Read arXiv Paper
karpathy/nanochat
Fetches the TeX source of an arXiv paper from its URL, reads it and writes a markdown summary tied to the nanochat project.
Preprint server API for biology and medicine papers. An agent skill from wentorai/research-plugins.
Install Biorxiv API
$ npx skills add wentorai/research-plugins --skill biorxiv-api -a claude-codeProject install by default; add -g for ~/.claude/skills/.
$ gh skill install wentorai/research-plugins biorxiv-api --agent claude-codeProject scope by default; add --scope user for a personal install. Needs GitHub CLI 2.90.0 or later (public preview).
$ git clone --depth 1 https://github.com/wentorai/research-plugins.git skills-src && mkdir -p .claude/skills && cp -r skills-src/skills/literature/search/biorxiv-api .claude/skills/biorxiv-api && rm -rf skills-srcUse ~/.claude/skills/ instead of .claude/skills for a personal install. The folder must contain SKILL.md.
Claude Code skills documentation · loads skills from .claude/skills/
Install the "biorxiv-api" agent skill from https://github.com/wentorai/research-plugins/tree/main/skills/literature/search/biorxiv-api into .claude/skills/biorxiv-api/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "biorxiv-api", then confirm the skill loads.Claude Code copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$skill-installer install https://github.com/wentorai/research-plugins/tree/main/skills/literature/search/biorxiv-apiType this inside Codex. $skill-installer <name> installs a curated skill from openai/skills. The installer writes to $CODEX_HOME/skills (default ~/.codex/skills). Restart Codex if the skill does not show up.
$ npx skills add wentorai/research-plugins --skill biorxiv-api -a codexProject install goes to .agents/skills/; add -g for ~/.codex/skills/.
$ gh skill install wentorai/research-plugins biorxiv-api --agent codexProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/wentorai/research-plugins.git skills-src && mkdir -p .agents/skills && cp -r skills-src/skills/literature/search/biorxiv-api .agents/skills/biorxiv-api && rm -rf skills-srcUse ~/.agents/skills/ instead of .agents/skills for a personal install.
Codex skills documentation · loads skills from .agents/skills/
Install the "biorxiv-api" agent skill from https://github.com/wentorai/research-plugins/tree/main/skills/literature/search/biorxiv-api into .agents/skills/biorxiv-api/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "biorxiv-api", then confirm the skill loads.Codex copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ npx skills add wentorai/research-plugins --skill biorxiv-api -a cursorProject install goes to .agents/skills/; add -g for ~/.cursor/skills/.
$ gh skill install wentorai/research-plugins biorxiv-api --agent cursorProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/wentorai/research-plugins.git skills-src && mkdir -p .cursor/skills && cp -r skills-src/skills/literature/search/biorxiv-api .cursor/skills/biorxiv-api && rm -rf skills-srcUse ~/.cursor/skills/ instead of .cursor/skills for a personal install.
Cursor skills documentation · loads skills from .cursor/skills/, .agents/skills/, .claude/skills/, .codex/skills/
Install the "biorxiv-api" agent skill from https://github.com/wentorai/research-plugins/tree/main/skills/literature/search/biorxiv-api into .cursor/skills/biorxiv-api/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "biorxiv-api", then confirm the skill loads.Cursor copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ gemini skills install https://github.com/wentorai/research-plugins.git --path skills/literature/search/biorxiv-api--scope user (default) or --scope workspace; --path is the subfolder of the repo that holds the skill; --consent skips the security confirmation prompt.
$ npx skills add wentorai/research-plugins --skill biorxiv-api -a gemini-cliProject install goes to .agents/skills/; add -g for ~/.gemini/skills/.
$ gh skill install wentorai/research-plugins biorxiv-api --agent gemini-cliProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/wentorai/research-plugins.git skills-src && mkdir -p .gemini/skills && cp -r skills-src/skills/literature/search/biorxiv-api .gemini/skills/biorxiv-api && rm -rf skills-srcUse ~/.gemini/skills/ instead of .gemini/skills for a personal install, then run /skills reload.
