Packages

final class KmerTable3 extends KmerTable

Specialized KmerTable for n = 3 (k <= 96)

Linear Supertypes
KmerTable, IndexedSeq[Array[Long]], IndexedSeqLike[Array[Long], IndexedSeq[Array[Long]]], Seq[Array[Long]], SeqLike[Array[Long], IndexedSeq[Array[Long]]], GenSeq[Array[Long]], GenSeqLike[Array[Long], IndexedSeq[Array[Long]]], Iterable[Array[Long]], IterableLike[Array[Long], IndexedSeq[Array[Long]]], Equals, GenIterable[Array[Long]], GenIterableLike[Array[Long], IndexedSeq[Array[Long]]], Traversable[Array[Long]], GenTraversable[Array[Long]], GenericTraversableTemplate[Array[Long], IndexedSeq], TraversableLike[Array[Long], IndexedSeq[Array[Long]]], GenTraversableLike[Array[Long], IndexedSeq[Array[Long]]], Parallelizable[Array[Long], ParSeq[Array[Long]]], TraversableOnce[Array[Long]], GenTraversableOnce[Array[Long]], FilterMonadic[Array[Long], IndexedSeq[Array[Long]]], HasNewBuilder[Array[Long], IndexedSeq[Array[Long]] @scala.annotation.unchecked.uncheckedVariance], PartialFunction[Int, Array[Long]], (Int) ⇒ Array[Long], AnyRef, Any
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Inherited
  1. KmerTable3
  2. KmerTable
  3. IndexedSeq
  4. IndexedSeqLike
  5. Seq
  6. SeqLike
  7. GenSeq
  8. GenSeqLike
  9. Iterable
  10. IterableLike
  11. Equals
  12. GenIterable
  13. GenIterableLike
  14. Traversable
  15. GenTraversable
  16. GenericTraversableTemplate
  17. TraversableLike
  18. GenTraversableLike
  19. Parallelizable
  20. TraversableOnce
  21. GenTraversableOnce
  22. FilterMonadic
  23. HasNewBuilder
  24. PartialFunction
  25. Function1
  26. AnyRef
  27. Any
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Visibility
  1. Public
  2. All

Instance Constructors

  1. new KmerTable3(kmers: Array[Array[Long]], width: Int, tagWidth: Int, k: Int)

    kmers

    k-mer data, column-major

    width

    number of columns (longs per row) in the table, including k-mer and tag data

    tagWidth

    number of additional columns on the right used for tag data

    k

    length of k-mers

Type Members

  1. class Elements extends AbstractIterator[A] with BufferedIterator[A] with Serializable
    Attributes
    protected
    Definition Classes
    IndexedSeqLike
    Annotations
    @SerialVersionUID()
  2. type Self = IndexedSeq[Array[Long]]
    Attributes
    protected[this]
    Definition Classes
    TraversableLike
  3. class WithFilter extends FilterMonadic[A, Repr]
    Definition Classes
    TraversableLike

Value Members

  1. final def !=(arg0: Any): Boolean
    Definition Classes
    AnyRef → Any
  2. final def ##(): Int
    Definition Classes
    AnyRef → Any
  3. def ++[B >: Array[Long], That](that: GenTraversableOnce[B])(implicit bf: CanBuildFrom[IndexedSeq[Array[Long]], B, That]): That
    Definition Classes
    TraversableLike → GenTraversableLike
  4. def ++:[B >: Array[Long], That](that: Traversable[B])(implicit bf: CanBuildFrom[IndexedSeq[Array[Long]], B, That]): That
    Definition Classes
    TraversableLike
  5. def ++:[B >: Array[Long], That](that: TraversableOnce[B])(implicit bf: CanBuildFrom[IndexedSeq[Array[Long]], B, That]): That
    Definition Classes
    TraversableLike
  6. def +:[B >: Array[Long], That](elem: B)(implicit bf: CanBuildFrom[IndexedSeq[Array[Long]], B, That]): That
    Definition Classes
    SeqLike → GenSeqLike
  7. def :+[B >: Array[Long], That](elem: B)(implicit bf: CanBuildFrom[IndexedSeq[Array[Long]], B, That]): That
    Definition Classes
    SeqLike → GenSeqLike
  8. final def ==(arg0: Any): Boolean
    Definition Classes
    AnyRef → Any
  9. def addString(b: StringBuilder): StringBuilder
    Definition Classes
    TraversableOnce
  10. def addString(b: StringBuilder, sep: String): StringBuilder
    Definition Classes
    TraversableOnce
  11. def addString(b: StringBuilder, start: String, sep: String, end: String): StringBuilder
    Definition Classes
    TraversableOnce
  12. def aggregate[B](z: ⇒ B)(seqop: (B, Array[Long]) ⇒ B, combop: (B, B) ⇒ B): B
    Definition Classes
    TraversableOnce → GenTraversableOnce
  13. def andThen[C](k: (Array[Long]) ⇒ C): PartialFunction[Int, C]
    Definition Classes
    PartialFunction → Function1
  14. def apply(i: Int): Array[Long]

