phylobubbles: Bubble plots for phylo4d objects

In phylobase: Base Package for Phylogenetic Structures and Comparative Data

Bubble plots for phylo4d objects

Description

Plots either circles or squares corresponding to the magnitude of each cell of a phylo4d object.

Usage

phylobubbles(
  type = type,
  place.tip.label = "right",
  show.node.label = show.node.label,
  rot = 0,
  edge.color = edge.color,
  node.color = node.color,
  tip.color = tip.color,
  edge.width = edge.width,
  newpage = TRUE,
  ...,
  XXYY,
  square = FALSE,
  grid = TRUE
)

Arguments

type	the type of plot
place.tip.label	A string indicating whether labels should be plotted to the right or to the left of the bubble plot
show.node.label	A logical indicating whether internal node labels should be plotted
rot	The number of degrees that the plot should be rotated
edge.color	A vector of colors for the tree edge segments
node.color	A vector of colors for the coloring the nodes
tip.color	A vector of colors for the coloring the tip labels
edge.width	A vector of line widths for the tree edges
newpage	Logical to control whether the device is cleared before plotting, useful for adding plot inside other plots
...	Additional parameters passed to the bubble plotting functions
XXYY	The out put from the phyloXXYY function
square	Logical indicating whether the plot 'bubbles' should be squares
grid	A logical indicating whether a grey grid should be plotted behind the bubbles

Author(s)

Peter Cowan [e-mail]

See Also

phyloXXYY, treePlot

Examples

##---- Should be DIRECTLY executable !! ----
##-- ==>  Define data, use random,
##--	or do  help(data=index)  for the standard data sets.

phylobase documentation built on May 29, 2024, 11:24 a.m.