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biorxiv-database
77 / 100 · Review before installing
Check before installing. Some of what it can do is expected: a coding skill usually runs build and test commands.
By jaechang-hits/SciAgent-Skills (GitHub) · coding · 388 stars · scanned at commit 65d6ceb
Query bioRxiv/medRxiv preprints via REST API. Search by DOI, category, or date range; retrieve metadata (title, abstract, authors, category, DOI, version history) and PDFs. No auth. For peer-reviewed biomedical use pubmed-database; broader scholarly search use openalex-database.
Works with any agent that supports SKILL.md skills.
What this skill can do
Downloads and installs other software
The author does not mention this.
Found in 1 place.
Runs commands on your computer
The author does not mention this. Expected for a coding skill.
Found in 1 place.
Sends data to these websites: www.ebi.ac.uk, api.biorxiv.org
This is disclosed by the author in the skill's SKILL.md or README.
Found in 17 places.
Show 14 more
- skills/scientific-writing/biorxiv-database/SKILL.md, line 132
r = requests.get(f"{BASE}/details/biorxiv/10.1101/2024.05.28.596311") - skills/scientific-writing/biorxiv-database/SKILL.md, line 158
r = requests.get(f"{BASE}/publisher/{server}/{doi}") - skills/scientific-writing/biorxiv-database/SKILL.md, line 196
r = requests.get(f"{BASE}/details/biorxiv/{date_from}/{date_to}/{cursor}") - skills/scientific-writing/biorxiv-database/SKILL.md, line 223
r = requests.get(f"{BASE}/details/medrxiv/2024-01-01/2024-01-07/0") - skills/scientific-writing/biorxiv-database/SKILL.md, line 254
r = requests.get(f"{BASE}/details/biorxiv/{doi}") - skills/scientific-writing/biorxiv-database/SKILL.md, line 313
r = requests.get(f"{BASE}/details/biorxiv/{date_from}/{date_to}/{cursor}") - skills/scientific-writing/biorxiv-database/SKILL.md, line 356
r_meta = requests.get(f"{BASE}/details/biorxiv/{doi}") - skills/scientific-writing/biorxiv-database/SKILL.md, line 364
r_pub = requests.get(f"{BASE}/publisher/biorxiv/{doi}") - skills/scientific-writing/biorxiv-database/SKILL.md, line 406
When to use: Retrieve full-text PDF for a bioRxiv preprint. **Caveat**: as of 2026, `www.biorxiv.org` is fronted by Cloudflare's anti-bot challenge — direct `re - skills/scientific-writing/biorxiv-database/SKILL.md, line 415
s = requests.Session() - skills/scientific-writing/biorxiv-database/SKILL.md, line 437
r = requests.get("https://www.ebi.ac.uk/europepmc/webservices/rest/search", - skills/scientific-writing/biorxiv-database/SKILL.md, line 466
r = requests.get("https://api.biorxiv.org/details/biorxiv/2024-01-01/2024-01-07/0") - skills/scientific-writing/biorxiv-database/SKILL.md, line 473
r2 = requests.get(f"https://api.biorxiv.org/details/biorxiv/2024-01-01/2024-01-07/{cursor}") - skills/scientific-writing/biorxiv-database/SKILL.md, line 489
r = requests.get(f"https://api.biorxiv.org/publisher/biorxiv/{doi}")
Safer alternatives
Low-risk skills in the same category (coding) that look related. Check that one does what you need.
Install
Paste this into your terminal. It downloads exactly the version we scanned, not whatever is newest.
if [ -e ~/.agents/skills/'biorxiv-database' ] || [ -L ~/.agents/skills/'biorxiv-database' ]; then echo 'A skill folder named biorxiv-database already exists — not replacing it' >&2; false; else d=$(mktemp -d) && git clone --quiet --filter=blob:none --no-checkout 'https://github.com/jaechang-hits/SciAgent-Skills' "$d" && git -C "$d" checkout --quiet '65d6ceb875e20b751ffb3a6d8ee19516558789e1' -- 'skills/scientific-writing/biorxiv-database' && mkdir -p ~/.agents/skills && cp -R "$d"/'skills/scientific-writing/biorxiv-database' ~/.agents/skills/'biorxiv-database' && rm -rf "$d"; fi
Codex reads ~/.agents/skills directly. For Claude Code, Cursor, Copilot, Gemini CLI, Antigravity or OpenCode, also link it. For Claude Code: ln -s ~/.agents/skills/'biorxiv-database' ~/.claude/skills/'biorxiv-database' (other agents: ~/.cursor/skills, ~/.copilot/skills, ~/.gemini/skills, ~/.gemini/config/skills, ~/.config/opencode/skills). Or install through the finder skill, which does both.
Badge for your README
The badge for jaechang-hits/SciAgent-Skills shows the score of its lowest-scoring skill.

[](https://zalavijaysinh.github.io/skilltrust/repos/jaechang-hits/SciAgent-Skills/)
Score history
| Date | Version | Score |
|---|
| 2026-11-07 | 65d6ceb | 100 |