ObservationAccumulatorComb
Timers
ObservationAccumulatorSeq
Timers
ObservingRead
Timers
OntologyTerm
sql
OntologyTermField
projections
OptionalPositionOrdering
models
OptionalReferenceOrdering
models
OptionalRegionOrdering
models
OutFormatter
rdd
ontologyTerms
FeatureField
Feature
opt
ReferenceRegion
optHeaderLines
VCFOutFormatter
optLookbackPartitions
DatasetBoundGenomicDataset
DatasetBoundNucleotideContigFragmentDataset
DatasetBoundCoverageDataset
DatasetBoundFeatureDataset
DatasetBoundFragmentDataset
DatasetBoundAlignmentRecordDataset
DatasetBoundGenotypeDataset
DatasetBoundVariantContextDataset
DatasetBoundVariantDataset
optPartitionBinSize
DatasetBoundGenomicDataset
DatasetBoundNucleotideContigFragmentDataset
DatasetBoundCoverageDataset
DatasetBoundFeatureDataset
DatasetBoundFragmentDataset
DatasetBoundAlignmentRecordDataset
DatasetBoundGenotypeDataset
DatasetBoundVariantContextDataset
DatasetBoundVariantDataset
optPartitionMap
DatasetBoundGenericGenomicDataset
GenomicDataset
RDDBoundGenericGenomicDataset
DatasetBoundNucleotideContigFragmentDataset
ParquetUnboundNucleotideContigFragmentDataset
RDDBoundNucleotideContigFragmentDataset
DatasetBoundCoverageDataset
DatasetBoundFeatureDataset
ParquetUnboundCoverageDataset
ParquetUnboundFeatureDataset
RDDBoundCoverageDataset
RDDBoundFeatureDataset
DatasetBoundFragmentDataset
ParquetUnboundFragmentDataset
RDDBoundFragmentDataset
DatasetBoundAlignmentRecordDataset
ParquetUnboundAlignmentRecordDataset
RDDBoundAlignmentRecordDataset
DatasetBoundGenotypeDataset
DatasetBoundVariantContextDataset
DatasetBoundVariantDataset
ParquetUnboundGenotypeDataset
ParquetUnboundVariantDataset
RDDBoundGenotypeDataset
RDDBoundVariantContextDataset
RDDBoundVariantDataset
optSampleId
Coverage
orderingForOptionalPositions
ReferencePosition
ReferenceRegion
orderingForPositions
ReferencePosition
ReferenceRegion
org
root
originalCigar
AlignmentRecordField
AlignmentRecord
originalQuality
AlignmentRecordField
AlignmentRecord
originalStart
AlignmentRecordField
AlignmentRecord
outputFormatClass
InstrumentedADAMBAMOutputFormat
InstrumentedADAMBAMOutputFormatHeaderLess
InstrumentedADAMCRAMOutputFormat
InstrumentedADAMCRAMOutputFormatHeaderLess
InstrumentedADAMSAMOutputFormat
InstrumentedADAMSAMOutputFormatHeaderLess
outstream
AvroSerializer
overlaps
ReferenceRegion
overlapsBy
ReferenceRegion
overlapsReferencePosition
RichAlignmentRecord