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Metabolomics Workbench Database

Listed
jimmc414·vlatest·database

Access and query a comprehensive metabolomics data workbench database curated by jimmc414 for compound identification and analysis.

Repository

Install on your platform

Showing Claude Code. One command installs this skill into any of the agents below.

  1. 1

    Run this in your project

    terminal
    $ npx skills add jimmc414/kosmos --skill metabolomics-workbench-database -a claude-code

  2. Uses the open-source skills CLI and needs Node.js. Add -g to install it for your user instead of this project.

What we know about this skill

Publisher

jimmc414

Taken from the source listing. We haven't verified who controls this account.

Install target

Live repository

Not pinned. Installing fetches whatever the repository holds at the time you run the command.

No human has reviewed this code. The checks below are a static scan of the files at one commit — nobody has run this skill or judged whether it works. A skill runs with whatever access you give your agent, so read the source before you install it.

Automated safety checks

scanned

This skill failed 1 of 6 checks. A failure is not proof of bad intent; it means something in the code needs a human to look at it before you run it.

  • No undeclared network calls: failed

    Contacts 1 host that is neither well-known infrastructure nor declared in the skill's frontmatter: www.metabolomicsworkbench.org.

    Every host the skill dials — from its scripts, its config endpoints or the commands it tells the agent to run — is either well-known package and API infrastructure or declared in its own frontmatter. Links in documentation are not counted.

    Hosts contacted

    www.metabolomicsworkbench.orgundeclared

    What it found (3 of 68)

    • kosmos-claude-scientific-skills/scientific-skills/metabolomics-workbench-database/SKILL.md:33contacts www.metabolomicsworkbench.org
      response = requests.get('https://www.metabolomicsworkbench.org/rest/compound/pubchem_cid/5281365/all/json')
    • kosmos-claude-scientific-skills/scientific-skills/metabolomics-workbench-database/SKILL.md:36contacts www.metabolomicsworkbench.org
      response = requests.get('https://www.metabolomicsworkbench.org/rest/compound/regno/11/png')
    • kosmos-claude-scientific-skills/scientific-skills/metabolomics-workbench-database/SKILL.md:39contacts www.metabolomicsworkbench.org
      response = requests.get('https://www.metabolomicsworkbench.org/rest/compound/regno/11/name/json')

  • Declares what it does: passed

    SKILL.md parses and declares a name and a description.

    SKILL.md exists, its frontmatter parses, and it declares a name and a description.

  • No obfuscated payloads: passed

    No encoded or obfuscated payloads.

    No base64, hex or compressed blob is decoded and then executed, and no encoded shell commands.

  • No credential access: passed

    Reads no keys, tokens, keychains or credential files.

    Neither the code nor the SKILL.md instructions read SSH keys, cloud credentials, keychains, token stores, browser cookie databases or dotfiles that hold secrets.

  • No pipe-to-shell installers: passed

    No pipe-to-shell or download-and-run installers.

    No `curl … | sh` pattern, in the code or in the instructions, that runs code fetched at run time.

  • Pinned to a commit: passed

    Scanned jimmc414/kosmos at 6cfe7f690d.

    The exact upstream commit SHA that was scanned is recorded, so the result refers to specific bytes.

Commit
6cfe7f690d
Manifest
kosmos-claude-scientific-skills/scientific-skills/metabolomics-workbench-database/SKILL.md
Scanned
2 files, 693 lines
This is a static scan, not a review. It reads the skill's files; it does not run them, and it cannot tell you whether the skill is any good or whether the code does what its description says. A skill runs with whatever access you give your agent.
What each check looks for →

About this skill

What it does

This skill provides access to the Metabolomics Workbench database, enabling queries and retrieval of metabolomics data. It allows users to search for datasets based on various criteria and download associated experimental metadata. This is a specialized resource for researchers in metabolomics and related fields.

When to use it

  • Finding publicly available metabolomics datasets for validation or comparison purposes.
  • Identifying experiments with specific sample types, instruments, or analytical methods.
  • Accessing experimental design information and processing parameters associated with published metabolomics studies.
  • Discovering data related to a particular disease or biological pathway.

Key capabilities

  • Dataset search based on keywords, species, instrument type, and other metadata.
  • Data download in various formats.
  • Retrieval of experimental design information.
  • Access to associated publications.

Example prompts

  • "Find metabolomics datasets from human plasma samples."
  • "Show me experiments using LC-MS for lipid analysis."
  • "What are the available datasets related to Alzheimer's disease?"

Tips & gotchas

The Metabolomics Workbench database contains specialized data, so familiarity with metabolomics terminology is helpful. Results may require careful interpretation and validation based on experimental context.