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| license: cc-by-4.0 |
| language: |
| - en |
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| |
| # Galaxy Tool Shed Vector Store |
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| This dataset is part of the [Knime2Galaxy](https://github.com/rmassei/imaging_KNIME_to_Galaxy.git) project, which aims to build a |
| Retrieval-Augmented Generation (RAG) pipeline for translating KNIME workflows into Galaxy workflows. |
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| ## Overview |
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| This dataset enables semantic search over Galaxy tools to support automated workflow translation. |
| Galaxy tools are embedded into a vector space, allowing retrieval of the most relevant tools corresponding to KNIME workflow nodes. |
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| ## Method |
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| - All available Galaxy tools are embedded using the Qwen/Qwen3-Embedding-4B model |
| - Given a KNIME node, similar Galaxy tools are retrieved via vector similarity search |
| - Retrieved tools are assembled into a valid Galaxy workflow JSON |
| - The workflow is exported as a `.ga` file |
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| ## Contents |
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| - Vector embeddings of Galaxy Tool Shed tools |
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| ## Use Cases |
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| - Automated KNIME to Galaxy workflow translation |
| - Semantic search over Galaxy tools |
| - RAG-based tool recommendation systems |
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| ## Notes |
| - Workflow generation logic is implemented in the main project repository |
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