Kalin Klonchev – the winner of a competition for AI based data analysis from Broad in 2024 had also created a tool called DeepSpot. Worth looking at for spot analysis of H&E sections by converting a full H&E slide pictures to “spots” which are analyzed.
Some good links:
DeepSpot paper: https://www.medrxiv.org/content/10.1101/2025.02.09.25321567v1
DeepSpot GitHub repository: https://github.com/ratschlab/DeepSpot
DeepSpot2cell: for analysis of single cell data: https://www.biorxiv.org/content/10.1101/2025.09.23.678121v1
