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.  val all1mersDNA: List[String]
5.  val all1mersRNA: List[String]
6.  final def asInstanceOf[T0]: T0

   Definition Classes

   Any

7.  def clone(): AnyRef

   Attributes

   protected[lang]

   Definition Classes

   AnyRef

   Annotations

   @throws( ... ) @native()

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

   Definition Classes

   AnyRef

9.  def equals(arg0: Any): Boolean

   Definition Classes

   AnyRef → Any

10.  def filteredOrdering(template: MinTable, validMers: Iterable[NTSeq]): MinTable

    Create a new motif table from a template, preserving the relative ordering, but filtering by the supplied valid set

    Create a new motif table from a template, preserving the relative ordering, but filtering by the supplied valid set

    template

    The template that should be filtered

    validMers

    Motifs to be included. Others will be excluded.

    returns

    A MinTable with filtered minimizer set

11.  def finalize(): Unit

    Attributes

    protected[lang]

    Definition Classes

    AnyRef

    Annotations

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

12.  final def getClass(): Class[_]

    Definition Classes

    AnyRef → Any

    Annotations

    @native()

13.  def hashCode(): Int

    Definition Classes

    AnyRef → Any

    Annotations

    @native()

14.  final def isInstanceOf[T0]: Boolean

    Definition Classes

    Any

15.  def motifsOfLength(length: Int, rna: Boolean = false): Iterator[NTSeq]

    Generate all motifs of a certain length, in lexicographic order.

    Generate all motifs of a certain length, in lexicographic order.

    length

    The length

    rna

    RNA mode (otherwise DNA will be used)

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

    Definition Classes

    AnyRef

17.  final def notify(): Unit

    Definition Classes

    AnyRef

    Annotations

    @native()

18.  final def notifyAll(): Unit

    Definition Classes

    AnyRef

    Annotations

    @native()

19.  def ofLength(length: Int, rna: Boolean = false): MinTable

    Generate a motif table with all motifs of a certain length, in lexicographic order.

    Generate a motif table with all motifs of a certain length, in lexicographic order.

    length

    the length

    rna

    RNA mode (otherwise DNA will be used)

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

    Definition Classes

    AnyRef

21.  def toString(): String

    Definition Classes

    AnyRef → Any

22.  def using(mers: Seq[NTSeq]): MinTable

    Create a motif table using the supplied minimizers in the given order.

    Create a motif table using the supplied minimizers in the given order.

    mers

    Motifs in the desired priority order

    returns

    The new motif table

23.  final def wait(): Unit

    Definition Classes

    AnyRef

    Annotations

    @throws( ... )

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

    Definition Classes

    AnyRef

    Annotations

    @throws( ... )

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

    Definition Classes

    AnyRef

    Annotations

    @throws( ... ) @native()