Gemini CLI skills documentation · loads skills from .gemini/skills/, .agents/skills/
Install the "biorxiv-api" agent skill from https://github.com/wentorai/research-plugins/tree/main/skills/literature/search/biorxiv-api into .gemini/skills/biorxiv-api/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "biorxiv-api", then confirm the skill loads.Gemini CLI copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ gh skill install wentorai/research-plugins biorxiv-apiInstalls for Copilot at project scope by default; add --scope user for a personal install. Preview a skill first with gh skill preview. Needs GitHub CLI 2.90.0 or later (public preview).
$ npx skills add wentorai/research-plugins --skill biorxiv-api -a github-copilotProject install goes to .agents/skills/; add -g for ~/.copilot/skills/.
$ git clone --depth 1 https://github.com/wentorai/research-plugins.git skills-src && mkdir -p .github/skills && cp -r skills-src/skills/literature/search/biorxiv-api .github/skills/biorxiv-api && rm -rf skills-srcUse ~/.copilot/skills/ instead of .github/skills for a personal install. Commit .github/skills so cloud agent and code review can use it.
GitHub Copilot skills documentation · loads skills from .github/skills/, .claude/skills/, .agents/skills/
Install the "biorxiv-api" agent skill from https://github.com/wentorai/research-plugins/tree/main/skills/literature/search/biorxiv-api into .github/skills/biorxiv-api/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "biorxiv-api", then confirm the skill loads.GitHub Copilot copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ npx skills add wentorai/research-plugins --skill biorxiv-api -a opencodeOpenCode documents no install command of its own. Project install goes to .agents/skills/; add -g for ~/.config/opencode/skills/.
$ gh skill install wentorai/research-plugins biorxiv-api --agent opencodeProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/wentorai/research-plugins.git skills-src && mkdir -p .opencode/skills && cp -r skills-src/skills/literature/search/biorxiv-api .opencode/skills/biorxiv-api && rm -rf skills-srcUse ~/.config/opencode/skills/ instead of .opencode/skills for a personal install.
OpenCode skills documentation · loads skills from .opencode/skills/, .claude/skills/, .agents/skills/
Install the "biorxiv-api" agent skill from https://github.com/wentorai/research-plugins/tree/main/skills/literature/search/biorxiv-api into .opencode/skills/biorxiv-api/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "biorxiv-api", then confirm the skill loads.OpenCode copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
Facts
- Skill name
biorxiv-api- GitHub stars
- 298
- Used in
- 1 other repo
- Token cost
- ~1.3k tokens
- SKILL.md length
- 447 words
- Files
- 1
- Skills in repo
- 405
- Repo updated
- First seen
- Licence
- MIT
At a glance
Preprint server API for biology and medicine papers. An agent skill from wentorai/research-plugins.
- Tasks that involve Academic paper search
- SKILL.md covers Overview, Authentication, Core Endpoints and Rate Limits, plus 2 more sections
- Calls curl and jq; reaches api.biorxiv.org
What it does
Biorxiv API is an agent skill from wentorai/research-plugins. Preprint server API for biology and medicine papers
Its SKILL.md is about 1.3k tokens, which your agent loads only when the skill is triggered. It is a single SKILL.md file with no bundled scripts.
It sits in Research & Science, covering Academic paper search. The repository describes itself as: 350+ academic research skills, MCP configs, and plugins for Research-Claw and AI agents. The licence is MIT.
When your agent uses it
- Tasks that involve Academic paper search
Example prompts
- “/biorxiv-api”
Requirements
- Python 3
What it can do on your machine
Read from SKILL.md and the folder at commit bf44b3c. It shows what the files ask for, not the result of running them.
Tool permissions
Pre-approves nothing: there is no allowed-tools line, so your agent's usual permission prompts apply.
From allowed-tools in the SKILL.md frontmatter.
Runs code
Shell commands in SKILL.md call:
curljq
From the folder's file list and the shell code blocks in SKILL.md.
Network
Hosts in commands or code, which the agent is likely to contact:
api.biorxiv.org
Also links to:
biorxiv.org
From URLs in SKILL.md, links to its own repository left out.
