Subsetting an AnnData object by indexing into it will also subset its elements according to the dimensions they were aligned to. This means an operation like ...
anndata-subset
Minimal code sample (that we can copy&paste without having any data). without running harmony: sc.tl.pca(adata, svd_solver='arpack') sc.pp ... 939c2ea5af
anndata subset, anndata subset genes, anndata subset by obs
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