Re: [R-sig-phylo] haplotype networks with pegas

Hi Giacomo and others, I have run the network in Arlequin as well but that is a minimum spanning method not statistical parsimony, correct? I am unfamiliar with Hapstar. I think that the reason the haploNet command doesn't produce loops may have something to do with the order of sequences

[R-sig-phylo] haplotype networks with pegas

Hello r-sig-phylo, I am using the haploNet command of the excellent pegas package to construct an mtDNA haplotype network with 79 nodes. When I generate the network I am able to identify the limits of parsimony from the accompanying table. However, I don't quite understand why this network

Re: [R-sig-phylo] haplotype networks

Hi all, would anyone have an example file and code to draw a haplotype network with HaploNet? Thanks Giacomo Giacomo Bernardi Professor, Department of Ecology and Evolutionary Biology University of California Center for Ocean Health, Long Marine Lab 100 Shaffer Road Santa Cruz, CA 95060, USA

Re: [R-sig-phylo] haplotype networks

Hi Giacomo, There are examples on the help page. So library(pegas) example(haploNet) will give you an idea. Cheers, Emmanuel Giacomo Bernardi wrote on 03/03/2011 03:38: Hi all, would anyone have an example file and code to draw a haplotype network with HaploNet? Thanks Giacomo Giacomo