Posterior Summarization in Bayesian Phylogenetics Using Tracer 1.7

被引：7869

作者：

Rambaut, Andrew ^{[1
]}

Drummond, Alexei J. ^{[2
,3
]}

Xie, Dong ^{[2
,3
]}

Baele, Guy ^{[4
]}

Suchard, Marc A. ^{[5
,6
]}

机构：

[1] Univ Edinburgh, Inst Evolutionary Biol, Ashworth Labs, Kings Bldg, Edinburgh EH9 3FL, Midlothian, Scotland

[2] Univ Auckland, Dept Comp Sci, 303-38 Princes St, Auckland 1010, New Zealand

[3] Univ Auckland, Ctr Computat Evolut, 303-38 Princes St, Auckland 1010, New Zealand

[4] Univ Leuven, KU Leuven, Rega Inst, Dept Microbiol & Immunol, Herestr 49, B-3000 Leuven, Belgium

[5] Univ Calif Los Angeles, Dept Human Genet, 695 Charles E Young Dr, Los Angeles, CA 90095 USA

[6] Univ Calif Los Angeles, Dept Biostat, 650 Charles E Young Dr, Los Angeles, CA 90095 USA

来源：

SYSTEMATIC BIOLOGY | 2018年 / 67卷 / 05期

基金：

美国国家科学基金会; 英国惠康基金; 美国国家卫生研究院;

关键词：

Bayesian inference; Markov chain Monte Carlo; phylogenetics; visualization; POPULATION-DYNAMICS; MAXIMUM-LIKELIHOOD; INFERENCE; MODEL;

D O I：

10.1093/sysbio/syy032

中图分类号：

Q [生物科学];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

Bayesian inference of phylogeny using Markov chain Monte Carlo (MCMC) plays a central role in understanding evolutionary history from molecular sequence data. Visualizing and analyzing the MCMC-generated samples from the posterior distribution is a key step in any non-trivial Bayesian inference. We present the software package Tracer (version 1.7) for visualizing and analyzing the MCMC trace files generated through Bayesian phylogenetic inference. Tracer provides kernel density estimation, multivariate visualization, demographic trajectory reconstruction, conditional posterior distribution summary, and more.

引用

页码：901 / 904

页数：4

共 21 条

[1]

Ayres DL, 2012, SYST BIOL, V61, P170, DOI [10.1093/sysbio/syr100, 10.1093/sysbio/sys029]

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