Fitting Nonstationary General-Time-Reversible Models to Obtain Edge-Lengths and Frequencies for the Barry–Hartigan Model

Lie Markov models

(2011) J.G. Sumner et al.   JOURNAL OF THEORETICAL BIOLOGY

The Parameters of the Barry and Hartigan General Markov Model Are Statistically NonIdentifiable

(2011) Liwen Zou et al.   SYSTEMATIC BIOLOGY

Two Stationary Nonhomogeneous Markov Models of Nucleotide Sequence Evolution

(2010) Vivek Jayaswal et al.   SYSTEMATIC BIOLOGY

INDELible: A Flexible Simulator of Biological Sequence Evolution

(2009) W. Fletcher et al.   MOLECULAR BIOLOGY AND EVOLUTION

Identifiability of a Markovian model of molecular evolution with gamma-distributed rates

(2008) Elizabeth S. Allman et al.   ADVANCES IN APPLIED PROBABILITY

Comparison of methods for estimating the nucleotide substitution matrix

(2008) Maribeth Oscamou et al.   BMC BIOINFORMATICS

Non-homogeneous models of sequence evolution in the Bio++ suite of libraries and programs

(2008) Julien Dutheil et al.   BMC EVOLUTIONARY BIOLOGY

Saturation and base composition bias explain phylogenomic conflict in Plasmodium

(2008) Liliana M. Dávalos et al.   GENOMICS

Fast, accurate and simulation-free stochastic mapping

(2008) V. N Minin et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES