ObservationAccumulatorComb
Timers
ObservationAccumulatorSeq
Timers
ObservingRead
Timers
OntologyTerm
sql
OntologyTermField
projections
OptionalPositionOrdering
models
OptionalReferenceOrdering
models
OptionalRegionOrdering
models
OutFormatter
rdd
oldCigar
AlignmentRecordField AlignmentRecord
oldPosition
AlignmentRecordField AlignmentRecord
ontologyTerms
FeatureField Feature
opt
ReferenceRegion
optPartitionMap
GenericGenomicRDD GenomicRDD DatasetBoundNucleotideContigFragmentRDD ParquetUnboundNucleotideContigFragmentRDD RDDBoundNucleotideContigFragmentRDD DatasetBoundCoverageRDD DatasetBoundFeatureRDD ParquetUnboundCoverageRDD ParquetUnboundFeatureRDD RDDBoundCoverageRDD RDDBoundFeatureRDD DatasetBoundFragmentRDD ParquetUnboundFragmentRDD RDDBoundFragmentRDD DatasetBoundAlignmentRecordRDD ParquetUnboundAlignmentRecordRDD RDDBoundAlignmentRecordRDD DatasetBoundGenotypeRDD DatasetBoundVariantRDD ParquetUnboundGenotypeRDD ParquetUnboundVariantRDD RDDBoundGenotypeRDD RDDBoundVariantRDD VariantContextRDD
orderingForOptionalPositions
ReferencePosition ReferenceRegion
orderingForPositions
ReferencePosition ReferenceRegion
org
root
origQual
AlignmentRecordField AlignmentRecord
outputFormatClass
InstrumentedADAMBAMOutputFormat InstrumentedADAMBAMOutputFormatHeaderLess InstrumentedADAMCRAMOutputFormat InstrumentedADAMCRAMOutputFormatHeaderLess InstrumentedADAMSAMOutputFormat InstrumentedADAMSAMOutputFormatHeaderLess
outstream
AvroSerializer
overlaps
ReferenceRegion
overlapsBy
ReferenceRegion
overlapsReferencePosition
RichAlignmentRecord