    K-mer only at position i

    K-mer only at position i

    Definition Classes
    KmerTable → SeqLike → GenSeqLike → Function1
  15. def applyOrElse[A1 <: Int, B1 >: Array[Long]](x: A1, default: (A1) ⇒ B1): B1
    Definition Classes
    PartialFunction
  16. final def asInstanceOf[T0]: T0
    Definition Classes
    Any
  17. def canEqual(that: Any): Boolean
    Definition Classes
    IterableLike → Equals
  18. def clone(): AnyRef
    Attributes
    protected[lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( ... ) @native()
  19. def collect[B, That](pf: PartialFunction[Array[Long], B])(implicit bf: CanBuildFrom[IndexedSeq[Array[Long]], B, That]): That
    Definition Classes
    TraversableLike → GenTraversableLike
  20. def collectFirst[B](pf: PartialFunction[Array[Long], B]): Option[B]
    Definition Classes
    TraversableOnce
  21. def combinations(n: Int): Iterator[IndexedSeq[Array[Long]]]
    Definition Classes
    SeqLike
  22. def companion: GenericCompanion[IndexedSeq]
    Definition Classes
    IndexedSeq → Seq → GenSeq → Iterable → GenIterable → Traversable → GenTraversable → GenericTraversableTemplate
  23. def compareKmers(idx: Int, other: KmerTable, otherIdx: Int): Int

    Compare k-mer at position idx in this table with an equal length k-mer at position otherIdx in the other table.

    Compare k-mer at position idx in this table with an equal length k-mer at position otherIdx in the other table.

    idx

    Index in this table

    other

    Other table

    otherIdx

    Index in other table

    returns

    -1, 0, or 1 according to the Comparable contract (prior to, equal, or after)

    Definition Classes
    KmerTable3 → KmerTable
  24. def compose[A](g: (A) ⇒ Int): (A) ⇒ Array[Long]
    Definition Classes
    Function1
    Annotations
    @unspecialized()
  25. def contains[A1 >: Array[Long]](elem: A1): Boolean
    Definition Classes
    SeqLike
  26. def containsSlice[B](that: GenSeq[B]): Boolean
    Definition Classes
    SeqLike
  27. def copyKmer(i: Int): Array[Long]

    Copy the k-mer at position i to a new long array.

    Copy the k-mer at position i to a new long array.

    Definition Classes
    KmerTable3 → KmerTable
  28. def copyKmerAndTags(i: Int): Array[Long]

    Copy k-mer and tags at position i to a new long array.

    Copy k-mer and tags at position i to a new long array.

    Definition Classes
    KmerTable
  29. def copyKmerAndTagsToBuilder(destination: KmerTableBuilder, i: Int): Unit

    Copy k-mer and tag data from position i to a builder.

    Copy k-mer and tag data from position i to a builder.

    Definition Classes
    KmerTable
  30. def copyKmerOnlyToBuilder(destination: KmerTableBuilder, i: Int): Unit

    Copy k-mer data only from position i to a builder.

    Copy k-mer data only from position i to a builder.

    Definition Classes
    KmerTable
  31. def copyTagsOnlyToBuilder(destination: KmerTableBuilder, i: Int): Unit

    Copy tag data only from position i to a builder.

    Copy tag data only from position i to a builder.

    Definition Classes
    KmerTable
  32. def copyToArray[B >: Array[Long]](xs: Array[B], start: Int, len: Int): Unit
    Definition Classes
    IterableLike → TraversableLike → TraversableOnce → GenTraversableOnce
  33. def copyToArray[B >: Array[Long]](xs: Array[B]): Unit
    Definition Classes
    TraversableOnce → GenTraversableOnce
  34. def copyToArray[B >: Array[Long]](xs: Array[B], start: Int): Unit
    Definition Classes
    TraversableOnce → GenTraversableOnce
  35. def copyToBuffer[B >: Array[Long]](dest: Buffer[B]): Unit
    Definition Classes
    TraversableOnce
  36. def corresponds[B](that: GenSeq[B])(p: (Array[Long], B) ⇒ Boolean): Boolean
    Definition Classes
    SeqLike → GenSeqLike
  37. def count(p: (Array[Long]) ⇒ Boolean): Int
    Definition Classes
    TraversableOnce → GenTraversableOnce
  38. def countedKmers: Iterator[(Array[Long], Abundance)]

    An iterator of distinct k-mers and their counts.

