Literature

Authors	Year	Title
A. R. Templeton	1983	Convergent evolution and nonparametric inferences from restriction data and DNA sequences
J. D. Thompson, Gibson, T. J., Plewniak, F., Jeanmougin, F., Higgins, D. G.	1997	The ClustalX windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools
M. G. P. Van Veller, Brooks D. R.	2001	When simplicity is not parsimonious: a priori and a posteriori methods in historical biogeography
P. J. Wagner	2000	Exhaustion of morphologic character states among fossil taxa
P. J. Wagner	1998	A likelihood approach for evaluating estimates of phylogenetic relationships among fossil taxa
J. Wakeley	1993	Substitution-rate variation among sites and the estimation of transition bias
W. C. Wheeler	2006	Dynamic homology and the likelihood criterion
W. C. Wheeler	2003	Iterative pass optimization of sequence data
W. C. Wheeler	2003	Implied alignment: a synapomorphy-based multiple-sequence alignment method and its use in cladogram search
W. Wheeler	2001	Homology and the optimization of DNA sequence data
W. Wheeler	1999	Fixed character states and the optimization of molecular sequence data
W. C. Wheeler	1999	Measuring topological congruence by extending character techniques
W. C. Wheeler	1995	Sequence alignment, parameter sensitivity, and the phylogenetic analysis of molecular data
W. C. Wheeler	1990	Nucleic acid sequence phylogeny and random outgroups
W. C. Wheeler, Aagesen, L., Arango, C. P., Faivovich, J., Grant, T., D'Haese, C., Janies, D., Smith, W. L., Varón, A., Giribet, G.	2006	Dynamic homology and phylogenetic systematics: a unified approach using POY
W. C. Wheeler, Ramírez, M. J., Aagesen, L., Schulmeister, S.	2006	Partition-free congruence analysis: implications for sensitivity analysis
M. A. Wills	1999	Congruence between phylogeny and stratigraphy: randomization tests and the gap excess ratio
M. A. Wills	2001	Morphological disparity: a primer
X. Xia, Xie Z.	2001	DAMBE: software package for data analysis in molecular biology and evolution
X. Xia, Xie, Z., Salemi, M., Chen, L., Wang, Y.	2003	An index of substitution saturation and its application
Z. Yang	2006	Computational molecular evolution
Z. Yang	1996	Phylogenetic analysis using parsimony and likelihood methods
Z. Yang	1994	Maximum likelihood phylogenetic estimation from DNA sequences with variable rates over sites: approximate methods
Z. Yang	1998	On the best evolutionary rate for phylogenetic analysis
Z. Yang	1993	Maximum-likelihood estimation of phylogeny from DNA sequences when substitution rates differ over sites
A. D. Yoder, Irwin, J. A., Payseur, B. A.	2001	Failure of the ILD to determine data combinability for slow Loris phylogeny

Authors