biorxiv-database

Query bioRxiv preprint metadata and PDFs by keyword, author, and date range.

708|51|Updated Mar 10, 2026
One-click install
npx skills add https://github.com/LigphiDonk/Oh-my--paper --skill biorxiv-database-ligphidonk
Or copy as Structured Prompt for Agent
Please help me install this Agent Skill.
Skill: biorxiv-database
Source: https://github.com/LigphiDonk/Oh-my--paper/tree/main/src-tauri/resources/skills/biorxiv-database
Command: npx skills add https://github.com/LigphiDonk/Oh-my--paper --skill biorxiv-database-ligphidonk

SYSTEM DOCUMENTATION & REQUIREMENTS

💡 This Skill requires requests, and includes scripts (resource) and references (resource) components.

What problem does it solve?

bioRxiv search tool that enables efficient discovery and retrieval of preprint metadata and PDFs across date ranges and categories for research workflows.

Core Features & Use Cases

  • Keyword, author, and date-range queries across bioRxiv with optional category filtering.
  • Retrieve structured metadata and, when needed, download PDFs for offline analysis.
  • Export results to JSON for downstream pipelines and literature reviews.

Quick Start

Run a keyword search for CRISPR papers in bioRxiv from the last year and save results to results.json.

Frequently Asked Questions about biorxiv-database

High-intent search queries and answers about installing and using this skill.

FAQPage Schema
How do I search bioRxiv preprints by keyword, author, and date range?

To search bioRxiv preprints, use keyword, author, and date-range queries with optional category filtering. This retrieves structured metadata for relevant preprints, enabling efficient literature reviews and rapid scouting of recent work.

What is the best way to download bioRxiv PDFs for offline analysis?

Downloading bioRxiv PDFs for offline analysis is supported directly through the tool. It performs safe, rate-limited HTTP requests to fetch PDFs alongside metadata, providing clear fallbacks when network issues occur during the download process.

Can I export bioRxiv search results to JSON for downstream pipelines?

Yes, you can export bioRxiv search results to JSON. The tool formats retrieved preprint metadata locally, allowing you to save structured outputs for downstream pipelines, meta-analyses, and systematic literature reviews.

Does this bioRxiv search tool require specific Python libraries?

The bioRxiv search tool requires the Python requests library to handle API-driven data retrieval. It uses requests to perform safe, rate-limited HTTP queries for fetching preprint metadata and PDFs across specified date ranges.

What happens when network issues occur during bioRxiv metadata retrieval?

When network issues occur during bioRxiv metadata retrieval, the tool provides clear fallbacks. It is designed with safe, rate-limited HTTP requests to handle API-driven data fetching robustly without crashing during transient network failures.

How do I filter bioRxiv preprint searches by specific subject categories?

Filtering bioRxiv preprint searches by subject categories is a core feature. You can apply category filters alongside keyword, author, and date-range queries to narrow down structured metadata retrieval for targeted literature reviews.