package java
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Type Members
- final class AlignmentsToAlignmentsConverter extends Function2[AlignmentDataset, RDD[Alignment], AlignmentDataset]
- final class AlignmentsToCoverageConverter extends Function2[AlignmentDataset, RDD[Coverage], CoverageDataset]
- final class AlignmentsToCoverageDatasetConverter extends ToCoverageDatasetConversion[Alignment, Alignment, AlignmentDataset]
- final class AlignmentsToFeaturesConverter extends Function2[AlignmentDataset, RDD[Feature], FeatureDataset]
- final class AlignmentsToFeaturesDatasetConverter extends ToFeatureDatasetConversion[Alignment, Alignment, AlignmentDataset]
- final class AlignmentsToFragmentsConverter extends Function2[AlignmentDataset, RDD[Fragment], FragmentDataset]
- final class AlignmentsToFragmentsDatasetConverter extends ToFragmentDatasetConversion[Alignment, Alignment, AlignmentDataset]
- final class AlignmentsToGenotypesConverter extends Function2[AlignmentDataset, RDD[Genotype], GenotypeDataset]
- final class AlignmentsToGenotypesDatasetConverter extends ToGenotypeDatasetConversion[Alignment, Alignment, AlignmentDataset]
- final class AlignmentsToReadsConverter extends Function2[AlignmentDataset, RDD[Read], ReadDataset]
- final class AlignmentsToReadsDatasetConverter extends ToReadDatasetConversion[Alignment, Alignment, AlignmentDataset]
- final class AlignmentsToSequencesConverter extends Function2[AlignmentDataset, RDD[Sequence], SequenceDataset]
- final class AlignmentsToSequencesDatasetConverter extends ToSequenceDatasetConversion[Alignment, Alignment, AlignmentDataset]
- final class AlignmentsToSlicesConverter extends Function2[AlignmentDataset, RDD[Slice], SliceDataset]
- final class AlignmentsToSlicesDatasetConverter extends ToSliceDatasetConversion[Alignment, Alignment, AlignmentDataset]
- final class AlignmentsToVariantContextConverter extends Function2[AlignmentDataset, RDD[VariantContext], VariantContextDataset]
- final class AlignmentsToVariantsConverter extends Function2[AlignmentDataset, RDD[Variant], VariantDataset]
- final class AlignmentsToVariantsDatasetConverter extends ToVariantDatasetConversion[Alignment, Alignment, AlignmentDataset]
- final class CoverageToAlignmentsConverter extends Function2[CoverageDataset, RDD[Alignment], AlignmentDataset]
- final class CoverageToAlignmentsDatasetConverter extends ToAlignmentDatasetConversion[Coverage, Coverage, CoverageDataset]
- final class CoverageToCoverageConverter extends Function2[CoverageDataset, RDD[Coverage], CoverageDataset]
- final class CoverageToFeaturesConverter extends Function2[CoverageDataset, RDD[Feature], FeatureDataset]
- final class CoverageToFeaturesDatasetConverter extends ToFeatureDatasetConversion[Coverage, Coverage, CoverageDataset]
- final class CoverageToFragmentsConverter extends Function2[CoverageDataset, RDD[Fragment], FragmentDataset]
- final class CoverageToFragmentsDatasetConverter extends ToFragmentDatasetConversion[Coverage, Coverage, CoverageDataset]
- final class CoverageToGenotypesConverter extends Function2[CoverageDataset, RDD[Genotype], GenotypeDataset]
- final class CoverageToGenotypesDatasetConverter extends ToGenotypeDatasetConversion[Coverage, Coverage, CoverageDataset]
- final class CoverageToReadsConverter extends Function2[CoverageDataset, RDD[Read], ReadDataset]
- final class CoverageToReadsDatasetConverter extends ToReadDatasetConversion[Coverage, Coverage, CoverageDataset]
- final class CoverageToSequencesConverter extends Function2[CoverageDataset, RDD[Sequence], SequenceDataset]
