Towards the development of computational tools for evaluating phylogenetic network reconstruction methods.

Luay Nakhleh, Jerry Sun, Tandy Warnow, C. Randal Linder, Bernard M E Moret, Anna Tholse

Research output: Chapter in Book/Report/Conference proceedingChapter

Abstract

We report on a suite of algorithms and techniques that together provide a simulation flow for studying the topological accuracy of methods for reconstructing phylogenetic networks. We implemented those algorithms and techniques and used three phylogenetic reconstruction methods for a case study of our tools. We present the results of our experimental studies in analyzing the relative performance of these methods. Our results indicate that our simulator and our proposed measure of accuracy, the latter an extension of the widely used Robinson-Foulds measure, offer a robust platform for the evaluation of network reconstruction algorithms.

Original languageEnglish
Title of host publicationPacific Symposium on Biocomputing. Pacific Symposium on Biocomputing
Pages315-326
Number of pages12
StatePublished - Aug 18 2003
Externally publishedYes

Cite this

Nakhleh, L., Sun, J., Warnow, T., Linder, C. R., Moret, B. M. E., & Tholse, A. (2003). Towards the development of computational tools for evaluating phylogenetic network reconstruction methods. In Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing (pp. 315-326)

Towards the development of computational tools for evaluating phylogenetic network reconstruction methods. / Nakhleh, Luay; Sun, Jerry; Warnow, Tandy; Linder, C. Randal; Moret, Bernard M E; Tholse, Anna.

Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing. 2003. p. 315-326.

Research output: Chapter in Book/Report/Conference proceedingChapter

Nakhleh, L, Sun, J, Warnow, T, Linder, CR, Moret, BME & Tholse, A 2003, Towards the development of computational tools for evaluating phylogenetic network reconstruction methods. in Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing. pp. 315-326.
Nakhleh L, Sun J, Warnow T, Linder CR, Moret BME, Tholse A. Towards the development of computational tools for evaluating phylogenetic network reconstruction methods. In Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing. 2003. p. 315-326
Nakhleh, Luay ; Sun, Jerry ; Warnow, Tandy ; Linder, C. Randal ; Moret, Bernard M E ; Tholse, Anna. / Towards the development of computational tools for evaluating phylogenetic network reconstruction methods. Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing. 2003. pp. 315-326
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