winnie10 / gcti-sn

Code for our paper "GCTI-SN: Geometry-inspired chemical and tissue invariant stain normalization of microscopic medical images"

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GCTI-SN

Copyright (c) 2020, SBILab IIIT-Delhi

Code for our paper "GCTI-SN: Geometry-inspired chemical and tissue invariant stain normalization of microscopic medical images."

Dataset for this paper can be found here

If you are using this code please cite the following papers:

[1] Anubha Gupta, Rahul Duggal, Shiv Gehlot, Ritu Gupta, Anvit Mangal, Lalit Kumar, Nisarg Thakkar, and Devprakash Satpathy, "GCTI-SN: Geometry-Inspired Chemical and Tissue Invariant Stain Normalization of Microscopic Medical Images," Medical Image Analysis, Volume 65, 101788, 2020.
[2] A method for normalizing histology slides for quantitative analysis, M Macenko, M Niethammer, JS Marron, D Borland, JT Woosley, G Xiaojun, C Schmitt, NE Thomas, IEEE ISBI, 2009. dx.doi.org/10.1109/ISBI.2009.5193250

Demo

1. Run demo.m. It takes a reference image and a query image.
2. Results on ALL image:

3. Results on MM image:

4. Results on H&E image:

Step-wise results can also be visualized. For H&E image: