Value Members

1.  final def !=(arg0: Any): Boolean

   Definition Classes

   AnyRef → Any

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

   Any

5.  def clone(): AnyRef

   Attributes

   protected[java.lang]

   Definition Classes

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   Annotations

   @throws(classOf[java.lang.CloneNotSupportedException]) @native()

6.  def convert(expressionData: Source): Set[OWLAxiom]
   expressionData

   tab-delimited input from http://zfin.org/downloads/wildtype-expression_fish.txt Each line (an annotation) is translated into a set of OWL axioms

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

   Definition Classes

   AnyRef

8.  def equals(arg0: AnyRef): Boolean

   Definition Classes

   AnyRef → Any

9.  def finalize(): Unit

   Attributes

   protected[java.lang]

   Definition Classes

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   Annotations

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

10.  final def getClass(): Class[_ <: AnyRef]

    Definition Classes

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    Annotations

    @native()

11.  def hashCode(): Int

    Definition Classes

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    Annotations

    @native()

12.  final def isInstanceOf[T0]: Boolean

    Definition Classes

    Any

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

    Definition Classes

    AnyRef

14.  final def notify(): Unit

    Definition Classes

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    Annotations

    @native()

15.  final def notifyAll(): Unit

    Definition Classes

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    Annotations

    @native()

16.  final def synchronized[T0](arg0: => T0): T0

    Definition Classes

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17.  def toString(): String

    Definition Classes

    AnyRef → Any

18.  def translate(expressionLine: String): Set[OWLAxiom]
    expressionLine

    Example line: ZDB-GENE-000125-4 dlc AB/TU ZFA:0000107 eye \ \ Pharyngula:Prim-15 Pharyngula:Prim-25 mRNA in situ hybridization ZDB-PUB-051025-1 ZDB-EST-051107-52 ZDB-FISH-150901-29084 Should generate OWL: Prefix: GO: <http://purl.obolibrary.org/obo/GO_> Prefix: NCBITaxon: <http://purl.obolibrary.org/obo/NCBITaxon_> Prefix: ZFA: <http://purl.obolibrary.org/obo/ZFA_> Prefix: BFO: <http://purl.obolibrary.org/obo/BFO_> Prefix: dc: <http://purl.org/dc/terms/> Prefix: ps: <http://purl.org/phenoscape/vocab.owl#> Prefix: zfin: <http://zfin.org/> Prefix: uuid: <http://purl.org/phenoscape/uuid/> Individual: zfin:ZDB-GENE-000125-4 # dlc Individual: uuid:3e1ad895-56b2-4b54-a3f8-c99e7b42f646 Types: GO:0010467 # gene expression Facts: ps:associated_with_taxon NCBITaxon:7955, # Danio rerio dc:source zfin:ZDB-PUB-051025-1, BFO:0000066 ZFA:0000107, # occurs_in eye (punned) ps:associated_with_gene zfin:ZDB-GENE-000125-4 # dlc

19.  final def wait(): Unit

    Definition Classes

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    Annotations

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

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

    Definition Classes

    AnyRef

    Annotations

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

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

    Definition Classes

    AnyRef

    Annotations

    @throws(classOf[java.lang.InterruptedException]) @native()