Plot an ellipse — Plot_ellipse • FishLife

Plots an ellipse representing the bivariate predictive inteval

Usage

Plot_ellipse(
  Cov,
  Mean = rep(0, 2),
  add = FALSE,
  prob = 0.95,
  xlim = log(c(0.01, 2)),
  ylim = xlim,
  logticks = c(1, 2, 5),
  ticks = c(0, 5),
  axis_scale = c("log", "log"),
  main = "",
  xlab = "",
  ylab = "",
  lcol = "black",
  plot_lines = FALSE,
  lty = "solid",
  xaxt = "s",
  yaxt = "s",
  ...
)

Arguments

Cov: 2x2 matrix representing covariance
Mean: numeric vector (length of 2) representing Empirical Bayes prediction of median
add: Boolean whether to add ellipse to existing plot
prob: for defining predictive interval
xlim: x-limits if add=FALSE
ylim: y-limits if add=FALSE
logticks: ticks to use if plotting on a log-scale
ticks: ticks to use if plotting on a natural-scale
main: legend for each panel
xlab: x-axis label
ylab: y-axis label
lcol: line color for ellipse
plot_lines: whether to plot lines representing "major axis" and "OLS" regression parameters
...: additional arguments passed to shape::plotellipse
whichlog: which axes are log-scale

Value

integer of row numbers of ParentChild_gz matching genus_species