JavaAlignmentRecordRDD

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. def adamSAMSave(filePath: String, asSam: Boolean, asSingleFile: Boolean, isSorted: Boolean): Unit

   

   Saves this RDD to disk as a SAM/BAM file.

   Saves this RDD to disk as a SAM/BAM file.

   filePath

   Path to save the file at.

   asSam

   If true, saves as SAM. If false, saves as BAM.

   asSingleFile

   If true, saves output as a single file.

   isSorted

   If the output is sorted, this will modify the header.

5. def adamSave(filePath: String): Unit

   

   Saves this RDD to disk as a Parquet file.

   Saves this RDD to disk as a Parquet file.

   filePath

   Path to save the file at.

6. def adamSave(filePath: String, blockSize: Integer, pageSize: Integer, compressCodec: CompressionCodecName, disableDictionaryEncoding: Boolean): Unit

   

   Saves this RDD to disk as a Parquet file.

   Saves this RDD to disk as a Parquet file.

   filePath

   Path to save the file at.

   blockSize

   Size per block.

   pageSize

   Size per page.

   compressCodec

   Name of the compression codec to use.

   disableDictionaryEncoding

   Whether or not to disable bit-packing.

7. final def asInstanceOf[T0]: T0

   

   Definition Classes

   Any

8. def clone(): AnyRef

   

   Attributes

   protected[java.lang]

   Definition Classes

   AnyRef

   Annotations

   @throws( ... )

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

   

   Definition Classes

   AnyRef

10. def equals(arg0: Any): Boolean

    

    Definition Classes

    AnyRef → Any

11. def finalize(): Unit

    

    Attributes

    protected[java.lang]

    Definition Classes

    AnyRef

    Annotations

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

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

    

    Definition Classes

    AnyRef → Any

13. def hashCode(): Int

    

    Definition Classes

    AnyRef → Any

14. final def isInstanceOf[T0]: Boolean

    

    Definition Classes

    Any

15. val jrdd: JavaRDD[AlignmentRecord]

    

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

    

    Definition Classes

    AnyRef

17. final def notify(): Unit

    

    Definition Classes

    AnyRef

18. final def notifyAll(): Unit

    

    Definition Classes

    AnyRef

19. val rgd: RecordGroupDictionary

    

20. val sd: SequenceDictionary

    

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

    

    Definition Classes

    AnyRef

22. def toString(): String

    

    Definition Classes

    AnyRef → Any

23. final def wait(): Unit

    

    Definition Classes

    AnyRef

    Annotations

    @throws( ... )

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

    

    Definition Classes

    AnyRef

    Annotations

    @throws( ... )

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

    

    Definition Classes

    AnyRef

    Annotations

    @throws( ... )