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bio-phasing-imputation-genotype-imputation

100 / 100 · Low risk

Fine to try.

By lilinji/GeneTind-Life-Skills (GitHub) · coding · 17 stars · scanned at commit 908229c

Imputes untyped genotypes against a phased reference panel with Beagle, Minimac4, or IMPUTE5 (array data) or from genotype likelihoods with GLIMPSE2, QUILT2, or STITCH (low-coverage WGS), producing per-variant dosages (DS) with a self-estimated quality (Beagle DR2, Minimac R2, IMPUTE INFO). Covers why the honest output is a dosage posterior not a hard call, why GWAS regresses on DS, why the quality metric is an ESTIMATE of r2 from posterior spread (not validation against truth), the DS/GP/HDS f…

Works with any agent that supports SKILL.md skills.

What this skill can do

We found nothing in the files we read that matches our rules. That does not prove the skill is safe: see the limits of static scanning.

Install

Paste this into your terminal. It downloads exactly the version we scanned, not whatever is newest.

if [ -e ~/.agents/skills/'bio-phasing-imputation-genotype-imputation' ] || [ -L ~/.agents/skills/'bio-phasing-imputation-genotype-imputation' ]; then echo 'A skill folder named bio-phasing-imputation-genotype-imputation already exists — not replacing it' >&2; false; else d=$(mktemp -d) && git clone --quiet --filter=blob:none --no-checkout 'https://github.com/lilinji/GeneTind-Life-Skills' "$d" && git -C "$d" checkout --quiet '908229c955510a1841b216e8bf58f6b22818d4dc' -- 'skills/bio-phasing-imputation-genotype-imputation' && mkdir -p ~/.agents/skills && cp -R "$d"/'skills/bio-phasing-imputation-genotype-imputation' ~/.agents/skills/'bio-phasing-imputation-genotype-imputation' && rm -rf "$d"; fi

Codex reads ~/.agents/skills directly. For Claude Code, Cursor, Copilot, Gemini CLI, Antigravity or OpenCode, also link it. For Claude Code: ln -s ~/.agents/skills/'bio-phasing-imputation-genotype-imputation' ~/.claude/skills/'bio-phasing-imputation-genotype-imputation' (other agents: ~/.cursor/skills, ~/.copilot/skills, ~/.gemini/skills, ~/.gemini/config/skills, ~/.config/opencode/skills). Or install through the finder skill, which does both.

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