createTimedTrees: create timed trees from a list of maximum likelihood trees

In JamesStimson/transnp: Transmission inference using SNP data

Description

create timed trees from a list of maximum likelihood trees

Usage

createTimedTrees(mltrees, sampledates, alist, strictClock = T,
  meanRateLimits = c(0.3, 0.7))

Arguments

mltrees	list of trees as created by createMLTrees
sampledates	vector of sample dates
alist	list of alignments in DNAbin format
meanRateLimits	vector of length 2 specifying upper and lower rate limits for treedater
(TRUE)	set whether to use strict clock in treedater

Value

list of timed trees in phylo format

JamesStimson/transnp documentation built on May 30, 2019, 3:51 p.m.