Maximum likelihood phylogeny

Layer 3 — Biologyin the Phylogenetics And Systematics subtree

Tree inference by maximising likelihood P(data | tree, substitution model). Requires explicit model (JC, K80, GTR+Γ+I). Implemented in RAxML, IQ-TREE, PhyML. Statistically consistent.

Related concepts

Phylogenetic tree
Bayesian phylogeny
Phylogenetic bootstrap

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