Credentials
Names no API keys, tokens, secrets or passwords.
From names ending in _API_KEY, _TOKEN, _SECRET, _KEY or _PASSWORD in SKILL.md.
Context cost
Biorxiv API loads about 1.3k tokens when it runs. Until then it costs about 16 tokens; SKILL.md has 447 words of instructions outside code blocks.
Estimates: characters ÷ 4, the usual rule of thumb; real counts depend on the model's tokenizer. Scripts and assets cost tokens only if the agent reads them.
Safety
Auto-check passed
The automated check found no risky patterns in SKILL.md.
Automated static check — not a guarantee. Review scripts before installing. It scans the text of SKILL.md for risky patterns (piping downloads into a shell, reading credential files, hidden Unicode, destructive commands); files beside SKILL.md are not scanned.
SKILL.md
The full file from wentorai/research-plugins at commit bf44b3c, republished under its MIT licence (© wentorai). 447 words, ~1,323 tokens.
Download SKILL.mdSave it as
.claude/skills/biorxiv-api/SKILL.md (or your agent's skills folder).- name
- biorxiv-api
- description
- Preprint server API for biology and medicine papers
bioRxiv API Guide
Overview
bioRxiv (pronounced "bio-archive") is a free online archive and distribution service for unpublished preprints in the life sciences. Operated by Cold Spring Harbor Laboratory, it provides researchers with immediate access to the latest findings before formal peer review. The bioRxiv API enables programmatic access to preprint metadata, content details, and publication linkage data across biology and medical sciences.
The API serves researchers who need to track emerging research trends, monitor preprint activity in specific subfields, or build automated literature surveillance pipelines. It is particularly valuable for systematic reviewers who want to capture the latest evidence before journal publication, and for bibliometric analysts studying the preprint-to-publication pipeline.
bioRxiv hosts preprints across more than 25 subject areas including neuroscience, genomics, bioinformatics, cell biology, and many more. The API returns structured metadata including titles, authors, abstracts, DOIs, publication dates, and links to corresponding published journal articles when available.
Authentication
No authentication required. The bioRxiv API is fully open and does not require any API key, token, or registration. All endpoints are publicly accessible without rate limiting restrictions.
Core Endpoints
details: Retrieve Preprint Metadata
Fetch detailed metadata for preprints posted within a specified date range or for a specific server (bioRxiv or medRxiv).
- URL:
GET https://api.biorxiv.org/details/{server}/{interval}/{cursor} - Parameters:
| Parameter | Type | Required | Description |
|---|---|---|---|
| server | string | Yes | Server name: biorxiv or medrxiv |
| interval | string | Yes | Date range in YYYY-MM-DD/YYYY-MM-DD format |
| cursor | int | No | Pagination cursor (default 0, increments of 100) |
- Example:
curl "https://api.biorxiv.org/details/biorxiv/2024-01-01/2024-01-31/0"- Response: Returns a collection object containing
doi,title,authors,author_corresponding,date,category,abstract,published(journal DOI if available), andjatsxmllink.
Show full SKILL.md (188 more words)Show less
pubs: Published Article Linkage
Look up which preprints have been published in peer-reviewed journals, providing the mapping between preprint DOIs and journal article DOIs.
- URL:
GET https://api.biorxiv.org/pubs/{server}/{interval}/{cursor} - Parameters:
| Parameter | Type | Required | Description |
|---|---|---|---|
| server | string | Yes | Server name: biorxiv or medrxiv |
| interval | string | Yes | Date range in YYYY-MM-DD/YYYY-MM-DD format |
| cursor | int | No | Pagination cursor (default 0, increments of 100) |
- Example:
curl "https://api.biorxiv.org/pubs/biorxiv/2024-01-01/2024-06-30/0"- Response: Returns
preprint_doi,published_doi,preprint_title,published_journal,published_date, andpreprint_date.
