org.bdgenomics.adam.models

CDS

case class CDS(transcriptId: String, strand: Boolean, region: ReferenceRegion) extends BlockExtractable with Product with Serializable

Coding Sequence annotations, should be a subset of an Exon for a particular Transcript

transcriptId
strand
region

Linear Supertypes
Serializable, Serializable, Product, Equals, BlockExtractable, Extractable, AnyRef, Any
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Inherited
  1. CDS
  2. Serializable
  3. Serializable
  4. Product
  5. Equals
  6. BlockExtractable
  7. Extractable
  8. AnyRef
  9. Any
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Instance Constructors

  1. new CDS(transcriptId: String, strand: Boolean, region: ReferenceRegion)

    transcriptId
    strand
    region

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. final def asInstanceOf[T0]: T0

    Definition Classes
    Any

  5. def clone(): AnyRef

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

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

    Definition Classes
    AnyRef

  7. def extractSequence(referenceSequence: String): String

    Returns the subset of the given referenceSequence that corresponds to this Extractable (not necessarily a contiguous substring, and possibly reverse- complemented or transformed in other ways).

    Returns the subset of the given referenceSequence that corresponds to this Extractable (not necessarily a contiguous substring, and possibly reverse- complemented or transformed in other ways).

    referenceSequence

    The reference sequence (e.g. chromosomal sequence) with respect to which the Extractable's coordinates or locators are given

    returns

    the String representation of this Extractable

    Definition Classes
    BlockExtractable → Extractable

  8. def finalize(): Unit

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

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

    Definition Classes
    AnyRef → Any

  10. final def isInstanceOf[T0]: Boolean

    Definition Classes
    Any

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

    Definition Classes
    AnyRef

  12. final def notify(): Unit

    Definition Classes
    AnyRef

  13. final def notifyAll(): Unit

    Definition Classes
    AnyRef

  14. val region: ReferenceRegion

  15. val strand: Boolean

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

    Definition Classes
    AnyRef

  17. val transcriptId: String

  18. final def wait(): Unit

    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

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

    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

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

    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

Inherited from Serializable

Inherited from Serializable

Inherited from Product

Inherited from Equals

Inherited from BlockExtractable

Inherited from Extractable

Inherited from AnyRef

Inherited from Any

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