API for bomeara/treevo
Using ABC to Understand Trait Evolution

Global functions
EstimateMaxForce Source code
EstimateRate Source code
ExponentiallyDecayingPushExtrinsic Man page Source code
ForceOptimality Source code
GetBrownianSDRate Source code
GetExpPushPriors Source code
GetGenomeDuplicationPriors Source code
MultiStepPush Source code
OneStepPush Source code
PLSRejection Source code
PLSTransform Man page Source code
SingleParameterPLSDistanceSquared Source code
SingleParameterPLSDistanceSquaredFixedPLS Source code
TreEvo-package Man page
abcDistance Source code
abcmodels.extrinsic Man page
abcmodels.intrinsic Man page
abcparticle Source code
abctaxon Source code
ancState Man page
autoregressiveIntrinsic Man page Source code
autoregressiveIntrinsicTimeSlices Man page Source code
autoregressiveIntrinsicTimeSlicesConstantMean Man page Source code
autoregressiveIntrinsicTimeSlicesConstantSigma Man page Source code
bayesCoverageProb Source code
boostNsim Source code
boundaryIntrinsic Man page Source code
boundaryMaxIntrinsic Man page Source code
boundaryMinIntrinsic Man page Source code
boxcoxTransformation Man page Source code
boxcoxTransformationMatrix Man page
brownianIntrinsic Man page Source code
compareListIPD Man page Source code
createAbcTaxonFromHeightsRow Source code
distanceByRow Source code
doRun Man page
doRun_prc Man page Source code
doRun_rej Man page Source code
doSimulation Man page Source code
doSimulationInternal Source code
everyoneDisplacementExtrinsic Man page Source code
extrinsicModels Man page
genRate Man page
genomeDuplicationAttraction Source code
genomeDuplicationAttractionLogScale Source code
genomeDuplicationPartialDoublingLogScale Source code
getBM Source code
getBMRatePrior Man page Source code
getDelta Source code
getFreeVector Source code
getHPDcoda Source code
getLambda Source code
getOU Source code
getPriorList Source code
getSimulationSplits Source code
getSummary Source code
getSummaryMeans Source code
getTaxonDFWithPossibleExtinction Source code
getTraitBoundsFPK Man page Source code
getTraitIntervalDensityFPK Source code
getUnivariatePosteriorCurve Man page Source code
getUnivariatePriorCurve Man page Source code
getWhite Source code
getlnTransitionProb Source code
highestDensityInterval Man page Source code
initialSimsPRC Source code
initializeStatesFromMatrices Source code
interparticleDistance Source code
intrinsicModels Man page
landscapeFPK_Intrinsic Man page Source code
makeQuiet Source code
matchTreeWithTrait Source code
maxBoundaryAutoregressiveIntrinsic Man page Source code
methodsPLS Man page
minBoundaryAutoregressiveIntrinsic Man page Source code
multiOptimaIntrinsic Man page Source code
mutateState Source code
mutateStates Source code
nearestNeighborDisplacementExtrinsic Man page Source code
nullExtrinsic Man page Source code
nullIntrinsic Man page Source code
pairwiseESS Man page Source code
pairwiseKS Man page Source code
parallelSimulateWithPriors Man page Source code
parentOffspringPlots Man page Source code
plotABC_3D Man page Source code
plotPosteriors Man page Source code
plotPrior Man page Source code
plotPriorPost Man page
plotUnivariatePosteriorVsPrior Man page Source code
plot_landscapeFPK_model Man page Source code
postRunSimulateFromMeans Source code
potentialFunFPK Source code
pullFromPrior Source code
qexpOptimality Source code
registerMulticoreEnv Source code
results Man page
resultsBound Man page
returnPLSModel Man page Source code
rnormFastZig Source code
setupMulticore Source code
simChar Man page
simParticlePRC Source code
simParticlePRCNotParallel Source code
simParticlePRCParallel Source code
simPhy Man page
simRunExample Man page
simulateWithPriors Man page Source code
solnfreq Source code
startsWithMultiple Source code
stopMulticore Source code
sumLogTranProb Source code
summarizePosterior Man page Source code
summarizeTaxonStates Source code
summaryStatsLong Source code
testMultivarOutlierHDR Man page Source code
treevo Man page
varyingBoundariesFixedSigmaIntrinsic Source code
varyingBoundariesVaryingSigmaIntrinsic Source code
bomeara/treevo documentation built on July 13, 2019, 2:07 a.m.