scanpy
https://github.com/scverse/scanpy
Python
Single-cell analysis in Python. Scales to >1M cells.
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- Issues
- umap axes rotated
- densmap
- Is automatic sanitisation necessary?
- Implement `sc.tl.mde`
- UMAP transform
- [Proposal] Integrate Marsilea to visualize AnnData
- Scanpy does not work with with few permissions
- cluster average expression
- How to extract cells co-expressing certain genes of interest ?
- Will scanpy implement ICA?
- Docs
- Python not yet supported