    An iterator of distinct k-mers and their counts. Requires that the KmerTable was sorted at construction time.

    Definition Classes
    KmerTable
  39. def diff[B >: Array[Long]](that: GenSeq[B]): IndexedSeq[Array[Long]]
    Definition Classes
    SeqLike → GenSeqLike
  40. def distinct: IndexedSeq[Array[Long]]
    Definition Classes
    SeqLike → GenSeqLike
  41. def drop(n: Int): IndexedSeq[Array[Long]]
    Definition Classes
    IterableLike → TraversableLike → GenTraversableLike
  42. def dropRight(n: Int): IndexedSeq[Array[Long]]
    Definition Classes
    IterableLike
  43. def dropWhile(p: (Array[Long]) ⇒ Boolean): IndexedSeq[Array[Long]]
    Definition Classes
    TraversableLike → GenTraversableLike
  44. def endsWith[B](that: GenSeq[B]): Boolean
    Definition Classes
    SeqLike → GenSeqLike
  45. final def eq(arg0: AnyRef): Boolean
    Definition Classes
    AnyRef
  46. def equalKmers(i: Int, kmer: Array[Long]): Boolean

    Test whether the k-mer at position i is equal to the given one.

    Test whether the k-mer at position i is equal to the given one.

    Definition Classes
    KmerTable3 → KmerTable
  47. def equals(that: Any): Boolean
    Definition Classes
    GenSeqLike → Equals → Any
  48. def exists(p: (Array[Long]) ⇒ Boolean): Boolean
    Definition Classes
    IterableLike → TraversableLike → TraversableOnce → GenTraversableOnce
  49. def filter(p: (Array[Long]) ⇒ Boolean): IndexedSeq[Array[Long]]
    Definition Classes
    TraversableLike → GenTraversableLike
  50. def filterNot(p: (Array[Long]) ⇒ Boolean): IndexedSeq[Array[Long]]
    Definition Classes
    TraversableLike → GenTraversableLike
  51. def finalize(): Unit
    Attributes
    protected[lang]
    Definition Classes
    AnyRef
    Annotations
    @throws( classOf[java.lang.Throwable] )
  52. def find(p: (Array[Long]) ⇒ Boolean): Option[Array[Long]]
    Definition Classes
    IterableLike → TraversableLike → TraversableOnce → GenTraversableOnce
  53. def flatMap[B, That](f: (Array[Long]) ⇒ GenTraversableOnce[B])(implicit bf: CanBuildFrom[IndexedSeq[Array[Long]], B, That]): That
    Definition Classes
    TraversableLike → GenTraversableLike → FilterMonadic
  54. def flatten[B](implicit asTraversable: (Array[Long]) ⇒ GenTraversableOnce[B]): IndexedSeq[B]
    Definition Classes
    GenericTraversableTemplate
  55. def fold[A1 >: Array[Long]](z: A1)(op: (A1, A1) ⇒ A1): A1
    Definition Classes
    TraversableOnce → GenTraversableOnce
  56. def foldLeft[B](z: B)(op: (B, Array[Long]) ⇒ B): B
    Definition Classes
    TraversableOnce → GenTraversableOnce
  57. def foldRight[B](z: B)(op: (Array[Long], B) ⇒ B): B
    Definition Classes
    IterableLike → TraversableOnce → GenTraversableOnce
  58. def forall(p: (Array[Long]) ⇒ Boolean): Boolean
    Definition Classes
    IterableLike → TraversableLike → TraversableOnce → GenTraversableOnce
  59. def foreach[U](f: (Array[Long]) ⇒ U): Unit
    Definition Classes
    IterableLike → TraversableLike → GenTraversableLike → TraversableOnce → GenTraversableOnce → FilterMonadic
  60. def genericBuilder[B]: Builder[B, IndexedSeq[B]]
    Definition Classes
    GenericTraversableTemplate
  61. final def getClass(): Class[_]
    Definition Classes
    AnyRef → Any
    Annotations
    @native()
  62. def groupBy[K](f: (Array[Long]) ⇒ K): Map[K, IndexedSeq[Array[Long]]]
    Definition Classes
    TraversableLike → GenTraversableLike
  63. def grouped(size: Int): Iterator[IndexedSeq[Array[Long]]]
    Definition Classes
    IterableLike
  64. def hasDefiniteSize: Boolean
    Definition Classes
    TraversableLike → TraversableOnce → GenTraversableOnce
  65. def hashCode(): Int
    Definition Classes
    IndexedSeqLike → GenSeqLike → Any
  66. def head: Array[Long]
    Definition Classes
    IterableLike → TraversableLike → GenTraversableLike
  67. def headOption: Option[Array[Long]]
    Definition Classes
    TraversableLike → GenTraversableLike
  68. def indexIterator: Iterator[Int]
    Definition Classes
    KmerTable
  69. def indexOf[B >: Array[Long]](elem: B, from: Int): Int
    Definition Classes
    GenSeqLike
  70. def indexOf[B >: Array[Long]](elem: B): Int
    Definition Classes
    GenSeqLike
  71. def indexOfSlice[B >: Array[Long]](that: GenSeq[B], from: Int): Int
    Definition Classes
    SeqLike
  72. def indexOfSlice[B >: Array[Long]](that: GenSeq[B]): Int
    Definition Classes
    SeqLike
  73. def indexWhere(p: (Array[Long]) ⇒ Boolean, from: Int): Int
    Definition Classes
    SeqLike → GenSeqLike
  74. def indexWhere(p: (Array[Long]) ⇒ Boolean): Int
    Definition Classes
    GenSeqLike
  75. def indices: Range
    Definition Classes
    SeqLike
  76. def init: IndexedSeq[Array[Long]]
    Definition Classes
    TraversableLike → GenTraversableLike
  77. def inits: Iterator[IndexedSeq[Array[Long]]]
    Definition Classes
    TraversableLike
  78. def intersect[B >: Array[Long]](that: GenSeq[B]): IndexedSeq[Array[Long]]
    Definition Classes
    SeqLike → GenSeqLike
  79. def isDefinedAt(idx: Int): Boolean
    Definition Classes
    GenSeqLike
  80. def isEmpty: Boolean
    Definition Classes
    SeqLike → IterableLike → TraversableLike → TraversableOnce → GenTraversableOnce
  81. final def isInstanceOf[T0]: Boolean
    Definition Classes
    Any
  82. final def isTraversableAgain: Boolean
    Definition Classes
    TraversableLike → GenTraversableLike → GenTraversableOnce
  83. def iterator: Iterator[Array[Long]]

