Creation of a PhenotypicGMM
Creates an object of class PhenotypicGMM, a subclass of the class PhenotypicModel intended to represent the Generalist Matching Mutualism model of trait evolution on two specific trees.
createModelCoevolution(tree1, tree2, keyword)
tree1: an object of class 'phylo' as defined in the R package 'ape'.tree2: an object of class 'phylo' as defined in the R package 'ape'.keyword: a string object. Defaut value "GMM" returns an object of class PhenotypicGMM, which takes advantage of faster distribution computation. Otherwise, a "PhenotypicModel" is returned, and the computation of the tip distribution will take much longer.an object of class "PhenotypicModel" or "PhenotypicGMM".
Manceau M., Lambert A., Morlon H. (2017) A unifying comparative phylogenetic framework including traits coevolving across interacting lineages Systematic Biology
M Manceau
#Loading example trees newick1 <- "(((A:1,B:1):3,(C:3,D:3):1):2,E:6);" tree1 <- read.tree(text=newick1) newick2 <- "((X:1.5,Y:1.5):3,Z:4.5);" tree2 <- read.tree(text=newick2) #Creating the model modelGMM <- createModelCoevolution(tree1, tree2) #Printing basic or full informations on the model definitions show(modelGMM) print(modelGMM) #Simulates tip trait data dataGMM <- simulateTipData(modelGMM, c(0,0,5,-5, 1, 1), method=2)