feat: register tools, remove hello.py, update README

[ameynert]

Summary

• Registers all eight new tools in main.py: compute_haplotype_statistics, compute_haplotypes, compute_variation_ratios, create_fasta_and_index, create_gnomad_sites_vcf, extract_gnomad_afs, remap_divref, and rewrite_fasta
• Removes the template hello.py tool and its registration
• Updates .gitignore to exclude __pycache__ directories
• Updates README.md with a description of what the project does

Test plan

• uv run --directory divref poe check-all passes — all 18 parameterized tool docstring tests pass

🤖 Generated with Claude Code

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✨ Finishing Touches

🧪 Generate unit tests (beta)

• Create PR with unit tests
• Commit unit tests in branch am_12_integration

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