abundanceVDJ	abundanceVDJ
abundanceVDJ,clonoStats-method	abundanceVDJ
addVDJtoSCE	addVDJtoSCE
addVDJtoSCE,character,SingleCellExperiment-method	addVDJtoSCE
addVDJtoSCE,SplitDataFrameList,SingleCellExperiment-method	addVDJtoSCE
barVDJ	barVDJ
barVDJ,clonoStats-method	barVDJ
barVDJ,Matrix-method	barVDJ
barVDJ,matrix-method	barVDJ
boxVDJ	boxVDJ
boxVDJ,matrix-method	boxVDJ
calculateDiversity	calculateDiversity
calculateDiversity,clonoStats-method	calculateDiversity
calculateDiversity,SingleCellExperiment-method	calculateDiversity
clonoAbundance	clonoStats-class
clonoAbundance,clonoStats-method	clonoStats-class
clonoAbundance,SingleCellExperiment-method	clonoStats-class
clonoAssignment	clonoStats-class
clonoAssignment,clonoStats-method	clonoStats-class
clonoAssignment,SingleCellExperiment-method	clonoStats-class
clonoFrequency	clonoStats-class
clonoFrequency,clonoStats-method	clonoStats-class
clonoFrequency,SingleCellExperiment-method	clonoStats-class
clonoGroup	clonoStats-class
clonoGroup,clonoStats-method	clonoStats-class
clonoGroup,SingleCellExperiment-method	clonoStats-class
clonoNames	clonoStats-class
clonoNames,clonoStats-method	clonoStats-class
clonoNames,SingleCellExperiment-method	clonoStats-class
clonoStats	clonoStats
clonoStats,clonoStats-method	clonoStats
clonoStats,SingleCellExperiment-method	clonoStats
clonoStats,SplitDataFrameList-method	clonoStats
clonoStats-class	clonoStats-class
contigs	contigs
pieVDJ	pieVDJ
pieVDJ,clonoStats-method	pieVDJ
pieVDJ,Matrix-method	pieVDJ
pieVDJ,matrix-method	pieVDJ
readVDJcontigs	readVDJcontigs
readVDJcontigs,character-method	readVDJcontigs
runBreakaway	runBreakaway
runBreakaway,clonoStats-method	runBreakaway
runVDJPCA	runVDJPCA
runVDJPCA,clonoStats-method	runVDJPCA
scatterVDJ	scatterVDJ
scatterVDJ,matrix-method	scatterVDJ
show,clonoStats-method	clonoStats-class
splitClonotypes	splitClonotypes
splitClonotypes,clonoStats-method	splitClonotypes
splitClonotypes,Matrix-method	splitClonotypes
splitClonotypes,matrix-method	splitClonotypes
splitClonotypes,SingleCellExperiment-method	splitClonotypes
summarizeClonotypes	summarizeClonotypes
summarizeClonotypes,clonoStats-method	summarizeClonotypes
summarizeClonotypes,Matrix-method	summarizeClonotypes
summarizeClonotypes,matrix-method	summarizeClonotypes
summarizeClonotypes,SingleCellExperiment-method	summarizeClonotypes
writeVDJcontigs	writeVDJcontigs
writeVDJcontigs,character,SplitDataFrameList-method	writeVDJcontigs
