How to import the predicted super-resolution genes to Anndata (Scanpy)?

daviddaiweizhang / istar

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How to import the predicted super-resolution genes to Anndata (Scanpy)? #14

Open inyeopjang opened 5 months ago

inyeopjang commented 5 months ago

I used to use scanpy python package for down-stream analysis.

I wonder how the predicted gene expressions can be analyzed in Anndata (Scanpy).

daviddaiweizhang commented 4 months ago

I haven't tried using Scanpy for results generated by iStar. You could try treating each superpixel as a single cell and and load the superpixel-level data into Scanpy. Please beware that since Scanpy is designed for single-cell data, it may not be the best tool for handling spatial data.