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Removal of the SparseDataset class from `anndata._core.sparse_dataset.SparseDataset` has caused issues for some downstream packages including scvi-tools.
We should probably at least give a deprecat…
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- [x] I have checked that this issue has not already been reported.
- [x] I have confirmed this bug exists on the latest version of scanpy.
- [ ] (optional) I have confirmed this bug exists on the m…
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### Please make sure these conditions are met
- [X] I have checked that this issue has not already been reported.
- [X] I have confirmed this bug exists on the latest version of scanpy.
- [ ] (op…
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Now that #22554 was merged in `main`, it would be great to find a a way to run a weekly scheduled job to run the scikit-learn `main` test on a CI worker with an NVidia GPU and CuPy.
In case of fai…
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**Is your feature request related to a problem? Please describe.**
The release candidate for AnnData 0.10.0 is out now - it would be great if the changes could be tested out here since we're looking …
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### Please make sure these conditions are met
- [X] I have checked that this issue has not already been reported.
- [X] I have confirmed this bug exists on the latest version of anndata.
- [X] (optio…
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### Please make sure these conditions are met
- [X] I have checked that this issue has not already been reported.
- [X] I have confirmed this bug exists on the latest version of scanpy.
- [ ] (option…
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Hi All, after the AIRR Meeting I found this rather interesting discussion going on in the scverse (scanpy/scirpy) world around single cell file formats (https://github.com/scverse/scirpy/issues/327). …
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**Write governance document**
Write governance document for the nf-core website. Will need to be a new section under about (or other)
Required:
- [ ] Explanation
- [ ] Diagram?
- [ ] Groups n…
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Hi there, thanks for this great tool! Super useful so far, but I'm running into some issues trying specify colors for categorical values with `pl.render_shapes()`.
Specifying colors with the `palet…