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metabolomics-workbench-database

75 / 100 · Review before installing

Check before installing. Some of what it can do is expected: a coding skill usually runs build and test commands.

By BioTender-max/awesome-bio-agent-skills (GitHub) · coding · 219 stars · scanned at commit 8cbdd18

Query Metabolomics Workbench REST API (4,200+ NIH studies) for metabolite ID, study discovery, RefMet standardization, m/z precursor searches, and gene/protein annotations. Quirks: compound input_item rejects `name` (use pubchem_cid/kegg_id/inchi_key/etc.); free-text → compound is a two-step refmet/match→refmet/name flow; moverz endpoint returns TSV text, not JSON. Use hmdb-database for local XML; pubchem-compound-search for general compound lookup.

Works with any agent that supports SKILL.md skills.

What this skill can do

Safer alternatives

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Other copies in this repository

BioTender-max/awesome-bio-agent-skills has 1 more folder with a skill named metabolomics-workbench-database. This page shows the lowest-scoring copy.

• skills/labclaw/metabolomics-workbench-database 95/100 · Low risk

Install

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

if [ -e ~/.agents/skills/'metabolomics-workbench-database' ] || [ -L ~/.agents/skills/'metabolomics-workbench-database' ]; then echo 'A skill folder named metabolomics-workbench-database already exists — not replacing it' >&2; false; else d=$(mktemp -d) && git clone --quiet --filter=blob:none --no-checkout 'https://github.com/BioTender-max/awesome-bio-agent-skills' "$d" && git -C "$d" checkout --quiet '8cbdd18837aa6296c4e77616a03b323bd69b57b1' -- 'skills/sciagent/metabolomics-workbench-database' && mkdir -p ~/.agents/skills && cp -R "$d"/'skills/sciagent/metabolomics-workbench-database' ~/.agents/skills/'metabolomics-workbench-database' && 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/'metabolomics-workbench-database' ~/.claude/skills/'metabolomics-workbench-database' (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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