- final class CoverageToSequencesDatasetConverter extends ToSequenceDatasetConversion[Coverage, Coverage, CoverageDataset]
- final class CoverageToSlicesConverter extends Function2[CoverageDataset, RDD[Slice], SliceDataset]
- final class CoverageToSlicesDatasetConverter extends ToSliceDatasetConversion[Coverage, Coverage, CoverageDataset]
- final class CoverageToVariantContextConverter extends Function2[CoverageDataset, RDD[VariantContext], VariantContextDataset]
- final class CoverageToVariantsConverter extends Function2[CoverageDataset, RDD[Variant], VariantDataset]
- final class CoverageToVariantsDatasetConverter extends ToVariantDatasetConversion[Coverage, Coverage, CoverageDataset]
- final class FeaturesToAlignmentsConverter extends Function2[FeatureDataset, RDD[Alignment], AlignmentDataset]
- final class FeaturesToAlignmentsDatasetConverter extends ToAlignmentDatasetConversion[Feature, Feature, FeatureDataset]
- final class FeaturesToCoverageConverter extends Function2[FeatureDataset, RDD[Coverage], CoverageDataset]
- final class FeaturesToCoverageDatasetConverter extends ToCoverageDatasetConversion[Feature, Feature, FeatureDataset]
- final class FeaturesToFeatureConverter extends Function2[FeatureDataset, RDD[Feature], FeatureDataset]
- final class FeaturesToFragmentsConverter extends Function2[FeatureDataset, RDD[Fragment], FragmentDataset]
- final class FeaturesToFragmentsDatasetConverter extends ToFragmentDatasetConversion[Feature, Feature, FeatureDataset]
- final class FeaturesToGenotypesConverter extends Function2[FeatureDataset, RDD[Genotype], GenotypeDataset]
- final class FeaturesToGenotypesDatasetConverter extends ToGenotypeDatasetConversion[Feature, Feature, FeatureDataset]
- final class FeaturesToReadsConverter extends Function2[FeatureDataset, RDD[Read], ReadDataset]
- final class FeaturesToReadsDatasetConverter extends ToReadDatasetConversion[Feature, Feature, FeatureDataset]
- final class FeaturesToSequencesConverter extends Function2[FeatureDataset, RDD[Sequence], SequenceDataset]
- final class FeaturesToSequencesDatasetConverter extends ToSequenceDatasetConversion[Feature, Feature, FeatureDataset]
- final class FeaturesToSlicesConverter extends Function2[FeatureDataset, RDD[Slice], SliceDataset]
- final class FeaturesToSlicesDatasetConverter extends ToSliceDatasetConversion[Feature, Feature, FeatureDataset]
- final class FeaturesToVariantContextConverter extends Function2[FeatureDataset, RDD[VariantContext], VariantContextDataset]
- final class FeaturesToVariantsConverter extends Function2[FeatureDataset, RDD[Variant], VariantDataset]
- final class FeaturesToVariantsDatasetConverter extends ToVariantDatasetConversion[Feature, Feature, FeatureDataset]
- final class FragmentsToAlignmentsConverter extends Function2[FragmentDataset, RDD[Alignment], AlignmentDataset]
- final class FragmentsToAlignmentsDatasetConverter extends ToAlignmentDatasetConversion[Fragment, Fragment, FragmentDataset]
- final class FragmentsToCoverageConverter extends Function2[FragmentDataset, RDD[Coverage], CoverageDataset]
- final class FragmentsToCoverageDatasetConverter extends ToCoverageDatasetConversion[Fragment, Fragment, FragmentDataset]
- final class FragmentsToFeaturesConverter extends Function2[FragmentDataset, RDD[Feature], FeatureDataset]
- final class FragmentsToFeaturesDatasetConverter extends ToFeatureDatasetConversion[Fragment, Fragment, FragmentDataset]
