AuthorsYearsort descendingTitle
W. C. Wheeler1995Sequence alignment, parameter sensitivity, and the phylogenetic analysis of molecular data
W. C. Wheeler1996Optimization alignment: the end of multiple sequence alignment in phylogenetics?
W. Wheeler1999Fixed character states and the optimization of molecular sequence data
D. R. Frost, Rodrigues, M. T., Grant, T., Titus, T. A.2001Phylogenetics of the lizard genus Tropidurus (Squamata : Tropiduridae : Tropidurinae): Direct optimization, descriptive efficiency, and sensitivity analysis of congruence between molecular data and morphology
G. Giribet2001Exploring the behavior of POY, a program for direct optimization of molecular data
D. Janies2001Phylogenetic relationships of extant echinoderm classes
D. A. Janies, Wheeler W. C.2001Efficiency of parallel direct optimization
W. Wheeler2001Homology and the optimization of DNA sequence data
W. C. Wheeler2001Homology and DNA sequence data
G. Giribet, Wheeler W. C.2002On bivalve phylogeny: a high-level analysis of the Bivalvia (Mollusca) based on combined morphology and DNA sequence data
G. Giribet, Wheeler W. C.2002On bivalve phylogeny: a high-level analysis of the Bivalvia (Mollusca) based on combined morphology and DNA sequence data
S. Schulmeister, Wheeler, W. C., Carpenter, J. M.2002Simultaneous analysis of the basal lineages of Hymenoptera (Insecta) using sensitivity analysis
Wheeler, W. C.2002Optimization alignment: down, up, error, and improvements
N. P. Giannini, Simmons N. B.2003A phylogeny of megachiropteran bats (Mammalia: Chiroptera: Pteropodidae) based on direct optimization analysis of one nuclear and four mitochondrial genes
G. Hormiga, Arnedo, M., Gillespie, R. G.2003Speciation on a conveyor belt: sequential colonization of the Hawaiian Islands by Orsonwelles spiders (Araneae, Linyphiidae)
W. C. Wheeler2003Iterative pass optimization of sequence data
W. C. Wheeler2003Implied alignment: a synapomorphy-based multiple-sequence alignment method and its use in cladogram search
W. L. Smith, Wheeler W. C.2004Polyphyly of the mail-cheeked fishes (Teleostei : Scorpaeniformes): evidence from mitochondrial and nuclear sequence data
J. S. Sparks, Smith W. L.2004Phylogeny and biogeography of cichlid fishes (Teleostei : Perciformes : Cichlidae)
L. Aagesen2005Direct optimization, affine gap costs, and node stability
S. Bertelli, Giannini N. P.2005A phylogeny of extant penguins (Aves: Sphenisciformes) combining morphology and mitochondrial sequences
J. De Laet2005Parsimony and the problem of inapplicables in sequence data
J. Faivovich, Haddad, C. F. B., Garcia, P. C. A., Frost, D. R., Campbell, J. A.2005Systematic review of the frog family Hylidae, with special reference to Hylinae: phylogenetic analysis and taxonomic revision
N. P. Giannini, Simmons N. B.2005Conflict and congruence in a combined DNA–morphology analysis of megachiropteran bat relationships (Mammalia: Chiroptera: Pteropodidae)
G. Giribet2005Generating implied alignments under direct optimization using POY
W. C. Wheeler2006Dynamic homology and the likelihood criterion
A. J. Phillips2006Homology assessment and molecular sequence alignment
D. Janies, Hill, A. W., Guralnick, R., Habib, F., Waltari, E., Wheeler, W. C.2007Genomic analysis and geographic visualization of the spread of avian influenza (H5N1)
F. Legendre, Whiting, M. F., Bordereau, C., Cancello, Eliana, M., Evans, T. A., Grandcolas, P.2008The phylogeny of termites (Dictyoptera: Isoptera) based on mitochondrial and nuclear markers: implications for the evolution of the worker and pseudergate castes, and foraging behaviors
W. L. Smith, Smith, K. R., Wheeler, W. C.2009Mitochondrial intergenic spacer in fairy basslets (Serranidae: Anthiinae) and the simultaneous analysis of nucleotide and rearrangement data
Scratchpads developed and conceived by (alphabetical): Ed Baker, Katherine Bouton Alice Heaton Dimitris Koureas, Laurence Livermore, Dave Roberts, Simon Rycroft, Ben Scott, Vince Smith