dowser (version 2.4.0)

makeSkyline: get values for Bayesian Skyline plot

Description

makeSkyline

Usage

makeSkyline(
  logfile,
  treesfile,
  burnin,
  bins = 100,
  youngest = 0,
  clone_id = NULL,
  max_height = c("min", "median", "mean", "max")
)

Value

Bayesian Skyline values for given clone

Arguments

logfile

Beast log file

treesfile

BEAST trees file

burnin

Burnin percentage (1-100)

bins

number of bins for plotting

youngest

timepoint of the most recently tip sampled (if 0, backward time used)

clone_id

name of the clone being analyzed (if desired)

max_height

max height to use (min, median, mean, max)