scanpy
https://github.com/scverse/scanpy
Python
Single-cell analysis in Python. Scales to >1M cells.
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- Issues
- Optimize sparse matrix aggregation and conversion handling
- Add `layer` parameter to `read_10x_*` functions
- perf: Combat perf improvements
- feat: add layer argument to 10x read functions
- modernize datasets
- feat: allow exponentiation post agg for log-fold-change in `rank_genes_groups`
- fix: copy size array before reorder in multi-color scatter plots
- feat: add `illico`for `rank_genes_groups`
- Per-point size array is cumulatively reordered across multi-color subplots
- fix: avoid cumulative size reordering across multi-color subplots
- Docs
- Python not yet supported