- final class FragmentsToFragmentsConverter extends Function2[FragmentDataset, RDD[Fragment], FragmentDataset]
- final class FragmentsToGenotypesConverter extends Function2[FragmentDataset, RDD[Genotype], GenotypeDataset]
- final class FragmentsToGenotypesDatasetConverter extends ToGenotypeDatasetConversion[Fragment, Fragment, FragmentDataset]
- final class FragmentsToReadsConverter extends Function2[FragmentDataset, RDD[Read], ReadDataset]
- final class FragmentsToReadsDatasetConverter extends ToReadDatasetConversion[Fragment, Fragment, FragmentDataset]
- final class FragmentsToSequencesConverter extends Function2[FragmentDataset, RDD[Sequence], SequenceDataset]
- final class FragmentsToSequencesDatasetConverter extends ToSequenceDatasetConversion[Fragment, Fragment, FragmentDataset]
- final class FragmentsToSlicesConverter extends Function2[FragmentDataset, RDD[Slice], SliceDataset]
- final class FragmentsToSlicesDatasetConverter extends ToSliceDatasetConversion[Fragment, Fragment, FragmentDataset]
- final class FragmentsToVariantContextConverter extends Function2[FragmentDataset, RDD[VariantContext], VariantContextDataset]
- final class FragmentsToVariantsConverter extends Function2[FragmentDataset, RDD[Variant], VariantDataset]
- final class FragmentsToVariantsDatasetConverter extends ToVariantDatasetConversion[Fragment, Fragment, FragmentDataset]
- final class GenotypesToAlignmentsConverter extends Function2[GenotypeDataset, RDD[Alignment], AlignmentDataset]
- final class GenotypesToAlignmentsDatasetConverter extends ToAlignmentDatasetConversion[Genotype, Genotype, GenotypeDataset]
- final class GenotypesToCoverageConverter extends Function2[GenotypeDataset, RDD[Coverage], CoverageDataset]
- final class GenotypesToCoverageDatasetConverter extends ToCoverageDatasetConversion[Genotype, Genotype, GenotypeDataset]
- final class GenotypesToFeaturesConverter extends Function2[GenotypeDataset, RDD[Feature], FeatureDataset]
- final class GenotypesToFeaturesDatasetConverter extends ToFeatureDatasetConversion[Genotype, Genotype, GenotypeDataset]
- final class GenotypesToFragmentsConverter extends Function2[GenotypeDataset, RDD[Fragment], FragmentDataset]
- final class GenotypesToFragmentsDatasetConverter extends ToFragmentDatasetConversion[Genotype, Genotype, GenotypeDataset]
- final class GenotypesToGenotypesConverter extends Function2[GenotypeDataset, RDD[Genotype], GenotypeDataset]
- final class GenotypesToReadsConverter extends Function2[GenotypeDataset, RDD[Read], ReadDataset]
- final class GenotypesToReadsDatasetConverter extends ToReadDatasetConversion[Genotype, Genotype, GenotypeDataset]
- final class GenotypesToSequencesConverter extends Function2[GenotypeDataset, RDD[Sequence], SequenceDataset]
- final class GenotypesToSequencesDatasetConverter extends ToSequenceDatasetConversion[Genotype, Genotype, GenotypeDataset]
- final class GenotypesToSlicesConverter extends Function2[GenotypeDataset, RDD[Slice], SliceDataset]
- final class GenotypesToSlicesDatasetConverter extends ToSliceDatasetConversion[Genotype, Genotype, GenotypeDataset]
- final class GenotypesToVariantContextConverter extends Function2[GenotypeDataset, RDD[VariantContext], VariantContextDataset]
- final class GenotypesToVariantsConverter extends Function2[GenotypeDataset, RDD[Variant], VariantDataset]
- final class GenotypesToVariantsDatasetConverter extends ToVariantDatasetConversion[Genotype, Genotype, GenotypeDataset]
-
class
JavaADAMContext extends Serializable
The JavaADAMContext provides java-friendly functions on top of ADAMContext.
