GrEBI

EBISPOT/GrEBI
★ 4 stars Jupyter Notebook 🔌 API Integration Updated 1d ago
HPC aggregation pipeline and API/MCP server for LLM-mediated biomedical data integration
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Quick Install

Copy the config for your editor. Some servers may need additional setup — check the README.

Add to claude_desktop_config.json:

{
  "mcpServers": {
    "grebi": {
      "command": "npx",
      "args": [
        "-y",
        "EBISPOT/GrEBI"
      ]
    }
  }
}

README Excerpt

HPC pipeline using ontologies and LLM embeddings to aggregate knowledge graphs from [EMBL-EBI resources](https://www.ebi.ac.uk/services/data-resources-and-tools), the [MONARCH Initiative](https://monarch-initiative.github.io/monarch-ingest/Sources/), [DisMech](https://dismech.monarchinitiative.org/), [ROBOKOP](https://robokop.renci.org/), [Ubergraph](https://github.com/INCATools/ubergraph), and other sources.

Tools (7)

ebi_monarchebi_monarch_xspeciesimpc_x_gwastest_clique_mergetest_edge_linkingtest_multi_datasourcetest_type_hierarchy

Topics

bioinformaticsdata-integrationdata-miningknowledge-graphsmcpmcp-serverneo4jontologies