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bio-metagenomics-kraken

90 / 100 · Low risk

Fine to try. Some of what it can do is expected: a data skill usually connects to databases or online services with your credentials.

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

Classifies shotgun metagenomic reads to taxa with Kraken2's minimizer/LCA matching against a chosen reference database, then hands off to Bracken for abundance re-estimation. Covers why the database (not the algorithm) decides what can be detected, the --confidence and --minimum-hit-groups precision levers, unique-minimizer false-positive control, host-read removal, and why raw Kraken2 read counts are not abundances. Use when profiling who-is-there from shotgun reads, choosing a Kraken2 databas…

Works with any agent that supports SKILL.md skills.

What this skill can do

Install

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

if [ -e ~/.agents/skills/'bio-metagenomics-kraken' ] || [ -L ~/.agents/skills/'bio-metagenomics-kraken' ]; then echo 'A skill folder named bio-metagenomics-kraken 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 "$d" checkout --quiet '908229c955510a1841b216e8bf58f6b22818d4dc' -- 'skills/bio-metagenomics-kraken' && mkdir -p ~/.agents/skills && cp -R "$d"/'skills/bio-metagenomics-kraken' ~/.agents/skills/'bio-metagenomics-kraken' && 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-metagenomics-kraken' ~/.claude/skills/'bio-metagenomics-kraken' (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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