ordi.breadth: ordi.breadth

In butterflyology/ordiBreadth: Ordinated Diet Breadth

Description

This function calculates ordinated diet breadth

Usage

ordi.breadth(dat, dist.method = "jaccard")

Arguments

dat	A matrix of diet associations. Rows are herbivores and columns are diet items.
dist.method	Dissimilarity index passed on to vegdist in the vegan package.

Value

A list containing the following

species	A vector of the herbivore species names (row names of dat)
eig	The eigen values for each of the PCo axes
tot.breadth	A vector of the raw ordinated host breadth for each species
scaled.breadth	A vector of the scaled ordinated host breadth for each species
distances	A list of vectors giving the distance of each diet item from the centroid of each herbivore
group.vectors	A matrix of logicals indicating diet items (columns) for each herbivore (rows)
centroids.group	A matrix giving the centroid on PCo (columns) for each herbivore (rows)
plants.ord	A matrix of the coordinates for each plant in PCoA space
dist.method	Dissimilarity index used for PCoA

Author(s)

James Fordyce

References

Fordyce, J.A., C.C. Nice, C.A. Hamm, & M.L. Forister. Quantifying diet breadth through ordination of host association. Ecology

See Also

summaryhbreadth

Examples

testdata<-	
	c(		
			0,0,0,0,1,0,0,0,0,0,#1
			0,0,0,0,0,0,1,1,0,0,#2
			1,1,1,0,0,0,0,0,0,0,#3
			0,0,0,0,1,1,0,1,0,1,#4
			1,1,1,0,0,0,1,0,0,0,#4
			1,1,0,0,1,0,1,0,0,0,#4
			0,0,0,1,0,0,1,0,1,1,#4
			1,0,1,0,1,1,0,0,0,1, #5
			1,1,0,0,1,0,0,1,1,1,#6
			1,1,1,0,1,1,0,1,1,1) #8


dat<-array(dim=c(10,10),data=testdata)
dat<-t(dat)
colnames(dat)<-paste("",LETTERS[1:10],sep="")
rownames(dat)<-paste("bug",1:10,sep="")


ordi.breadth(dat)

butterflyology/ordiBreadth documentation built on May 13, 2019, 9:03 a.m.