public-data-access SKILL.md skillA
public-data-access from xuzhougeng/wisp-science is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.
mdr add xuzhougeng/wisp-science/public-data-access@git:20260908.42a154ePins git:20260908.42a154e in mdr.lock. Pin the fingerprint instead.
- Audit grade
- A, 17 of 17 checks passed
- Kind
- SKILL.md skill
- Repository
- xuzhougeng/wisp-science
- Path
skills/public-data-access/SKILL.md- Versions recorded
- 2
- Latest version
- git:20260908.42a154e, committed Sep 8, 2026
- First version recorded
- Aug 16, 2026
- Size
- 6,916 bytes
- Repository stars
- 1,068
- License
- AGPL-3.0
Plan, validate, and document public-bioinformatics data acquisition for GEO/GSE/GSM/GPL/GDS, SRA/ENA, TCGA/GDC, GTEx, and DepMap. Covers expression matrices, raw reads, download manifests, caches, and optional geokit SOFT/Series Matrix acquisition for R workflows.
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
# Public Bioinformatics Data Access Build a reproducible acquisition plan before downloading. Treat GEO, SRA/ENA, GDC, GTEx, and DepMap as independent providers behind one provider-neutral workflow. Do not require a provider-specific toolkit or machine-specific checkout. ## Workflow 1. **Clarify the dataset contract.** Identify the provider, accession/project, release, modality, smallest useful data product, filters, target directory, expected scale, and downstream analysis. 2. **Inspect before transfer.** Use available MCP/connectors or official metadata endpoints to list releases, files, samples, sizes, and checksums. Do not start a bulk transfer during discovery. 3. **Write a provider-neutral plan.** Run `scripts/public_data_plan.py init`. Store the plan next to the future dataset as `download-plan.json`. 4. **Validate and review.** Run `validate`, show the user the resolved provider, transport, filters, limits, output location, and known size. For a large, paid, authenticated, or overwrite-capable job, confirm that the user's authorization covers this concrete transfer; ask only when it does not. …
Read the whole file at its exact version.
How to install
mdr add xuzhougeng/wisp-science/public-data-access@sha256:72bb6c56aaab71aeThe line at the top of this page pins the label git:20260908.42a154e, 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_utjsd5vibtww33ui)
5 badge image fetches in 30 days. What the badge shows.
Versions
The registry has recorded 2 versions of this file, between Aug 16, 2026 and Sep 8, 2026, about one every 23 days.
| version | committed | commit | size | audit | |
|---|---|---|---|---|---|
| git:20260908.42a154e latest | 2026-09-08 | 42a154e | 6,916 B | A | view · diff |
| git:20260816.f4f071d | 2026-08-16 | f4f071d | 5,898 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 (6916 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
xuzhougeng/wisp-science · 1,068 stars · license AGPL-3.0 · pushed 2026-11-09 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_utjsd5vibtww33ui GET https://markdownregistry.com/api/v1/resolve?ref=xuzhougeng/wisp-science/public-data-access GET https://markdownregistry.com/api/v1/blob/72bb6c56aaab71ae8fa31d1707360becc9f75cc88b4ca8418e6baeefdac88b83
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.