decompCTRE: Variance partitioning for multiple traits

Description

This function decomposes the variation in community trait composition into three sources: (i) the intraspecific trait variability, (ii) the variability due to species turnover and (iii) their covariation is also separated. This decomposition is computed for the whole variation in the trait values and, The formula specified, across the contribution of various explanatory variables considered in the model. Barplot.decompCTRE allow to plot the result of the decomposition.

Usage

decompCTRE(traits = NULL, formula = ~1, ind.plot = NULL, sp = NULL, 
	printprogress = TRUE, ...)
	
	# S3 method for decompCTRE
barplot(height, resume = TRUE, …)

Arguments

traits

Matrix of traits with traits in column

height

An object of class decompCTRE obtain by the function decompCTRE.

formula

The formula parameter must be a one-sided formula, i.e. starting with a tilde (~) character. The response variable is specified by the next two arguments, specif.avg and const.avg. By default set to ~1.

ind.plot

Factor defining the name of the plot (site or community) in which the individual is.

Factor defining the species which the individual belong to.

printprogress

Logical value; print progress during the calculation or not.

resume

Logical. If resume = FALSE, plot one graphic by traits.

…

Optional additional arguments

Value

An object of class "decompCTRE".

References

Leps, Jan, Francesco de Bello, Petr Smilauer and Jiri Dolezal. 2011. Community trait response to environment: disentangling species turnover vs intraspecific trait variability effects. Ecography 34 (5): 856-863.

Examples

Run this code

# NOT RUN {
data(finch.ind)
# }
# NOT RUN {
  res.decomp <- decompCTRE(traits = traits.finch, sp = sp.finch, 
  ind.plot = ind.plot.finch, print = FALSE)

  barplot.decompCTRE(res.decomp)

  par(mfrow = c(2,2))
  barplot.decompCTRE(res.decomp, resume = FALSE)
  par(mfrow = c(1,1))
  
# }