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lab04(Andrei Daha, Radu Bals): lab04-phylogenetics#31

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AndreiCod wants to merge 3 commits intobozdogalex:mainfrom
AndreiCod:feat/lab04-phylogenetics
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lab04(Andrei Daha, Radu Bals): lab04-phylogenetics#31
AndreiCod wants to merge 3 commits intobozdogalex:mainfrom
AndreiCod:feat/lab04-phylogenetics

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Summary

  • implemented exercises

Lab(s) affected

  • lab04-phylogenetics

Checklist

  • Runs locally (README/Setup followed)
  • Notebook outputs cleared (or pre-commit used)
  • No large data added to repo
  • If MLflow used, runs are reproducible

- Implement ex01_phylo_NJ.py with all TODOs completed
- Load multi-FASTA TP53 sequences from data/sample
- Compute distance matrix using Biopython DistanceCalculator
- Build Neighbor-Joining tree with DistanceTreeConstructor
- Save tree in Newick format to submissions/AndreiCod/
- Add tree visualization as PNG
- Add reflection notes comparing phylogenetic trees vs distance matrices
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