Authors
Emily Jane McTavish, Cody E Hinchliff, James F Allman, Joseph W Brown, Karen A Cranston, Mark T Holder, Jonathan A Rees, Stephen A Smith
Publication date
2015/9/1
Journal
Bioinformatics
Volume
31
Issue
17
Pages
2794-2800
Publisher
Oxford University Press
Description
Motivation: Phylogenetic estimates from published studies can be archived using general platforms like Dryad (Vision, 2010) or TreeBASE (Sanderson et al., 1994). Such services fulfill a crucial role in ensuring transparency and reproducibility in phylogenetic research. However, digital tree data files often require some editing (e.g. rerooting) to improve the accuracy and reusability of the phylogenetic statements. Furthermore, establishing the mapping between tip labels used in a tree and taxa in a single common taxonomy dramatically improves the ability of other researchers to reuse phylogenetic estimates. As the process of curating a published phylogenetic estimate is not error-free, retaining a full record of the provenance of edits to a tree is crucial for openness, allowing editors to receive credit for their work and making errors introduced during curation easier to correct.
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