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 i
Patrick,
I am working on these kinds of issues as well.
If you use Arlequin, or Hapstar to make networks, you will not get loops
either, at least when you use the primary haplotype. TCS does keep loops, and
separates networks without connections.
Giacomo
On Mar 29, 2011, at 7:28 AM, Patrick F
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
