All Classes
AccuracyCalculator
AccuracyCalculator.AccuracyMethod
AccuracyStats
AlgorithmException
BiallelicFilter
BiasedBinomialCaller
BinomialCaller
ByteMapper
ByteToGeno
Caller
Case
ClassList
Combiner
CombinerOption
ComparableDistribution
ComparableDistributionCollector
Correlation
CountMap
DepthMapper
DepthMask
DepthMask.Method
DepthMaskFactory
Descent
Distribution
DistributionCollector
DotsProgress
DoubleMapper
EM
ExtendedXMLConfiguration
GenoToByte
Genotype
GenotypeChanger
GoldenSection
HasDepthFilter
ImputationOption
Imputer
INIException
Input
IntegerMapper
KnniLDProb
KnniLDProbOptimizedCalls
LinkImputeR
Log
Log.Level
MAFFilter
Mapper
Matrix
MaxDepthCombiner
MaxDepthCombinerOptimizedCalls
MaxDepthNoReadsChanger
Meta
MinDepthMissingChanger
MultipleIntegerValue
MultipleTest
NotEnoughMaskableGenotypesException
OptimizeCombiner
OptimizeImputer
Output
OutputException
ParalogHWFilter
Pearson
Position
PositionChanger
PositionFilter
PositionMeta
PositionMissing
PrintStats
ProbToCall
ProbToCallMinDepth
ProgrammerException
Progress
ProgressFactory
ProgressFactory.ProgressType
RenameFormatChanger
Sample
SampleFilter
SampleMissing
SilentProgress
SingleDoubleValue
SingleGenotypeCall
SingleGenotypeMasked
SingleGenotypePosition
SingleGenotypeProbability
SingleGenotypeReads
SortByIndexDouble
StandardizeCountsFormatChanger
TextBarProgress
TextProgress
TopQueue
VCF
VCFDataException
VCFDataLineException
VCFException
VCFFilter
VCFHeaderLineException
VCFInputException
VCFMissingFormatException
VCFNoDataException
VCFUnexpectedDataException