Fractal

Fractal is a framework to process bioimage data in a standardized fashion, scale to Terabytes of images and prepare image data for interactive visualization.

Fractal enables distributed workflows that convert TBs of image data into OME-Zarr files and applies processing tasks to them. Tasks are modular and can be provided by users to apply image processing and measurements. We provide a pacakge of core processing tasks that can apply illumination correction, maximum intensity projection, 3D segmentation using cellpose and measurements using napari workflows. All tasks can be orchestrated by Fractal to run locally or on clusters to scale the image analysis. The resulting pyramidal OME-Zarr files enable interactive visualization in different modern viewers like MoBIE and napari.

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