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Case Study 3: Segmentation of Arabidopsis apical stem cells: pipeline. This diagram illustrates the pipeline for Case Study 3. Initially, the data set is acquired, followed by downloading and installing the model from the BioImage Model Zoo into deepImageJ. Subsequently, the model is applied to a selected root volume to generate a mask. The process concludes with post-processing and MorpholibJ segmentation to display catchment and overlay basins on the segmented image.