    Iterator with k-mer data only

    Iterator with k-mer data only

    Definition Classes
    KmerTable → IndexedSeqLike → IterableLike → GenIterableLike
  84. def iteratorWithTags: Iterator[Array[Long]]

    Iterator including both k-mer data and tag data

    Iterator including both k-mer data and tag data

    Definition Classes
    KmerTable
  85. val k: Int
    Definition Classes
    KmerTable
  86. val kmerWidth: Int
    Definition Classes
    KmerTable
  87. def kmerWithTags(i: Int): Array[Long]

    K-mer and tags at position i

    K-mer and tags at position i

    Definition Classes
    KmerTable
  88. val kmers: Array[Array[Long]]
    Definition Classes
    KmerTable
  89. def last: Array[Long]
    Definition Classes
    TraversableLike → GenTraversableLike
  90. def lastIndexOf[B >: Array[Long]](elem: B, end: Int): Int
    Definition Classes
    GenSeqLike
  91. def lastIndexOf[B >: Array[Long]](elem: B): Int
    Definition Classes
    GenSeqLike
  92. def lastIndexOfSlice[B >: Array[Long]](that: GenSeq[B], end: Int): Int
    Definition Classes
    SeqLike
  93. def lastIndexOfSlice[B >: Array[Long]](that: GenSeq[B]): Int
    Definition Classes
    SeqLike
  94. def lastIndexWhere(p: (Array[Long]) ⇒ Boolean, end: Int): Int
    Definition Classes
    SeqLike → GenSeqLike
  95. def lastIndexWhere(p: (Array[Long]) ⇒ Boolean): Int
    Definition Classes
    GenSeqLike
  96. def lastOption: Option[Array[Long]]
    Definition Classes
    TraversableLike → GenTraversableLike
  97. def length: Int
    Definition Classes
    KmerTable → SeqLike → GenSeqLike
  98. def lengthCompare(len: Int): Int
    Definition Classes
    SeqLike
  99. def lift: (Int) ⇒ Option[Array[Long]]
    Definition Classes
    PartialFunction
  100. def map[B, That](f: (Array[Long]) ⇒ B)(implicit bf: CanBuildFrom[IndexedSeq[Array[Long]], B, That]): That
    Definition Classes
    TraversableLike → GenTraversableLike → FilterMonadic
  101. def max[B >: Array[Long]](implicit cmp: Ordering[B]): Array[Long]
    Definition Classes
    TraversableOnce → GenTraversableOnce
  102. def maxBy[B](f: (Array[Long]) ⇒ B)(implicit cmp: Ordering[B]): Array[Long]
    Definition Classes
    TraversableOnce → GenTraversableOnce
  103. def min[B >: Array[Long]](implicit cmp: Ordering[B]): Array[Long]
    Definition Classes
    TraversableOnce → GenTraversableOnce
  104. def minBy[B](f: (Array[Long]) ⇒ B)(implicit cmp: Ordering[B]): Array[Long]
    Definition Classes
    TraversableOnce → GenTraversableOnce
  105. def mkString: String
    Definition Classes
    TraversableOnce → GenTraversableOnce
  106. def mkString(sep: String): String
    Definition Classes
    TraversableOnce → GenTraversableOnce
  107. def mkString(start: String, sep: String, end: String): String
    Definition Classes
    TraversableOnce → GenTraversableOnce
  108. final def ne(arg0: AnyRef): Boolean
    Definition Classes
    AnyRef
  109. def newBuilder: Builder[Array[Long], IndexedSeq[Array[Long]]]
    Attributes
    protected[this]
    Definition Classes
    GenericTraversableTemplate → HasNewBuilder
  110. def nonEmpty: Boolean
    Definition Classes
    TraversableOnce → GenTraversableOnce
  111. final def notify(): Unit
    Definition Classes
    AnyRef
    Annotations
    @native()
  112. final def notifyAll(): Unit
    Definition Classes
    AnyRef
    Annotations
    @native()
  113. def orElse[A1 <: Int, B1 >: Array[Long]](that: PartialFunction[A1, B1]): PartialFunction[A1, B1]
