Seurat
An R-based toolkit for single-cell analysis, serving a similar purpose but in a different programming environment.
rapids-singlecell
Provides GPU-accelerated single-cell analysis with an API similar to Scanpy, focusing on performance optimization.
Squidpy
Specializes in spatial single-cell data analysis and integrates within the Scanpy ecosystem.
Muon
Framework for multimodal single-cell data analysis within the Scanpy ecosystem.