『Bayesian Evolutionary Analysis with BEAST』

Alexei J. Drummond and Remco R. Bouckaert

(2015年8月刊行,Cambridge University Press, Cambridge, xii+249 pp., ISBN:9781107019652 [hbk] → 版元ページ

【目次】
Preface ix
Acknowledgements x
Summary of most significant capabilities of BEAST 2 xi


Part I. Theory 1

1. Introduction 3
2. Evolutionary trees 21
3. Substitution and site models 44
4. The molecular clock 58
5. Structured trees and phylogeography 68

Part II. Practice 77

6. Bayesian evolutionary analysis by sampling trees 79
7. Setting up and running a phylogenetic analysis 97
8. Estimating species trees from multilocus data 116
9. Advanced analysis 127
10. Posterior analysis and post-processing 139
11. Exploring phylogenetic tree space 154

Part III. Programming 167

12. Getting started with BEAST 2 169
13. BEAST XML 184
14. Coding and design patterns 195
15. Putting it all together 207


References 220
List of authors 240
List of subjects 244