andre-inter-collab-llc/research-workflow-assistant

Built on the **Model Context Protocol (MCP)** framework, it uses stdio transport to connect VS Code directly to academic databases and research tools as structured data sources, enabling Copilot agents to access real-time PubMed, OpenAlex, and Zotero results without context switching. Outputs default to **Quarto documents** (supporting R/Python execution, multi-format rendering, and built-in bibliography), ensuring reproducibility and enabling researchers to stay within their existing IDE and version control workflow. The architecture enforces human oversight at every step through specialized agents (`@systematic-reviewer`, `@data-analyst`, `@academic-writer`, etc.) that encode research best practices—PRISMA compliance, ICMJE authorship rules, audit trails—rather than automating decisions away.