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Tooluniverse Phylogenetics

Checked
mims-harvard·vlatest·other·Apache-2.0

This tool uses Phylogenetics to analyze evolutionary relationships between organisms, offering insights into biodiversity and research.

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 mims-harvard/tooluniverse --skill tooluniverse-phylogenetics -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

mims-harvard

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 passed all 6 checks. We read its files at one commit and looked for the things that make a skill dangerous to run — not for whether it works.

  • 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 undeclared network calls: passed

    Makes no network calls.

    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.

  • 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 mims-harvard/tooluniverse at f5c37eebeb.

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

Commit
f5c37eebeb
Manifest
skills/tooluniverse-phylogenetics/SKILL.md
Scanned
37 files, 17,158 lines
Copies in repo
3 — all of them scanned
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 enables AI agents to perform phylogenetic analysis, allowing them to infer evolutionary relationships among biological sequences. It processes genetic or protein data to construct and visualize tree structures that map the history of species divergence.

When to use it

  • Analyzing DNA or RNA sequences to determine how closely related different organisms are.
  • Comparing protein structures across species to identify conserved functional regions.
  • Reconstructing evolutionary histories for research in genomics, epidemiology, or conservation biology.
  • Validating taxonomic classifications based on molecular data rather than just morphological traits.

Key capabilities

  • Sequence alignment and processing of biological data inputs.
  • Construction of phylogenetic trees using standard algorithms.
  • Visualization of evolutionary relationships in tree format.
  • Integration with existing bioinformatics workflows for automated analysis.

Example prompts

  • "Analyze these three DNA sequences and generate a phylogenetic tree showing their evolutionary distance."
  • "Compare the protein sequences of hemoglobin from humans, chimpanzees, and gorillas to infer divergence times."
  • "Run a phylogenetic analysis on this bacterial genome dataset to identify potential outbreak sources."

Tips & gotchas

Ensure input sequences are properly formatted and cleaned before processing to avoid inaccurate tree construction. This tool is specialized for biological data; it will not handle non-biological sequence types like text or code without prior conversion.