paleoDiv (version 0.4.0)

redraw.phylo: Redraw the lines of a phylogenetic tree.

Description

Redraw the lines of a phylogenetic tree.

Usage

redraw.phylo(
  saved_plot = NULL,
  col = "black",
  lwd = 1,
  lty = 1,
  lend = 2,
  arrow.l = 0,
  arrow.angle = 45,
  arrow.code = 2,
  indices = NULL
)

Value

Nothing (redraws selected edges of the phylogeny on the active plot device)

Arguments

saved_plot

Optional saved plot (e.g. using get("last_plot.phylo", envir = ape::.PlotPhyloEnv)) to be used instead of currently active plot.

col

Color to be used for redrawing tree edges.

lwd

Line width to be used for redrawing tree edges.

lty

Line type to be used for redrawing tree edges.

lend

Style of line ends to be used for redrawing tree edges.

arrow.l

Length of arrow ends to be used for plotting. Defaults to 0, i.e. no visible arrow.

arrow.angle

Angle of arrow ends to be used for plotting. Defaults to 45 degrees.

arrow.code

Arrow code to be used for plotting. For details, see ?arrows

indices

Optional indices which edges to redraw. Can be used to highlight specific edges in different color or style.

Examples

data(tree_archosauria)
ape::plot.phylo(tree_archosauria)
redraw.phylo(col="darkred",lwd=3,indices=c(19:24))
redraw.phylo(col="red",lwd=3,indices=c(18),arrow.l=0.1)