HMPTrees-package	HMPTrees-package
buildTree	HMPTrees-internal
checkTreeValidHelp	HMPTrees-internal
checkTreeValidity	checkTreeValidity
compareTwoDataSets	compareTwoDataSets
createAndPlot	createAndPlot
createTrees	createTrees
displayLegend	displayLegend
formatData	formatData
generateTree	generateTree
getBranchSizes	HMPTrees-internal
getMLEandLoglike	getMLEandLoglike
getTaxaDepth	HMPTrees-internal
HMPTrees	HMPTrees-package
HMPTrees-internal	HMPTrees-internal
mergeDataSets	mergeDataSets
pairedCompareTwoDataSets	pairedCompareTwoDataSets
plotTree	plotTree
plotTreeDataMDS	plotTreeDataMDS
removeUnclass	HMPTrees-internal
saliva	saliva
stool	stool
subsetData	HMPTrees-internal
throat	throat
transformHMPtoHMPTree	HMPTrees-internal
transformHMPTreetoHMP	HMPTrees-internal
traverseTree	HMPTrees-internal
traverseTreeHelp	HMPTrees-internal
trimToTaxaLevel	trimToTaxaLevel
