The cell segmentation (HD and stereoseq)results from spatialdata are currently difficult to integrate with downstream analysis software.
The main issue is with the saved format, especially the image/labels format, which doesn't connect well with many commonly used downstream tools (like Seurat, scanpy, and other spatial analysis packages).
Could the team consider:
Adding export functions to convert segmentation results to more widely-compatible formats
Providing clearer documentation on how to bridge spatialdata outputs with popular downstream tools
This would greatly improve the usability of spatialdata in standard spatial transcriptomics analysis workflows.