StrataPhy: A new computer program for stratocladistic analysis

Jonathan D. Marcot, David L. Fox

Research output: Contribution to journalArticlepeer-review

Abstract

StrataPhy is a computer program designed to perform stratocladistic analysis. Stratoscladistic analysis minimizes ad hoc hypotheses of both character homoplasy and non-preservation in the fossil record allowing for the simultaneous analysis of morphologic and stratigraphic data. Prior to StrataPhy, stratocladistic analyses required multiple computer programs and manual branch arrangement. StrataPhy employs full TBR branch swapping coupled with an integrated search for the optimal assignment of taxa as ancestors. The algorithms involved in a StrataPhy stratocladistic search are discussed in detail. StrataPhy reads standard NEXUS formatted files, and additional formatting required for a StrataPhy analysis is described. We also describe a reanalysis of a previously published data set that emphasizes the potential utility of StrataPhy over previous approaches to stratocladistic analysis.

Original languageEnglish (US)
JournalPalaeontologia Electronica
Volume11
Issue number1
StatePublished - May 1 2008

Keywords

  • Computer program
  • Phylogenetic inference
  • Phylogeny
  • Software
  • Stratocladistics

ASJC Scopus subject areas

  • Oceanography

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