sealed trait QualityEncoding extends EnumEntry

Trait for describing quality score encoding systems.

Linear Supertypes
EnumEntry, AnyRef, Any
Known Subclasses
Illumina, Solexa, Standard
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Inherited
  1. QualityEncoding
  2. EnumEntry
  3. AnyRef
  4. Any
Implicitly
  1. by EnumEntryOps
  2. by any2stringadd
  3. by StringFormat
  4. by Ensuring
  5. by ArrowAssoc
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Visibility
  1. Public
  2. All

Abstract Value Members

  1. abstract def asciiOffset: Int

    The shift to go from a quality score to the ascii encoding of the quality score.

  2. abstract def numericRange: Range

    The valid numeric range of the quality scores, prior to any ascii encoding.

  3. abstract def toStandardNumeric(q: Byte): Byte

    Must be implemented to convert from a numeric quality score in the given format to a numeric quality score in standard format (i.e.

    Must be implemented to convert from a numeric quality score in the given format to a numeric quality score in standard format (i.e. -10*log10(pError)).

Concrete 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
    This member is added by an implicit conversion from QualityEncoding to any2stringadd[QualityEncoding] performed by method any2stringadd in scala.Predef.
    Definition Classes
    any2stringadd
  4. def ->[B](y: B): (QualityEncoding, B)
    Implicit
    This member is added by an implicit conversion from QualityEncoding to ArrowAssoc[QualityEncoding] performed by method ArrowAssoc in scala.Predef.
    Definition Classes
    ArrowAssoc
    Annotations
    @inline()
  5. final def ==(arg0: Any): Boolean
    Definition Classes
    AnyRef → Any
  6. final def asInstanceOf[T0]: T0
    Definition Classes
    Any
  7. lazy val asciiRange: Range

    The valid range of ascii characters (as ints).

  8. def clone(): AnyRef
    Attributes
    protected[java.lang]
    Definition Classes
    AnyRef
    Annotations
    @native() @throws( ... )
  9. def ensuring(cond: (QualityEncoding) ⇒ Boolean, msg: ⇒ Any): QualityEncoding
    Implicit
    This member is added by an implicit conversion from QualityEncoding to Ensuring[QualityEncoding] performed by method Ensuring in scala.Predef.
    Definition Classes
    Ensuring
  10. def ensuring(cond: (QualityEncoding) ⇒ Boolean): QualityEncoding
    Implicit
    This member is added by an implicit conversion from QualityEncoding to Ensuring[QualityEncoding] performed by method Ensuring in scala.Predef.
    Definition Classes
    Ensuring
  11. def ensuring(cond: Boolean, msg: ⇒ Any): QualityEncoding
    Implicit
    This member is added by an implicit conversion from QualityEncoding to Ensuring[QualityEncoding] performed by method Ensuring in scala.Predef.
    Definition Classes
    Ensuring
  12. def ensuring(cond: Boolean): QualityEncoding
    Implicit
    This member is added by an implicit conversion from QualityEncoding to Ensuring[QualityEncoding] performed by method Ensuring in scala.Predef.
    Definition Classes
    Ensuring
  13. def entryName: String
    Definition Classes
    EnumEntry
  14. val enumEntry: QualityEncoding
    Implicit
    This member is added by an implicit conversion from QualityEncoding to EnumEntryOps[QualityEncoding] performed by method EnumEntryOps in enumeratum.EnumEntry.
    Definition Classes
    EnumEntryOps
  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
    This member is added by an implicit conversion from QualityEncoding to StringFormat[QualityEncoding] performed by method StringFormat in scala.Predef.
    Definition Classes
    StringFormat
    Annotations
    @inline()
  19. final def getClass(): Class[_]
    Definition Classes
    AnyRef → Any
    Annotations
    @native()
  20. def hashCode(): Int
    Definition Classes
    AnyRef → Any
    Annotations
    @native()
  21. def in(entries: Seq[QualityEncoding]): Boolean
    Implicit
    This member is added by an implicit conversion from QualityEncoding to EnumEntryOps[QualityEncoding] performed by method EnumEntryOps in enumeratum.EnumEntry.
    Definition Classes
    EnumEntryOps
  22. def in(firstEntry: QualityEncoding, otherEnums: QualityEncoding*): Boolean
    Implicit
    This member is added by an implicit conversion from QualityEncoding to EnumEntryOps[QualityEncoding] performed by method EnumEntryOps in enumeratum.EnumEntry.
    Definition Classes
    EnumEntryOps
  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
    Annotations
    @native()
  26. final def notifyAll(): Unit
    Definition Classes
    AnyRef
    Annotations
    @native()
  27. final def synchronized[T0](arg0: ⇒ T0): T0
    Definition Classes
    AnyRef
  28. def toStandardAscii(qs: String): String

    Converts a String in one ascii encoding to another.

  29. def toStandardAscii(ch: Char): Char

    Converts a character from one ascii encoding another

  30. def toStandardNumeric(qs: String): Array[Byte]

    Converts a String of quality scores in the given format into standard numeric quality scores.

  31. final def toStandardNumeric(ch: Char): Byte

    Translates a character/ascii-encoded quality to a numeric quality in standard phred scaling.

    Translates a character/ascii-encoded quality to a numeric quality in standard phred scaling.

    Annotations
    @inline()
  32. def toString(): String
    Definition Classes
    AnyRef → Any
  33. final def wait(): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  34. final def wait(arg0: Long, arg1: Int): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  35. final def wait(arg0: Long): Unit
    Definition Classes
    AnyRef
    Annotations
    @native() @throws( ... )
  36. def →[B](y: B): (QualityEncoding, B)
    Implicit
    This member is added by an implicit conversion from QualityEncoding to ArrowAssoc[QualityEncoding] performed by method ArrowAssoc in scala.Predef.
    Definition Classes
    ArrowAssoc

Inherited from EnumEntry

Inherited from AnyRef

Inherited from Any

Inherited by implicit conversion EnumEntryOps from QualityEncoding to EnumEntryOps[QualityEncoding]

Inherited by implicit conversion any2stringadd from QualityEncoding to any2stringadd[QualityEncoding]

Inherited by implicit conversion StringFormat from QualityEncoding to StringFormat[QualityEncoding]

Inherited by implicit conversion Ensuring from QualityEncoding to Ensuring[QualityEncoding]

Inherited by implicit conversion ArrowAssoc from QualityEncoding to ArrowAssoc[QualityEncoding]

Ungrouped