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Generated Embedding Plot Example

This example demonstrates the final step of the AgentFigureGallery loop:

agent query -> gallery display -> human like/reject/select -> export bundle -> plot code

The plot is intentionally small and synthetic so it can run from a clean clone. It uses selected embedding references as visual guidance and preserves their candidate IDs in the figure note.

Selected visual guidance from reference_bundle_example.json:

  • EMB-3928F88AD7
  • EMB-FE34642DA4

Run

python examples/generated_embedding_plot/plot_embedding.py

Outputs:

  • examples/generated_embedding_plot/figures/embedding_preview.png
  • examples/generated_embedding_plot/figures/embedding_nature_style.pdf
  • examples/generated_embedding_plot/figures/embedding_nature_style.svg

Preview

Generated embedding preview

Design Notes

  • muted multi-class palette
  • light grey background cells with highlighted disease outlines
  • direct cell-type labels at cluster centroids
  • compact frameless legend
  • stable reference IDs retained in the plot annotation

Agent Handoff

In a real session, agentfiguregallery bundle --session <session_id> writes:

outputs/reference_sessions/<session_id>/export_bundle/reference_bundle.json

This example keeps a tiny reference_bundle_example.json beside the script so the final plot can be regenerated without a live browser session.