order.nodes.visually

phylo,


  Returns the indices of all nodes in the tree, arranged in
  the order in which they would be displayed in a
  2-dimensional phylogram plot. In other words, the parent
  node of two leaf nodes will be placed directly in between
  its two children, since the parent node is usually placed
  at the midpoint between two leaf nodes in a plot.


ggphylo is a set of functions for producing expressive
visualizations of phylogenetic data using ggplot. Its main features
include plotting a tree alongside its alignment and using tree
annotations to modulate visual elements of the plot (e.g. line width,
node size). Various convenience methods are also included for working
more easily with ape's phylo objects.

Gregory Jordan

ggphylo

Tools for laying out and plotting phylogenetic data
(trees and alignments) with ggplot.

order.nodes.visually function

Returns the indices of all nodes in the tree, arranged in the order
in which they would be displayed in a 2-dimensional phylogram plot. In other words,
the parent node of two leaf nodes will be placed directly in between its two children,
since the parent node is usually placed at the midpoint between two leaf nodes in a plot.

Description

Usage

Arguments

Value