Tab5InFormatter
fragment
Tab6InFormatter
fragment
TagType
models
TextRddWriter
util
Timers
instrumentation
TranscriptEffect
sql
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
Feature
targetsToAdd
ConsensusGenerator
thousandGenomes
DefaultHeaderLines
VariantAnnotationField
VariantAnnotation
timerName
InstrumentedADAMBAMOutputFormat
InstrumentedADAMBAMOutputFormatHeaderLess
InstrumentedADAMCRAMOutputFormat
InstrumentedADAMCRAMOutputFormatHeaderLess
InstrumentedADAMSAMOutputFormat
InstrumentedADAMSAMOutputFormatHeaderLess
toADAMContig
SequenceRecord
toAvro
AlignmentRecord
Contig
Dbxref
Feature
Fragment
Genotype
NucleotideContigFragment
OntologyTerm
ProcessingStep
TranscriptEffect
Variant
VariantAnnotation
VariantCallingAnnotations
toCoverage
DatasetBoundFeatureRDD
FeatureRDD
ParquetUnboundFeatureRDD
RDDBoundFeatureRDD
AlignmentRecordRDD
RDDBoundAlignmentRecordRDD
toDF
GenomicDataset
toEnd
ReferenceRegion
toFeature
Coverage
toFeatures
CoverageRDD
DatasetBoundCoverageRDD
ParquetUnboundCoverageRDD
RDDBoundCoverageRDD
toFragments
AlignmentRecordRDD
toGenotypes
VariantContextRDD
toMetadata
RecordGroup
toPredicate
ReferenceRegion
toReads
NucleotideContigFragmentRDD
FragmentRDD
toSAMReadGroupRecord
RecordGroup
toSAMSequenceDictionary
SequenceDictionary
toSAMSequenceRecord
SequenceRecord
toSamples
RecordGroupDictionary
toSqlFeature
Coverage
toString
Attribute
MdTag
RecordGroupDictionary
SequenceDictionary
SequenceRecord
TypeVal
AvroRecordGroupGenomicRDD
GenomicPositionPartitioner
GenomicRDD
MultisampleGenomicRDD
ReferenceContigMap
toVariantContexts
GenotypeRDD
VariantRDD
toVariants
VariantContextRDD
total
TranscriptEffectField
TranscriptEffect
totalLength
SliceField
transcriptEffects
DefaultHeaderLines
VariantAnnotationField
VariantAnnotation
transcriptHgvs
TranscriptEffectField
TranscriptEffect
transcriptId
FeatureField
Feature
transform
GenomicRDD
transformDataFrame
GenomicDataset
transformDataset
GenomicDataset
NucleotideContigFragmentRDD
CoverageRDD
DatasetBoundFeatureRDD
FeatureRDD
DatasetBoundFragmentRDD
FragmentRDD
AlignmentRecordRDD
DatasetBoundAlignmentRecordRDD
DatasetBoundGenotypeRDD
DatasetBoundVariantRDD
GenotypeRDD
VariantRDD
transmute
GenomicRDD
transmuteDataFrame
GenomicDataset
transmuteDataset
GenomicDataset