TagType
models
Timers
instrumentation
TranscriptEffectField
projections
TreeJoin
Timers
TreeRegionJoin
rdd
TrimCigar
Timers
TrimLowQualityInDriver
Timers
TrimMDTag
Timers
TrimRead
Timers
TrimReadsInDriver
Timers
TwoBitFile
util
TwoBitFileSerializer
util
TypeVal
TagType
tag
Attribute
tagType
Attribute
tags
RichAlignmentRecord
target
FeatureField
targetsToAdd
ConsensusGenerator
thousandGenomes
DefaultHeaderLines VariantAnnotationField
timerName
InstrumentedADAMBAMOutputFormat InstrumentedADAMBAMOutputFormatHeaderLess InstrumentedADAMCRAMOutputFormat InstrumentedADAMCRAMOutputFormatHeaderLess InstrumentedADAMSAMOutputFormat InstrumentedADAMSAMOutputFormatHeaderLess
toADAMContig
SequenceRecord
toCoverage
FeatureRDD AlignmentRecordRDD
toEnd
ReferenceRegion
toFeature
Coverage
toFeatureRDD
CoverageRDD
toFragments
AlignmentRecordRDD
toGenotypeRDD
VariantContextRDD
toMetadata
RecordGroup
toReads
NucleotideContigFragmentRDD FragmentRDD
toSAMReadGroupRecord
RecordGroup
toSAMSequenceDictionary
SequenceDictionary
toSAMSequenceRecord
SequenceRecord
toSamples
RecordGroupDictionary
toString
Attribute MdTag RecordGroupDictionary SequenceDictionary SequenceRecord TypeVal GenomicPositionPartitioner ReferenceContigMap
toVariantContextRDD
GenotypeRDD VariantRDD
toVariantRDD
VariantContextRDD
total
TranscriptEffectField
transcriptEffects
DefaultHeaderLines VariantAnnotationField
transcriptHgvs
TranscriptEffectField
transcriptId
FeatureField
transform
GenomicRDD