This repo contains notebooks to reproduce the figures from Wang et al. (2024).
The result figures only contain a subset of ExpandedTissueNet that includes all data sourced from public datasets. It is available at https://vanvalenlab.github.io/deepcell-types/. The remaining datasets were made available to our lab before their publication. These are available upon reasonable request and will be made publicly available upon publication of the corresponding manuscripts.
@article{deepcelltypes,
title={Generalized cell phenotyping for spatial proteomics with language-informed vision models},
author={Wang, Xuefei and Dilip, Rohit and Bussi, Yuval and Brown, Caitlin and Pradhan, Elora and Jain, Yashvardhan and Yu, Kevin and Li, Shenyi and Abt, Martin and Borner, Katy and others},
journal={bioRxiv},
pages={2024--11},
year={2024},
publisher={Cold Spring Harbor Laboratory}
}