c

bio.ferlab.datalake.testutils.models.normalized

NormalizedAnnovarScores

case class NormalizedAnnovarScores(chromosome: String = "2", start: Long = 69091, end: Long = 69091, reference: String = "A", alternate: String = "C", DamagePredCount: Double = 1.17, SIFT_pred: String = "T", SIFT4G_pred: String = "T", Polyphen2_HDIV_pred: String = "B", Polyphen2_HVAR_pred: String = "B", LRT_pred: String = "N", MutationTaster_pred: Option[String] = None, MutationAssessor_pred: Option[String] = None, FATHMM_pred: String = "T", PROVEAN_pred: String = "N", VEST4_score: Double = 0.198, MetaSVM_pred: String = "T", MetaLR_pred: String = "T", M-CAP_pred: String = "T", REVEL_score: Double = 0.109, MutPred_score: Double = 0.823, MVP_score: Option[Double] = None, MPC_score: Option[Double] = None, PrimateAI_pred: Option[String] = None, DEOGEN2_pred: String = "T", BayesDel_addAF_pred: String = "T", BayesDel_noAF_pred: String = "T", ClinPred_pred: String = "T", LIST-S2_pred: String = "D", CADD_raw: String = "-0.145", CADD_phred: String = "0.670", DANN_score: Double = 0.444, fathmm-MKL_coding_pred: String = "N", fathmm-XF_coding_pred: String = "N", Eigen-raw_coding: String = "-1.394", Eigen-phred_coding: String = "0.119", Eigen-PC-raw_coding: String = "-1.536", Eigen-PC-phred_coding: String = "0.095", GenoCanyon_score: Double = 0.0, integrated_fitCons_score: Double = 0.487, GM12878_fitCons_score: Double = 0.574, H1-hESC_fitCons_score: Double = 0.574, HUVEC_fitCons_score: Double = 0.564, LINSIGHT: Option[String] = None, GERP++_NR: Double = 2.31, GERP++_RS: Double = -4.63, phyloP100way_vertebrate: Double = -0.055, phyloP30way_mammalian: Double = -0.214, phyloP17way_primate: Double = -2.209, phastCons100way_vertebrate: Double = 0.0, phastCons30way_mammalian: Double = 0.105, phastCons17way_primate: Double = 0.0, bStatistic: Double = 994.0, Interpro_domain: Option[String] = None, GTEx_V8_gene: Option[List[String]] = None, GTEx_V8_tissue: Option[List[String]] = None) extends Product with Serializable

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  1. NormalizedAnnovarScores
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  4. Product
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Instance Constructors

  1. new NormalizedAnnovarScores(chromosome: String = "2", start: Long = 69091, end: Long = 69091, reference: String = "A", alternate: String = "C", DamagePredCount: Double = 1.17, SIFT_pred: String = "T", SIFT4G_pred: String = "T", Polyphen2_HDIV_pred: String = "B", Polyphen2_HVAR_pred: String = "B", LRT_pred: String = "N", MutationTaster_pred: Option[String] = None, MutationAssessor_pred: Option[String] = None, FATHMM_pred: String = "T", PROVEAN_pred: String = "N", VEST4_score: Double = 0.198, MetaSVM_pred: String = "T", MetaLR_pred: String = "T", M-CAP_pred: String = "T", REVEL_score: Double = 0.109, MutPred_score: Double = 0.823, MVP_score: Option[Double] = None, MPC_score: Option[Double] = None, PrimateAI_pred: Option[String] = None, DEOGEN2_pred: String = "T", BayesDel_addAF_pred: String = "T", BayesDel_noAF_pred: String = "T", ClinPred_pred: String = "T", LIST-S2_pred: String = "D", CADD_raw: String = "-0.145", CADD_phred: String = "0.670", DANN_score: Double = 0.444, fathmm-MKL_coding_pred: String = "N", fathmm-XF_coding_pred: String = "N", Eigen-raw_coding: String = "-1.394", Eigen-phred_coding: String = "0.119", Eigen-PC-raw_coding: String = "-1.536", Eigen-PC-phred_coding: String = "0.095", GenoCanyon_score: Double = 0.0, integrated_fitCons_score: Double = 0.487, GM12878_fitCons_score: Double = 0.574, H1-hESC_fitCons_score: Double = 0.574, HUVEC_fitCons_score: Double = 0.564, LINSIGHT: Option[String] = None, GERP++_NR: Double = 2.31, GERP++_RS: Double = -4.63, phyloP100way_vertebrate: Double = -0.055, phyloP30way_mammalian: Double = -0.214, phyloP17way_primate: Double = -2.209, phastCons100way_vertebrate: Double = 0.0, phastCons30way_mammalian: Double = 0.105, phastCons17way_primate: Double = 0.0, bStatistic: Double = 994.0, Interpro_domain: Option[String] = None, GTEx_V8_gene: Option[List[String]] = None, GTEx_V8_tissue: Option[List[String]] = None)

