+,AbSeqCRep,AbSeqCRep-method	plus-AbSeqCRep-AbSeqCRep-method
+,AbSeqCRep,AbSeqRep-method	plus-AbSeqCRep-AbSeqRep-method
+,AbSeqRep,AbSeqCRep-method	plus-AbSeqRep-AbSeqCRep-method
+,AbSeqRep,AbSeqRep-method	plus-AbSeqRep-AbSeqRep-method
.abundanceAnalysis	dot-abundanceAnalysis
.abundancePlot	dot-abundancePlot
.alignQualityHeatMaps	dot-alignQualityHeatMaps
.allPrimerNames	dot-allPrimerNames
.aminoAcidBar	dot-aminoAcidBar
.aminoAcidPlot	dot-aminoAcidPlot
.analyzeUpstreamValidity	dot-analyzeUpstreamValidity
.annotAnalysis	dot-annotAnalysis
.asRepertoireAlignLen	dot-asRepertoireAlignLen
.asRepertoireBitscore	dot-asRepertoireBitscore
.asRepertoireChain	dot-asRepertoireChain
.asRepertoireDir	dot-asRepertoireDir
.asRepertoireList	dot-asRepertoireList
.asRepertoireName	dot-asRepertoireName
.asRepertoirePrimer3	dot-asRepertoirePrimer3
.asRepertoirePrimer5	dot-asRepertoirePrimer5
.asRepertoireQueryStart	dot-asRepertoireQueryStart
.asRepertoireSubjectStart	dot-asRepertoireSubjectStart
.asRepertoireUpstream	dot-asRepertoireUpstream
.boxPlot	dot-boxPlot
.calculateDInd	dot-calculateDInd
.calculateDiversityEstimates	dot-calculateDiversityEstimates
.canonicalizeTitle	dot-canonicalizeTitle
.capitalize	dot-capitalize
.checkVert	dot-checkVert
.cloneDistHist	dot-cloneDistHist
.cloneDistMarginal	dot-cloneDistMarginal
.clonotypeAnalysis	dot-clonotypeAnalysis
.collateReports	dot-collateReports
.commonPrimerNames	dot-commonPrimerNames
.correlationTest	dot-correlationTest
.distanceMeasure	dot-distanceMeasure
.diversityAnalysis	dot-diversityAnalysis
.emptyPlot	dot-emptyPlot
.findRepertoires	dot-findRepertoires
.generateAllSpectratypes	dot-generateAllSpectratypes
.generateDelayedReport	dot-generateDelayedReport
.generateReport	dot-generateReport
.getLineTypes	dot-getLineTypes
.getTotal	dot-getTotal
.hmFromMatrix	dot-hmFromMatrix
.inferAnalyzed	dot-inferAnalyzed
.loadMatrixFromDF	dot-loadMatrixFromDF
.loadSamplesFromString	dot-loadSamplesFromString
.pairwiseComparison	dot-pairwiseComparison
.plotCirclize	dot-plotCirclize
.plotDist	dot-plotDist
.plotDiversityCurves	dot-plotDiversityCurves
.plotDuplication	dot-plotDuplication
.plotErrorDist	dot-plotErrorDist
.plotIGVErrors	dot-plotIGVErrors
.plotIGVUpstreamLenDist	dot-plotIGVUpstreamLenDist
.plotIGVUpstreamLenDistDetailed	dot-plotIGVUpstreamLenDistDetailed
.plotPrimerIGVStatus	dot-plotPrimerIGVStatus
.plotPrimerIntegrity	dot-plotPrimerIntegrity
.plotRarefaction	dot-plotRarefaction
.plotRecapture	dot-plotRecapture
.plotSamples	dot-plotSamples
.plotSpectratype	dot-plotSpectratype
.plotUpstreamLength	dot-plotUpstreamLength
.plotUpstreamLengthDist	dot-plotUpstreamLengthDist
.primerAnalysis	dot-primerAnalysis
.prodDistPlot	dot-prodDistPlot
.productivityAnalysis	dot-productivityAnalysis
.productivityPlot	dot-productivityPlot
.readSummary	dot-readSummary
.regionAnalysis	dot-regionAnalysis
.reportLBE	dot-reportLBE
.saveAs	dot-saveAs
.scatterPlot	dot-scatterPlot
.scatterPlotComplex	dot-scatterPlotComplex
.secretionSignalAnalysis	dot-secretionSignalAnalysis
.substituteStringInFile	dot-substituteStringInFile
.summarySE	dot-summarySE
.topNDist	dot-topNDist
.UTR5Analysis	dot-UTR5Analysis
.vennIntersection	dot-vennIntersection
AbSeqCRep	AbSeqCRep-class
AbSeqCRep-class	AbSeqCRep-class
AbSeqRep	AbSeqRep-class
AbSeqRep-class	AbSeqRep-class
abseqReport	abseqReport
report	report
report,AbSeqCRep-method	report
report,AbSeqRep-method	report
