Class

org.bdgenomics.cannoli.Cannoli

CannoliFragmentDataset

Related Doc: package Cannoli

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implicit class CannoliFragmentDataset extends AnyRef

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Instance Constructors

  1. new CannoliFragmentDataset(fragments: FragmentDataset)

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Value Members

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

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  2. final def ##(): Int

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

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  4. def alignWithBowtie(args: BowtieArgs): AlignmentRecordDataset

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    Align the reads in this FragmentDataset with bowtie via Cannoli.

    Align the reads in this FragmentDataset with bowtie via Cannoli.

    args

    Bowtie function arguments.

    returns

    AlignmentRecordDataset.

  5. def alignWithBowtie2(args: Bowtie2Args): AlignmentRecordDataset

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    Align the reads in this FragmentDataset with bowtie2 via Cannoli.

    Align the reads in this FragmentDataset with bowtie2 via Cannoli.

    args

    Bowtie2 function arguments.

    returns

    AlignmentRecordDataset.

  6. def alignWithBwa(args: BwaArgs): AlignmentRecordDataset

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    Align the reads in this FragmentDataset with bwa via Cannoli.

    Align the reads in this FragmentDataset with bwa via Cannoli.

    args

    Bwa function arguments.

    returns

    AlignmentRecordDataset.

  7. def alignWithGem(args: GemArgs): AlignmentRecordDataset

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    Align the reads in this FragmentDataset with GEM-Mapper via Cannoli.

    Align the reads in this FragmentDataset with GEM-Mapper via Cannoli.

    args

    GEM-Mapper function arguments.

    returns

    AlignmentRecordDataset.

  8. def alignWithMinimap2(args: Minimap2Args): AlignmentRecordDataset

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    Align the reads in this FragmentDataset with minimap2 via Cannoli.

    Align the reads in this FragmentDataset with minimap2 via Cannoli.

    args

    Minimap2 function arguments.

    returns

    AlignmentRecordDataset.

  9. final def asInstanceOf[T0]: T0

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  10. def clone(): AnyRef

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  12. def equals(arg0: Any): Boolean

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  13. def finalize(): Unit

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

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  15. def hashCode(): Int

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  16. final def isInstanceOf[T0]: Boolean

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  18. final def notify(): Unit

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  19. final def notifyAll(): Unit

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

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  21. def toString(): String

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  22. final def wait(): Unit

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

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

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