Example Scripts

Examples for using the micro_sam annotation tools:

annotator_2d_wsi.py: Run the interactive 2d annotation tool, suitable for whole-slide images (WSIs).
annotator_2d.py: Run the interactive 2d annotation tool.
train_pannuke_semantic.py: Train a model for semantic segmentation of nuclei in PanNuke histopathology images.

The folder finetuning contains example scripts that show how a Segment Anything model can be fine-tuned on custom data with the micro_sam.train library, and how the finetuned models can then be used within the micro_sam annotation tools.