Class

bio.Protein

Codon

Related Doc: package Protein

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case class Codon(aa: AminoAcid, codon: List[NTSymbol]) extends CodonSymbol with Product with Serializable

The Codon stores an (ambiguous) AminoAcid with the matching DNA sequence (also ambiguous, and including gaps). Note that this is the most open implementation with the purpose of storing codons and their amino acids in matching alignments.

Linear Supertypes
Serializable, Serializable, Product, Equals, CodonSymbol, AnyRef, Any
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Inherited
  1. Codon
  2. Serializable
  3. Serializable
  4. Product
  5. Equals
  6. CodonSymbol
  7. AnyRef
  8. Any
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Visibility
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Instance Constructors

  1. new Codon(aa: AminoAcid, codon: List[NTSymbol])

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Value Members

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

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    Definition Classes
    AnyRef → Any

  2. final def ##(): Int

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    Definition Classes
    AnyRef → Any

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

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    Definition Classes
    AnyRef → Any

  4. val aa: AminoAcid

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  5. final def asInstanceOf[T0]: T0

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    Definition Classes
    Any

  6. def clone(): AnyRef

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

  7. val codon: List[NTSymbol]

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

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    Definition Classes
    AnyRef

  9. def finalize(): Unit

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

  10. val getAminoAcid: AminoAcid

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    Definition Classes
    Codon → CodonSymbol

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

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    Definition Classes
    AnyRef → Any

  12. val getCodon: List[NTSymbol]

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    Definition Classes
    Codon → CodonSymbol

  13. final def isInstanceOf[T0]: Boolean

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    Definition Classes
    Any

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

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    Definition Classes
    AnyRef

  15. final def notify(): Unit

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    Definition Classes
    AnyRef

  16. final def notifyAll(): Unit

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    Definition Classes
    AnyRef

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

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    Definition Classes
    AnyRef

  18. final def wait(): Unit

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    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

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

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    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

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

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    Definition Classes
    AnyRef
    Annotations
    @throws( ... )

Inherited from Serializable

Inherited from Serializable

Inherited from Product

Inherited from Equals

Inherited from CodonSymbol

Inherited from AnyRef

Inherited from Any

Ungrouped