Object

nl.biopet.tools.refflatsstats

RefflatStats

Related Doc: package refflatsstats

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object RefflatStats extends ToolCommand[Args]

Created by pjvan_thof on 1-5-17.

Linear Supertypes
ToolCommand[Args], Logging, AnyRef, Any
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  1. RefflatStats
  2. ToolCommand
  3. Logging
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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. def aboutText: String

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    Definition Classes
    ToolCommand

  5. def argsParser: ArgsParser

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    Definition Classes
    RefflatStats → ToolCommand

  6. final def asInstanceOf[T0]: T0

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    Definition Classes
    Any

  7. def clone(): AnyRef

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

  8. def cmdArrayToArgs(args: Array[String]): Args

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    Definition Classes
    ToolCommand

  9. def contactText: String

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    Definition Classes
    ToolCommand

  10. def contributingText: String

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    Definition Classes
    ToolCommand

  11. def descriptionText: String

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    Definition Classes
    RefflatStats → ToolCommand

  12. def documentationText: String

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    Definition Classes
    ToolCommand

  13. def emptyArgs: Args

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    Definition Classes
    RefflatStats → ToolCommand

  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 example(args: String*): String

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    Definition Classes
    ToolCommand

  17. def exampleText: String

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    Definition Classes
    RefflatStats → ToolCommand

  18. def finalize(): Unit

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

  19. def geneToExonRegions(gene: Gene): List[BedRecord]

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  20. def geneToIntronRegions(gene: Gene): List[BedRecord]

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  21. def generateDocumentation(outputDirectory: File, version: String, release: Boolean): Unit

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    Definition Classes
    ToolCommand

  22. def generateGeneStats(gene: Gene, fastaFile: File): Future[GeneStats]

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  23. def generateReadme(outputFile: File): Unit

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    Definition Classes
    ToolCommand

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

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    Definition Classes
    AnyRef → Any

  25. def hashCode(): Int

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    Definition Classes
    AnyRef → Any

  26. def installationText: String

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    Definition Classes
    ToolCommand

  27. final def isInstanceOf[T0]: Boolean

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    Definition Classes
    Any

  28. def logger: Logger

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    Definition Classes
    Logging

  29. def main(args: Array[String]): Unit

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    Program will prefix reads with a given seq

    Program will prefix reads with a given seq

    args

    the command line arguments

    Definition Classes
    RefflatStats → ToolCommand

  30. def mainPageContents: List[(String, String)]

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    Definition Classes
    ToolCommand

  31. def manualText: String

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    Definition Classes
    RefflatStats → ToolCommand

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

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    Definition Classes
    AnyRef

  33. final def notify(): Unit

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    Definition Classes
    AnyRef

  34. final def notifyAll(): Unit

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    Definition Classes
    AnyRef

  35. def readmeContents: List[(String, String)]

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    Definition Classes
    ToolCommand

  36. def sparkExample(args: String*): String

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    Definition Classes
    ToolCommand

  37. def sparkUnsafeExample(args: String*): String

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    Definition Classes
    ToolCommand

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

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    Definition Classes
    AnyRef

  39. def toString(): String

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    Definition Classes
    AnyRef → Any

  40. def toolName: String

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    Definition Classes
    ToolCommand

  41. def transcriptToExonRegions(transcript: Transcript): List[BedRecord]

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  42. def transcriptToIntronRegions(transcript: Transcript): List[BedRecord]

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  43. def unsafeExample(args: String*): String

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    Definition Classes
    ToolCommand

  44. def urlToolName: String

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    Definition Classes
    ToolCommand

  45. def usageText: String

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    Definition Classes
    ToolCommand

  46. final def wait(): Unit

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    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

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

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    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

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

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    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

Inherited from ToolCommand[Args]

Inherited from Logging

Inherited from AnyRef

Inherited from Any

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