scverse / scverse/scanpy

3d UMAP memory error on ~1 million cells

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#710 6 comments 0 reactions 1 assignee View on GitHub

@Koncopd is already working on this.

Since Jul 1, 2019.

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Description

Great work!

Python (64bit) throws a memory error when projecting ~1 million cells into 3D UMAP with 40 features (PCs). I suppose that matrix products are super big, but I'm performing it on 256G RAM.
Is there a way to decrease memory usage?
I would appreciate your advice!
Thanks ahead!

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