abundanceContig	abundanceContig
addVariable	addVariable
alluvialClonotypes	alluvialClonotypes
calIndex	calIndex
calIndex,Startrac-method	calIndex
clonalDiversity	clonalDiversity
clonalHomeostasis	clonalHomeostasis
clonalNetwork	clonalNetwork
clonalOverlap	clonalOverlap
clonalOverlay	clonalOverlay
clonalProportion	clonalProportion
clonesizeDistribution	clonesizeDistribution
clonotypeBias	clonotypeBias
clusterTCR	clusterTCR
combineBCR	combineBCR
combineExpression	combineExpression
combineTCR	combineTCR
combineTRUST4	combineTRUST4
compareClonotypes	compareClonotypes
contig_list	contig_list
createHTOContigList	createHTOContigList
expression2List	expression2List
getCirclize	getCirclize
getSig	getSig
getSig,Startrac-method	getSig
highlightClonotypes	highlightClonotypes
initialize	initialize-methods
initialize,Startrac-method	initialize-methods
initialize,StartracOut-method	initialize-StartracOut-method
lengthContig	lengthContig
loadContigs	loadContigs
loginfo	loginfo
mcol.entropy	mcol.entropy
mrow.entropy	mrow.entropy
occupiedscRepertoire	occupiedscRepertoire
pIndex	pIndex
pIndex,Startrac-method	pIndex
quantContig	quantContig
scatterClonotype	scatterClonotype
screp_example	screp_example
show	show
show,Startrac-method	show
show,StartracOut-method	show-StartracOut-method
Startrac	Startrac
Startrac-class	Startrac
Startrac.calIndex	calIndex
Startrac.getSig	getSig
Startrac.pIndex	pIndex
Startrac.run	Startrac.run
StartracDiversity	StartracDiversity
StartracOut	StartracOut
StartracOut-class	StartracOut
stripBarcode	stripBarcode
subsetContig	subsetContig
vizGenes	vizGenes
