scientific-writing SKILL.md skillA
scientific-writing from ammawla/encode-toolkit is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.
mdr add ammawla/encode-toolkit/scientific-writing@git:20260920.6050003Pins git:20260920.6050003 in mdr.lock. Pin the fingerprint instead.
- Audit grade
- A, 17 of 17 checks passed
- Kind
- SKILL.md skill
- Repository
- ammawla/encode-toolkit
- Path
skills/scientific-writing/SKILL.md- Versions recorded
- 4
- Latest version
- git:20260920.6050003, committed Sep 20, 2026
- First version recorded
- Mar 8, 2026
- Size
- 47,304 bytes
- Repository stars
- 21
- License
- AGPL-3.0
Generate publication-ready methods sections, figure legends, supplementary tables, and data availability statements from ENCODE analysis provenance. Implements the scientific documentation standards requiring complete metadata reporting. Use when the user needs to write methods, generate figure legends, create supplementary tables, draft data availability statements, compile tool citations, or auto-generate any publication text from their ENCODE analysis. Trigger on: methods section, figure…
Collected from public GitHub. Every version is saved exactly as it was and never changes. Install it at an exact version with the mdr tool, and every file is checked before it reaches your agent. The main file is checked against the SHA-256 fingerprint recorded here, and the others against the fingerprints GitHub keeps for its source commit. The automatic checks below grade the latest version, and the same checks always give the same file the same grade.
What the file says
# Scientific Writing from ENCODE Provenance Generate publication-quality scientific writing from ENCODE analysis records. This skill integrates with `data-provenance` and `cite-encode` to auto-generate methods from logged pipeline runs. Every generated section follows rigorous scientific documentation standards -- complete reporting of all experimental and computational parameters with zero ambiguity. ## When to Use - User wants to write publication-ready methods sections, figure legends, or data availability statements - User asks about "methods section", "figure legend", "scientific writing", or "manuscript preparation" - User needs to auto-generate methods text from logged provenance/analysis steps - User wants templates for supplementary tables, Key Resources Tables, or tool citation formatting - Example queries: "write a methods section for my ChIP-seq analysis", "generate a figure legend for my heatmap", "format my data availability statement" ## Overview …
Read the whole file at its exact version.
How to install
mdr add ammawla/encode-toolkit/scientific-writing@sha256:a02ca55edd4ea00aThe line at the top of this page pins the label git:20260920.6050003, which is what most people want. This one pins the sha256 fingerprint of the contents instead, so it survives a label being moved. Either way the exact version is written to mdr.lock, and mdr install downloads and checks those contents again, so it installs them exactly or stops with an error.
[](https://markdownregistry.com/a/art_5py7l362qfwyifus)
4 badge image fetches in 30 days. What the badge shows.
Versions
The registry has recorded 4 versions of this file, between Mar 8, 2026 and Sep 20, 2026, about one every 65 days.
| version | committed | commit | size | audit | |
|---|---|---|---|---|---|
| git:20260920.6050003 latest | 2026-09-20 | 6050003 | 47,304 B | A | view · diff |
| git:20260321.d9029d0 | 2026-03-21 | d9029d0 | 45,598 B | A | view · diff |
| git:20260312.be32706 | 2026-03-12 | be32706 | 45,485 B | A | view · diff |
| git:20260308.ca46af5 | 2026-03-08 | ca46af5 | 45,502 B | A | view |
Audit of the latest version
- pass: Frontmatter block present
- pass: Frontmatter declares a name
- pass: Frontmatter declares a description
- pass: Size between 200 bytes and 200 KB (47304 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
ammawla/encode-toolkit · 21 stars · license AGPL-3.0 · pushed 2026-09-27 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_5py7l362qfwyifus GET https://markdownregistry.com/api/v1/resolve?ref=ammawla/encode-toolkit/scientific-writing GET https://markdownregistry.com/api/v1/blob/a02ca55edd4ea00a573b0a0fb0e9098ebe49d9821094cc0546fe1606bc7b42e3
Your AI assistant does the legwork. You hear about the deals worth your word. Hand yours the standing instructions at modelranch.com and it joins the network that reads files like this one.
Guides: the SKILL.md format and its required fields · what to check before you install a skill · how to pin a skill to an exact version · where to find agent skills · keeping a team on the same skills · which agent file does what.
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