java

Type Members

1. final class AlignmentRecordsToAlignmentRecordsConverter extends SameTypeConversion[AlignmentRecord, AlignmentRecordRDD]

   

2. final class AlignmentRecordsToContigsConverter extends Function2[AlignmentRecordRDD, RDD[NucleotideContigFragment], NucleotideContigFragmentRDD]

   

3. final class AlignmentRecordsToContigsDatasetConverter extends ToContigDatasetConversion[AlignmentRecord, AlignmentRecordRDD]

   

4. final class AlignmentRecordsToCoverageConverter extends Function2[AlignmentRecordRDD, RDD[Coverage], CoverageRDD]

   

5. final class AlignmentRecordsToCoverageDatasetConverter extends ToCoverageDatasetConversion[AlignmentRecord, AlignmentRecordRDD]

   

6. final class AlignmentRecordsToFeaturesConverter extends Function2[AlignmentRecordRDD, RDD[Feature], FeatureRDD]

   

7. final class AlignmentRecordsToFeaturesDatasetConverter extends ToFeatureDatasetConversion[AlignmentRecord, AlignmentRecordRDD]

   

8. final class AlignmentRecordsToFragmentsConverter extends Function2[AlignmentRecordRDD, RDD[Fragment], FragmentRDD]

   

9. final class AlignmentRecordsToFragmentsDatasetConverter extends ToFragmentDatasetConversion[AlignmentRecord, AlignmentRecordRDD]

   

10. final class AlignmentRecordsToGenotypesConverter extends Function2[AlignmentRecordRDD, RDD[Genotype], GenotypeRDD]

    

11. final class AlignmentRecordsToGenotypesDatasetConverter extends ToGenotypeDatasetConversion[AlignmentRecord, AlignmentRecordRDD]

    

12. final class AlignmentRecordsToVariantContextConverter extends Function2[AlignmentRecordRDD, RDD[VariantContext], VariantContextRDD]

    

13. final class AlignmentRecordsToVariantsConverter extends Function2[AlignmentRecordRDD, RDD[Variant], VariantRDD]

    

14. final class AlignmentRecordsToVariantsDatasetConverter extends ToVariantDatasetConversion[AlignmentRecord, AlignmentRecordRDD]

    

15. final class ContigsToAlignmentRecordsConverter extends Function2[NucleotideContigFragmentRDD, RDD[AlignmentRecord], AlignmentRecordRDD]

    

16. final class ContigsToAlignmentRecordsDatasetConverter extends ToAlignmentRecordDatasetConversion[NucleotideContigFragment, NucleotideContigFragmentRDD]

    

17. final class ContigsToContigsConverter extends SameTypeConversion[NucleotideContigFragment, NucleotideContigFragmentRDD]

    

18. final class ContigsToCoverageConverter extends Function2[NucleotideContigFragmentRDD, RDD[Coverage], CoverageRDD]

    

19. final class ContigsToCoverageDatasetConverter extends ToCoverageDatasetConversion[NucleotideContigFragment, NucleotideContigFragmentRDD]

    

20. final class ContigsToFeaturesConverter extends Function2[NucleotideContigFragmentRDD, RDD[Feature], FeatureRDD]

    

21. final class ContigsToFeaturesDatasetConverter extends ToFeatureDatasetConversion[NucleotideContigFragment, NucleotideContigFragmentRDD]

    

22. final class ContigsToFragmentsConverter extends Function2[NucleotideContigFragmentRDD, RDD[Fragment], FragmentRDD]

    

23. final class ContigsToFragmentsDatasetConverter extends ToFragmentDatasetConversion[NucleotideContigFragment, NucleotideContigFragmentRDD]

    

24. final class ContigsToGenotypesConverter extends Function2[NucleotideContigFragmentRDD, RDD[Genotype], GenotypeRDD]

    

25. final class ContigsToGenotypesDatasetConverter extends ToGenotypeDatasetConversion[NucleotideContigFragment, NucleotideContigFragmentRDD]

    

26. final class ContigsToVariantContextsConverter extends Function2[NucleotideContigFragmentRDD, RDD[VariantContext], VariantContextRDD]

    