    Definition Classes
    PartialFunction
  114. def padTo[B >: Array[Long], That](len: Int, elem: B)(implicit bf: CanBuildFrom[IndexedSeq[Array[Long]], B, That]): That
    Definition Classes
    SeqLike → GenSeqLike
  115. def par: ParSeq[Array[Long]]
    Definition Classes
    Parallelizable
  116. def parCombiner: Combiner[Array[Long], ParSeq[Array[Long]]]
    Attributes
    protected[this]
    Definition Classes
    SeqLike → TraversableLike → Parallelizable
  117. def partition(p: (Array[Long]) ⇒ Boolean): (IndexedSeq[Array[Long]], IndexedSeq[Array[Long]])
    Definition Classes
    TraversableLike → GenTraversableLike
  118. def patch[B >: Array[Long], That](from: Int, patch: GenSeq[B], replaced: Int)(implicit bf: CanBuildFrom[IndexedSeq[Array[Long]], B, That]): That
    Definition Classes
    SeqLike → GenSeqLike
  119. def permutations: Iterator[IndexedSeq[Array[Long]]]
    Definition Classes
    SeqLike
  120. def prefixLength(p: (Array[Long]) ⇒ Boolean): Int
    Definition Classes
    GenSeqLike
  121. def product[B >: Array[Long]](implicit num: Numeric[B]): B
    Definition Classes
    TraversableOnce → GenTraversableOnce
  122. def reduce[A1 >: Array[Long]](op: (A1, A1) ⇒ A1): A1
    Definition Classes
    TraversableOnce → GenTraversableOnce
  123. def reduceLeft[B >: Array[Long]](op: (B, Array[Long]) ⇒ B): B
    Definition Classes
    TraversableOnce
  124. def reduceLeftOption[B >: Array[Long]](op: (B, Array[Long]) ⇒ B): Option[B]
    Definition Classes
    TraversableOnce → GenTraversableOnce
  125. def reduceOption[A1 >: Array[Long]](op: (A1, A1) ⇒ A1): Option[A1]
    Definition Classes
    TraversableOnce → GenTraversableOnce
  126. def reduceRight[B >: Array[Long]](op: (Array[Long], B) ⇒ B): B
    Definition Classes
    IterableLike → TraversableOnce → GenTraversableOnce
  127. def reduceRightOption[B >: Array[Long]](op: (Array[Long], B) ⇒ B): Option[B]
    Definition Classes
    TraversableOnce → GenTraversableOnce
  128. def repr: IndexedSeq[Array[Long]]
    Definition Classes
    TraversableLike → GenTraversableLike
  129. def reverse: IndexedSeq[Array[Long]]
    Definition Classes
    SeqLike → GenSeqLike
  130. def reverseIterator: Iterator[Array[Long]]
    Definition Classes
    SeqLike
  131. def reverseMap[B, That](f: (Array[Long]) ⇒ B)(implicit bf: CanBuildFrom[IndexedSeq[Array[Long]], B, That]): That
    Definition Classes
    SeqLike → GenSeqLike
  132. def reversed: List[Array[Long]]
    Attributes
    protected[this]
    Definition Classes
    TraversableOnce
  133. def runWith[U](action: (Array[Long]) ⇒ U): (Int) ⇒ Boolean
    Definition Classes
    PartialFunction
  134. def sameElements[B >: Array[Long]](that: GenIterable[B]): Boolean
    Definition Classes
    IterableLike → GenIterableLike
  135. def scan[B >: Array[Long], That](z: B)(op: (B, B) ⇒ B)(implicit cbf: CanBuildFrom[IndexedSeq[Array[Long]], B, That]): That
    Definition Classes
    TraversableLike → GenTraversableLike
  136. def scanLeft[B, That](z: B)(op: (B, Array[Long]) ⇒ B)(implicit bf: CanBuildFrom[IndexedSeq[Array[Long]], B, That]): That
    Definition Classes
    TraversableLike → GenTraversableLike
  137. def scanRight[B, That](z: B)(op: (Array[Long], B) ⇒ B)(implicit bf: CanBuildFrom[IndexedSeq[Array[Long]], B, That]): That
    Definition Classes
    TraversableLike → GenTraversableLike
    Annotations
    @migration
    Migration

