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Added subsampled Stephenson2021 COVID19 dataset #179

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merged 3 commits into from
Nov 11, 2022

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emdann
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@emdann emdann commented Nov 10, 2022

As mentioned in scverse/pertpy-tutorials#4, added data loader for subsampled Stephenson2021 dataset.

The dataset is subsampled to have approx 500 cells per donors (before QC filtering) and batch corrected space is in adata.obsm['X_scVI'] (mapped to PBMC ref atlas w scArches). Not sure if it's important to have a reference for how the data was preprocessed here, but if needed this should come out on biorxiv in a week or so (submitted today).

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Zethson commented Nov 11, 2022

Thanks!
I broke the CI yesterday and I haven't figured out why. Your code is fine though.

@Zethson Zethson merged commit d9ad640 into scverse:development Nov 11, 2022
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