RichAlignmentRecord

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 ILLUMINA_READNAME_REGEX: Regex

   

5. def apply(record: AlignmentRecord): RichAlignmentRecord

   

6. final def asInstanceOf[T0]: T0

   

   Definition Classes

   Any

7. val cigarPattern: Pattern

   

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. final def ne(arg0: AnyRef): Boolean

    

    Definition Classes

    AnyRef

16. final def notify(): Unit

    

    Definition Classes

    AnyRef

17. final def notifyAll(): Unit

    

    Definition Classes

    AnyRef

18. implicit def recordToRichRecord(record: AlignmentRecord): RichAlignmentRecord

    

19. def referenceLengthFromCigar(cigar: String): Int

    

    Parses a CIGAR string, and returns the aligned length with respect to the reference genome (i.e.

    Parses a CIGAR string, and returns the aligned length with respect to the reference genome (i.e. skipping clipping, padding, and insertion operators)

    cigar

    The CIGAR string whose reference length is to be measured

    returns

    A non-negative integer, the sum of the MDNX= operators in the CIGAR string.

20. implicit def richRecordToRecord(record: RichAlignmentRecord): AlignmentRecord

    

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( ... )