feat: add extract_gnomad_afs tool#7
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ameynert wants to merge 1 commit intoam_05_create_gnomad_sites_vcffrom
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feat: add extract_gnomad_afs tool#7ameynert wants to merge 1 commit intoam_05_create_gnomad_sites_vcffrom
ameynert wants to merge 1 commit intoam_05_create_gnomad_sites_vcffrom
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✨ Finishing Touches🧪 Generate unit tests (beta)
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Port extract_gnomad_afs.py from human-diversity-reference/scripts as a defopt-compatible toolkit tool. Extracts per-population allele frequencies from the gnomAD v3.1.2 HGDP/1KG subset and writes compact variant annotation and sample metadata Hail tables for use by downstream pipeline tools. The three previously hard-coded GCS paths and population list are now overridable parameters with the originals as defaults. Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
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Summary
extract_gnomad_afs.pyfromhuman-diversity-reference/scriptsas a defopt-compatible toolkit toolTest plan
uv run --directory divref poe check-allpasses🤖 Generated with Claude Code