QualityEncodingDetector

Value Members

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

   

   Definition Classes

   AnyRef → Any

2. final def ##(): Int

   

   Definition Classes

   AnyRef → Any

3. def +(other: String): String

   

   Implicit information

   This member is added by an implicit conversion from QualityEncodingDetector to any2stringadd[QualityEncodingDetector] performed by method any2stringadd in scala.Predef.

   Definition Classes

   any2stringadd

4. def ->[B](y: B): (QualityEncodingDetector, B)

   

   Implicit information

   This member is added by an implicit conversion from QualityEncodingDetector to ArrowAssoc[QualityEncodingDetector] performed by method ArrowAssoc in scala.Predef.

   Definition Classes

   ArrowAssoc

   Annotations

   @inline()

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

   

   Definition Classes

   AnyRef → Any

6. def add(chs: String): Unit

   

   Adds a String of ascii quality characters to the evidence.

7. def add(ch: Char): Unit

   

   Adds an ascii quality character to the set of evidence.

8. final def asInstanceOf[T0]: T0

   

   Definition Classes

   Any

9. def clone(): AnyRef

   

   Attributes

   protected[java.lang]

   Definition Classes

   AnyRef

   Annotations

   @throws( ... )

10. def compatibleEncodings: List[QualityEncoding]

    

    Returns the set of quality formats that are compatible with the qualities seen thus far.

11. def ensuring(cond: (QualityEncodingDetector) ⇒ Boolean, msg: ⇒ Any): QualityEncodingDetector

    

    Implicit information

    This member is added by an implicit conversion from QualityEncodingDetector to Ensuring[QualityEncodingDetector] performed by method Ensuring in scala.Predef.

    Definition Classes

    Ensuring

12. def ensuring(cond: (QualityEncodingDetector) ⇒ Boolean): QualityEncodingDetector

    

    Implicit information

    This member is added by an implicit conversion from QualityEncodingDetector to Ensuring[QualityEncodingDetector] performed by method Ensuring in scala.Predef.

    Definition Classes

    Ensuring

13. def ensuring(cond: Boolean, msg: ⇒ Any): QualityEncodingDetector

    

    Implicit information

    This member is added by an implicit conversion from QualityEncodingDetector to Ensuring[QualityEncodingDetector] performed by method Ensuring in scala.Predef.

    Definition Classes

    Ensuring

14. def ensuring(cond: Boolean): QualityEncodingDetector

    

    Implicit information

    This member is added by an implicit conversion from QualityEncodingDetector to Ensuring[QualityEncodingDetector] performed by method Ensuring in scala.Predef.

    Definition Classes

    Ensuring

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

    

    Definition Classes

    AnyRef

16. def equals(arg0: Any): Boolean

    

    Definition Classes

    AnyRef → Any

17. def finalize(): Unit

    

    Attributes

    protected[java.lang]

    Definition Classes

    AnyRef

    Annotations

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

18. def formatted(fmtstr: String): String

    

    Implicit information

    This member is added by an implicit conversion from QualityEncodingDetector to StringFormat[QualityEncodingDetector] performed by method StringFormat in scala.Predef.

    Definition Classes

    StringFormat

    Annotations

    @inline()

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

    

    Definition Classes

    AnyRef → Any

20. def hashCode(): Int

    

    Definition Classes

    AnyRef → Any

21. def isAmbiguous: Boolean

    

    Returns true if more than one quality encoding is compatible given the evidence so far.

22. def isCompatible(encoding: QualityEncoding): Boolean

    

    Returns true if the observed qualities are compatible with the encoding, false otherwise.

23. final def isInstanceOf[T0]: Boolean

    

    Definition Classes

    Any

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

    

    Definition Classes

    AnyRef

25. final def notify(): Unit

    

    Definition Classes

    AnyRef

26. final def notifyAll(): Unit

    

    Definition Classes

    AnyRef

27. def rankedCompatibleEncodings(q: Int): List[QualityEncoding]

    

    Returns the set of compatible encodings ranked by how close the mean value is to Q under each encoding.

28. def sample(ss: Iterator[String], count: Int = 100000): Unit

    

    Samples strings from the iterator until at least count qualities have been sampled.

    Samples strings from the iterator until at least count qualities have been sampled.

    ss

    an iterator of Strings where each string is an ascii string of quality scores

    count

    the number of quality scores (not strings!) to attempt to sample

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

    

    Definition Classes

    AnyRef

30. def toString(): String

    

    Definition Classes

    AnyRef → Any

31. final def wait(): Unit

    

    Definition Classes

    AnyRef

    Annotations

    @throws( ... )

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

    

    Definition Classes

    AnyRef

    Annotations

    @throws( ... )

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

    

    Definition Classes

    AnyRef

    Annotations

    @throws( ... )

34. def →[B](y: B): (QualityEncodingDetector, B)

    

    Implicit information

    This member is added by an implicit conversion from QualityEncodingDetector to ArrowAssoc[QualityEncodingDetector] performed by method ArrowAssoc in scala.Predef.

    Definition Classes

    ArrowAssoc