Class/Object

nl.biopet.utils.ngs.intervals

BedRecord

Related Docs: object BedRecord | package intervals

Permalink

case class BedRecord(chr: String, start: Int, end: Int, name: Option[String] = None, score: Option[Double] = None, strand: Option[Boolean] = None, thickStart: Option[Int] = None, thickEnd: Option[Int] = None, rgbColor: Option[(Int, Int, Int)] = None, blockCount: Option[Int] = None, blockSizes: IndexedSeq[Int] = IndexedSeq(), blockStarts: IndexedSeq[Int] = IndexedSeq(), _originals: List[BedRecord] = Nil) extends Product with Serializable

Created by pjvanthof on 20/08/15.

Linear Supertypes
Serializable, Serializable, Product, Equals, AnyRef, Any
Ordering
  1. Alphabetic
  2. By Inheritance
Inherited
  1. BedRecord
  2. Serializable
  3. Serializable
  4. Product
  5. Equals
  6. AnyRef
  7. Any
  1. Hide All
  2. Show All
Visibility
  1. Public
  2. All

Instance Constructors

  1. new BedRecord(chr: String, start: Int, end: Int, name: Option[String] = None, score: Option[Double] = None, strand: Option[Boolean] = None, thickStart: Option[Int] = None, thickEnd: Option[Int] = None, rgbColor: Option[(Int, Int, Int)] = None, blockCount: Option[Int] = None, blockSizes: IndexedSeq[Int] = IndexedSeq(), blockStarts: IndexedSeq[Int] = IndexedSeq(), _originals: List[BedRecord] = Nil)

    Permalink

Value Members

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

    Permalink
    Definition Classes
    AnyRef → Any

  2. final def ##(): Int

    Permalink
    Definition Classes
    AnyRef → Any

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

    Permalink
    Definition Classes
    AnyRef → Any

  4. val _originals: List[BedRecord]

    Permalink
    Attributes
    protected[nl.biopet.utils.ngs.intervals]

  5. final def asInstanceOf[T0]: T0

    Permalink
    Definition Classes
    Any

  6. val blockCount: Option[Int]

    Permalink

  7. val blockSizes: IndexedSeq[Int]

    Permalink

  8. val blockStarts: IndexedSeq[Int]

    Permalink

  9. val chr: String

    Permalink

  10. def clone(): AnyRef

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

  11. val end: Int

    Permalink

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

    Permalink
    Definition Classes
    AnyRef

  13. lazy val exons: Option[IndexedSeq[BedRecord]]

    Permalink

  14. def finalize(): Unit

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

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

    Permalink
    Definition Classes
    AnyRef → Any

  16. def getGc(referenceFile: IndexedFastaSequenceFile): Double

    Permalink

  17. lazy val introns: Option[IndexedSeq[BedRecord]]

    Permalink

  18. final def isInstanceOf[T0]: Boolean

    Permalink
    Definition Classes
    Any

  19. def length: Int

    Permalink

  20. val name: Option[String]

    Permalink

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

    Permalink
    Definition Classes
    AnyRef

  22. final def notify(): Unit

    Permalink
    Definition Classes
    AnyRef

  23. final def notifyAll(): Unit

    Permalink
    Definition Classes
    AnyRef

  24. def originals(nested: Boolean = true): List[BedRecord]

    Permalink

  25. def overlapWith(record: BedRecord): Boolean

    Permalink

  26. val rgbColor: Option[(Int, Int, Int)]

    Permalink

  27. def scatter(binSize: Int): List[BedRecord]

    Permalink

  28. val score: Option[Double]

    Permalink

  29. val start: Int

    Permalink

  30. val strand: Option[Boolean]

    Permalink

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

    Permalink
    Definition Classes
    AnyRef

  32. val thickEnd: Option[Int]

    Permalink

  33. val thickStart: Option[Int]

    Permalink

  34. def toSamInterval: Interval

    Permalink

  35. def toString(): String

    Permalink
    Definition Classes
    BedRecord → AnyRef → Any

  36. lazy val utr3: Option[BedRecord]

    Permalink

  37. lazy val utr5: Option[BedRecord]

    Permalink

  38. def validate: BedRecord

    Permalink

  39. final def wait(): Unit

    Permalink
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

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

    Permalink
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

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

    Permalink
    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

Inherited from Serializable

Inherited from Serializable

Inherited from Product

Inherited from Equals

Inherited from AnyRef

Inherited from Any

Ungrouped