRef

  33. def toString(): String

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    Definition Classes
    AnyRef → Any

  34. var useDocker: Boolean

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  35. final def wait(): Unit

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    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

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

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    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

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

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    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

Inherited from ParquetArgs

Inherited from ADAMSaveAnyArgs

Inherited from SaveArgs

Inherited from ParquetRDDArgs

Inherited from Args4jBase

Inherited from AnyRef

Inherited from Any

Ungrouped