BAMMtools-package	BAMMtools
addBAMMlegend	addBAMMlegend
addBAMMshifts	addBAMMshifts
assignColorBreaks	assignColorBreaks
BAMMlikelihood	BAMMlikelihood
BAMMtools	BAMMtools
BAMMtools-data	BAMMtools-data
cohorts	cohorts
computeBayesFactors	computeBayesFactors
credibleShiftSet	credibleShiftSet
cumulativeShiftProbsTree	ShiftProbsTree
distinctShiftConfigurations	distinctShiftConfigurations
dtRates	dtRates
events.fishes	BAMMtools-data
events.primates	BAMMtools-data
events.whales	BAMMtools-data
fishes	BAMMtools-data
generateControlFile	generateControlFile
getBestShiftConfiguration	getBestShiftConfiguration
getBranchShiftPriors	getBranchShiftPriors
getCladeRates	getCladeRates
getCohortMatrix	getCohortMatrix
getEventData	getEventData
getJenksBreaks	getJenksBreaks
getMarginalBranchRateMatrix	getMarginalBranchRateMatrix
getMeanBranchLengthTree	getMeanBranchLengthTree
getmrca	getmrca
getRateThroughTimeMatrix	getRateThroughTimeMatrix
getShiftNodesFromIndex	getShiftNodesFromIndex
getTipRates	getTipRates
marginalOddsRatioBranches	marginalOddsRatioBranches
marginalShiftProbsTree	ShiftProbsTree
mass.primates	BAMMtools-data
maximumShiftCredibility	maximumShiftCredibility
mcmc.primates	BAMMtools-data
mcmc.whales	BAMMtools-data
plot.bammdata	plot
plot.bammshifts	plot.bammshifts
plot.credibleshiftset	plot.credibleshiftset
plotPrior	plotPrior
plotRateThroughTime	plotRateThroughTime
primates	BAMMtools-data
print.credibleshiftset	summary.credibleshiftset
ratesHistogram	ratesHistogram
richColors	richColors
samplingProbs	samplingProbs
setBAMMpriors	setBAMMpriors
speciesByRatesMatrix	speciesByRatesMatrix
stepBF	stepBF
strapp	traitDependentBAMM
subsetEventData	subsetEventData
subtreeBAMM	subtreeBAMM
summary.bammdata	summary.bammdata
summary.credibleshiftset	summary.credibleshiftset
testTimeVariableBranches	testTimeVariableBranches
traitDependentBAMM	traitDependentBAMM
traits.fishes	BAMMtools-data
transparentColor	transparentColor
whales	BAMMtools-data
writeEventData	writeEventData
