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StrataPhy: A NEW COMPUTER PROGRAM FOR STRATOCLADISTIC ANALYSIS (2007)
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@MISC{Electronica07strataphy:a,
author = {Palaeontologia Electronica and Jonathan D. Marcot and David L. Fox},
title = {StrataPhy: A NEW COMPUTER PROGRAM FOR STRATOCLADISTIC ANALYSIS},
year = {2007}
}
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Abstract
StrataPhy is a computer program designed to perform stratocladistic analysis. Stratocladistic analysis minimizes ad hoc hypotheses of both character homoplasy and non-preservation in the fossil record allowing for the simultaneous analysis of morpho-logic and stratigraphic data. Prior to StrataPhy, stratocladistic analyses required multi-ple 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 dis-cussed in detail. StrataPhy reads standard NEXUS formatted files, and additional for-matting 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. KEY WORDS: computer program, software, phylogenetic inference, phylogeny, stratocladistics
Keyphrases
stratocladistic analysis new computer program stratocladistic analysis computer program ad hoc hypothesis optimal assignment simultaneous analysis character homoplasy strataphy analysis fossil record potential utility standard nexus stratigraphic data manual branch arrangement data set additional for-matting strataphy stratocladistic search previous approach full tbr branch phylogenetic inference multi-ple computer program key word