    (Changed in version 2.9.0) The behavior of scanRight has changed. The previous behavior can be reproduced with scanRight.reverse.

  138. def segmentLength(p: (Array[Long]) ⇒ Boolean, from: Int): Int
    Definition Classes
    SeqLike → GenSeqLike
  139. def seq: IndexedSeq[Array[Long]]
    Definition Classes
    IndexedSeq → IndexedSeqLike → Seq → GenSeq → GenSeqLike → Iterable → GenIterable → Traversable → GenTraversable → Parallelizable → TraversableOnce → GenTraversableOnce
  140. val size: Int
    Definition Classes
    KmerTable → SeqLike → GenTraversableLike → TraversableOnce → GenTraversableOnce
  141. def sizeHintIfCheap: Int
    Attributes
    protected[collection]
    Definition Classes
    IndexedSeqLike → GenTraversableOnce
  142. def slice(from: Int, until: Int): IndexedSeq[Array[Long]]
    Definition Classes
    IterableLike → TraversableLike → GenTraversableLike
  143. def sliding(size: Int, step: Int): Iterator[IndexedSeq[Array[Long]]]
    Definition Classes
    IterableLike
  144. def sliding(size: Int): Iterator[IndexedSeq[Array[Long]]]
    Definition Classes
    IterableLike
  145. def sortBy[B](f: (Array[Long]) ⇒ B)(implicit ord: Ordering[B]): IndexedSeq[Array[Long]]
    Definition Classes
    SeqLike
  146. def sortWith(lt: (Array[Long], Array[Long]) ⇒ Boolean): IndexedSeq[Array[Long]]
    Definition Classes
    SeqLike
  147. def sorted[B >: Array[Long]](implicit ord: Ordering[B]): IndexedSeq[Array[Long]]
    Definition Classes
    SeqLike
  148. def span(p: (Array[Long]) ⇒ Boolean): (IndexedSeq[Array[Long]], IndexedSeq[Array[Long]])
    Definition Classes
    TraversableLike → GenTraversableLike
  149. def splitAt(n: Int): (IndexedSeq[Array[Long]], IndexedSeq[Array[Long]])
    Definition Classes
    TraversableLike → GenTraversableLike
  150. def startsWith[B](that: GenSeq[B], offset: Int): Boolean
    Definition Classes
    SeqLike → GenSeqLike
  151. def startsWith[B](that: GenSeq[B]): Boolean
    Definition Classes
    GenSeqLike
  152. def stringPrefix: String
    Definition Classes
    TraversableLike → GenTraversableLike
  153. def sum[B >: Array[Long]](implicit num: Numeric[B]): B
    Definition Classes
    TraversableOnce → GenTraversableOnce
  154. final def synchronized[T0](arg0: ⇒ T0): T0
    Definition Classes
    AnyRef
  155. val tagWidth: Int
    Definition Classes
    KmerTable
  156. def tagsIterator: Iterator[Array[Long]]

