biopython>=1.81
pandas>=2.0
requests>=2.31
tqdm>=4.66
SQLAlchemy>=2.0
networkx>=3.1
matplotlib>=3.7
numpy>=1.26
typer>=0.12
lxml>=5.0
pyfamsa>=0.5
veryfasttree>=4.0
platformdirs>=4.0

[dev]
pytest>=8.0
pytest-mock>=3.14

[gemini]
google-genai>=0.3
