ddSimCoal: Simulation of coalescent dated phylogeny using...

In emvolz-phylodynamics/mlesky: Maximum likelihood estimation of effective population size through time, growth rates, and phylodynamic regressions

Simulation of coalescent dated phylogeny using deterministic/'sideways' distribution of coalescent times

Description

Simulation of coalescent dated phylogeny using deterministic/'sideways' distribution of coalescent times

Usage

ddSimCoal(
  dates = 1990:2010,
  alphaFun = function(x) {
     return(10)
 },
  guessRootTime = NA,
  res = 1000,
  A_tol = 0.01
)

Arguments

dates	Sampling dates
alphaFun	Population size function Ne(t)
guessRootTime	Optional (but recommended) guess for when root may be reached.
res	Time axis resolution
A_tol	Tolerance for reaching time of root >0

Value

A simulated dated phylogeny

emvolz-phylodynamics/mlesky documentation built on Feb. 13, 2025, 1:47 p.m.