theislab / chemCPA

Code for "Predicting Cellular Responses to Novel Drug Perturbations at a Single-Cell Resolution", NeurIPS 2022.
https://arxiv.org/abs/2204.13545
MIT License
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Add notebook for loading models and low-dim UMAP embeddings #92

Closed siboehm closed 2 years ago

siboehm commented 2 years ago

Relevant for #82

This shows how to do a UMAP plot of the low dimension embedding generated by CCPA.

@MxMstrmn Just have a brief look at the list of files and then merge it. The notebook should have everything you need to make nice UMAP plots, I could already see quite some clustering happening in the seq2seq embedding.

I also did a bit of cleanup:

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MxMstrmn commented 2 years ago

Looks good, I mainly payed attention to the once you deleted. Look good. Merging.