scanpy
https://github.com/scverse/scanpy
Python
Single-cell analysis in Python. Scales to >1M cells.
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- Issues
- Leiden, Louvain with Katana Graph
- Issue with sanitize_anndata() in plotting functions with subsets of anndata objects are passed.
- Imputation methods
- How to score cluster for presence of marker genes?
- Tracking operations performed on AnnData objects
- sc.pl.heatmap cannot show different colors for more than 20 cell types
- mito_genes and ValueError Traceback (most recent call last)
- 3d UMAP memory error on ~1 million cells
- Avoid argument explosion in plotting functions
- mutiple heatmap annotation
- Docs
- Python not yet supported