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. val BayesDel_addAF_pred: String
  5. val BayesDel_noAF_pred: String
  6. val CADD_phred: String
  7. val CADD_raw: String
  8. val ClinPred_pred: String
  9. val DANN_score: Double
  10. val DEOGEN2_pred: String
  11. val DamagePredCount: Double
  12. val Eigen-PC-phred_coding: String
  13. val Eigen-PC-raw_coding: String
  14. val Eigen-phred_coding: String
  15. val Eigen-raw_coding: String
  16. val FATHMM_pred: String
  17. val GERP++_NR: Double
  18. val GERP++_RS: Double
  19. val GM12878_fitCons_score: Double
  20. val GTEx_V8_gene: Option[List[String]]
  21. val GTEx_V8_tissue: Option[List[String]]
  22. val GenoCanyon_score: Double
  23. val H1-hESC_fitCons_score: Double
  24. val HUVEC_fitCons_score: Double
  25. val Interpro_domain: Option[String]
  26. val LINSIGHT: Option[String]
  27. val LIST-S2_pred: String
  28. val LRT_pred: String
  29. val M-CAP_pred: String
  30. val MPC_score: Option[Double]
  31. val MVP_score: Option[Double]
  32. val MetaLR_pred: String
  33. val MetaSVM_pred: String
  34. val MutPred_score: Double
  35. val MutationAssessor_pred: Option[String]
  36. val MutationTaster_pred: Option[String]
  37. val PROVEAN_pred: String
  38. val Polyphen2_HDIV_pred: String
  39. val Polyphen2_HVAR_pred: String
  40. val PrimateAI_pred: Option[String]
  41. val REVEL_score: Double
  42. val SIFT4G_pred: String
  43. val SIFT_pred: String
  44. val VEST4_score: Double
  45. val alternate: String
  46. final def asInstanceOf[T0]: T0
    Definition Classes
    Any
  47. val bStatistic: Double
  48. val chromosome: String
  49. def clone(): AnyRef
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    protected[lang]
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    @throws( ... ) @native() @HotSpotIntrinsicCandidate()
  50. val end: Long
  51. final def eq(arg0: AnyRef): Boolean
    Definition Classes
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  52. val fathmm-MKL_coding_pred: String
  53. val fathmm-XF_coding_pred: String
  54. final def getClass(): Class[_]
    Definition Classes
    AnyRef → Any
    Annotations
    @native() @HotSpotIntrinsicCandidate()
  55. val integrated_fitCons_score: Double
  56. final def isInstanceOf[T0]: Boolean
    Definition Classes
    Any
  57. final def ne(arg0: AnyRef): Boolean
    Definition Classes
    AnyRef
  58. final def notify(): Unit
    Definition Classes
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    @native() @HotSpotIntrinsicCandidate()
  59. final def notifyAll(): Unit
    Definition Classes
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    @native() @HotSpotIntrinsicCandidate()
  60. val phastCons100way_vertebrate: Double
  61. val phastCons17way_primate: Double
  62. val phastCons30way_mammalian: Double
  63. val phyloP100way_vertebrate: Double
  64. val phyloP17way_primate: Double
  65. val phyloP30way_mammalian: Double
  66. val reference: String
  67. val start: Long
  68. final def synchronized[T0](arg0: ⇒ T0): T0
    Definition Classes
    AnyRef
  69. final def wait(arg0: Long, arg1: Int): Unit
    Definition Classes
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    @throws( ... )
  70. final def wait(arg0: Long): Unit
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    @throws( ... ) @native()
  71. final def wait(): Unit
    Definition Classes
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    @throws( ... )

Deprecated Value Members

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