Rate Limits
No formal rate limits are documented for the bioRxiv API. However, responsible use is expected. Results are paginated at 100 records per request, and the cursor parameter should be incremented to retrieve additional pages. Avoid excessive concurrent requests to ensure availability for all users.
Common Patterns
Monitor New Preprints in a Subject Area
Retrieve the latest preprints and filter by category to track new submissions in your field:
# Fetch recent neuroscience preprints
curl "https://api.biorxiv.org/details/biorxiv/2024-06-01/2024-06-07/0" \
| jq '.collection[] | select(.category == "neuroscience")'Track Preprint-to-Publication Conversion
Monitor which preprints in your area have been formally published:
# Check publication status for recent preprints
curl "https://api.biorxiv.org/pubs/biorxiv/2024-01-01/2024-06-30/0" \
| jq '.collection[] | select(.published_doi != "")'Build a Preprint Alert System
Paginate through all results for a given date range to build a comprehensive alert feed:
import requests
base = "https://api.biorxiv.org/details/biorxiv/2024-06-01/2024-06-07"
cursor = 0
all_preprints = []
while True:
resp = requests.get(f"{base}/{cursor}").json()
records = resp.get("collection", [])
if not records:
break
all_preprints.extend(records)
cursor += 100
print(f"Total preprints retrieved: {len(all_preprints)}")References
- Official documentation: https://api.biorxiv.org/
- bioRxiv homepage: https://www.biorxiv.org/
- medRxiv API (same structure): https://api.biorxiv.org/ (use
medrxivas server parameter)
© wentorai, MIT. Rendered from Markdown: HTML in the file is shown as text, images as links, and headings moved down two levels. Raw file
Files
Just SKILL.md in skills/literature/search/biorxiv-api of wentorai/research-plugins.
Open the folder on GitHubat commit bf44b3c
Used in 1 other repository
We found 1 copy of this SKILL.md (exact, near-identical or edited) in other folders, from 1 other GitHub owner. This page covers the copy in wentorai/research-plugins, which our catalogue first saw on October 7, 2026.
Compare with similar skills
Biorxiv API next to the 5 skills that share the most tags, products or categories with it. Stars are the repository's; “used in” counts other GitHub owners with a copy.
| Skill | Stars | Used in | Tokens | Auto-check | Licence | Repo updated |
|---|---|---|---|---|---|---|
| Biorxiv API this skillwentorai/research-plugins | 298 | 1 repos | ~1.3k | Automated safety check: Pass | MIT | |
| Read arXiv Paperkarpathy/nanochat | 59k | 1 repos | ~494 | Automated safety check: Pass | MIT | |
| Perplexity Web Searchdavila7/claude-code-templates | 32k | 11 repos | ~3.5k | Automated safety check: Notes | MIT | |
| Literature Reviewneflibata-feng/MyArxiv-Agent | 126 | 20 repos | ~5.9k | Automated safety check: Notes | MIT | |
| Openalex Databaseneflibata-feng/MyArxiv-Agent | 126 | 12 repos | ~3k | Automated safety check: Pass | Custom licence | |
| Citation ManagementK-Dense-AI/claude-scientific-writer | 2.4k | 2 repos | ~3.9k | Automated safety check: Notes | MIT |
Similar skills
Perplexity Web Search
davila7/claude-code-templates
Runs web-grounded searches through Perplexity's Sonar models over OpenRouter for current events, recent literature and cited facts beyond the model's training cutoff.
Literature Review
neflibata-feng/MyArxiv-Agent
Conduct comprehensive, systematic literature reviews using multiple academic databases (PubMed, arXiv, bioRxiv, Semantic Scholar, etc.).
Openalex Database
neflibata-feng/MyArxiv-Agent
Query and analyze scholarly literature using the OpenAlex database.
Citation Management
K-Dense-AI/claude-scientific-writer
Finds papers in OpenAlex, PubMed and Google Scholar, turns DOIs, PMIDs and arXiv IDs into clean BibTeX, and validates citations for a manuscript or thesis.
Preprint Search on bioRxiv
LigphiDonk/Oh-my--paper
Searches bioRxiv life sciences preprints by keyword, author, date range or category with a Python script, returning JSON metadata and optional PDF downloads.
