Confidence measures in phylogenetics

Erick Matsen

Examine the confidence measures for your trees.


What assumption enables this application of the bootstrap?

approximate likelihood ratio test

approximate likelihood ratio test

Bayesian approach

\[ P(T \mid D) \propto P(D \mid T) P(T) \]

Quantify the posterior distribution of trees given data and a prior.


If we want to quantify the support of a given node \(N\) of a tree,

\[ P(N \mid D) = \sum_{T \ni N} P(T \mid D) \]