Open AccessBAli-Phy: simultaneous Bayesian inference of alignment and phylogeny
Author(s) -
Marc A. Suchard,
Benjamin D. Redelings
Publication year - 2006
Publication title -
bioinformatics
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 3.599
H-Index - 390
eISSN - 1367-4811
pISSN - 1367-4803
DOI - 10.1093/bioinformatics/btl175
Subject(s) - markov chain monte carlo , computer science , inference , bayesian probability , bayesian inference , phylogenetics , software , multiple sequence alignment , phylogenetic tree , computational biology , markov chain , data mining , sequence alignment , artificial intelligence , biology , machine learning , genetics , peptide sequence , gene , programming language
BAli-Phy is a Bayesian posterior sampler that employs Markov chain Monte Carlo to explore the joint space of alignment and phylogeny given molecular sequence data. Simultaneous estimation eliminates bias toward inaccurate alignment guide-trees, employs more sophisticated substitution models during alignment and automatically utilizes information in shared insertion/deletions to help infer phylogenies.
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