Alternative
phylogenetic methods applied to a five-taxon problem:
Is the Giant
Panda (Ailuropoda) more closely
related to the Red Panda (Ailurus)
or the Brown Bear (Ursus)?
(1) UPGMA
phenogram, equality of branch lengths assumed, (2) Neighbor-Joining,
with inferred distances along each branch, (3) NJ
Radiation phenogram, without implicit rooting, (4) Maximum
Parsimony, with inferred number of SNP changes
along each branch, and (5) Maximum Likelihood, with probabilities
of changes along each branch.
Note that NJ and NJ unrooted networks have the same topology. Note that NJ distances and MP numbers are roughly the same values on terminal branches, but.
UPGMANJ
NJ unrooted
MPML