RootScope: Cross-species Root Cell-Type Classification from Confocal Microscopy Images

RootScope uses Cellpose-SAM to segment every cell and describes each one with morpho-topological features and fine-tuned DINOv2 embeddings. Classification is refined through an iterative process in which predictions from neighboring cells are fed back as new features, updating every label until the classification converges. Each cell is then assigned to one of nine anatomical types.

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Predicted cell types

■ root cap ■ epidermis ■ exodermis ■ cortex ■ endodermis ■ pericycle ■ xylem ■ phloem ■ stele

Cells per type

Example images (click one, then press Run)