scanpy
https://github.com/scverse/scanpy
Python
Single-cell analysis in Python. Scales to >1M cells.
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- Issues
- `io` submodule from `anndata`
- negative values after score_genes with log1P or counts layer
- Feature Request: Option to Plot Highest Absolute Values on Top in sc.pl.umap
- Switch to `numpy.random.Generator`
- Difference between tl.rank_genes_groups and pl.rank_genes_groups_heatmap
- UMAP redesign
- Feature suggestion - implementing joyplots/ridgeplots
- aga_compare_paths: KeyError: 'aga_groups' and KeyError: 'aga_groups_order_original'
- sc.pl.dpt error if n_branchings=0 in sc.tl.dpt
- Request: add PR-AUC metric
- Docs
- Python not yet supported