AOplot: Abundance Occupancy Plot

In Ligophorus/FuzzyQ: Fuzzy Quantification of Common and Rare Species

Description

Plots the abundance-occupancy relationship of species in a community categorized as common or rare by fuzzyq.

Usage

AOplot(
  fq,
  col.rc = c("red", "blue"),
  opacity = 0.1,
  log.x = FALSE,
  log.y = FALSE,
  xLab = "Fraction of sites occupied",
  yLab = "Mean abundance",
  ...
)

Arguments

fq	A list of class fuzzyq returned by FuzzyQ::fuzzyq.
col.rc	A vector specifying two colors to be used to plot common and rare species. Accept any valid color specification in R.
opacity	Number within [0,1] specifying the opacity of convex hulls grouping common and rare species.
log.x	Logical. Whether or not the x axis should be in log10 scale.
log.y	Logical. Whether or not the y axis should be in log10 scale.
xLab	String. Title for the x axis.
yLab	String. Title for the y axis.
...	Other graphical parameters to be passed to plot.

Value

A scatter plot of occupancy vs. abundance of species. Convex hulls enclose common and rare species.

Examples

data(antsA)
FQAnts <- fuzzyq(antsA, sorting = TRUE)
AOplot(FQAnts) # Plor with default values

# Alternative with colors specified in Hex code, logarithmic axes and other
# point format
AOplot(FQAnts, col.rc = c("#013bad","#bd5f69"),
       log.x = TRUE, log.y = TRUE, pch = 4)

Ligophorus/FuzzyQ documentation built on June 3, 2021, 4:37 a.m.