27. final class ContigsToVariantsConverter extends Function2[NucleotideContigFragmentRDD, RDD[Variant], VariantRDD]

    

28. final class ContigsToVariantsDatasetConverter extends ToVariantDatasetConversion[NucleotideContigFragment, NucleotideContigFragmentRDD]

    

29. final class CoverageToAlignmentRecordsConverter extends Function2[CoverageRDD, RDD[AlignmentRecord], AlignmentRecordRDD]

    

30. final class CoverageToAlignmentRecordsDatasetConverter extends ToAlignmentRecordDatasetConversion[Coverage, CoverageRDD]

    

31. final class CoverageToContigsConverter extends Function2[CoverageRDD, RDD[NucleotideContigFragment], NucleotideContigFragmentRDD]

    

32. final class CoverageToContigsDatasetConverter extends ToContigDatasetConversion[Coverage, CoverageRDD]

    

33. final class CoverageToCoverageConverter extends SameTypeConversion[Coverage, CoverageRDD]

    

34. final class CoverageToFeaturesConverter extends Function2[CoverageRDD, RDD[Feature], FeatureRDD]

    

35. final class CoverageToFeaturesDatasetConverter extends ToFeatureDatasetConversion[Coverage, CoverageRDD]

    

36. final class CoverageToFragmentsConverter extends Function2[CoverageRDD, RDD[Fragment], FragmentRDD]

    

37. final class CoverageToFragmentsDatasetConverter extends ToFragmentDatasetConversion[Coverage, CoverageRDD]

    

38. final class CoverageToGenotypesConverter extends Function2[CoverageRDD, RDD[Genotype], GenotypeRDD]

    

39. final class CoverageToGenotypesDatasetConverter extends ToGenotypeDatasetConversion[Coverage, CoverageRDD]

    

40. final class CoverageToVariantContextConverter extends Function2[CoverageRDD, RDD[VariantContext], VariantContextRDD]

    

41. final class CoverageToVariantsConverter extends Function2[CoverageRDD, RDD[Variant], VariantRDD]

    

42. final class CoverageToVariantsDatasetConverter extends ToVariantDatasetConversion[Coverage, CoverageRDD]

    

43. final class FeaturesToAlignmentRecordsConverter extends Function2[FeatureRDD, RDD[AlignmentRecord], AlignmentRecordRDD]

    

44. final class FeaturesToAlignmentRecordsDatasetConverter extends ToAlignmentRecordDatasetConversion[Feature, FeatureRDD]

    

45. final class FeaturesToContigsConverter extends Function2[FeatureRDD, RDD[NucleotideContigFragment], NucleotideContigFragmentRDD]

    

46. final class FeaturesToContigsDatasetConverter extends ToContigDatasetConversion[Feature, FeatureRDD]

    

47. final class FeaturesToCoverageConverter extends Function2[FeatureRDD, RDD[Coverage], CoverageRDD]

    

48. final class FeaturesToCoverageDatasetConverter extends ToCoverageDatasetConversion[Feature, FeatureRDD]

    

49. final class FeaturesToFeatureConverter extends SameTypeConversion[Feature, FeatureRDD]

    

50. final class FeaturesToFragmentsConverter extends Function2[FeatureRDD, RDD[Fragment], FragmentRDD]

    

51. final class FeaturesToFragmentsDatasetConverter extends ToFragmentDatasetConversion[Feature, FeatureRDD]

    

52. final class FeaturesToGenotypesConverter extends Function2[FeatureRDD, RDD[Genotype], GenotypeRDD]

    

53. final class FeaturesToGenotypesDatasetConverter extends ToGenotypeDatasetConversion[Feature, FeatureRDD]

    

54. final class FeaturesToVariantContextConverter extends Function2[FeatureRDD, RDD[VariantContext], VariantContextRDD]

    

55. final class FeaturesToVariantsConverter extends Function2[FeatureRDD, RDD[Variant], VariantRDD]

    

56. final class FeaturesToVariantsDatasetConverter extends ToVariantDatasetConversion[Feature, FeatureRDD]

    

57. final class FragmentsToAlignmentRecordsConverter extends Function2[FragmentRDD, RDD[AlignmentRecord], AlignmentRecordRDD]

