Ending a decade of deception: a valiant failure, a not-so-valiant failure, and a success story

D.R. Brooks, A.P.G. Dowling, M.G.P. van Veller, E.P. Hoberg

Research output: Contribution to journalArticleAcademicpeer-review

31 Citations (Scopus)

Abstract

Prior studies involving two methods, Brooks Parsimony Analysis (BPA) and TreeMap, have found BPA to be the more reliable method. Recent criticisms leveled at these studies argue that the tests were unfairly created and biased in favor of BPA. The authors of a recent critique offered new exemplars to demonstrate flaws in BPA, plus a simple fix to correct the flaws found in TreeMap. A re-evaluation of their exemplars clearly shows that the authors' calculations are incorrect, their understanding of the methods is lacking, and that their simple fix does not work. Additional analyses using TreeMap 2.02 are run to show that TreeMap 2.02, like TreeMap 1.0, cannot adequately deal with widespread parasites, contrary to the claims of its supporters. Furthermore, the exemplars corroborate previous findings that BPA, when calculated correctly, is more reliable than TreeMap1.0 and TreeMap 2.02 and therefore the method of choice in coevolutionary and biogeographic studies
Original languageEnglish
Pages (from-to)32-46
JournalCladistics-The International Journal of the Willi Hennig Society
Volume20
Issue number1
DOIs
Publication statusPublished - 2004

Keywords

  • brooks parsimony analysis
  • host-parasite coevolution
  • a-posteriori methods
  • historical biogeography
  • vicariance biogeography
  • cladistic biogeography
  • phylogenetic biogeography
  • associations
  • assumptions
  • speciation

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