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ToolUniverse Documentation
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ToolUniverse Documentation

🚀 Getting Started

  • Quick Start
  • Installation
  • Getting Started with ToolUniverse

🤖 Building AI Scientists

  • Building AI Scientists
    • Claude Desktop
    • Claude Code
    • Gemini CLI
    • Qwen Code
    • GPT Codex CLI
    • ChatGPT API

🔧 Tools

  • Available Tools
    • Bioinformatics Core Tools
    • Cheminformatics Tools
    • Earth Sciences Tools
    • Genomics Tools
    • Image Processing Tools
    • Machine Learning Tools
    • Neuroscience Tools
    • Physics Astronomy Tools
    • Scientific Computing Tools
    • Single Cell Tools
    • Structural Biology Tools
    • Visualization Tools
    • Admetai Tools
    • Adverse Event Tools
    • Agentic Tools
    • Alphafold Tools
    • Boltz Tools
    • Chembl Tools
    • Clinicaltrials Gov Tools
    • Compose Tools
    • Dailymed Tools
    • Dataset Tools
    • Disease Target Score Tools
    • Efo Tools
    • Embedding Tools
    • Enrichr Tools
    • Europe Pmc Tools
    • Expert Feedback Tools
    • Fda Drug Adverse Event Tools
    • Fda Drug Labeling Tools
    • Finder Tools
    • Gene Ontology Tools
    • Gwas Tools
    • Hpa Tools
    • Humanbase Tools
    • Idmap Tools
    • Mcp Client Tools Example
    • Medlineplus Tools
    • Monarch Tools
    • Odphp Tools
    • Openalex Tools
    • Opentarget Tools
    • Output Summarization Tools
    • Pubchem Tools
    • Pubtator Tools
    • Rcsb Pdb Tools
    • Reactome Tools
    • Semantic Scholar Tools
    • Special Tools
    • Tool Composition Tools
    • Txagent Client Tools
    • Uniprot Tools
    • Url Fetch Tools
    • Uspto Downloader Tools
    • Uspto Tools
    • Xml Tools
    • Boltz Tools
    • Depmap Tools
    • Expert Feedback Tools
    • Immune Compass Tools
    • Pinnacle Tools
    • Transcriptformer Tools
    • Uspto Downloader Tools
  • Remote Tools Setup
    • Boltz2 Tool Setup
    • DepMap Gene Correlation Analysis Tool - MCP Server
    • Human Expert Feedback System
    • COMPASS Immunotherapy Treatment Prediction Tool - MCP Server
    • PINNACLE Protein-Protein Interaction Tool
    • Transcriptformer Gene Embedding Tool
    • USPTO Downloader Tool Setup

💡 Use ToolUniverse

  • Tutorial Navigation
  • AI-Tool Interaction Protocol
  • Tool Loading Tutorial
  • Tool Listing Tutorial
  • Tool Finder Tutorial
  • Tool Caller Tutorial
  • Case Study: Hypercholesterolemia Drug Discovery
  • Agentic Tools Tutorial
  • Tool Composition Tutorial
  • Scientific Workflows
  • Human Expert Feedback
  • Post-processing Tool Outputs
    • SummarizationHook
    • FileSaveHook
    • Hook Configuration
    • Server and Stdio Hook Integration

🔨 Expand ToolUniverse

  • Tutorial Navigation
  • ToolUniverse Architecture
  • Local Tool Registration
  • Remote Tool Registration
  • Documentation Deployment
  • Contributing to ToolUniverse

🔌 API

  • tooluniverse
    • tooluniverse package
      • tooluniverse.data package
        • tooluniverse.data.fda_drugs_with_brand_generic_names_for_tool module
      • tooluniverse.agentic_tool module
      • tooluniverse.base_tool module
      • tooluniverse.chem_tool module
      • tooluniverse.ctg_tool module
      • tooluniverse.dataset_tool module
      • tooluniverse.efo_tool module
      • tooluniverse.enrichr_tool module
      • tooluniverse.europe_pmc_tool module
      • tooluniverse.execute_function module
      • tooluniverse.graphql_tool module
      • tooluniverse.humanbase_tool module
      • tooluniverse.mcp_client_tool module
      • tooluniverse.openalex_tool module
      • tooluniverse.openfda_adv_tool module
      • tooluniverse.openfda_tool module
      • tooluniverse.pubtator_tool module
      • tooluniverse.restful_tool module
      • tooluniverse.semantic_scholar_tool module
      • tooluniverse.utils module

❓ Reference

  • Data Sources
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Remote Tools Setup¶

This section aggregates setup guides for all integrations under src/tooluniverse/remote.

  • Boltz2 Tool Setup
  • DepMap Gene Correlation Analysis Tool - MCP Server
  • Human Expert Feedback System
  • COMPASS Immunotherapy Treatment Prediction Tool - MCP Server
  • PINNACLE Protein-Protein Interaction Tool
  • Transcriptformer Gene Embedding Tool
  • USPTO Downloader Tool Setup
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Boltz2 Tool Setup
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Transcriptformer Tools
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