    

58. final class FragmentsToAlignmentRecordsDatasetConverter extends ToAlignmentRecordDatasetConversion[Fragment, FragmentRDD]

    

59. final class FragmentsToContigsConverter extends Function2[FragmentRDD, RDD[NucleotideContigFragment], NucleotideContigFragmentRDD]

    

60. final class FragmentsToContigsDatasetConverter extends ToContigDatasetConversion[Fragment, FragmentRDD]

    

61. final class FragmentsToCoverageConverter extends Function2[FragmentRDD, RDD[Coverage], CoverageRDD]

    

62. final class FragmentsToCoverageDatasetConverter extends ToCoverageDatasetConversion[Fragment, FragmentRDD]

    

63. final class FragmentsToFeaturesConverter extends Function2[FragmentRDD, RDD[Feature], FeatureRDD]

    

64. final class FragmentsToFeaturesDatasetConverter extends ToFeatureDatasetConversion[Fragment, FragmentRDD]

    

65. final class FragmentsToFragmentConverter extends SameTypeConversion[Fragment, FragmentRDD]

    

66. final class FragmentsToGenotypesConverter extends Function2[FragmentRDD, RDD[Genotype], GenotypeRDD]

    

67. final class FragmentsToGenotypesDatasetConverter extends ToGenotypeDatasetConversion[Fragment, FragmentRDD]

    

68. final class FragmentsToVariantContextConverter extends Function2[FragmentRDD, RDD[VariantContext], VariantContextRDD]

    

69. final class FragmentsToVariantsConverter extends Function2[FragmentRDD, RDD[Variant], VariantRDD]

    

70. final class FragmentsToVariantsDatasetConverter extends ToVariantDatasetConversion[Fragment, FragmentRDD]

    

71. final class GenotypesToAlignmentRecordsConverter extends Function2[GenotypeRDD, RDD[AlignmentRecord], AlignmentRecordRDD]

    

72. final class GenotypesToAlignmentRecordsDatasetConverter extends ToAlignmentRecordDatasetConversion[Genotype, GenotypeRDD]

    

73. final class GenotypesToContigsConverter extends Function2[GenotypeRDD, RDD[NucleotideContigFragment], NucleotideContigFragmentRDD]

    

74. final class GenotypesToContigsDatasetConverter extends ToContigDatasetConversion[Genotype, GenotypeRDD]

    

75. final class GenotypesToCoverageConverter extends Function2[GenotypeRDD, RDD[Coverage], CoverageRDD]

    

76. final class GenotypesToCoverageDatasetConverter extends ToCoverageDatasetConversion[Genotype, GenotypeRDD]

    

77. final class GenotypesToFeaturesConverter extends Function2[GenotypeRDD, RDD[Feature], FeatureRDD]

    

78. final class GenotypesToFeaturesDatasetConverter extends ToFeatureDatasetConversion[Genotype, GenotypeRDD]

    

79. final class GenotypesToFragmentsConverter extends Function2[GenotypeRDD, RDD[Fragment], FragmentRDD]

    

80. final class GenotypesToFragmentsDatasetConverter extends ToFragmentDatasetConversion[Genotype, GenotypeRDD]

    

81. final class GenotypesToGenotypesConverter extends SameTypeConversion[Genotype, GenotypeRDD]

    

82. final class GenotypesToVariantContextConverter extends Function2[GenotypeRDD, RDD[VariantContext], VariantContextRDD]

    

83. final class GenotypesToVariantsConverter extends Function2[GenotypeRDD, RDD[Variant], VariantRDD]

    

84. final class GenotypesToVariantsDatasetConverter extends ToVariantDatasetConversion[Genotype, GenotypeRDD]

    

85. class JavaADAMContext extends Serializable

    

    The JavaADAMContext provides java-friendly functions on top of ADAMContext.

