『Refining Phylogenetic Analyses: Phylogenetic Analysis of Morphological Data, Volume 2』目次

Pablo A. Goloboff
(2022年7月刊行,CRC Press[Series: Species and Systematics], Boca Raton, xx+291 pp., ISBN:978-0-3674-2027-7 [hbk] → 版元ページ


【目次】
Preface xiii
Author Biography xvii
Abbreviations xix

6. Summarizing and Comparing Phylogenetic Trees 1

 6.1 Consensus Methods 2
 6.2 Taxonomic Congruence vs. Total Evidence 10
 6.3 Pruned (=Reduced) Consensus and Identification of Unstable Taxa 13
 6.4 Zero-Length Branches and Ambiguity 21
 6.5 Supertrees 26
 6.6 Anticonsensus 32
 6.7 Tree Distances 32
 6.8 Implementation in TNT 39

7. Character weighting 53

 7.1 Generalities 55
 7.2 General Arguments for Weighting 58
 7.3 Successive Approximations Weighting (SAW) 60
 7.4 Implicit Weighting (IW) 68
 7.5 Weighting Strength, Sensitivity, and Conservativeness 78
 7.6 Practical Consequences of Application of IW 80
 7.7 Problematic Methods for Evaluating Data Quality 82
 7.8 Improvements to IW 84
 7.9 Implied Weights and Likelihood 93
 7.10 To Weight or Not to Weight, That is the Question 98
 7.11 Implementation in TNT 111

8. Measuring degree of group support 119

 8.1 The Difficulty of Measuring Group Supports 119
 8.2 Bremer Supports: Definitions 122
 8.3 Bremer Supports in Practice 134
 8.4 Resampling Methods 140
 8.5 Confidence and Stability Are Related to Support, But Not the Same Thing 170
 8.6 Implementation in TNT 172

9. Morphometric characters 185

 9.1 Continuous Characters 186
 9.2 Geometric Morphometrics 197
 9.3 Choice of Methos and Correctness of Results 218
 9.4 Implementation in TNT 220

10. Scripting: the next level of TNT mastery 229

 10.1 Basic Description of TNT Language 230
 10.2 The Elements of TNT Language in Depth 233
 10.3 Other Facilities of the TNT Language 247
 10.4 Graphics and Correlation 258
 10.5 Simulating and Modifying Data 263
 10.6 A Digression: The C Interpreter of TNT 264
 10.7 Some General Advice on How to Write Scripts 266

 

References 269
Index 287