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spatial-heterogeneity

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A Python pipeline for quantitative 3D organoid and spheroid image analysis from confocal microscopy. The project combines Cellpose-based segmentation with single-cell morphological profiling, spatial topology analysis, heterogeneity discovery, and statistical comparisons to enable reproducible analysis of multicellular 3D cultures.

  • Updated Jun 30, 2026
  • Jupyter Notebook

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