plot.gamma_accum: Plot the gamma accumulation result from gammaAccum

In douglasgscofield/dispersalDiversity: Analyse individual and genetic diversity of dispersal processes in biological populations

Description

For an example of its use see Figure 4D-F of Scofield et al. (2012).

Usage

## S3 method for class 'gamma_accum'
plot(g, xmax = length(g$simple.results$mns),
  ymax = max(g$simple.results$mns + g$simple.results$SE), obs.omega = NULL,
  omega.pos = c(0.15, 0.97), xlab = "Number of groups",
  ylab = expression("Accumulated  " * gamma * "  diversity"), pch = 19,
  pch.gamma = 24, col = "black", bty = "L", lwd = 1.5, bg = "white",
  lty = 2, ...)

Arguments

g	Object of class 'gamma_accum' returned by gammaAccum
xmax	Maximum extent of the X-axis in the plot
ymax	Maximum extent of the Y-axis in the plot
obs.omega	If provided, the observed omega value for the data underlying the gamma accumulation curve; this value is added to the plot
omega.pos	If obs.omega is given, the location at which it is plotted, relative to xmax and ymax, in a two-element vector. 1 is added to each dimension.
xlab, ylab, col, bty, lwd, bg	Options passed to plot, lines and/or points
pch	Plotting character used for mean gamma values accumulated, see ?pch
pch.gamma	Plotting character used for total gamma value, ?pch
...	Additional options passed to plot, lines and/or points

Value

Nothing returned

References

Scofield, D. G., Smouse, P. E., Karubian, J. and Sork, V. L. (2012) Use of alpha, beta and gamma diversity measures to characterize seed dispersal by animals. American Naturalist 180:719-732.

See Also

gammaAccum

Examples

## generate random divtable
n.sites <- 5
n.sources <- 10
n.samples <- 160
set.seed(75333)
t <- data.frame(site = sample(n.sites, n.samples, replace = TRUE),
                source = round(runif(n.samples) * n.sources + 0.5))
tab <- as.divtable(table(t))
## generate gamma accumulation results
rga.result = gammaAccum(tab)
## plot gamma accumulation curve
plot(rga.result)
## generate random allele_divtables
##
## plot gamma accumulation curve for allele data
##

douglasgscofield/dispersalDiversity documentation built on March 30, 2021, 9:50 a.m.