...
Corresponding results: Fig 4 in the book chapter.
4.1.2 MDC Inference using gene tree topologies estimated by IQTREE
...
Corresponding results: Fig 5 in the book chapter.
4.2 Maximum Likelihood Inference
...
Corresponding results: Fig 6 in the book chapter.
4.2.2 ML Inference using gene tree topologies estimated by IQTREE
...
Corresponding results: Fig 6 in the book chapter.
4.2.3 ML Inference using true gene tree topologies and branch lengths
...
Corresponding results: Fig 9 in the book chapter.
4.3 Maximum Pseudo-likelihood Inference
...
Corresponding results: Fig 10 in the book chapter.
4.3.2 MPL Inference using gene tree topologies estimated by IQTREE
...
Corresponding results: Fig 11 in the book chapter.
4.3.3 MPL Inference using bi-allelic marker data
...
Corresponding results: Fig 13 in the book chapter.
4.4.2 MCMC_GT: Bayesian inference on gene tree topologies
...
| Input NEXUS file | Maximum number of reticulations |
|---|---|
| MCMC_GT_pl8_0_true.nex | 0 |
| MCMC_GT_pl8_1_true.nex | 1 |
| MCMC_GT_pl8_2_true.nex | 2 |
| MCMC_GT_pl8_3_true.nex | 3 |
| MCMC_GT_pl8_4_true.nex | 4 |
...
4.4.2.2 MCMC_GT sampling using gene tree topologies estimated by IQTREE
...