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URN: urn:nbn:de:swb:90-530511

Do Phylogenetic Tree Viewers correctly display Support Values?[Reprint]

Czech, Lucas; Stamatakis, Alexandros

Phylogenetic trees are routinely visualized to present and interpret the evolutionary relationships of the species that are being studied. Virtually all empirical evolutionary data studies contain a visualization of the inferred tree with support values using one of the popular and highly cited (e.g., TreeView, Dendroscope, FigTree, Archaeopteryx, etc.) tree viewing tools. As a consequence, programming errors or ambiguous semantics in tree file formats can lead to erroneous tree visualizations and consequently incorrect interpretations of phylogenetic analyses. Here, we discuss the problems that can and do arise when displaying branch support values on trees. Presumably for historical reasons, branch support values (e.g., bootstrap support or Bayesian posterior probabilities) are typically stored as node labels in the widely-used Newick tree format. However, support values are attributes of branches (bipartitions) in unrooted phylogenetic trees. Therefore, storing support values as node labels can potentially lead to incorrect support-valueto- bipartition mappings when re-rooting trees in tree viewers. This depends on the mostly imp ... mehr

Zugehörige Institution(en) am KIT Institut für Theoretische Informatik (ITI)
Publikationstyp Zeitschriftenaufsatz
Jahr 2015
Sprache Englisch
Identifikator KITopen ID: 1000053051
Erschienen in bioRxiv
Schlagworte phylogenetic trees, tree visualization, tree viewer, Newick format, branch support values, branch labels, software, bugs
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