    Iterator including only tags data

    Iterator including only tags data

    Definition Classes
    KmerTable
  157. def tagsOnly(i: Int): Array[Long]

    Tags only at position i

    Tags only at position i

    Definition Classes
    KmerTable
  158. def tail: IndexedSeq[Array[Long]]
    Definition Classes
    TraversableLike → GenTraversableLike
  159. def tails: Iterator[IndexedSeq[Array[Long]]]
    Definition Classes
    TraversableLike
  160. def take(n: Int): IndexedSeq[Array[Long]]
    Definition Classes
    IterableLike → TraversableLike → GenTraversableLike
  161. def takeRight(n: Int): IndexedSeq[Array[Long]]
    Definition Classes
    IterableLike
  162. def takeWhile(p: (Array[Long]) ⇒ Boolean): IndexedSeq[Array[Long]]
    Definition Classes
    IterableLike → TraversableLike → GenTraversableLike
  163. def thisCollection: IndexedSeq[Array[Long]]
    Attributes
    protected[this]
    Definition Classes
    IndexedSeqLike → SeqLike → IterableLike → TraversableLike
  164. def to[Col[_]](implicit cbf: CanBuildFrom[Nothing, Array[Long], Col[Array[Long]]]): Col[Array[Long]]
    Definition Classes
    TraversableLike → TraversableOnce → GenTraversableOnce
  165. def toArray[B >: Array[Long]](implicit arg0: ClassTag[B]): Array[B]
    Definition Classes
    TraversableOnce → GenTraversableOnce
  166. def toBuffer[A1 >: Array[Long]]: Buffer[A1]
    Definition Classes
    IndexedSeqLike → TraversableOnce → GenTraversableOnce
  167. def toCollection(repr: IndexedSeq[Array[Long]]): IndexedSeq[Array[Long]]
    Attributes
    protected[this]
    Definition Classes
    IndexedSeqLike → SeqLike → IterableLike → TraversableLike
  168. def toIndexedSeq: IndexedSeq[Array[Long]]
    Definition Classes
    TraversableOnce → GenTraversableOnce
  169. def toIterable: Iterable[Array[Long]]
    Definition Classes
    IterableLike → TraversableOnce → GenTraversableOnce
  170. def toIterator: Iterator[Array[Long]]
    Definition Classes
    IterableLike → TraversableLike → GenTraversableOnce
    Annotations
    @deprecatedOverriding( ... , "2.11.0" )
  171. def toList: List[Array[Long]]
    Definition Classes
    TraversableOnce → GenTraversableOnce
  172. def toMap[T, U](implicit ev: <:<[Array[Long], (T, U)]): Map[T, U]
    Definition Classes
    TraversableOnce → GenTraversableOnce
  173. def toSeq: Seq[Array[Long]]
    Definition Classes
    SeqLike → GenSeqLike → TraversableOnce → GenTraversableOnce
  174. def toSet[B >: Array[Long]]: Set[B]
    Definition Classes
    TraversableOnce → GenTraversableOnce
  175. def toStream: Stream[Array[Long]]
    Definition Classes
    IterableLike → TraversableLike → GenTraversableOnce
  176. def toString(): String
    Definition Classes
    KmerTable → SeqLike → TraversableLike → Function1 → AnyRef → Any
  177. def toTraversable: Traversable[Array[Long]]
    Definition Classes
    TraversableLike → TraversableOnce → GenTraversableOnce
    Annotations
    @deprecatedOverriding( ... , "2.11.0" )
  178. def toVector: Vector[Array[Long]]
    Definition Classes
    TraversableOnce → GenTraversableOnce
  179. def transpose[B](implicit asTraversable: (Array[Long]) ⇒ GenTraversableOnce[B]): IndexedSeq[IndexedSeq[B]]
    Definition Classes
    GenericTraversableTemplate
    Annotations
    @migration
    Migration

    (Changed in version 2.9.0) transpose throws an IllegalArgumentException if collections are not uniformly sized.

