| coverage_plot {palaeoSig} | R Documentation |
coverage_plot
Description
A simple diagnostic plot showing the coverage of fossil taxa in modern calibration set
Usage
coverage_plot(spp, fos, n2_rare = 5, label = NULL)
Arguments
spp |
data.frame of modern species abundances |
fos |
data.frame of fossil species abundances |
n2_rare |
numeric value of Hill's N2 below which species are highlighted as rare |
label |
numeric label taxa where maximum fossil abundance - maximum modern abundance > label. Defaults to NULL which does not add labels |
Details
Finds the maximum abundance of fossil taxa and plots this against
the maximum abundance the taxa in the modern calibration set.
Taxa with a Hill's N2 less than rare in the calibration set are
highlighted in blue.
Taxa absent from the calibration set are highlighted in red.
If there are many taxa above the 1:1 line, or important fossil taxa have a
low N2 in the calibration set,
reconstructions should be interpreted with caution.
Value
A ggplot object.
Examples
data("SWAP", package = "rioja")
data("RLGH", package = "rioja")
coverage_plot(spp = SWAP$spec, fos = RLGH$spec, n2_rare = 5, label = 0)