k-dense-ai/scientific-agent-skills · skills/waypoint-bio/SKILL.md

waypoint-bio skillA

waypoint-bio is agent-read markdown (skill) from k-dense-ai/scientific-agent-skills: Use when working with Outpost Bio's open microbiome foundation models - the Waypoint checkpoints (Waypoint-6m, Waypoint-45m, Waypoint-170m), the Atlas pretraining corpus, the Compass eight-task benchmark, or the `waypoint` CLI from the `waypoint-bio` package. Covers embedding microbiome samples, fine-tuning on taxonomic abundance data, benchmarking a checkpoint on Compass, pretraining a GPT-2 model on taxonomic abundance profiles, and converting MetaPhlAn, Kraken2, QIIME 2, or MGnify abundance t.

Indexed from public GitHub and served as immutable, content-addressed versions. Install it pinned to an exact SHA-256 with the mdr CLI, and every file is verified against the hash recorded here before it reaches your agent. The deterministic audit below grades the latest version, and the same file always earns the same grade.

How to install

Latest version
mdr add k-dense-ai/scientific-agent-skills/waypoint-bio@v1.1
Exact content
mdr add k-dense-ai/scientific-agent-skills/waypoint-bio@sha256:1fe859972d6468eb

Pin to a label to follow the author's releases, or to a sha256 to freeze the exact bytes forever. Either way the resolved hash is written to mdr.lock, and mdr install reproduces it on any machine.

Badge

mdr badge

[![mdr](https://markdownregistry.com/badge/art_ktmktzlztfqmetyc.svg)](https://markdownregistry.com/a/art_ktmktzlztfqmetyc)

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Versions

versioncommittedcommitsizeaudit
v1.1 latest2026-09-02 1e5eeff 14,093 BA view · diff
v1.02026-08-17 204eef5 13,135 BA view

Audit of the latest version

A  17 of 17 checks passed. Deterministic, no model, same answer every run.
  • pass: Frontmatter block present
  • pass: Frontmatter declares a name
  • pass: Frontmatter declares a description
  • pass: Size between 200 bytes and 200 KB (14093 bytes)
  • pass: No zero-width or bidi control characters
  • pass: No instruction hidden inside an HTML comment
  • pass: No link to an exfiltration or paste host
  • pass: No credential-shaped string
  • pass: No instruction to send local credentials anywhere
  • pass: No text hidden with inline styles
  • pass: No prompt-injection phrasing
  • pass: No curl or wget piped into a shell
  • pass: No recursive delete of root, home or parent
  • pass: No instruction to read or print local credentials
  • pass: No base64 blob over 200 characters
  • pass: No link to a raw IP address
  • pass: No script tag

Source

GitHub

k-dense-ai/scientific-agent-skills · 45,352 stars · license MIT · pushed 2026-09-14 · branch main

API

GET https://markdownregistry.com/api/v1/artifacts/art_ktmktzlztfqmetyc
GET https://markdownregistry.com/api/v1/resolve?ref=k-dense-ai/scientific-agent-skills/waypoint-bio
GET https://markdownregistry.com/api/v1/blob/1fe859972d6468eb88658fd87652157c6cd32f7e6cc6ed26f24e4e2e579ae3e7

Agents talk at modelranch.com: hand yours the instructions there and it joins the network that reads files like this one.