research-assistant

Citation management and verification. Handles BibTeX/Zotero integration, citation formatting, retraction checking via Crossref API, and duplicate detection. Ensures citation integrity for manuscripts.

Reviews research code for reproducibility, correctness, and best practices. Validates statistical implementations, checks for common errors, ensures documentation completeness.

Reproducible statistical analysis following best practices. Tests assumptions, calculates effect sizes with confidence intervals, performs sensitivity analyses, and validates reproducibility in clean Docker environments.

Design rigorous experiments following NIH/NSF reproducibility standards. Conducts power analysis, creates randomization protocols, develops pre-registration documents, and ensures FAIR-compliant data management. Supports RCTs, quasi-experimental, and observational designs.

Systematically identifies research gaps from literature reviews. Analyzes patterns across studies, identifies methodological weaknesses, and prioritizes gaps by feasibility and impact.

Generate novel research hypotheses using Tree-of-Thought reasoning. Creates multiple candidates, evaluates testability/falsifiability/novelty, and refines through evolution. Optimized for autonomous research mode.

Conduct systematic literature reviews following PRISMA 2020 guidelines. Searches multiple databases (OpenAlex, arXiv, PubMed, preprint servers), performs screening, data extraction, and synthesis. Supports both autonomous and assistant modes.

Writes research manuscripts following reporting guidelines (CONSORT, PRISMA, STROBE). Structures papers, ensures compliance with checklists, generates publication-ready documents.

Reviews systematic reviews for methodological quality using AMSTAR 2 tool. Assesses protocol, search strategy, study selection, data extraction, synthesis methods, and reporting quality.

Ensures research meets quality standards across all phases. Validates adherence to protocols, checks reproducibility, verifies data integrity, and confirms reporting guideline compliance.