AUTOEB: A software for systematically evaluating bipartitions in a phylogenetic tree employing an approximately unbiased test

• Item type: SIG Technical Reports(1)
• 公開日: 2024-08-30
• タイトル: AUTOEB: A software for systematically evaluating bipartitions in a phylogenetic tree employing an approximately unbiased test
• タイトル / 言語: en
• タイトル: AUTOEB: A software for systematically evaluating bipartitions in a phylogenetic tree employing an approximately unbiased test
• 言語: eng
• 資源タイプ / 資源タイプ識別子: http://purl.org/coar/resource_type/c_18gh
• 資源タイプ: technical report
• 著者所属: Graduate School of Science and Technology, University of Tsukuba
• 著者所属: Faculty of Medicine, Dalhousie University
• 著者所属: Graduate School of Science and Technology, University of Tsukuba／Center for Computational Sciences, University of Tsukuba
• 著者所属(英): en
• 著者所属(英): Graduate School of Science and Technology, University of Tsukuba
• 著者所属(英): en
• 著者所属(英): Faculty of Medicine, Dalhousie University
• 著者所属(英): en
• 著者所属(英): Graduate School of Science and Technology, University of Tsukuba / Center for Computational Sciences, University of Tsukuba
• 著者名: Kohei, Bamba; Ryo, Harada; Yuji, Inagaki
• 著者名(英): Kohei, Bamba; Ryo, Harada; Yuji, Inagaki
• 論文抄録 / 内容記述タイプ: Other
• 論文抄録 / 内容記述: Both inference of a tree diagram and evaluating the credibility of the inferred tree are indispensable in molecular phylogeny. To evaluate the credibility of bipartitions in a phylogenetic tree in the maximum-likelihood framework, bootstrap, UFBoot2, and SH-aLRT are available. In this study, we propose a new software ”AUTOEB,” which evaluates bipartitions in a given tree employing an approximately unbiased (AU) test. For each bipartition, the software generates two alternative trees from a given tree by disrupting the bipartition of interest with the minimum changes in tree topology and compares them by the AU test. In the case of either or both alternative trees failing to be rejected, the software calls the particular bipartition ”unresolved” and otherwise “unresolved.” We here compare the credibility of bipartitions calculated from multiple empirical sequence data by bootstrap, UFBoot2, SH-aLRT, and AUTOEB, and demonstrate that the new method can complement the preexisting ones.
• 論文抄録(英) / 内容記述タイプ: Other
• 論文抄録(英) / 内容記述: Both inference of a tree diagram and evaluating the credibility of the inferred tree are indispensable in molecular phylogeny. To evaluate the credibility of bipartitions in a phylogenetic tree in the maximum-likelihood framework, bootstrap, UFBoot2, and SH-aLRT are available. In this study, we propose a new software ”AUTOEB,” which evaluates bipartitions in a given tree employing an approximately unbiased (AU) test. For each bipartition, the software generates two alternative trees from a given tree by disrupting the bipartition of interest with the minimum changes in tree topology and compares them by the AU test. In the case of either or both alternative trees failing to be rejected, the software calls the particular bipartition ”unresolved” and otherwise “unresolved.” We here compare the credibility of bipartitions calculated from multiple empirical sequence data by bootstrap, UFBoot2, SH-aLRT, and AUTOEB, and demonstrate that the new method can complement the preexisting ones.
• 書誌レコードID / 収録物識別子タイプ: NCID
• 書誌レコードID / 収録物識別子: AA12055912
• 書誌情報: 研究報告バイオ情報学（BIO）; 巻 2024-BIO-79, 号 1, p. 1-7, 発行日 2024-08-30
• ISSN / 収録物識別子タイプ: ISSN
• ISSN / 収録物識別子: 2188-8590
• Notice: SIG Technical Reports are nonrefereed and hence may later appear in any journals, conferences, symposia, etc.
• 出版者 / 言語: ja
• 出版者: 情報処理学会