  180. def union[B >: Array[Long], That](that: GenSeq[B])(implicit bf: CanBuildFrom[IndexedSeq[Array[Long]], B, That]): That
    Definition Classes
    SeqLike → GenSeqLike
  181. def unzip[A1, A2](implicit asPair: (Array[Long]) ⇒ (A1, A2)): (IndexedSeq[A1], IndexedSeq[A2])
    Definition Classes
    GenericTraversableTemplate
  182. def unzip3[A1, A2, A3](implicit asTriple: (Array[Long]) ⇒ (A1, A2, A3)): (IndexedSeq[A1], IndexedSeq[A2], IndexedSeq[A3])
    Definition Classes
    GenericTraversableTemplate
  183. def updated[B >: Array[Long], That](index: Int, elem: B)(implicit bf: CanBuildFrom[IndexedSeq[Array[Long]], B, That]): That
    Definition Classes
    SeqLike → GenSeqLike
  184. def view(from: Int, until: Int): SeqView[Array[Long], IndexedSeq[Array[Long]]]
    Definition Classes
    SeqLike → IterableLike → TraversableLike
  185. def view: SeqView[Array[Long], IndexedSeq[Array[Long]]]
    Definition Classes
    SeqLike → IterableLike → TraversableLike
  186. final def wait(): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  187. final def wait(arg0: Long, arg1: Int): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )
  188. final def wait(arg0: Long): Unit
    Definition Classes
    AnyRef
    Annotations
    @throws( ... ) @native()
  189. val width: Int
    Definition Classes
    KmerTable
  190. def withFilter(p: (Array[Long]) ⇒ Boolean): FilterMonadic[Array[Long], IndexedSeq[Array[Long]]]
    Definition Classes
    TraversableLike → FilterMonadic
  191. def zip[A1 >: Array[Long], B, That](that: GenIterable[B])(implicit bf: CanBuildFrom[IndexedSeq[Array[Long]], (A1, B), That]): That
    Definition Classes
    IterableLike → GenIterableLike
  192. def zipAll[B, A1 >: Array[Long], That](that: GenIterable[B], thisElem: A1, thatElem: B)(implicit bf: CanBuildFrom[IndexedSeq[Array[Long]], (A1, B), That]): That
    Definition Classes
    IterableLike → GenIterableLike
  193. def zipWithIndex[A1 >: Array[Long], That](implicit bf: CanBuildFrom[IndexedSeq[Array[Long]], (A1, Int), That]): That
    Definition Classes
    IterableLike → GenIterableLike

Deprecated Value Members

  1. def /:[B](z: B)(op: (B, Array[Long]) ⇒ B): B
    Definition Classes
    TraversableOnce → GenTraversableOnce
    Annotations
    @deprecated
    Deprecated

    (Since version 2.12.10) Use foldLeft instead of /:

  2. def :\[B](z: B)(op: (Array[Long], B) ⇒ B): B
    Definition Classes
    TraversableOnce → GenTraversableOnce
    Annotations
    @deprecated
    Deprecated

    (Since version 2.12.10) Use foldRight instead of :\

Inherited from KmerTable

Inherited from IndexedSeq[Array[Long]]

Inherited from IndexedSeqLike[Array[Long], IndexedSeq[Array[Long]]]

Inherited from Seq[Array[Long]]

Inherited from SeqLike[Array[Long], IndexedSeq[Array[Long]]]

Inherited from GenSeq[Array[Long]]

Inherited from GenSeqLike[Array[Long], IndexedSeq[Array[Long]]]

Inherited from Iterable[Array[Long]]

Inherited from IterableLike[Array[Long], IndexedSeq[Array[Long]]]

Inherited from Equals

Inherited from GenIterable[Array[Long]]

Inherited from GenIterableLike[Array[Long], IndexedSeq[Array[Long]]]

Inherited from Traversable[Array[Long]]

Inherited from GenTraversable[Array[Long]]

Inherited from GenericTraversableTemplate[Array[Long], IndexedSeq]

Inherited from TraversableLike[Array[Long], IndexedSeq[Array[Long]]]

Inherited from GenTraversableLike[Array[Long], IndexedSeq[Array[Long]]]

Inherited from Parallelizable[Array[Long], ParSeq[Array[Long]]]

Inherited from TraversableOnce[Array[Long]]

Inherited from GenTraversableOnce[Array[Long]]

Inherited from FilterMonadic[Array[Long], IndexedSeq[Array[Long]]]

Inherited from HasNewBuilder[Array[Long], IndexedSeq[Array[Long]] @scala.annotation.unchecked.uncheckedVariance]

Inherited from PartialFunction[Int, Array[Long]]

Inherited from (Int) ⇒ Array[Long]

Inherited from AnyRef

Inherited from Any

Ungrouped