- final class ReadsToAlignmentsConverter extends Function2[ReadDataset, RDD[Alignment], AlignmentDataset]
- final class ReadsToAlignmentsDatasetConverter extends ToAlignmentDatasetConversion[Read, Read, ReadDataset]
- final class ReadsToCoverageConverter extends Function2[ReadDataset, RDD[Coverage], CoverageDataset]
- final class ReadsToCoverageDatasetConverter extends ToCoverageDatasetConversion[Read, Read, ReadDataset]
- final class ReadsToFeaturesConverter extends Function2[ReadDataset, RDD[Feature], FeatureDataset]
- final class ReadsToFeaturesDatasetConverter extends ToFeatureDatasetConversion[Read, Read, ReadDataset]
- final class ReadsToFragmentsConverter extends Function2[ReadDataset, RDD[Fragment], FragmentDataset]
- final class ReadsToFragmentsDatasetConverter extends ToFragmentDatasetConversion[Read, Read, ReadDataset]
- final class ReadsToGenotypesConverter extends Function2[ReadDataset, RDD[Genotype], GenotypeDataset]
- final class ReadsToGenotypesDatasetConverter extends ToGenotypeDatasetConversion[Read, Read, ReadDataset]
- final class ReadsToReadsConverter extends Function2[ReadDataset, RDD[Read], ReadDataset]
- final class ReadsToSequencesConverter extends Function2[ReadDataset, RDD[Sequence], SequenceDataset]
- final class ReadsToSequencesDatasetConverter extends ToSequenceDatasetConversion[Read, Read, ReadDataset]
- final class ReadsToSlicesConverter extends Function2[ReadDataset, RDD[Slice], SliceDataset]
- final class ReadsToSlicesDatasetConverter extends ToSliceDatasetConversion[Read, Read, ReadDataset]
- final class ReadsToVariantContextsConverter extends Function2[ReadDataset, RDD[VariantContext], VariantContextDataset]
- final class ReadsToVariantsConverter extends Function2[ReadDataset, RDD[Variant], VariantDataset]
- final class ReadsToVariantsDatasetConverter extends ToVariantDatasetConversion[Read, Read, ReadDataset]
- final class SequencesToAlignmentsConverter extends Function2[SequenceDataset, RDD[Alignment], AlignmentDataset]
- final class SequencesToAlignmentsDatasetConverter extends ToAlignmentDatasetConversion[Sequence, Sequence, SequenceDataset]
- final class SequencesToCoverageConverter extends Function2[SequenceDataset, RDD[Coverage], CoverageDataset]
- final class SequencesToCoverageDatasetConverter extends ToCoverageDatasetConversion[Sequence, Sequence, SequenceDataset]
- final class SequencesToFeaturesConverter extends Function2[SequenceDataset, RDD[Feature], FeatureDataset]
- final class SequencesToFeaturesDatasetConverter extends ToFeatureDatasetConversion[Sequence, Sequence, SequenceDataset]
- final class SequencesToFragmentsConverter extends Function2[SequenceDataset, RDD[Fragment], FragmentDataset]
- final class SequencesToFragmentsDatasetConverter extends ToFragmentDatasetConversion[Sequence, Sequence, SequenceDataset]
- final class SequencesToGenotypesConverter extends Function2[SequenceDataset, RDD[Genotype], GenotypeDataset]
- final class SequencesToGenotypesDatasetConverter extends ToGenotypeDatasetConversion[Sequence, Sequence, SequenceDataset]
- final class SequencesToReadsConverter extends Function2[SequenceDataset, RDD[Read], ReadDataset]
- final class SequencesToReadsDatasetConverter extends ToReadDatasetConversion[Sequence, Sequence, SequenceDataset]
- final class SequencesToSequencesConverter extends Function2[SequenceDataset, RDD[Sequence], SequenceDataset]
- final class SequencesToSlicesConverter extends Function2[SequenceDataset, RDD[Slice], SliceDataset]
- final class SequencesToSlicesDatasetConverter extends ToSliceDatasetConversion[Sequence, Sequence, SequenceDataset]
