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TIO-IKIM / CellViT

CellViT: Vision Transformers for Precise Cell Segmentation and Classification
https://doi.org/10.1016/j.media.2024.103143
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CoNSeP embedding analysis code #28

Open EmanuelSoda opened 8 months ago

EmanuelSoda commented 8 months ago

Hi, first of all, thanks for this amazing tool!

I am training a CellViT instance on another dataset and I would like to perform a cell embedding analysis as you have done in your manuscript with CoNSeP. Unfortunately, looking at the provided code in the repo, I wasn't able to find the relative code. Since I am fairly new to this field could you please provide the CoNSeP analysis so that I'll try to adapt my dataset?

Thanks in advance

florianbuettner commented 3 months ago

I agree with Emanuel, it would be helpful if you could briefly show how you assign the embeddings to the predicted instances.