prefPlot: Plot population and individual preferences
In bayespref: Hierarchical Bayesian analysis of ecological count data

Description Usage Arguments Author(s) Examples

This function will plot the posterior densities for population-level and individual-level preferences based upon a bayesPref analysis.

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prefPlot(prefres = NULL, burn = 0, ind = TRUE, pop = TRUE, dist = FALSE, 
ymax = 5, xmin = 0, xmax = 1, dadj = 2, colors = NULL, leg = FALSE, 
lx = 0.8, ly = 4, catname = NULL, ps = FALSE, file = "./prefplot.eps")

`prefres`	An object returned by `bayesPref`.
`burn`	A value indicating the number of burnin samples discarded.
`ind`	A boolean indicating whether to plot individual-level preferences.
`pop`	A boolean indicating whether to plot population-level preferences.
`dist`	A boolean indicating whether to plot population-level preferences based on density of the posterior (default), or whether to plot population-level preferences based on the estimate of the Dirichlet alphas.
`ymax`	A value indicating the maximum value for the y-axis.
`xmin`	A value indicating the minimum value for the x-axis.
`xmax`	A value indicating the maximum value for the x-axis.
`dadj`	A value indicating the bandwidth used for the smoothing of the density plot.
`colors`	A vector indicating the colors used for plotting.
`leg`	A Boolean indicating whether to include a legend in the plot.
`lx`	A value indicating where the legend begins on the horizontal (x-axis).
`ly`	A value indicating where the legend begins on the vertical (y-axis).
`catname`	A vector indicating the names associated with the legend.
`ps`	A Boolean indicating whether to write the plot to a file.
`file`	The name of the file the plot is written to.

Zachariah Gompert zgompert@uwyo.edu, James A. Fordyce jfordyce@utk.edu

## Not run: 
data(YGGV)
res <- bayesPref(pData=YGGV,mcmcL=1000)

prefPlot(prefres=res[[1]],burn=100,pop=TRUE) 

prefPlot(prefres=res[[1]],burn=100,pop=TRUE,ymax=15,leg=TRUE,
catname=c("Astragalus"," Lotus","Lupine","Medicago"),lx=0.6,ly=14) #includes legend

prefPlot(prefres=res[[1]],burn=100,ind=FALSE,pop=TRUE,ymax=15,leg=TRUE,
catname=c("Astragalus"," Lotus","Lupine","Medicago"),lx=0.6,ly=14) #includes only 
population posterior and legend

## End(Not run)