More from wentorai/research-plugins
All 405 skills in this repoAbstract Writing Guide
wentorai/research-plugins
Craft structured research abstracts that maximize clarity and journal acceptance
Academic Citation Manager
wentorai/research-plugins
Manage academic citations across BibTeX, APA, MLA, and Chicago formats
Academic Paper Summarizer
wentorai/research-plugins
Summarize academic papers with structured extraction of key elements
Academic Study Methods
wentorai/research-plugins
Evidence-based study techniques for academic learning and retention
Academic Tone Guide
wentorai/research-plugins
Adjust writing tone and register for academic audiences and venues
Academic Translation Guide
wentorai/research-plugins
Academic translation, post-editing, and Chinglish correction guide
Related
Categories
Questions about Biorxiv API
What does Biorxiv API do?
Preprint server API for biology and medicine papers. An agent skill from wentorai/research-plugins. Biorxiv API is an agent skill from wentorai/research-plugins.
When should I use Biorxiv API?
Biorxiv API fits situations like: tasks that involve Academic paper search.
How do I install Biorxiv API in Claude Code?
Run `npx skills add wentorai/research-plugins --skill biorxiv-api -a claude-code`. Or copy the skill folder (skills/literature/search/biorxiv-api in wentorai/research-plugins) into .claude/skills/biorxiv-api in your project. Claude Code loads it when a task matches its description.
How do I install Biorxiv API in Codex?
Run `npx skills add wentorai/research-plugins --skill biorxiv-api -a codex`. Or copy the skill folder (skills/literature/search/biorxiv-api in wentorai/research-plugins) into .agents/skills/biorxiv-api in your project. Codex loads it when a task matches its description.
Can I use Biorxiv API in Cursor, Gemini CLI or GitHub Copilot?
Cursor, Gemini CLI, GitHub Copilot and OpenCode also load SKILL.md folders. With the skills CLI, run `npx skills add wentorai/research-plugins --skill biorxiv-api -a cursor` (or -a gemini-cli, github-copilot or opencode for the others). To copy it by hand, put the folder in .cursor/skills/biorxiv-api, .gemini/skills/biorxiv-api, .github/skills/biorxiv-api and .opencode/skills/biorxiv-api in your project.
What does Biorxiv API need to run?
Going by SKILL.md and its folder, Biorxiv API needs the command-line tools its instructions call (curl and jq). Our summary lists: Python 3.
Does Biorxiv API access the network?
SKILL.md names 2 domains. In commands or code: api.biorxiv.org; the agent is likely to contact it when it follows the instructions. As links in the text: biorxiv.org. This is read from the text; nothing was executed.
Is Biorxiv API safe to install?
Our automated static check of SKILL.md found no risky patterns, such as piping downloads into a shell, reading credential files or hidden Unicode. It is not a guarantee. Review the folder before installing.
What licence does Biorxiv API use?
Biorxiv API is published under the MIT licence (the repository's licence). It allows redistribution, so the full SKILL.md is shown on this page.
How many tokens does Biorxiv API use?
About 1.3k tokens (SKILL.md is roughly 5.3k characters). Agents keep only the skill's name and description in context until a task matches; then they load SKILL.md in full.
What are the alternatives to Biorxiv API?
Skills that share tags, products or a category with Biorxiv API: Read arXiv Paper (karpathy/nanochat, 59k stars), Perplexity Web Search (davila7/claude-code-templates, 32k stars), Literature Review (neflibata-feng/MyArxiv-Agent, 126 stars) and Openalex Database (neflibata-feng/MyArxiv-Agent, 126 stars). The comparison table on this page puts their stars, adoption, token cost, safety result and licence side by side.
Who maintains Biorxiv API?
wentorai (a GitHub user) maintains it in wentorai/research-plugins, which has 298 GitHub stars. The repository holds 405 skills in this directory. The repository was last updated on June 19, 2026.
Source: wentorai/research-plugins on GitHub. Facts on this page come from the repository at the commit we read; the author's words are quoted as theirs.