ABBA Workflow: Image Processing and Analysis

This lecture introduces the ABBA workflow, focusing on the integration of QuPath projects with images hosted on OMERO. The instructor demonstrates how to import a QuPath project, run the DeepSlice algorithm for image segmentation, and utilize Elastix for image registration. The process culminates in exporting the processed images back to the QuPath project. The lecture covers the necessary steps for aligning and analyzing brain images, specifically using the Adult Mouse Brain from the Allen Brain Atlas. The instructor emphasizes the importance of accurate image processing techniques in biological research, showcasing the tools available within the BIOP Desktop environment. The audience gains insights into the practical applications of these methods in neuroscience and histology, enhancing their understanding of image analysis workflows.