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David Swofford, Ph.D. - Publications

Affiliations: 
Biology Duke University, Durham, NC 
Area:
Phylogenetics
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18 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2022 Peng J, Swofford DL, Kubatko L. Estimation of Speciation Times Under the Multispecies Coalescent. Bioinformatics (Oxford, England). PMID 36227122 DOI: 10.1093/bioinformatics/btac679  0.304
2019 Ayres DL, Cummings MP, Baele G, Darling AE, Lewis PO, Swofford DL, Huelsenbeck JP, Lemey P, Rambaut A, Suchard MA. BEAGLE 3: Improved Performance, Scaling, and Usability for a High-Performance Computing Library for Statistical Phylogenetics. Systematic Biology. PMID 31034053 DOI: 10.1093/Sysbio/Syz020  0.763
2016 Somarelli JA, Ware KE, Kostadinov R, Robinson JM, Amri H, Abu-Asab M, Fourie N, Diogo R, Swofford D, Townsend JP. PhyloOncology: Understanding cancer through phylogenetic analysis. Biochimica Et Biophysica Acta. PMID 27810337 DOI: 10.1016/J.Bbcan.2016.10.006  0.331
2015 Lewis PO, Holder MT, Swofford DL. Phycas: software for Bayesian phylogenetic analysis. Systematic Biology. 64: 525-31. PMID 25577605 DOI: 10.1093/Sysbio/Syu132  0.741
2012 Ayres DL, Darling A, Zwickl DJ, Beerli P, Holder MT, Lewis PO, Huelsenbeck JP, Ronquist F, Swofford DL, Cummings MP, Rambaut A, Suchard MA. BEAGLE: an application programming interface and high-performance computing library for statistical phylogenetics. Systematic Biology. 61: 170-3. PMID 21963610 DOI: 10.1093/Sysbio/Syr100  0.676
2011 Kurt Lienau E, DeSalle R, Allard M, Brown EW, Swofford D, Rosenfeld JA, Sarkar IN, Planet PJ. The mega-matrix tree of life: Using genome-scale horizontal gene transfer and sequence evolution data as information about the vertical history of life Cladistics. 27: 417-427. DOI: 10.1111/J.1096-0031.2010.00337.X  0.371
2010 Holder MT, Lewis PO, Swofford DL. The akaike information criterion will not choose the no common mechanism model. Systematic Biology. 59: 477-85. PMID 20547783 DOI: 10.1093/Sysbio/Syq028  0.712
2008 Nylander JA, Wilgenbusch JC, Warren DL, Swofford DL. AWTY (are we there yet?): a system for graphical exploration of MCMC convergence in Bayesian phylogenetics. Bioinformatics (Oxford, England). 24: 581-3. PMID 17766271 DOI: 10.1093/Bioinformatics/Btm388  0.723
2005 Holder MT, Lewis PO, Swofford DL, Larget B. Hastings ratio of the LOCAL proposal used in Bayesian phylogenetics. Systematic Biology. 54: 961-5. PMID 16385776 DOI: 10.1080/10635150500354670  0.713
2004 Anderson FE, Swofford DL. Should we be worried about long-branch attraction in real data sets? Investigations using metazoan 18S rDNA. Molecular Phylogenetics and Evolution. 33: 440-51. PMID 15336677 DOI: 10.1016/J.Ympev.2004.06.015  0.618
2003 Wilgenbusch JC, Swofford D. Inferring evolutionary trees with PAUP*. Current Protocols in Bioinformatics / Editoral Board, Andreas D. Baxevanis ... [Et Al.]. Unit 6.4. PMID 18428704 DOI: 10.1002/0471250953.Bi0604S00  0.407
2001 Swofford DL, Waddell PJ, Huelsenbeck JP, Foster PG, Lewis PO, Rogers JS. Bias in phylogenetic estimation and its relevance to the choice between parsimony and likelihood methods. Systematic Biology. 50: 525-39. PMID 12116651 DOI: 10.1080/10635150117959  0.715
2001 Lewis PO, Swofford DL. Back to the future: Bayesian inference arrives in phylogenetics Trends in Ecology and Evolution. 16: 600-601. DOI: 10.1016/S0169-5347(01)02322-9  0.692
2000 Huelsenbeck JP, Larget B, Swofford D. A compound poisson process for relaxing the molecular clock. Genetics. 154: 1879-92. PMID 10747076  0.599
1997 Sullivan J, Swofford DL. Are guinea pigs rodents? The importance of adequate models in molecular phylogenetics Journal of Mammalian Evolution. 4: 77-86. DOI: 10.1023/A:1027314112438  0.355
1994 Hillis DM, Huelsenbeck JP, Swofford DL. Hobgoblin of phylogenetics? Nature. 369: 363-4. PMID 8196763 DOI: 10.1038/369363A0  0.677
1994 Huelsenbeck JP, Swofford DL, Cunningham CW, Bull JJ, Waddell PJ. Is character weighting a panacea for the problem of data heterogeneity in phylogenetic analysis? Systematic Biology. 43: 288-291. DOI: 10.1093/Sysbio/43.2.288  0.743
1993 Bull JJ, Huelsenbeck JP, Cunningham CW, Swofford DL, Waddell PJ. Partitioning and combining data in phylogenetic analysis Systematic Biology. 42: 384-397. DOI: 10.1093/Sysbio/42.3.384  0.737
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