llik | log-likelihood of a phylogenetic tree |
llik.st | log-likelihood of a set of phylogenetic trees |
MCEM.phylo | MCEM routine for parameters inference under... |
mle.st | Maximun likelihood estimation for a set of trees |
mle.tree | Maximun likelihood estimation for a phylogenetic tree |
phylo2vectors | Convert phylo to vectors |
rec.tree | Reconstruction of extant species tree |
sim.srt | function... |
sim.tree | Phylogenetic tree simulation |
update.tree | Update phylogenetic tree by adding 1 missing species |
vectors2phylo | Convert markov chain sequences vectors onto phylo object |
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