CannoliFragmentDataset

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): AlignmentDataset

   

   Align the paired-end reads in this FragmentDataset with Bowtie via Cannoli.

   Align the paired-end reads in this FragmentDataset with Bowtie via Cannoli.

   args

   Bowtie function arguments.

   returns

   AlignmentDataset.

5. def alignWithBowtie2(args: Bowtie2Args): AlignmentDataset

   

   Align the paired-end reads in this FragmentDataset with Bowtie 2 via Cannoli.

   Align the paired-end reads in this FragmentDataset with Bowtie 2 via Cannoli.

   args

   Bowtie2 function arguments.

   returns

   AlignmentDataset.

6. def alignWithBwaMem(args: BwaMemArgs): AlignmentDataset

   

   Align the paired-end reads in this FragmentDataset with bwa mem via Cannoli.

   Align the paired-end reads in this FragmentDataset with bwa mem via Cannoli.

   args

   Bwa mem function arguments.

   returns

   AlignmentDataset.

7. def alignWithBwaMem2(args: BwaMem2Args): AlignmentDataset

   

   Align the paired-end reads in this FragmentDataset with Bwa-mem2 via Cannoli.

   Align the paired-end reads in this FragmentDataset with Bwa-mem2 via Cannoli.

   args

   BwaMem2 function arguments.

   returns

   AlignmentDataset.

8. def alignWithGem(args: GemArgs): AlignmentDataset

   

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

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

   args

   GEM-Mapper function arguments.

   returns

   AlignmentDataset.

9. def alignWithMagicBlast(args: MagicBlastArgs): AlignmentDataset

   

   Align the paired-end reads in this FragmentDataset with Magic-BLAST via Cannoli.

   Align the paired-end reads in this FragmentDataset with Magic-BLAST via Cannoli.

   args

   Magic-BLAST function arguments.

   returns

   AlignmentDataset.

10. def alignWithMinimap2(args: Minimap2Args): AlignmentDataset

    

    Align the paired-end reads in this FragmentDataset with Minimap2 via Cannoli.

    Align the paired-end reads in this FragmentDataset with Minimap2 via Cannoli.

    args

    Minimap2 function arguments.

    returns

    AlignmentDataset.

11. def alignWithSnap(args: SnapArgs): AlignmentDataset

    

    Align the paired-end reads in this FragmentDataset with SNAP via Cannoli.

    Align the paired-end reads in this FragmentDataset with SNAP via Cannoli.

    args

    SNAP function arguments.

    returns

    AlignmentDataset.

12. def alignWithStar(args: StarArgs): AlignmentDataset

    

    Align the paired-end reads in this FragmentDataset with STAR via Cannoli.

    Align the paired-end reads in this FragmentDataset with STAR via Cannoli.

    args

    STAR function arguments.

    returns

    AlignmentDataset.

13. final def asInstanceOf[T0]: T0

    

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14. def clone(): AnyRef

    

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

    

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16. def equals(arg0: Any): Boolean

    

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17. def finalize(): Unit

    

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

    

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19. def hashCode(): Int

    

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20. final def isInstanceOf[T0]: Boolean

    

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

    

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22. final def notify(): Unit

    

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23. final def notifyAll(): Unit

    

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

    

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25. def toString(): String

    

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26. final def wait(): Unit

    

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

    

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

    

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