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Description
Currently, FastTag relies on a connectivity matrix that is usually generated during the preprocessing pipeline.
To decouple FastTag from specific preprocessing workflows (e.g., scanpy pipelines), we should:
- Move connectivity calculation (e.g., sc.pp.neighbors) to an optional helper function.
- Have FastTag raise an error if
.obsp['connectivities']is missing. - Optionally provide a utility like
prepare_adata_for_fasttag()for beginners.
This will improve modularity, portability, and reduce unnecessary dependencies.
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