86. sealed trait SameTypeConversion[T, U <: GenomicRDD[T, U]] extends Function2[U, RDD[T], U]

    

87. trait ToAlignmentRecordDatasetConversion[T <: Product, U <: GenomicDataset[_, T, U]] extends GenomicDatasetConversion[T, U, AlignmentRecord, AlignmentRecordRDD]

    

88. trait ToContigDatasetConversion[T <: Product, U <: GenomicDataset[_, T, U]] extends GenomicDatasetConversion[T, U, NucleotideContigFragment, NucleotideContigFragmentRDD]

    

89. trait ToCoverageDatasetConversion[T <: Product, U <: GenomicDataset[_, T, U]] extends GenomicDatasetConversion[T, U, Coverage, CoverageRDD]

    

90. trait ToFeatureDatasetConversion[T <: Product, U <: GenomicDataset[_, T, U]] extends GenomicDatasetConversion[T, U, Feature, FeatureRDD]

    

91. trait ToFragmentDatasetConversion[T <: Product, U <: GenomicDataset[_, T, U]] extends GenomicDatasetConversion[T, U, Fragment, FragmentRDD]

    

92. trait ToGenotypeDatasetConversion[T <: Product, U <: GenomicDataset[_, T, U]] extends GenomicDatasetConversion[T, U, Genotype, GenotypeRDD]

    

93. trait ToVariantDatasetConversion[T <: Product, U <: GenomicDataset[_, T, U]] extends GenomicDatasetConversion[T, U, Variant, VariantRDD]

    

94. final class VariantContextsToAlignmentRecordsConverter extends Function2[VariantContextRDD, RDD[AlignmentRecord], AlignmentRecordRDD]

    

95. final class VariantContextsToContigsConverter extends Function2[VariantContextRDD, RDD[NucleotideContigFragment], NucleotideContigFragmentRDD]

    

96. final class VariantContextsToCoverageConverter extends Function2[VariantContextRDD, RDD[Coverage], CoverageRDD]

    

97. final class VariantContextsToFeaturesConverter extends Function2[VariantContextRDD, RDD[Feature], FeatureRDD]

    

98. final class VariantContextsToFragmentsConverter extends Function2[VariantContextRDD, RDD[Fragment], FragmentRDD]

    

99. final class VariantContextsToGenotypesConverter extends Function2[VariantContextRDD, RDD[Genotype], GenotypeRDD]

    

100. final class VariantContextsToVariantContextConverter extends SameTypeConversion[VariantContext, VariantContextRDD]

     

101. final class VariantContextsToVariantsConverter extends Function2[VariantContextRDD, RDD[Variant], VariantRDD]

     

102. final class VariantsToAlignmentRecordsConverter extends Function2[VariantRDD, RDD[AlignmentRecord], AlignmentRecordRDD]

     

103. final class VariantsToAlignmentRecordsDatasetConverter extends ToAlignmentRecordDatasetConversion[Variant, VariantRDD]

     

104. final class VariantsToContigsConverter extends Function2[VariantRDD, RDD[NucleotideContigFragment], NucleotideContigFragmentRDD]

     

105. final class VariantsToContigsDatasetConverter extends ToContigDatasetConversion[Variant, VariantRDD]

     

106. final class VariantsToCoverageConverter extends Function2[VariantRDD, RDD[Coverage], CoverageRDD]

     

107. final class VariantsToCoverageDatasetConverter extends ToCoverageDatasetConversion[Variant, VariantRDD]

     

108. final class VariantsToFeaturesConverter extends Function2[VariantRDD, RDD[Feature], FeatureRDD]

     

109. final class VariantsToFeaturesDatasetConverter extends ToFeatureDatasetConversion[Variant, VariantRDD]

     

110. final class VariantsToFragmentsConverter extends Function2[VariantRDD, RDD[Fragment], FragmentRDD]

     

111. final class VariantsToFragmentsDatasetConverter extends ToFragmentDatasetConversion[Variant, VariantRDD]

     

112. final class VariantsToGenotypesConverter extends Function2[VariantRDD, RDD[Genotype], GenotypeRDD]

     

113. final class VariantsToGenotypesDatasetConverter extends ToGenotypeDatasetConversion[Variant, VariantRDD]

     

114. final class VariantsToVariantContextConverter extends Function2[VariantRDD, RDD[VariantContext], VariantContextRDD]

     

115. final class VariantsToVariantsConverter extends SameTypeConversion[Variant, VariantRDD]