This repository contains an adapted version of the DeepSpot model for single-cell spatial transcriptomics.
To install the package:
python setup.py install --user
In case you found our work useful, please consider citing us:
@article{nonchev2025deepspot,
title={DeepSpot: Leveraging Spatial Context for Enhanced Spatial Transcriptomics Prediction from H\&E Images},
author={Nonchev, Kalin and Dawo, Sebastian and Silina, Karina and Moch, Holger and Andani, Sonali and Tumor Profiler Consortium and Koelzer, Viktor H and Raetsch, Gunnar},
journal={medRxiv},
pages={2025--02},
year={2025},
publisher={Cold Spring Harbor Laboratory Press}
}