Suchard Marc A, Redelings Benjamin D
Department of Biomathematics, David Geffen School of Medicine at UCLA, Los Angeles, CA 90095, USA.
Bioinformatics. 2006 Aug 15;22(16):2047-8. doi: 10.1093/bioinformatics/btl175. Epub 2006 May 5.
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.
Software is available for download at http://www.biomath.ucla.edu/msuchard/bali-phy.
BAli-Phy是一种贝叶斯后验采样器，它利用马尔可夫链蒙特卡罗方法，在给定分子序列数据的情况下探索比对和系统发育的联合空间。同时估计消除了对不准确比对引导树的偏差，在比对过程中采用了更复杂的替代模型，并自动利用共享插入/缺失中的信息来帮助推断系统发育。
