Other Papers and Publications

"Lecture Notes: The Mathematics of Phylogenetics"
Elizabeth S. Allman and John A. Rhodes
Park City Mathematics Institute's summer program in Mathematical Biology, undergraduate program
Preprint, June 26, 2005, 1-127.

"Phylogenetic invariants for stationary base composition"
Elizabeth S. Allman and John A. Rhodes
Journal Symbolic Computation, 41 (2006) 138-150.
http://arxiv.org/abs/q-bio.PE/0407035 or basecomp.pdf

"Quartets and Parameter Recovery for the General Markov Model of Sequence Mutation"
Elizabeth S. Allman and John A. Rhodes
AMRX App. Math. Res. Express Vol. 2004, no. 4, 2004, 107--131.
Preprint: quartets.pdf

"Phylogenetic Invariants for the General Markov Model of Sequence Mutation"
Elizabeth S. Allman and John A. Rhodes Math. Biosci. 186(2), 2003, 113-144,
A longer version, with several proofs and an example omitted from the published version, phyloplus.pdf