outlierLineages: Detect lineages with unusually large evolutionary divergence...

In treedater: Fast Molecular Clock Dating of Phylogenetic Trees with Rate Variation

Description

Outliers are detected using the *stats::p.adjust* function and the 'fdr' function. The test requires that *dater* was used with the temporalConstraints=TRUE.

Usage

outlierLineages(td, alpha = 0.05, type = c("tips", "internal", "all"))

Arguments

td	A fitted treedater object
alpha	The tail probability used for classifying lineages as outliers
type	Should outliers be detected on tip lineages, interal lineages, or all lineages?

Value

A data frame summarizing for each lineage the p values, adjusted p values ('q'), likelihood, rates, and branch lengths.

See Also

dater outlier.tips

treedater documentation built on Jan. 27, 2020, 1:06 a.m.