In the research wiki

This chapter has not been written yet. Until it is, the research wiki carries what has been recorded about this work:

• hepatocyte-app — liver H&E segmentation and cell morphometry — the pipeline, its classes, and what has been run through it.
• QuPath Hepatocyte Extension — its QuPath front end, and the pattern worth copying: inference runs outside QuPath through a Python bridge, so the extension bundles no deep-learning framework.
• Cell Detection and Counting — the general method underneath it.
• Liver Tru-Cut Cohort — the cohort it runs on, shared with the tumour-origin project.
• Slide Metadata Extraction — this pipeline already reads microns-per-pixel per slide, which is the machinery a cohort-wide inventory needs.