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Add arrays with 3 dimensions or more #15

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rcannood opened this issue Jan 16, 2025 · 2 comments · Fixed by #16
Open

Add arrays with 3 dimensions or more #15

rcannood opened this issue Jan 16, 2025 · 2 comments · Fixed by #16
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enhancement New feature or request

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@rcannood
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Description of feature

Could you add arrays to obsm and varm with which have at least 3 dimensions? Example:

import anndata as ad
import numpy as np

adata = ad.AnnData(
  shape=(1000, 100),
  obsm = {
    "spatial": np.random.rand(1000, 10, 3)
  }
)

adata.write_h5ad("spatial.h5ad")

This is needed to reproduce scverse/anndataR#204.
@rcannood rcannood added the enhancement New feature or request label Jan 16, 2025
@LouiseDck LouiseDck mentioned this issue Jan 17, 2025
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@rcannood
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I don't think there is really a need to go beyond 3 dimensions, though in the spirit of the package you could try a (10, 9, 8, 7, 6, 5)-dimensional sparse matrix :p

I'd be inclined to at least add integer matrices as well; boolean and string are nice to haves.

@rcannood rcannood reopened this Jan 23, 2025
@rcannood
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See previous comment

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Generate 3d float matrix data-intuitive/dummy-anndata
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@rcannood