plot.species_distribution: Plot Profile Objects

In divent: Entropy Partitioning to Measure Diversity

Plot Profile Objects

Description

Plot objects of class "species_distribution" produced by species_distribution and similar functions.

Usage

## S3 method for class 'species_distribution'
plot(
  x,
  type = c("RAC", "Metacommunity"),
  ...,
  fit_rac = FALSE,
  distribution = c("lnorm", "lseries", "geom", "bstick"),
  ylog = "y",
  main = NULL,
  xlab = "Rank",
  ylab = NULL,
  palette = "Set1"
)

## S3 method for class 'species_distribution'
autoplot(
  object,
  ...,
  fit_rac = FALSE,
  distribution = c("lnorm", "lseries", "geom", "bstick"),
  ylog = TRUE,
  main = NULL,
  xlab = "Rank",
  ylab = NULL,
  pch = 19,
  cex = 1.5
)

Arguments

x	An object.
type	The type of plot. "RAC" (Rank-abundance curve, or Whittaker plot) or "Metacommunity" to represent species abundances of each community along with those of the metacommunity.
...	Additional arguments to be passed to plot. Unused elsewhere.
fit_rac	If TRUE, estimate a theoretical distribution and fit the data with it. RAC plot only.
distribution	The distribution of species abundances. May be "lnorm" (log-normal), "lseries" (log-series), "geom" (geometric) or "bstick" (broken stick). RAC plot only.
ylog	If TRUE, the Y-axis is in log-scale. RAC plot only.
main	The title of the plot.
xlab	The label of the X-axis. RAC plot only.
ylab	The label of the Y-axis.
palette	The name of a color palette, recognized by RColorBrewer::brewer.pal. RAC plot only.
object	An object of class species_distribution.
pch	The plotting characters. See graphics::points.
cex	The character expansion (size) of the points. See graphics::points.

Value

NULL. Called for side effects.

divent documentation built on April 3, 2025, 7:40 p.m.