relation: https://eprints.uet.vnu.edu.vn/eprints/id/eprint/3437/
title: UFBoot2: Improving the Ultrafast Bootstrap Approximation
creator: Hoang, Thi Diep
creator: Chernomor, Olga
creator: Arndt, von Haeseler
creator: Bui, Quang Minh
creator: Le, Sy Vinh
subject: Information Technology (IT)
subject: Scopus-indexed journals
subject: ISI-indexed journals
description: Abstract  The standard bootstrap (SBS), despite being computationally intensive, is widely used in maximum likelihood phylogenetic analyses. We recently proposed the ultrafast bootstrap approximation (UFBoot) to reduce computing time while achieving more unbiased branch supports than SBS under mild model violations. UFBoot has been steadily adopted as an efficient alternative to SBS and other bootstrap approaches. Here, we present UFBoot2, which substantially accelerates UFBoot and reduces the risk of overestimating branch supports due to polytomies or severe model violations. Additionally, UFBoot2 provides suitable bootstrap resampling strategies for phylogenomic data. UFBoot2 is 778 times (median) faster than SBS and 8.4 times (median) faster than RAxML rapid bootstrap on tested data sets. UFBoot2 is implemented in the IQ-TREE software package version 1.6 and freely available at http://www.iqtree.org.
publisher: Oxford University Press
date: 2018-02-01
type: Article
type: PeerReviewed
format: application/pdf
language: en
identifier: https://eprints.uet.vnu.edu.vn/eprints/id/eprint/3437/1/MinhChung_CongTrinh1.pdf
identifier:   Hoang, Thi Diep and Chernomor, Olga and Arndt, von Haeseler and Bui, Quang Minh and Le, Sy Vinh  (2018) UFBoot2: Improving the Ultrafast Bootstrap Approximation.  Molecular Biology and Evolution, 35  (2).   pp. 518-522.  ISSN 0737-4038     
relation: https://dx.doi.org/10.1093/molbev/msx281
relation: 10.1093/molbev/msx281