InFormatter
rdd
InFormatterCompanion
rdd
IncorrectMDTagException
read
IndexedFastaFile
util
InnerBroadcastJoin
Timers
InnerShuffleJoin
Timers
InnerShuffleRegionJoin
rdd
InnerShuffleRegionJoinAndGroupByLeft
rdd
InnerTreeRegionJoin
rdd
InnerTreeRegionJoinAndGroupByRight
rdd
InputStreamWithDecoder
serialization
InstrumentedADAMBAMOutputFormat
read
InstrumentedADAMBAMOutputFormatHeaderLess
read
InstrumentedADAMCRAMOutputFormat
read
InstrumentedADAMCRAMOutputFormatHeaderLess
read
InstrumentedADAMSAMOutputFormat
read
InstrumentedADAMSAMOutputFormatHeaderLess
read
Integer
TagType
InterleavedFASTQInFormatter
fragment
InterleavedFastqInputFormat
io
InvertingRecalibrationTable
Timers
id
ReadGroup ReadGroupField SampleField ProcessingStep
in
AvroSerializer
index
SequenceRecord ReferenceField SliceField Reference Slice
indexRecordStart
TwoBitFile
infoHeaderLines
DefaultHeaderLines
initialize
FastqRecordReader
insertSize
AlignmentRecordField FragmentField AlignmentRecord Fragment
instrumentation
adam
intersection
ReferenceRegion
invert
GenomeBins
io
adam
is2BitExt
FileExtensions
isAdjacent
ReferenceRegion
isBamExt
FileExtensions
isBedExt
FileExtensions
isCompatibleWith
SequenceDictionary
isDeletion
RichVariant
isDictExt
FileExtensions
isEmpty
ReadGroupDictionary SequenceDictionary
isFastaExt
FileExtensions
isFastqExt
FileExtensions
isGenomeExt
FileExtensions
isGff3Ext
FileExtensions
isGtfExt
FileExtensions
isGzip
FileExtensions
isInsertion
RichVariant
isInterleavedFastqExt
FileExtensions
isIntervalListExt
FileExtensions
isMatch
MdTag
isMismatchAtReferencePosition
RichAlignmentRecord
isMultipleNucleotideVariant
RichVariant
isNarrowPeakExt
FileExtensions
isNearby
ReferenceRegion
isPartitioned
ADAMContext DatasetBoundGenomicDataset DatasetBoundCoverageDataset DatasetBoundFeatureDataset DatasetBoundFragmentDataset DatasetBoundAlignmentRecordDataset DatasetBoundReadDataset DatasetBoundSequenceDataset DatasetBoundSliceDataset DatasetBoundGenotypeDataset DatasetBoundVariantContextDataset DatasetBoundVariantDataset
isSingleNucleotideVariant
RichVariant
isSorted
GenomicDataset
isSplitable
FastqInputFormat
isTextExt
FileExtensions
isVcfExt
FileExtensions