Data-specific substitution models improve protein-based phylogenetics - data

<p>Amino-acid sequence data sets, estimated data-specific amino-acid substitution models, and optimal ML trees.</p> <p>Data are divided in five folders, each one with a readme.txt file describing it.</p> <p>├── 1_simulated_data_sets<br> │&nbsp;&nbsp;&nbsp;├── 1500-site_alignments<br> │&nbsp;&nbsp;&nbsp;├── 400-site_alignments<br> │&nbsp;&nbsp;&nbsp;└── 8000-site_alignments<br> ├── 2_simulated_data_specific_models<br> │&nbsp;&nbsp;&nbsp;├── Codeml_models<br> │&nbsp;&nbsp;&nbsp;├── FastMG_models<br> │&nbsp;&nbsp;&nbsp;├── IQTREE_models<br> │&nbsp;&nbsp;&nbsp;├── P4_BI_models<br> │&nbsp;&nbsp;&nbsp;└── P4_ML_models<br> ├── 3_optimal_ML_trees_simulated_data<br> │&nbsp;&nbsp;&nbsp;├── commonly-used_empirical_models<br> │&nbsp;&nbsp;&nbsp;│&nbsp;&nbsp;&nbsp;├── cpREV_model_analyses<br> │&nbsp;&nbsp;&nbsp;│&nbsp;&nbsp;&nbsp;└── WAG_model_analyses<br> │&nbsp;&nbsp;&nbsp;├── data_specfic_model_analyses<br> │&nbsp;&nbsp;&nbsp;│&nbsp;&nbsp;&nbsp;├── Codeml-estimated_model_analyses<br> │&nbsp;&nbsp;&nbsp;│&nbsp;&nbsp;&nbsp;├── FastMG-estimated_model_analyses<br> │&nbsp;&nbsp;&nbsp;│&nbsp;&nbsp;&nbsp;├── IQTREE-estimated_model_analyses<br> │&nbsp;&nbsp;&nbsp;│&nbsp;&nbsp;&nbsp;├── P4BI-estimated_model_analyses<br> │&nbsp;&nbsp;&nbsp;│&nbsp;&nbsp;&nbsp;└── P4ML-estimated_model_analyses<br> │&nbsp;&nbsp;&nbsp;└── simulation_model_analyses<br> ├── 4_data_specific_models_empirical_data<br> │&nbsp;&nbsp;&nbsp;└── Toussaint18_data_specific_models_27partitions<br> └── 5_optimal_ML_trees_empirical_data</p>