# Python files to include
!*.py
!*.ipynb

# Byte-compiled / optimized / DLL files
__pycache__/
*.py[cod]
*$py.class

# Model checkpoints and data files
*.pt
*.pth
*.h5ad
*.pkl
*.pickle
*.json
models/*.pt
models/*.pth
models/*.h5ad

# Jupyter Notebook checkpoints
.ipynb_checkpoints/

# Environment files
.env
.venv
env/
venv/

# IDE files
.vscode/
.idea/
*.swp
*.swo

# OS files
.DS_Store
Thumbs.db

# Logs
*.log
logs/

# Temporary files
*.tmp
*.temp

# Output files
*.csv
*.tsv
*.xlsx
outputs/
results/

# Documentation build
docs/_build/