R: Colour for node support value

SupportColour {TreeTools}

R Documentation

Colour for node support value

Description

Colour value with which to display node support.

Usage

SupportColour(
  support,
  show1 = TRUE,
  scale = rev(diverge_hcl(101, h = c(260, 0), c = 100, l = c(50, 90), power = 1)),
  outOfRange = "red"
)

SupportColor(
  support,
  show1 = TRUE,
  scale = rev(diverge_hcl(101, h = c(260, 0), c = 100, l = c(50, 90), power = 1)),
  outOfRange = "red"
)

Arguments

`support`	A numeric vector of values in the range 0–1.
`show1`	Logical specifying whether to display values of 1. A transparent white will be returned if `FALSE`.
`scale`	101-element vector listing colours in sequence. Defaults to a diverging HCL scale.
`outOfRange`	Colour to use if results are outside the range 0–1.

Value

SupportColour() returns the appropriate value from scale, or outOfRange if a value is outwith the valid range.

Examples

SupportColour((-1):4 / 4, show1 = FALSE)

# An example forest of 100 trees, some identical
forest <- as.phylo(c(1, rep(10, 79), rep(100, 15), rep(1000, 5)), nTip = 9)

# Generate an 80% consensus tree
cons <- ape::consensus(forest, p = 0.8)
plot(cons)

splitFreqs <- SplitFrequency(cons, forest)
LabelSplits(cons, splitFreqs, unit = '%',
            col = SupportColor(splitFreqs / 100),
            frame = 'none', pos = 3L)