API for corHMM
Hidden Markov Models of Character Evolution

Global functions
BruteConditionalProbability Source code
CalculateLewisLikelihood Source code
ConvertPhangornReconstructions Man page Source code
FindGenerations Source code
GetMarginalBrute Source code
GetTipStateBruteForce Source code
ancRECON Man page Source code
convert2I Source code
convertSubHistoryToEdge Source code
corDISC Man page Source code
corHMM Man page Source code
corProcessData Source code
dev.cordisc Source code
dev.corhmm Source code
dev.corhmm.ORIGINAL Source code
dev.raydisc Man page Source code
dev.raydisc.rates.and.states Source code
dropStateMatPars Man page Source code
equateStateMatPars Man page Source code
factorData Source code
findAmps Source code
getConditionalNodeLik Source code
getFullMat Man page Source code
getInfoPerNode Source code
getLewisLikelihood Source code
getRateCatMat Man page Source code
getRateMatCoord Source code
getRateMats Source code
getSimmapBranchProb Source code
getSimmapLik Source code
getStateMat Source code
getStateMat4Dat Man page Source code
keepStateMatPars Source code
makeSimmap Man page Source code
match.tree.data Source code
plotMKmodel Man page Source code
plotRECON Man page Source code
primates Man page
primates.paint Man page
print.cordisc Source code
print.corhmm Source code
print.raydisc Source code
rate.cat.set.corHMM.JDB Source code
rate.cat.set.rayDISC Source code
rate.mat.maker.JDB Source code
rate.mat.set Source code
rate.par.drop Source code
rate.par.eq Source code
rayDISC Man page Source code
rayDISC.example Man page
simBranchSubstHistory Source code
simCharHistory Source code
simMarkov Source code
simSingleSubstHistory Source code
simSubstHistory Source code
updateStateMats Source code
corHMM documentation built on May 15, 2021, 1:08 a.m.