deep-research

Research "$ARGUMENTS" in depth using the paper and paper-search CLI tools. Follow this workflow:

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Install skill "deep-research" with this command: npx skills add collaborative-deep-research/agent-papers-cli/collaborative-deep-research-agent-papers-cli-deep-research

Research "$ARGUMENTS" in depth using the paper and paper-search CLI tools. Follow this workflow:

  1. Broad Discovery

Start with broad searches to map the landscape:

paper-search google web "$ARGUMENTS" paper-search semanticscholar papers "$ARGUMENTS" --limit 10

Scan titles, snippets, and citation counts. Identify the most relevant papers and key terms.

  1. Narrow and Filter

Refine based on what you found:

paper-search semanticscholar papers "<refined query>" --year 2023-2025 --min-citations 10 paper-search semanticscholar snippets "<specific question>" paper-search pubmed "<query>" # if biomedical

  1. Deep Read

For the most relevant papers (at least 3-5), read in depth:

paper outline <arxiv_id> # understand structure first paper skim <arxiv_id> --lines 3 # quick overview paper read <arxiv_id> <section> # read key sections

For web sources:

paper-search browse <url>

  1. Follow the Citation Graph

For key papers, explore their context:

paper-search semanticscholar citations <paper_id> --limit 10 # who cites this? paper-search semanticscholar references <paper_id> --limit 10 # what does it build on? paper-search semanticscholar details <paper_id> # full metadata

  1. Synthesize

Combine findings into a structured report with:

  • Key findings and themes

  • Areas of agreement/disagreement

  • Gaps in the literature

  • Citations for all claims (include paper titles and URLs)

  • BibTeX entries for key papers (use paper bibtex <arxiv_id> to generate)

Guidelines

  • Always start broad, then narrow. Don't read deeply until you've scanned widely.

  • Read at least 3-5 primary sources before synthesizing.

  • Cross-reference web sources against academic papers when possible.

  • Use paper-search semanticscholar snippets to find specific evidence for claims.

  • Track what you've already searched/read to avoid redundancy.

  • If a search returns arxiv papers, use paper read to get the full text rather than just the snippet.

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