biorxiv-database SKILL.md skillA
biorxiv-database from aicodedecode/awesome-muse-skills is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.
mdr add aicodedecode/awesome-muse-skills/biorxiv-database@git:20260927.806f3e1Pins git:20260927.806f3e1 in mdr.lock. Pin the fingerprint instead.
- Audit grade
- A, 17 of 17 checks passed
- Kind
- SKILL.md skill
- Repository
- aicodedecode/awesome-muse-skills
- Path
skills-imported/biorxiv-database/SKILL.md- Versions recorded
- 1
- Latest version
- git:20260927.806f3e1, committed Sep 27, 2026
- Size
- 12,525 bytes
- Repository stars
- 25
- License
- MIT
Efficient database search tool for bioRxiv preprint server. Use this skill when searching for life sciences preprints by keywords, authors, date ranges, or categories, retrieving paper metadata, downloading PDFs, or conducting literature reviews.
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
# bioRxiv Database ## Overview This skill provides efficient Python-based tools for searching and retrieving preprints from the bioRxiv database. It enables comprehensive searches by keywords, authors, date ranges, and categories, returning structured JSON metadata that includes titles, abstracts, DOIs, and citation information. The skill also supports PDF downloads for full-text analysis. ## When to Use This Skill Use this skill when: - Searching for recent preprints in specific research areas - Tracking publications by particular authors - Conducting systematic literature reviews - Analyzing research trends over time periods - Retrieving metadata for citation management - Downloading preprint PDFs for analysis - Filtering papers by bioRxiv subject categories ## Core Search Capabilities ### 1. Keyword Search Search for preprints containing specific keywords in titles, abstracts, or author lists. **Basic Usage:** ```python python scripts/biorxiv_search.py \ --keywords "CRISPR" "gene editing" \ --start-date 2024-01-01 \ --end-date 2024-12-31 \ --output results.json ``` **With Category Filter:** ```python python scripts/biorxiv_search.py \ …
Read the whole file at its exact version.
How to install
mdr add aicodedecode/awesome-muse-skills/biorxiv-database@sha256:db16a65fb8bab450The line at the top of this page pins the label git:20260927.806f3e1, 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_ozng47owrtm34bdq)
1 badge image fetches in 30 days. What the badge shows.
Versions
The registry has recorded 1 version of this file, committed on Sep 27, 2026.
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 (12525 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
aicodedecode/awesome-muse-skills · 25 stars · license MIT · pushed 2026-10-10 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_ozng47owrtm34bdq GET https://markdownregistry.com/api/v1/resolve?ref=aicodedecode/awesome-muse-skills/biorxiv-database GET https://markdownregistry.com/api/v1/blob/db16a65fb8bab450f7a97d73be83f2c5110382c28c5648b5d15a3c902c71d308
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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