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paleoPhylo: free software to draw paleobiological phylogenies

Published online by Cambridge University Press:  08 April 2016

Thomas H. G. Ezard  and
Andy Purvis
Thomas H. G. Ezard
Affiliation:
Imperial College London, Silwood Park Campus, Ascot, Berkshire SL5 7PY, United Kingdom. E-mail: [email protected]
Andy Purvis
Affiliation:
Imperial College London, Silwood Park Campus, Ascot, Berkshire SL5 7PY, United Kingdom. E-mail: [email protected]
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Abstract

Paleobiological phylogenies often contain contrasting biological information to phylogenies based on extant species. Available software is primarily based on a present-day view of the world, however. Here, we present freeware to visualize phylogenies that is more suitable for the needs of paleobiologists, providing flexibility in how stratigraphic uncertainty, the geological timescale, and ancestor-descendant relationships are depicted.

Type
Tools for Paleobiology
Information
Paleobiology , Volume 35 , Issue 3 , Summer 2009 , pp. 460 - 464
Copyright
Copyright © The Paleontological Society 

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References

Literature Cited

Hunt, G. 2006. Fitting and comparing models of phyletic evolution: random walks and beyond. Paleobiology 32:578–601.Google Scholar
MacFadden, B. J. 1986. Fossil horses from “Eohippus” (Hyracotherium) to Equus: scaling, Cope's law, and the evolution of body size. Paleobiology 12:355–369.Google Scholar
MacFadden, B. J. 1992. Fossil horses: systematics, paleobiology, and the evolution of the family Equidae. Cambridge University Press, New York.Google Scholar
Marshall, C. R. 1994. Confidence intervals on stratigraphic ranges: partial relaxation of the assumption of randomly distributed fossil horizons. Paleobiology 20:459–469.Google Scholar
McGowan, A. J., and Smith, A. B. 2007. Ammonoids across the Permian/Triassic boundary: a cladistic perspective. Palaeontology 50:573–590.Google Scholar
Paradis, E. 2006. Definition of formats for coding phylogenetic trees in R. http://ape.mpl.ird.fr/misc/FormatTreeR_4Dec2006.pdf.Google Scholar
Pearson, P. N. 1993. A lineage phylogeny for the Paleogene planktonic foraminifera. Micropaleontology 39:193–222.Google Scholar
R Development Core Team. 2008. R: a language and environment for statistical computing. R Foundation for Statistical Computing, Vienna.Google Scholar
Solow, A. R. 1996. Tests and confidence intervals for a common upper endpoint in fossil taxa. Paleobiology 22:406–410.Google Scholar
Strauss, D., and Sadler, P. M. 1989. Classical confidence intervals and Bayesian probability estimates for ends of local taxon ranges. Mathematical Geology 21:411–427.Google Scholar
Wagner, P. J. 2000. Likelihood tests of hypothesized durations: determining and accommodating biasing factors. Paleobiology 26:431–449.Google Scholar
Wagner, P. J., and Erwin, D. H. 1995. Phylogenetic tests of speciation hypotheses. Pp. 87–122in Erwin, D. H. and Anstey, R. L., eds. New approaches to studying speciation in the fossil record. Columbia University Press, New York.Google Scholar
Wang, S. C., and Marshall, C. R. 2004. Improved confidence intervals for estimating the position of a mass extinction boundary. Paleobiology 30:5–18.Google Scholar