Segment Anything for Microscopy

Segment Anything for Microscopy (μSAM) is a tool, based on Segment Anything (SAM) – a vision foundation model (VFM) for image segmentation, to speed up diverse segmentation and tracking tasks in multidimensional microscopy data. It implements interactive and automatic segmentation in a napari plugin. μSAM provides a unified solution for microscopy annotation by fine-tuning generalist models for cell and nucleus segmentation in light microscopy and organelle segmentation in electron microscopy. It offers a versatile tool for (interactive) microscopy image segmentation to offer users a faster and improved segmentation experience.

For more details, check out the software at https://github.com/computational-cell-analytics/micro-sam and the publication at https://www.nature.com/articles/s41592-024-02580-4.