adamgayoso
commented
2 years ago - Pseudocount option (no breaking change), but when set to 1, sparse operations can be applied on matrix so it never becomes dense
- Updated notebook to clarify this
- PCA solver set to a faster one for dense matrices (technically a breaking change but results are within stochasticity of method), the breaking change technically came from scanpy a few versions ago as they changed their default solver.
- Method is at least 50% faster with just changing the pca solver