Accelerate scverse/scanpy steps with rapids-singlecell
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@Zethson is already working on this.
Since May 7, 2026.
enhancement
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Description
Description of feature
Heyy,
the pipeline currently uses scanpy for lots of preprocessing steps including the generation of embeddings & clustering.
I suggest that we integrate github.com/scverse/rapids-singlecell to optionally GPU accelerate these steps as soon as I've implemented a nf-core module for it.
Any thoughts, concerns, or helpful pointers?
CC @gburnett-nvidia @DCGenomics
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