- To get data for subsequent alignment and tree construction, use the code and observations described in the Datasets.ipynb file.
- A comparative analysis of the use of 6 different tools for multiple alignment is presented in the Multiple_al.ipynb file.
- Checking data concatenation using catfasta2phyml in the Data_concatenation.ipynb file.
- Trimming stage in the Trimming.ipynb file.
- The choice of the best phylogenetic evolutionary model for constructing ML-trees using the ModelTest (ModelTest-NG) and ModelFinder (IQ-TREE) tools is recorded in the Evolution_model.ipynb file.
- To build and visualize ML-trees, you can use the script from the ML_trees.ipynb file.
Moskalenko
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