R: Root to tip correlation

roottotip {BactDating} | R Documentation

## Root to tip correlation

### Description

Root to tip correlation

### Usage

    roottotip(tree, date, rate = NA, permTest = 10000, showFig = T,
      colored = T, showPredInt = "gamma", showText = T, showTree = T)

### Arguments

`tree` | Phylogenetic tree
`date` | Dates of sampling
`rate` | Evolutionary rate, estimated unless provided
`permTest` | Number of permutations to perform to compute the p-value using a permutation test
`showFig` | Whether or not to show the root-to-tip regression figure
`colored` | Whether or not to use colors illustrating dates
`showPredInt` | To show 95percent confidence intervals of a strict clock model, can be 'poisson' or 'gamma'
`showText` | Whether to show the title and axis labels
`showTree` | Whether to show the tree or not

### Value

List containing estimated clock rate, date of origin and p-value

[Package BactDating version 1.0 Index]