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v0.1.0 - Phase 0 MVP: Biological Entity Resolution & MCP Server

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@engkinandatama engkinandatama released this 27 Sep 00:14
· 28 commits to main since this release
v0.1.0
a0a8824

BioContext v0.1.0 (Phase 0 MVP)

First official release of BioContext, establishing authoritative biological entity resolution and native Model Context Protocol (MCP) tool-calling support.

Highlights:

  • Authoritative Adapters: HGNC (human nomenclature), NCBI Entrez (cross-species & gene IDs), and UniProtKB (protein accessions).
  • Explainable Disambiguation: Deterministic rule-based matching with ResolutionContext (chromosome and biotype filtering).
  • Unified Standalone CLI: Native biocontext command for single queries, batch processing, cache management, and benchmarks.
  • Embedded Persistence: SQLite key-value cache with TTL and dynamic client-side token-bucket rate limiter.
  • Model Context Protocol (MCP): Native stdio server compliant with MCP 2.x for Claude Desktop, Cursor, and Antigravity IDE.
  • Empirical Validation: 100% pass rate across 25-case benchmark evaluation suite (exceeding >= 95% target KPI).
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