TrIdent-package	TrIdent-package
allPatternMatches	allPatternMatches
allProphageLikeClassifs	allProphageLikeClassifs
allSlopingClassifs	allSlopingClassifs
blockBuilder	blockBuilder
blockTranslator	blockTranslator
changeSlope	changeSlope
changeSlopeWStart	changeSlopeWStart
changeWindowSize	changeWindowSize
contigClassSumm	contigClassSumm
directBlockBuilder	directBlockBuilder
fullSlope	fullSlope
geneAnnotationPlot	geneAnnotationPlot
geneSearch	geneSearch
gffSample	gffSample
leftRightBlockTranslater	leftRightBlockTranslater
makeBlockPattern	makeBlockPattern
makeFullSlopes	makeFullSlopes
makeFullSlopesDirect	makeFullSlopesDirect
makeSlopesWStarts	makeSlopesWStarts
NARemover	NARemover
noPattern	noPattern
optimNoPattern	optimNoPattern
optimSlopeFull	optimSlopeFull
optimSlopeWithStart	optimSlopeWithStart
patternBuilder	patternBuilder
patternMatcher	patternMatcher
patternMatchSize	patternMatchSize
pileupFormatter	pileupFormatter
plotTrIdentResults	plotTrIdentResults
prophageLikeBorders	prophageLikeBorders
prophageLikeElevation	prophageLikeElevation
prophageLikeZoom	prophageLikeZoom
resultsHisto	resultsHisto
slopeSumm	slopeSumm
slopeTranslator	slopeTranslator
slopeWithStart	slopeWithStart
slopeWithStartDirect	slopeWithStartDirect
specializedTransductionID	specializedTransductionID
specTransductionPlot	specTransductionPlot
specTransductionSearch	specTransductionSearch
TrIdent	TrIdent-package
TrIdentClassifier	TrIdentClassifier
TrIdentSampleOutput	TrIdentSampleOutput
VLPFractionSamplePileup	VLPFractionSamplePileup
VLPtoWCRatioCalc	VLPtoWCRatioCalc
WholeCommunitySamplePileup	WholeCommunitySamplePileup
zeroCountSearch	zeroCountSearch
