Class Index

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A	ClonotypeBuilder (ymir)	M	OurReader (Json)	TDMatrixList (ymir)
	CodonTable::Codons (ymir)		P	TDVector (ymir)
AbstractInsertionModel (ymir)	CodonTable (ymir)	MAAG (ymir)		TDVectorList (ymir)
AbstractTDContainer (ymir)	CommentStyle (Json)	MAAGBuilder (ymir)	ProbabilisticAssemblingModel (ymir)	TestInfo (ymir)
StatisticalInferenceAlgorithm::AlgorithmParameters (ymir)	D	MAAGForwardBackwardAlgorithm (ymir)	ProbMatrixChain	V
AlignmentBase (ymir)		Matrix (ymir)	R
AlignmentColumnOptions (ymir)	DiNucInsertionModel (ymir)	ModelParameterVector (ymir)		VD2JForwardBackward (ymir)
AlignmentEventScore (ymir)	E	ModelParser (ymir)	RepertoireParser (ymir)	VDJAlignerBase (ymir)
AlignmentMatrixBase (ymir)		MonoNucInsertionModel (ymir)	RepertoireParserStatistics (ymir)	VDJAlignerParameters (ymir)
AlignmentVectorBase (ymir)	EMAlgorithm (ymir)	MultiMatrixChain (ymir)	RepertoireWriter (ymir)	VDJAlignment (ymir)
B	EventIndMatrixChain	N	RuntimeError (Json)	VDJAlignmentBuilder (ymir)
	Exception (Json)		S	VDJAlignmentEventScore (ymir)
BlockEMAlgorithm	F	NaiveCDR3AlignerFunctor_D (ymir)		VDJAlignmentScoreThreshold (ymir)
BuiltStyledStreamWriter (Json)		NaiveCDR3AlignerFunctor_J (ymir)	SGAlgorithm (ymir)	VDJForwardBackward (ymir)
C	ForwardBackwardAlgorithm (ymir)	NaiveCDR3AlignerFunctor_V (ymir)	StatisticalInferenceAlgorithm (ymir)	VDJModelParser (ymir)
	G	MultiMatrixChain::Node (ymir)	OurReader::StructuredError (Json)	VDJRecombinationGenes (ymir)
CDR3AlignerFunctor_D (ymir)		NoGapAlignment (ymir)	SWAlignerFunctor_D (ymir)	VJForwardBackward (ymir)
CDR3AlignerFunctor_J (ymir)	GappedAlignment (ymir)	NoGapAlignmentVector (ymir)	SWAlignerFunctor_VJ (ymir)	VJModelParser (ymir)
CDR3AlignerFunctor_V (ymir)	GappedAlignmentVector (ymir)	NumErrorsMMC	SWNGAlignerFunctor_D (ymir)
Cloneset (ymir)	GeneSegmentAlphabet::GeneSegment (ymir)	O	SWNGAlignerFunctor_J (ymir)
ClonesetView (ymir)	GeneSegmentAlphabet (ymir)		SWNGAlignerFunctor_V (ymir)
Clonotype (ymir)	L	OurCharReader (Json)	T
ClonotypeAssembler (ymir)		OurFeatures (Json)
	LogicError (Json)		TDMatrix (ymir)

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