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. 2024 Nov 22;4:e14. doi: 10.1017/S2633903X24000114

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© The Author(s) 2024

This is an Open Access article, distributed under the terms of the Creative Commons Attribution licence (http://creativecommons.org/licenses/by/4.0), which permits unrestricted re-use, distribution and reproduction, provided the original article is properly cited.

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Figure 4. — Summary of the three case studies. This figure provides an overview of three distinct case studies, highlighting deepImageJ’s versatility and integration with other tools and plugins. Case Study 1 illustrates the transformation of an actin membrane stain image (a) into a synthetic nuclei stain (b) image via Pix2Pix, followed by StarDist nuclei segmentation (c) and TrackMate cell tracking (d). Case Study 2 presents two examples of a single slice from input volume and StarDist output, with one including the Ground Truth (b). Case Study 3 shows the pipeline stages: (a) input image, (b) mask generation, (c) overlay of Morphological Segmentation basins, and (d) visualization of catchment basins.