layoutDaylight: Equal daylight layout method for unrooted trees.

In YuLab-SMU/ggtree: an R package for visualization of tree and annotation data

Equal daylight layout method for unrooted trees.

Description

#' @title

Usage

layoutDaylight(model, branch.length, MAX_COUNT = 5)

Arguments

model	tree object, e.g. phylo or treedata
branch.length	set to 'none' for edge length of 1. Otherwise the phylogenetic tree edge length is used.
MAX_COUNT	the maximum number of iterations to run (default 5)

Value

tree as data.frame with equal angle layout.

References

The following aglorithm aims to implement the vague description of the "Equal-daylight Algorithm" in "Inferring Phylogenies" pp 582-584 by Joseph Felsenstein.

Leafs are subtrees with no children
Initialise tree using equal angle algorithm
tree_df = equal_angle(tree)

nodes = get list of nodes in tree_df breadth-first
nodes = remove tip nodes.

YuLab-SMU/ggtree documentation built on Nov. 3, 2024, 4:15 p.m.