- final class SequencesToVariantContextsConverter extends Function2[SequenceDataset, RDD[VariantContext], VariantContextDataset]
- final class SequencesToVariantsConverter extends Function2[SequenceDataset, RDD[Variant], VariantDataset]
- final class SequencesToVariantsDatasetConverter extends ToVariantDatasetConversion[Sequence, Sequence, SequenceDataset]
- final class SlicesToAlignmentsConverter extends Function2[SliceDataset, RDD[Alignment], AlignmentDataset]
- final class SlicesToAlignmentsDatasetConverter extends ToAlignmentDatasetConversion[Slice, Slice, SliceDataset]
- final class SlicesToCoverageConverter extends Function2[SliceDataset, RDD[Coverage], CoverageDataset]
- final class SlicesToCoverageDatasetConverter extends ToCoverageDatasetConversion[Slice, Slice, SliceDataset]
- final class SlicesToFeaturesConverter extends Function2[SliceDataset, RDD[Feature], FeatureDataset]
- final class SlicesToFeaturesDatasetConverter extends ToFeatureDatasetConversion[Slice, Slice, SliceDataset]
- final class SlicesToFragmentsConverter extends Function2[SliceDataset, RDD[Fragment], FragmentDataset]
- final class SlicesToFragmentsDatasetConverter extends ToFragmentDatasetConversion[Slice, Slice, SliceDataset]
- final class SlicesToGenotypesConverter extends Function2[SliceDataset, RDD[Genotype], GenotypeDataset]
- final class SlicesToGenotypesDatasetConverter extends ToGenotypeDatasetConversion[Slice, Slice, SliceDataset]
- final class SlicesToReadsConverter extends Function2[SliceDataset, RDD[Read], ReadDataset]
- final class SlicesToReadsDatasetConverter extends ToReadDatasetConversion[Slice, Slice, SliceDataset]
- final class SlicesToSequencesConverter extends Function2[SliceDataset, RDD[Sequence], SequenceDataset]
- final class SlicesToSequencesDatasetConverter extends ToSequenceDatasetConversion[Slice, Slice, SliceDataset]
- final class SlicesToSlicesConverter extends Function2[SliceDataset, RDD[Slice], SliceDataset]
- final class SlicesToVariantContextsConverter extends Function2[SliceDataset, RDD[VariantContext], VariantContextDataset]
- final class SlicesToVariantsConverter extends Function2[SliceDataset, RDD[Variant], VariantDataset]
- final class SlicesToVariantsDatasetConverter extends ToVariantDatasetConversion[Slice, Slice, SliceDataset]
- trait ToAlignmentDatasetConversion[T, U <: Product, V <: GenomicDataset[T, U, V]] extends GenomicDatasetConversion[T, U, V, Alignment, Alignment, AlignmentDataset]
- trait ToCoverageDatasetConversion[T, U <: Product, V <: GenomicDataset[T, U, V]] extends GenomicDatasetConversion[T, U, V, Coverage, Coverage, CoverageDataset]
- trait ToFeatureDatasetConversion[T, U <: Product, V <: GenomicDataset[T, U, V]] extends GenomicDatasetConversion[T, U, V, Feature, Feature, FeatureDataset]
- trait ToFragmentDatasetConversion[T, U <: Product, V <: GenomicDataset[T, U, V]] extends GenomicDatasetConversion[T, U, V, Fragment, Fragment, FragmentDataset]
- trait ToGenotypeDatasetConversion[T, U <: Product, V <: GenomicDataset[T, U, V]] extends GenomicDatasetConversion[T, U, V, Genotype, Genotype, GenotypeDataset]
- trait ToReadDatasetConversion[T, U <: Product, V <: GenomicDataset[T, U, V]] extends GenomicDatasetConversion[T, U, V, Read, Read, ReadDataset]
- trait ToSequenceDatasetConversion[T, U <: Product, V <: GenomicDataset[T, U, V]] extends GenomicDatasetConversion[T, U, V, Sequence, Sequence, SequenceDataset]
- trait ToSliceDatasetConversion[T, U <: Product, V <: GenomicDataset[T, U, V]] extends GenomicDatasetConversion[T, U, V, Slice, Slice, SliceDataset]
