Packages

implicit object SmithWatermanGotohScore extends SmithWatermanImpl with WeightedScoringAlgorithm[SmithWatermanGotohAlgorithm, ConstantGap]

Implicit definition of smith waterman gotoh score for SmithWatermanGotohAlgorithm.

Linear Supertypes
WeightedScoringAlgorithm[SmithWatermanGotohAlgorithm, ConstantGap], SmithWatermanImpl, GapSubstitution, AnyRef, Any
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Inherited
  1. SmithWatermanGotohScore
  2. WeightedScoringAlgorithm
  3. SmithWatermanImpl
  4. GapSubstitution
  5. AnyRef
  6. Any
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Visibility
  1. Public
  2. Protected

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. final def asInstanceOf[T0]: T0
    Definition Classes
    Any
  5. def clone(): AnyRef
    Attributes
    protected[lang]
    Definition Classes
    AnyRef
    Annotations
    @throws(classOf[java.lang.CloneNotSupportedException]) @native()
  6. final def eq(arg0: AnyRef): Boolean
    Definition Classes
    AnyRef
  7. def equals(arg0: AnyRef): Boolean
    Definition Classes
    AnyRef → Any
  8. def finalize(): Unit
    Attributes
    protected[lang]
    Definition Classes
    AnyRef
    Annotations
    @throws(classOf[java.lang.Throwable])
  9. final def getClass(): Class[_ <: AnyRef]
    Definition Classes
    AnyRef → Any
    Annotations
    @native()
  10. def hashCode(): Int
    Definition Classes
    AnyRef → Any
    Annotations
    @native()
  11. final def isInstanceOf[T0]: Boolean
    Definition Classes
    Any
  12. final def ne(arg0: AnyRef): Boolean
    Definition Classes
    AnyRef
  13. final def notify(): Unit
    Definition Classes
    AnyRef
    Annotations
    @native()
  14. final def notifyAll(): Unit
    Definition Classes
    AnyRef
    Annotations
    @native()
  15. def score(s1: String, s2: String): Double
    Definition Classes
    SmithWatermanGotohScore → WeightedScoringAlgorithm
  16. def score(s1: String, s2: String, gap: ConstantGap): Double

    The score method takes two strings and returns smith waterman similarity between them.

    The score method takes two strings and returns smith waterman similarity between them.

    s1

    The 1st String.

    s2

    The 2nd String.

    returns

    Returns the smith waterman gotoh similarity between Strings s1 and s2.

    Definition Classes
    SmithWatermanGotohScore → WeightedScoringAlgorithm
  17. def smithWaterman[T](s1: Array[T], s2: Array[T], gap: Gap = LinearGap(), windowSize: Int = Integer.MAX_VALUE): Double
    Definition Classes
    SmithWatermanImpl
  18. def smithWatermanGotoh[T](s1: Array[T], s2: Array[T], gap: ConstantGap = ConstantGap()): Double
    Definition Classes
    SmithWatermanImpl
  19. def subst[T](a: Array[T], aIndex: Int, b: Array[T], bIndex: Int, gap: Gap): Double
    Attributes
    protected
    Definition Classes
    GapSubstitution
  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(classOf[java.lang.InterruptedException])
  23. final def wait(arg0: Long, arg1: Int): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws(classOf[java.lang.InterruptedException])
  24. final def wait(arg0: Long): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws(classOf[java.lang.InterruptedException]) @native()

Inherited from WeightedScoringAlgorithm[SmithWatermanGotohAlgorithm, ConstantGap]

Inherited from SmithWatermanImpl

Inherited from GapSubstitution

Inherited from AnyRef

Inherited from Any

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