org.hammerlab.guacamole.alignment

AlignmentState

object AlignmentState extends Enumeration

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Enumeration, Serializable, Serializable, AnyRef, Any
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  1. type AlignmentState = Value

  2. class Val extends Value with Serializable

    Attributes
    protected
    Definition Classes
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    Annotations
    @SerialVersionUID( -3501153230598116017L )

  3. abstract class Value extends Ordered[Value] with Serializable

    Definition Classes
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    Annotations
    @SerialVersionUID( 7091335633555234129L )

  4. class ValueSet extends AbstractSet[Value] with SortedSet[Value] with SortedSetLike[Value, ValueSet] with Serializable

    Definition Classes
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Value Members

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

    Definition Classes
    AnyRef

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

    Definition Classes
    Any

  3. final def ##(): Int

    Definition Classes
    AnyRef → Any

  4. final def ==(arg0: AnyRef): Boolean

    Definition Classes
    AnyRef

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

    Definition Classes
    Any

  6. val Deletion: Value

  7. val Insertion: Value

  8. val Match: Value

  9. val Mismatch: Value

  10. final def Value(i: Int, name: String): Value

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    protected
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    Enumeration

  11. final def Value(name: String): Value

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    protected
    Definition Classes
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  12. final def Value(i: Int): Value

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  13. final def Value: Value

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    protected
    Definition Classes
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  14. final def apply(x: Int): Value

    Definition Classes
    Enumeration

  15. final def asInstanceOf[T0]: T0

    Definition Classes
    Any

  16. def cigarKey(alignmentOperator: AlignmentState): String

    Match an AlignmentState to a CIGAR operator

    Match an AlignmentState to a CIGAR operator

    alignmentOperator

    An alignment state

    returns

    CIGAR operator corresponding to alignment state

  17. def clone(): AnyRef

    Attributes
    protected[java.lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

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

    Definition Classes
    AnyRef

  19. def equals(arg0: Any): Boolean

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    AnyRef → Any

  20. def finalize(): Unit

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

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

    Definition Classes
    AnyRef → Any

  22. def hashCode(): Int

    Definition Classes
    AnyRef → Any

  23. def isGapAlignment(state: AlignmentState): Boolean

  24. final def isInstanceOf[T0]: Boolean

    Definition Classes
    Any

  25. final def maxId: Int

    Definition Classes
    Enumeration

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

    Definition Classes
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  27. var nextId: Int

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    protected
    Definition Classes
    Enumeration

  28. var nextName: Iterator[String]

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    protected
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    Enumeration

  29. final def notify(): Unit

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  30. final def notifyAll(): Unit

    Definition Classes
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  31. def readResolve(): AnyRef

    Attributes
    protected
    Definition Classes
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  32. final def synchronized[T0](arg0: ⇒ T0): T0

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  33. def toString(): String

    Definition Classes
    Enumeration → AnyRef → Any

  34. def values: ValueSet

    Definition Classes
    Enumeration

  35. final def wait(): Unit

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    AnyRef
    Annotations
    @throws( ... )

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

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    @throws( ... )

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

    Definition Classes
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    @throws( ... )

  38. final def withName(s: String): Value

    Definition Classes
    Enumeration

Inherited from Enumeration

Inherited from Serializable

Inherited from Serializable

Inherited from AnyRef

Inherited from Any

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