WRITE_ORIGINAL_QUAL
InterleavedFASTQInFormatter
WRITE_SUFFIXES
InterleavedFASTQInFormatter
WriteADAMRecord
Timers
WriteBAMRecord
Timers
WriteCRAMRecord
Timers
WriteSAMRecord
Timers
wDelete
SmithWatermanConstantGapScoring
wInsert
SmithWatermanConstantGapScoring
wMatch
SmithWatermanConstantGapScoring
wMismatch
SmithWatermanConstantGapScoring
withMateMappedToDiffChromosome
FlagStatMetrics
withMateMappedToDiffChromosomeMapQ5
FlagStatMetrics
withSelfAndMateMapped
FlagStatMetrics
write
ReadBucketSerializer ReferencePositionPairSerializer ReferencePositionSerializer ReferenceRegionSerializer SingleReadBucketSerializer InFormatter InterleavedFASTQInFormatter AnySAMInFormatter IndelRealignmentTargetSerializer TargetSetSerializer ZippedTargetSetSerializer VCFInFormatter AvroSerializer TwoBitFileSerializer
writeArray
ReadBucketSerializer SingleReadBucketSerializer
writeOptionalReferencePos
ReferencePositionPairSerializer
writer
AvroSerializer