partvar {cati} R Documentation

## Variance partitioning accross nested scales

### Description

Variance partitioning accross nested scales using a decomposition (varcomp function) of variance on restricted maximum likelihood (REML) method (lme function). See Messier et al. 2010 for more information. barPartvar and piePartvar are associated plotting functions.

### Usage

	partvar(traits, factors, printprogress = TRUE)
barPartvar(partvar, col.bar = NA, ...)
piePartvar(partvar, col.pie = NA, ...)


### Arguments

 traits Matrix of traits with traits in column factors A matrix of factors with the first column corresponds to the higher level factor, the second row the second higher level factor and so on. printprogress Logical value; print progress during the calculation or not. partvar The result of the partvar function. col.bar Vector of colors of bars ... Any additional arguments are passed to the pie function. col.pie Vector of color for pie.

### Value

An object of class "partvar" corresponding to a matrix of variance values with traits in rows and nested factors in column.

### References

Messier, Julie, Brian J. McGill, et Martin J. Lechowicz. 2010. How do traits vary across ecological scales? A case for trait-based ecology: How do traits vary across ecological scales? Ecology Letters 13(7): 838-848. doi:10.1111/j.1461-0248.2010.01476.x.

piePartvar; barPartvar

### Examples


data(finch.ind)
## Not run:
cond<-seq(1,length(sp.finch)*2, by = 2)
genus <- as.vector(unlist(strsplit(as.vector(sp.finch),"_"))[cond])

res.partvar.finch <- partvar(traits = traits.finch,
factors = cbind(sites = as.factor(as.vector(ind.plot.finch)),
species = as.factor(as.vector(sp.finch)), genus = as.factor(genus)))

res.partvar.finch

oldpar<-par()
par(mfrow = c(2,2), mai = c(0.2,0.2,0.2,0.2))
piePartvar(res.partvar.finch)
par(oldpar)

barPartvar(res.partvar.finch)

## End(Not run)


[Package cati version 0.99.4 Index]