plot_ltt_phyloall: Easy visualization of lineage through time plots of all...

In phylotastic/datelifeplot: Methods to plot chronograms

Easy visualization of lineage through time plots of all chronograms in a multiphylo object.

Description

Easy visualization of lineage through time plots of all chronograms in a multiphylo object.

Usage

plot_ltt_phyloall(
  taxon = NULL,
  phy,
  ltt_colors = NULL,
  tax_datedotol = NULL,
  file_name = NULL,
  file_dir = NULL,
  height = 3.5,
  width = 7,
  add_legend = FALSE,
  add_title = FALSE,
  title_text = NULL,
  study_number_cex = 0.75,
  lwd_arrows = 2,
  ...
)

Arguments

taxon	Character vector indicating the name of the taxon or lineage that the chronograms in phy belong to.
phy	A phylo or multiphylo object with chronograms (trees with branch lengths proportional to geologic time), ideally.
ltt_colors	A character vector indicating the colors to be used for plotting ltt
tax_datedotol	A chronogram to compare trees in phy to.
file_name	A character string giving the name of the pdf file.
file_dir	A character string giving the path to write the file to.
height	Height of the plot output
width	width of the plot output
add_legend	Boolean
add_title	Boolean
title_text	Character vector
study_number_cex	A numeric value
lwd_arrows	A numeric value
...	Arguments passed on to ape::ltt.plot xlab a character string (or a variable of mode character) giving the label for the x-axis (default is "Time"). ylab idem for the y-axis (default is "N"). backward a logical value: should the time axis be traced from the present (the default), or from the root of the tree? tol a numeric value (see details).

phylotastic/datelifeplot documentation built on July 14, 2022, 12:35 p.m.