Other use cases
Here are additional links to some other examples using PyImageJ in other projects.
The pyimagej-dextr repository uses Deep Extreme Cut (DEXTR) to generate ImageJ ROIs via PyImageJ.
PoreSpy, a collection of image analysis tools used to extract information from 3D images of porous materials, uses some ImageJ filters via PyImageJ.
Some projects at LOCI use PyImageJ to invoke the Image Stitching and SIFT-based image registration plugins of Fiji, together with deep learning for multimodal image registration:
To add your usage of PyImageJ to this list, please submit a pull request!