SMITIDstruct-package	SMITIDstruct-package
addcode	addcode
addHost	addHost
addIndex	addIndex
addViralObs	addViralObs
alleleCount	alleleCount
concatViralPop	concatViralPop
createAViralPop	createAViralPop
createHost	createHost
createIndex	createIndex
demo.SMITIDstruct.run	demo.SMITIDstruct.run
diversity.pDistance	diversity.pDistance
diversity.sfs	diversity.sfs
getCov	getCov
getDate	getDate
getDiversity.pDistance	getDiversity.pDistance
getDiversity.sfs	getDiversity.sfs
getInfosByHostAndTime	getInfosByHostAndTime
getStates	getStates
getTimeLine	getTimeLine
getTimestamp	getTimestamp
getTransmissionTree	getTransmissionTree
Host	Host
Host-class	Host
is.juliendate	is.juliendate
is.StringDate	is.StringDate
is.timestamp	is.timestamp
isInCode	isInCode
loadCoords	loadCoords
loadCovs	loadCovs
loadHost	loadHost
loadStates	loadStates
loadTree	loadTree
loadTreeDF	loadTreeDF
loadViralObs	loadViralObs
loadViralPop	loadViralPop
loadViralPopSet	loadViralPopSet
mergeCode	mergeCode
plotDiversity.pDistance	plotDiversity.pDistance
plotDiversity.sfs	plotDiversity.sfs
setStates	setStates
simulateStates	simulateStates
SMITIDstruct	SMITIDstruct-package
ViralPop	ViralPop-class
ViralPop-class	ViralPop-class
_PACKAGE	SMITIDstruct-package
