elem
InvalidCigarElementException
elements
PileupStats
Pileup
empty
ParsedLoci
InputFilters
end
AlleleAtLocus
MultiSampleMultiAlleleEvidence
MappedRead
Interval
Position
CalledAllele
CalledSomaticAllele
endLocus
ReadSubsequence
endOpt
LociRange
endReadPosition
ReadSubsequence
equals
Deletion
evidence
jointcaller
CalledAllele
excludeIndels
ConcordanceArgs
excludeSNVs
ConcordanceArgs
explodeCoverage
CappedRegionsPartitionerArgs