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Instrument Data To Allotrope

Official
anthropics·vlatest·other

Transforms human instrument performance data into diverse, usable allotropes for creative applications 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 anthropics/life-sciences --skill instrument-data-to-allotrope -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

anthropics

Matched to the vendor's own GitHub organisation.

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: purl.allotrope.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

    purl.allotrope.orgundeclaredgitlab.comsource host

    What it found (3 of 4)

    • instrument-data-to-allotrope/references/asm_schema_overview.md:17contacts purl.allotrope.org
      "vocabulary": ["http://purl.allotrope.org/voc/afo/REC/2023/09/"],
    • instrument-data-to-allotrope/references/asm_schema_overview.md:18contacts purl.allotrope.org
      "contexts": ["http://purl.allotrope.org/json-ld/afo-context-REC-2023-09.jsonld"]
    • instrument-data-to-allotrope/scripts/convert_to_asm.py:322contacts purl.allotrope.org
      "vocabulary": ["http://purl.allotrope.org/voc/afo/REC/2023/09/"],

  • 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 anthropics/life-sciences at e96556b637.

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

Commit
e96556b637
Manifest
instrument-data-to-allotrope/SKILL.md
Scanned
11 files, 3,713 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 transforms instrument data, specifically from mass spectrometry experiments, into Allotrope NeoGraph format. This allows for the creation of graph databases representing complex biological relationships derived from experimental data. The output is a structured representation suitable for analysis and integration with other datasets. It's particularly useful for researchers working with proteomics or metabolomics data.

When to use it

  • Converting raw mass spectrometry data into a format suitable for graph database storage.
  • Generating visual representations of biological pathways from experimental results.
  • Integrating instrument data with existing knowledge graphs and databases.
  • Facilitating collaborative research by providing a standardized data representation.

Key capabilities

  • Mass Spectrometry Data Input
  • Allotrope NeoGraph Output
  • Data Transformation
  • Graph Database Creation

Example prompts

  • "Convert this mass spectrometry file to an Allotrope NeoGraph."
  • “Generate a graph database from this proteomics data, showing protein interactions.”
  • "Transform the attached instrument data into a format compatible with Allotrope."

Tips & gotchas

The skill requires valid mass spectrometry data as input. Familiarity with Allotrope NeoGraph and its structure is helpful for interpreting and utilizing the output effectively.