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object columns

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Value Members

  1. final def !=(arg0: Any): Boolean
    Definition Classes
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  2. final def ##(): Int
    Definition Classes
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  3. final def ==(arg0: Any): Boolean
    Definition Classes
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  4. val ac: Column
  5. val af: Column
  6. val afr_af: Column
  7. val alternate: Column
  8. val amino_acids: Column
  9. val amr_af: Column
  10. val an: Column
  11. val annotations: Column
  12. final def asInstanceOf[T0]: T0
    Definition Classes
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  13. val biotype: Column
  14. val calculate_an_lower_bound_kf: Column
  15. val calculate_an_upper_bound_kf: (Long) ⇒ Column
  16. val calculated_ac: Column
  17. val calculated_af: Column
  18. val calculated_af_from_an: (Column) ⇒ Column
  19. val calculated_duo_af: (String) ⇒ Column
  20. val cdna_position: Column
  21. val cds_position: Column
  22. val chromosome: Column
  23. def clone(): AnyRef
    Attributes
    protected[lang]
    Definition Classes
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    Annotations
    @throws( ... ) @native() @HotSpotIntrinsicCandidate()
  24. val codons: Column
  25. val consequences: Column
  26. val csq: Column
  27. val dp: Column
  28. val eas_af: Column
  29. val end: Column
  30. val ensembl_feature_id: Column
  31. val ensembl_gene_id: Column
  32. val ensembl_regulatory_id: Column
  33. val ensembl_transcript_id: Column
  34. final def eq(arg0: AnyRef): Boolean
    Definition Classes
    AnyRef
  35. def equals(arg0: Any): Boolean
    Definition Classes
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  36. val eur_af: Column
  37. val exon: Column
  38. def familyInfo(cols: Seq[Column] = ...): Column
  39. val familyVariantWindow: WindowSpec
  40. val fatherADAlt: Column
  41. val fatherADRatio: Column
  42. val fatherADRef: Column
  43. val fatherADTotal: Column
  44. val fatherAffectedStatus: Column
  45. val fatherCalls: Column
  46. val fatherDP: Column
  47. val fatherFilters: Column
  48. val fatherGQ: Column
  49. val fatherQD: Column
  50. val feature_type: Column
  51. val firstAnn: Column
  52. val firstCsq: Column
  53. def flattenInfo(df: DataFrame, except: String*): Seq[Column]
  54. val formatted_consequence: (Column) ⇒ Column
  55. val formatted_consequences: Column
  56. final def getClass(): Class[_]
    Definition Classes
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    Annotations
    @native() @HotSpotIntrinsicCandidate()
  57. val has_alt: Column

    has_alt return 1 if there is at least one alternative allele.

    has_alt return 1 if there is at least one alternative allele. Note : It cannot returned a boolean beacause it's used to partition data. It looks like Glue does not support partition by boolean

  58. def hashCode(): Int
    Definition Classes
    AnyRef → Any
    Annotations
    @native() @HotSpotIntrinsicCandidate()
  59. val heterozygotes: Column
  60. val hgvsc: Column
  61. val hgvsg: Column
  62. val hgvsp: Column
  63. val homozygotes: Column
  64. val id: Column
  65. val impact: Column
  66. val intron: Column
  67. final def isInstanceOf[T0]: Boolean
    Definition Classes
    Any
  68. val is_multi_allelic: Column
  69. val is_normalized: Column
  70. val locus: List[Column]
  71. val locusColumnNames: List[String]
  72. val motherADAlt: Column
  73. val motherADRatio: Column
  74. val motherADRef: Column
  75. val motherADTotal: Column
  76. val motherAffectedStatus: Column
  77. val motherCalls: Column
  78. val motherDP: Column
  79. val motherFilters: Column
  80. val motherGQ: Column
  81. val motherQD: Column
  82. val name: Column
  83. final def ne(arg0: AnyRef): Boolean
    Definition Classes
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  84. final def notify(): Unit
    Definition Classes
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    Annotations
    @native() @HotSpotIntrinsicCandidate()
  85. final def notifyAll(): Unit
    Definition Classes
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    Annotations
    @native() @HotSpotIntrinsicCandidate()
  86. val old_multi_allelic: Column
  87. def optional_info(df: DataFrame, colName: String, alias: String, colType: String = "string"): Column
  88. val original_canonical: Column
  89. val pick: Column
  90. val protein_position: Column
  91. val pubmed: Column
  92. val reference: Column
  93. val sas_af: Column
  94. val sortChromosome: Column
  95. val start: Column
  96. val strand: Column
  97. val symbol: Column
  98. final def synchronized[T0](arg0: ⇒ T0): T0
    Definition Classes
    AnyRef
  99. def toString(): String
    Definition Classes
    AnyRef → Any
  100. val variant_class: Column
  101. final def wait(arg0: Long, arg1: Int): Unit
    Definition Classes
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    Annotations
    @throws( ... )
  102. final def wait(arg0: Long): Unit
    Definition Classes
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    Annotations
    @throws( ... ) @native()
  103. final def wait(): Unit
    Definition Classes
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    Annotations
    @throws( ... )
  104. val zygosity: (Column) ⇒ Column

Deprecated Value Members

  1. def finalize(): Unit
    Attributes
    protected[lang]
    Definition Classes
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    @throws( classOf[java.lang.Throwable] ) @Deprecated
    Deprecated

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