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Molecular Biology and Evolution|May 8, 2010
The effect of insertions, deletions, and alignment errors on the branch-site test of positive selectionWilliam Fletcher, Ziheng YangMolecular Biology and Evolution|May 9, 2009
INDELible: a flexible simulator of biological sequence evolutionWilliam Fletcher, Ziheng YangGenetics|January 14, 2003
Likelihood and Bayes estimation of ancestral population sizes in hominoids using data from multiple lociZiheng YangPhilosophical Transactions of the Royal Society of London. Series B, Biological Sciences|October 15, 2008
Empirical evaluation of a prior for Bayesian phylogenetic inferenceZiheng YangMolecular Biology and Evolution|May 10, 2007
Fair-balance paradox, star-tree paradox, and Bayesian phylogeneticsZiheng YangMolecular Biology and Evolution|September 20, 2006
On the varied pattern of evolution of 2 fungal genomes: a critique of Hughes and FriedmanZiheng YangGenome Biology and Evolution|July 14, 2010
A likelihood ratio test of speciation with gene flow using genomic sequence dataZiheng YangCurrent Opinion in Genetics & Development|November 16, 2002
Inference of selection from multiple species alignmentsZiheng YangMolecular Biology and Evolution|May 8, 2007
PAML 4: phylogenetic analysis by maximum likelihoodZiheng YangSystematic Biology|July 14, 2005
Branch-length prior influences Bayesian posterior probability of phylogenyZiheng Yang, Bruce RannalaPageof 20