Predicting microsatellite instability from routine histology slides without re-inventing the wheel. This repository contains code for the creation of all results and figures of the published paper. If you are relying on results or are re-using code from this repository, please consider citing:
TODO
inference.py contains all code to run a new inference based on trained models. Please note that
this work relies on other published methods and does not work without them.
- Nuclei segmentation: HoVer-NeXt
- Tissue type segmentation: C2R adaptation (unpublished) of SRMA
- Immune scores: Previously published immune scoring method, see CRC-Eos-Lym_IEL
The other python scripts contain code necessary to reproduce the paper results.