search-papers

name	search-papers
description	Search academic paper databases (PubMed, arXiv, bioRxiv) and retrieve paper metadata including DOIs

Instructions

Use this skill to search for academic papers across three databases. Each script accepts a search query and an optional maximum number of results.

Scripts

search_pubmed.R

Search PubMed (NCBI) for biomedical and life science papers.

Rscript scripts/search_pubmed.R "<query>" [max_results]

• query (required): Search terms (e.g., "intracranial EEG epilepsy")
• max_results (optional): Maximum number of results to return (default: 5)

Returns: Title, authors, journal, publication year, DOI, PMID.

search_arxiv.R

Search arXiv for preprints in physics, math, CS, and related fields.

Rscript scripts/search_arxiv.R "<query>" [max_results]

• query (required): Search terms (e.g., "neural signal processing")
• max_results (optional): Maximum number of results to return (default: 5)

Returns: Title, authors, published date, arXiv ID, DOI (if available).

search_biorxiv.R

Search bioRxiv for biology preprints.

Rscript scripts/search_biorxiv.R "<query>" [max_results]

• query (required): Search terms (e.g., "electrophysiology cortex")
• max_results (optional): Maximum number of results to return (default: 5)

Returns: Title, authors, date, DOI, category.

Usage Tips

• Use specific search terms for better results
• Combine terms with spaces for AND-style queries
• PubMed is best for published biomedical literature
• arXiv is best for physics, math, computer science, and quantitative biology preprints
• bioRxiv is best for biology preprints