SequenceDataset

Value Members

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

   

   Definition Classes

   AnyRef → Any

2. final def ##(): Int

   

   Definition Classes

   AnyRef → Any

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

   

   Definition Classes

   AnyRef → Any

4. val FASTA_LINE_WIDTH: String

   

   Hadoop configuration path to specify line width at which to hard wrap FASTA formatted sequences.

   Hadoop configuration path to specify line width at which to hard wrap FASTA formatted sequences. Defaults to 60.

5. def apply(rdd: RDD[Sequence], sd: SequenceDictionary): SequenceDataset

   

   Builds a SequenceDataset given a sequence dictionary.

   Builds a SequenceDataset given a sequence dictionary.

   rdd

   The underlying Sequence RDD to build from.

   sd

   The sequence dictionary for this SequenceDataset.

   returns

   Returns a new SequenceDataset.

6. def apply(rdd: RDD[Sequence]): SequenceDataset

   

   Builds a SequenceDataset with an empty sequence dictionary.

   Builds a SequenceDataset with an empty sequence dictionary.

   rdd

   The underlying Sequence RDD to build from.

   returns

   Returns a new SequenceDataset.

7. def apply(ds: Dataset[Sequence], sequences: SequenceDictionary): SequenceDataset

   

   A genomic dataset that wraps a dataset of Sequence data.

   A genomic dataset that wraps a dataset of Sequence data.

   ds

   A Dataset of sequences.

   sequences

   The reference genome these data are aligned to.

8. def apply(ds: Dataset[Sequence]): SequenceDataset

   

   A genomic dataset that wraps a dataset of Sequence data.

   A genomic dataset that wraps a dataset of Sequence data.

   ds

   A Dataset of sequences.

9. final def asInstanceOf[T0]: T0

   

   Definition Classes

   Any

10. def clone(): AnyRef

    

    Attributes

    protected[java.lang]

    Definition Classes

    AnyRef

    Annotations

    @throws( ... )

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

    

    Definition Classes

    AnyRef

12. def equals(arg0: Any): Boolean

    

    Definition Classes

    AnyRef → Any

13. def finalize(): Unit

    

    Attributes

    protected[java.lang]

    Definition Classes

    AnyRef

    Annotations

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

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

    

    Definition Classes

    AnyRef → Any

15. def hashCode(): Int

    

    Definition Classes

    AnyRef → Any

16. final def isInstanceOf[T0]: Boolean

    

    Definition Classes

    Any

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

    

    Definition Classes

    AnyRef

18. final def notify(): Unit

    

    Definition Classes

    AnyRef

19. final def notifyAll(): Unit

    

    Definition Classes

    AnyRef

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

    

    Definition Classes

    AnyRef

21. def toString(): String

    

    Definition Classes

    AnyRef → Any

22. final def wait(): Unit

    

    Definition Classes

    AnyRef

    Annotations

    @throws( ... )

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

    

    Definition Classes

    AnyRef

    Annotations

    @throws( ... )

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

    

    Definition Classes

    AnyRef

    Annotations

    @throws( ... )