scanpy
https://github.com/scverse/scanpy
Python
Single-cell analysis in Python. Scales to >1M cells.
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- Issues
- Add counts layer automatically
- Add graph coloring algorithm as an alternative for `palette`
- Figures related to rankings and heatmap could be transposed.
- Heatmap does not respect Ordered Categorical
- sc.pl.palettes.godsnot_64 18th colour invisible against white BG
- add multibatchPCA approach?
- umap axes rotated
- densmap
- Is automatic sanitisation necessary?
- Implement `sc.tl.mde`
- Docs
- Python not yet supported