alakazam-package	alakazam
ABBREV_AA	ABBREV_AA
alakazam	alakazam
aliphatic	aliphatic
aminoAcidProperties	aminoAcidProperties
buildPhylipLineage	buildPhylipLineage
bulk	bulk
calcCoverage	calcCoverage
calcDiversity	calcDiversity
ChangeoClone	ChangeoClone-class
ChangeoClone-class	ChangeoClone-class
charge	charge
collapseDuplicates	collapseDuplicates
countClones	countClones
countGenes	countGenes
countPatterns	countPatterns
DEFAULT_COLORS	DEFAULT_COLORS
DiversityCurve	DiversityCurve-class
DiversityCurve-class	DiversityCurve-class
DiversityCurve-method	DiversityCurve-class
DiversityTest	DiversityTest-class
DiversityTest-class	DiversityTest-class
DiversityTest-method	DiversityTest-class
DNA_COLORS	DEFAULT_COLORS
EdgeTest	EdgeTest-class
EdgeTest-class	EdgeTest-class
EdgeTest-method	EdgeTest-class
estimateAbundance	estimateAbundance
ExampleDb	ExampleDb
ExampleTrees	ExampleTrees
extractVRegion	extractVRegion
getAAMatrix	getAAMatrix
getAllele	getSegment
getDNAMatrix	getDNAMatrix
getFamily	getSegment
getGene	getSegment
getMRCA	getMRCA
getPathLengths	getPathLengths
getSegment	getSegment
gravy	gravy
gridPlot	gridPlot
IG_COLORS	DEFAULT_COLORS
IMGT_REGIONS	IMGT_REGIONS
isValidAASeq	isValidAASeq
IUPAC_AA	IUPAC_CODES
IUPAC_CODES	IUPAC_CODES
IUPAC_DNA	IUPAC_CODES
makeChangeoClone	makeChangeoClone
makeTempDir	makeTempDir
maskSeqEnds	maskSeqEnds
maskSeqGaps	maskSeqGaps
MRCATest	MRCATest-class
MRCATest-class	MRCATest-class
MRCATest-method	MRCATest-class
pairwiseDist	pairwiseDist
pairwiseEqual	pairwiseEqual
permuteLabels	permuteLabels
plot,DiversityCurve,missing-method	DiversityCurve-class
plot,EdgeTest,missing-method	EdgeTest-class
plot,MRCATest,missing-method	MRCATest-class
plotAbundance	plotAbundance
plotDiversityCurve	plotDiversityCurve
plotEdgeTest	plotEdgeTest
plotMRCATest	plotMRCATest
plotSubtrees	plotSubtrees
polar	polar
print,DiversityCurve-method	DiversityCurve-class
print,DiversityTest-method	DiversityTest-class
print,EdgeTest-method	EdgeTest-class
print,MRCATest-method	MRCATest-class
rarefyDiversity	rarefyDiversity
readChangeoDb	readChangeoDb
seqDist	seqDist
seqEqual	seqEqual
sortGenes	sortGenes
stoufferMeta	stoufferMeta
summarizeSubtrees	summarizeSubtrees
tableEdges	tableEdges
testDiversity	testDiversity
testEdges	testEdges
testMRCA	testMRCA
translateDNA	translateDNA
translateStrings	translateStrings
TR_COLORS	DEFAULT_COLORS
writeChangeoDb	writeChangeoDb