- trait ToVariantContextDatasetConversion[T, U <: Product, V <: GenomicDataset[T, U, V]] extends GenomicDatasetConversion[T, U, V, VariantContext, VariantContext, VariantContextDataset]
- trait ToVariantDatasetConversion[T, U <: Product, V <: GenomicDataset[T, U, V]] extends GenomicDatasetConversion[T, U, V, Variant, Variant, VariantDataset]
- final class VariantContextsToAlignmentsConverter extends Function2[VariantContextDataset, RDD[Alignment], AlignmentDataset]
- final class VariantContextsToCoverageConverter extends Function2[VariantContextDataset, RDD[Coverage], CoverageDataset]
- final class VariantContextsToFeaturesConverter extends Function2[VariantContextDataset, RDD[Feature], FeatureDataset]
- final class VariantContextsToFragmentsConverter extends Function2[VariantContextDataset, RDD[Fragment], FragmentDataset]
- final class VariantContextsToGenotypesConverter extends Function2[VariantContextDataset, RDD[Genotype], GenotypeDataset]
- final class VariantContextsToReadsConverter extends Function2[VariantContextDataset, RDD[Read], ReadDataset]
- final class VariantContextsToSequencesConverter extends Function2[VariantContextDataset, RDD[Sequence], SequenceDataset]
- final class VariantContextsToSlicesConverter extends Function2[VariantContextDataset, RDD[Slice], SliceDataset]
- final class VariantContextsToVariantContextConverter extends Function2[VariantContextDataset, RDD[VariantContext], VariantContextDataset]
- final class VariantContextsToVariantsConverter extends Function2[VariantContextDataset, RDD[Variant], VariantDataset]
- final class VariantsToAlignmentsConverter extends Function2[VariantDataset, RDD[Alignment], AlignmentDataset]
- final class VariantsToAlignmentsDatasetConverter extends ToAlignmentDatasetConversion[Variant, Variant, VariantDataset]
- final class VariantsToCoverageConverter extends Function2[VariantDataset, RDD[Coverage], CoverageDataset]
- final class VariantsToCoverageDatasetConverter extends ToCoverageDatasetConversion[Variant, Variant, VariantDataset]
- final class VariantsToFeaturesConverter extends Function2[VariantDataset, RDD[Feature], FeatureDataset]
- final class VariantsToFeaturesDatasetConverter extends ToFeatureDatasetConversion[Variant, Variant, VariantDataset]
- final class VariantsToFragmentsConverter extends Function2[VariantDataset, RDD[Fragment], FragmentDataset]
- final class VariantsToFragmentsDatasetConverter extends ToFragmentDatasetConversion[Variant, Variant, VariantDataset]
- final class VariantsToGenotypesConverter extends Function2[VariantDataset, RDD[Genotype], GenotypeDataset]
- final class VariantsToGenotypesDatasetConverter extends ToGenotypeDatasetConversion[Variant, Variant, VariantDataset]
- final class VariantsToReadsConverter extends Function2[VariantDataset, RDD[Read], ReadDataset]
- final class VariantsToReadsDatasetConverter extends ToReadDatasetConversion[Variant, Variant, VariantDataset]
- final class VariantsToSequencesConverter extends Function2[VariantDataset, RDD[Sequence], SequenceDataset]
- final class VariantsToSequencesDatasetConverter extends ToSequenceDatasetConversion[Variant, Variant, VariantDataset]
- final class VariantsToSlicesConverter extends Function2[VariantDataset, RDD[Slice], SliceDataset]
- final class VariantsToSlicesDatasetConverter extends ToSliceDatasetConversion[Variant, Variant, VariantDataset]
- final class VariantsToVariantContextConverter extends Function2[VariantDataset, RDD[VariantContext], VariantContextDataset]
- final class VariantsToVariantsConverter extends Function2[VariantDataset, RDD[Variant], VariantDataset]
Value Members
- object JavaADAMContext extends Serializable