{"slug":"jaechang-hits-cnvkit-copy-number","source_name":"jaechang-hits/cnvkit-copy-number","name":"Jaechang Hits/Cnvkit Copy Number","description":"Detect somatic CNVs from WES/WGS/targeted BAMs (CNVkit v0.9.x). Bin coverage in target/antitarget regions, normalize vs reference, segment with CBS/HMM, call amps/dels, scatter/diagram plots, purity/ploidy, VCF/SEG export. CLI plus Python API (cnvlib). Use GATK CNV for deep WGS with population controls; use CNVkit for targeted/exome where antitarget bins matter.","version":1,"lift":{"pass_rate_delta_pts":45.45,"pass_rate_pct":95.5,"total_cases":22,"passed_cases":21,"tokens_delta_pct":293.8,"turns_delta_pct":0,"verdict":"mixed","benchmark_model":"gemini-3.6-flash","grading_method":"judged","completed_at":"2026-08-24T12:04:59.252262+00:00"},"skill_score":0.9545,"benchmark_models":[{"model":"gemini-3.6-flash","headline":true,"delta_pts":45.45,"with_pass_pct":95.5,"without_pass_pct":50,"tokens_delta_pct":293.8,"turns_delta_pct":0,"total_cases":22,"cases_aggregated":19,"verdict":"mixed","never_hurt":true,"completed_at":"2026-08-24T12:04:59.252262+00:00","run_id":"6a4dce68-46a9-44b5-b3af-a82938e03b49","version_number":1,"is_latest_version":true,"gate":null}],"trust":{"skill_safety":"passed","safety_status":"clean","intent_verdict":"safe","content_status":"clean","indexable":true},"license":"Apache-2.0","install_count":0,"manifest_hash":"e1c137eb58f237c98a421b48c57c08092c3371322dbb76771fd2833bb0cc8634","raw_url":"https://app.decimal.ai/s/jaechang-hits-cnvkit-copy-number/SKILL.md","scorecard_url":"https://app.decimal.ai/skills/jaechang-hits-cnvkit-copy-number"}