phyPML {treeio} | R Documentation

## treeAnno.pml

### Description

tree annotation of sequence substitution by comparing to parent node

### Usage

    phyPML(pmlTree, type = "ml")

### Arguments

`pmlTree` | tree in pml object, output of phangorn::optim.pml
`type` | one of 'ml' and 'bayes' for inferring ancestral sequences

### Value

phangorn object

### Author(s)

Yu Guangchuang

[Package treeio version 1.2.2 Index]