feat: SPEC_15 Advanced Mode Performance Optimization (#101)

fix(SPEC_11): address CodeRabbit review feedback (#92)

feat(SPEC_11): finalize transition to Sexual Health Research Specialist

feat: SPEC_10 - Domain-Agnostic Refactor + License Fix (#87)

feat: Wire LlamaIndex RAG into Simple Mode (Tiered Embedding) (#83)

fix: add future annotations to workflow.py for runtime type compatibility

feat(SPEC-08): Integrate shared memory layer + CodeRabbit fixes (#74)

fix: implement proper hypothesis conversion in synthesize_node

feat: Enhance research workflow with embedding service integration

feat: Integrate LangGraph for enhanced research orchestration

refactor: Organize orchestrators into dedicated package

fix: P0/P1/P2 - Gradio crash, UX improvements, thinking state (#61)

feat: add hierarchical orchestration with web search (integrates PR #44) (#46)

fix(magentic): defensive text extraction & cleanup biorxiv refs

refactor(tools): replace BioRxiv with Europe PMC (Phase 01)

docs: add P0 blockers documentation for Magentic mode implementation

feat: implement Magentic ChatAgent pattern with semantic state management

feat: implement phase 13 modal pipeline integration

refactor: address final CodeRabbit feedback

refactor: address CodeRabbit review feedback for Mario integration

feat: Integrate Mario's Modal code execution + LlamaIndex RAG

feat: Complete Phase 9 Source Cleanup (Remove WebTool) (#14)

fix: address all CodeRabbit Phase 8 review feedback

fix: apply lazy init pattern and pydantic-ai fixes to ReportAgent (#12)

fix: address CodeRabbit Phase 7 review feedback

feat(phase7): implement Hypothesis Agent for mechanistic reasoning

fix(phase6): critical fixes from senior audit

feat(phase6): Embeddings & Semantic Search implementation

fix(phase5): align configs and add agent tests

fix: linting and types for phase 5