as.listofindex: Transform index results in a list of index

In cati: Community Assembly by Traits: Individuals and Beyond

Transform index results in a list of index

Description

Transform various results from functions Tstats, ComIndex or ComIndexMulti in a list of index. Useful to use the functions plot.listofindex (S3 method) and ses.listofindex.

Usage

	as.listofindex(x, namesindex = NULL)

Arguments

x	A list of objects of class Tstats, ComIndex or ComIndexMulti
namesindex	Optionnal, the names of index in the same order as in x.

Value

A list of observed values and corresponding "null" values (i.e. produced by null models) in the form "list(index1, null model index1, index2, null model index2 ...)"

Author(s)

Adrien Taudiere

See Also

ses.listofindex; plot.listofindex

Examples

	data(finch.ind)

	res.finch <- Tstats(traits.finch, ind.plot = ind.plot.finch, 
	sp = sp.finch, nperm = 9, print = FALSE)

	## Not run: 
		#### Use a different regional pool than the binding of studied communities
		#create a random regional pool for the example
	
		reg.p <- rbind(traits.finch, traits.finch[sample(1:2000,300), ])
	
		res.finch2 <- Tstats(traits.finch, ind.plot = ind.plot.finch, 
	    sp = sp.finch, reg.pool=reg.p, nperm = 9, print = FALSE)	
	    
	    plot(as.listofindex(list(res.finch,res.finch2)))
    
    
	    #### Use a different regional pool for each communities
		#create a random regional pool for each communities for the example
		list.reg.p <- list(
		traits.finch[sample(1:290,200), ], traits.finch[sample(100:1200,300), ], 
		traits.finch[sample(100:1500, 1000), ], traits.finch[sample(300:800,300), ],
		traits.finch[sample(1000:2000, 500), ], traits.finch[sample(100:900, 700), ] )

		# Warning: the regional pool need to be larger than the observed communities
		table(ind.plot.finch)
		# For exemple, the third community need a regional pool of more than 981 individuals
		
		res.finch3 <- Tstats(traits.finch, ind.plot = ind.plot.finch, 
	    sp = sp.finch, reg.pool=list.reg.p, nperm = 9, print = FALSE)	
	    
	    plot(as.listofindex(list(res.finch, res.finch2, res.finch3)))	
	
## End(Not run)

cati documentation built on March 18, 2022, 5:43 p.m.