Value Members

1.  final def !=(arg0: Any): Boolean

   Definition Classes

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2.  final def ##(): Int

   Definition Classes

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3.  final def ==(arg0: Any): Boolean

   Definition Classes

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4.  final def asInstanceOf[T0]: T0

   Definition Classes

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5.  def builder(k: Int, sizeEstimate: Int = 100, tagWidth: Int = 0): KmerTableBuilder

   Obtain a new KmerTableBuilder

6.  def clone(): AnyRef

   Attributes

   protected[lang]

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   @throws( ... ) @native()

7.  final def eq(arg0: AnyRef): Boolean

   Definition Classes

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8.  def equals(arg0: Any): Boolean

   Definition Classes

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9.  def finalize(): Unit

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   Definition Classes

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

10.  def fromSegment(segment: NTBitArray, k: Int, forwardOnly: Boolean, sort: Boolean = true): KmerTable

    Obtain a KmerTable from a single segment/superkmer

11.  def fromSegments(segments: Iterable[NTBitArray], abundances: Array[Int], k: Int, forwardOnly: Boolean, sort: Boolean = true): KmerTable

    Construct a KmerTable from super k-mers.

    Construct a KmerTable from super k-mers.

    segments

    Super-mers

    abundances

    Abundances for each super-mer

    k

    k

    forwardOnly

    Whether to filter out k-mers with reverse orientation

    sort

    Whether to sort the k-mers

12.  def fromSupermers(supermers: Iterable[NTBitArray], k: Int, forwardOnly: Boolean, sort: Boolean, tagData: TagProvider): KmerTable

    Write super-mers as k-mers, along with tag data, to a new KmerTable.

    Write super-mers as k-mers, along with tag data, to a new KmerTable.

    supermers

    Super k-mers

    k

    k

    forwardOnly

    Whether to filter out k-mers with reverse orientation

    sort

    Whether to sort the result

    tagData

    Extra (tag) data for the given row and column, to be appended after the k-mer data

    returns

    The resulting KmerTable

13.  final def getClass(): Class[_]

    Definition Classes

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    Annotations

    @native()

14.  def hashCode(): Int

    Definition Classes

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    @native()

15.  final def isInstanceOf[T0]: Boolean

    Definition Classes

    Any

16.  def longsForK(k: Int): Int

    Number of longs required to represent a k-mer of length k

17.  final def ne(arg0: AnyRef): Boolean

    Definition Classes

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18.  final def notify(): Unit

    Definition Classes

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    @native()

19.  final def notifyAll(): Unit

    Definition Classes

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    @native()

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

    Definition Classes

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21.  def toString(): String

    Definition Classes

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22.  final def wait(): Unit

    Definition Classes

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    @throws( ... )

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

    Definition Classes

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    @throws( ... )

24.  final def wait(arg0: Long): Unit

    Definition Classes

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    @throws( ... ) @native()