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feat(reasoning): implement Ontological Multi-hop Traversal Engine and MCP tool (v0.9.0) - #22

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engkinandatama merged 1 commit into
CORE-Lab-Research:mainfrom
engkinandatama:feat/phase2-traversal-engine-v0.9.0
Oct 10, 2026
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engkinandatama merged 1 commit into
CORE-Lab-Research:mainfrom
engkinandatama:feat/phase2-traversal-engine-v0.9.0

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Summary of Changes

  • PRD-22 Implementation: Built the Ontological Multi-hop Traversal Engine for zero-hallucination biological relationship explanation.
  • Traversal Engine (biocontext.graph.traversal): Discovers deterministic paths connecting seeds (e.g. TP53) to targets (pathways, diseases, publications) and auto-generates human-readable narrative explanations.
  • MCP Tool: Added traverse_biological_graph tool to FastMCP server.
  • CLI Subcommand: Added biocontext traverse <source> <target> [--max-hops INT].
  • Tests: Comprehensive unit and integration coverage in tests/test_graph.py (100% passing).
  • SemVer: Bumped version to 0.9.0.

@engkinandatama
engkinandatama merged commit de3b3e7 into CORE-Lab-Research:main Oct 10, 2026
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