@article {7812,
	title = {Sequence alignment, parameter sensitivity, and the phylogenetic analysis of molecular data},
	journal = {Systematic Biology},
	volume = {44},
	number = {3},
	year = {1995},
	note = {PDF},
	pages = {321-331},
	keywords = {alignment, congruence, phylogenetics, poy, sensitivity, support},
	author = {Wheeler, Ward C.}
}
@article {7813,
	title = {Optimization alignment: the end of multiple sequence alignment in phylogenetics?},
	journal = {Cladistics},
	number = {12},
	year = {1996},
	note = {PDF},
	pages = {1-9},
	keywords = {alignment, direct optimization, optimization, poy},
	author = {Wheeler, Ward C.}
}
@inbook {7815,
	title = {Heuristic reconstruction of hypothetical-ancestral DNA sequences: sequence alignment versus direct optimization},
	booktitle = {Homology and systematics: coding characters for phylogenetic analysis. Systematics Association Special Volume 58},
	year = {2000},
	pages = {106-113},
	publisher = {Taylor \& Francis},
	organization = {Taylor \& Francis},
	address = {London},
	author = {Wheeler, Ward C.},
	editor = {Scotland, R. and Pennington, R. T.}
}
@inbook {7816,
	title = {Homology and DNA sequence data},
	booktitle = {The character concept in evolutionary biology},
	year = {2001},
	note = {PDF},
	pages = {303-317},
	publisher = {Academic Press},
	organization = {Academic Press},
	address = {San Diego},
	keywords = {direct optimization, dynamic homology, homology, molecular characters, poy},
	author = {Wheeler, Ward C.},
	editor = {Wagner, G. P.}
}
@article {7818,
	title = {Iterative pass optimization of sequence data},
	journal = {Cladistics},
	volume = {19},
	year = {2003},
	note = {PDF},
	pages = {254-260},
	keywords = {optimization, phylogenetics, poy},
	author = {Wheeler, Ward C.}
}
@article {7819,
	title = {Implied alignment: a synapomorphy-based multiple-sequence alignment method and its use in cladogram search},
	journal = {Cladistics},
	volume = {19},
	year = {2003},
	note = {PDF},
	pages = {261-268},
	keywords = {alignment, direct optimization, implied alignment, phylogenetics, poy},
	author = {Wheeler, Ward C.}
}
@article {7820,
	title = {Dynamic homology and the likelihood criterion},
	journal = {Cladistics},
	volume = {22},
	year = {2006},
	note = {PDF},
	pages = {157-170},
	keywords = {homology, ML, phylogenetics, poy},
	author = {Wheeler, Ward C.}
}
@article {7822,
	title = {POY Version 3.0 and command summary},
	year = {2002},
	publisher = {American Museum of Natural History},
	address = {New York},
	author = {Wheeler, Ward C. and Gladstein, D. and De Laet, J.}
}
@article {7823,
	title = {Partition-free congruence analysis: implications for sensitivity analysis},
	journal = {Cladistics},
	volume = {22},
	year = {2006},
	note = {PDF},
	pages = {256-263},
	keywords = {combined data analyses, molecular characters, phylogenetics, sensitivity, total evidence},
	author = {Wheeler, Ward C. and Ram{\'\i}rez, Mart{\'\i}n J. and Aagesen, Lone and Schulmeister, Susanne}
}
@article {6589,
	title = {Efficiency of parallel direct optimization},
	journal = {Cladistics},
	volume = {17},
	year = {2001},
	note = {PDF},
	pages = {S71-S82},
	keywords = {direct optimization, phylogenetics, poy},
	author = {Janies, Daniel A. and Wheeler, Ward C.}
}
@article {6344,
	title = {On bivalve phylogeny: a high-level analysis of the Bivalvia (Mollusca) based on combined morphology and DNA sequence data},
	journal = {Invertebrate Biology},
	volume = {121},
	number = {4},
	year = {2002},
	note = {PDF},
	pages = {271-324},
	keywords = {18S, 28S, bivalvia, CO1, mollusca, morphology, phylogenetics, phylogeny, poy, systematics},
	author = {Giribet, Gonzalo and Wheeler, Ward C.}
}
@article {6135,
	title = {POY version 3.0.11. Command line documentation.},
	year = {2003},
	note = {May 6, 2003},
	author = {De Laet, J. and Wheeler, Ward C.}
}
@article {1183,
	title = {On bivalve phylogeny: a high-level analysis of the Bivalvia (Mollusca) based on combined morphology and DNA sequence data},
	journal = {Invertebrate Biology},
	volume = {121},
	number = {4},
	year = {2002},
	pages = {271-324},
	keywords = {18S, 28S, bivalvia, CO1, mollusca, phylogenetics, phylogeny, poy, systematics},
	author = {Giribet, Gonzalo and Wheeler, Ward C.}
}
