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scverse / squidpy

Spatial Single Cell Analysis in Python
https://squidpy.readthedocs.io/en/stable/
BSD 3-Clause "New" or "Revised" License
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dated napari tutorial/documentation #805

Closed LinearParadox closed 9 months ago

LinearParadox commented 9 months ago

Hi all,

I believe the napari documentation is a bit dated. Specifically, using it how it is written here, throws an error saying that napari is deprecated. More specifically this line:

viewer = img.interactive(adata)

Is this part of a broader move to the spatial data format/ecosystem? I'm a bit new to the spatial transcriptomics field (and mostly have done single cell previously), and apologize if this is a naive question.

Thank you all for the great tool!

giovp commented 9 months ago

thank you for the question @LinearParadox , indeed, we are not maintaining the napari integration in squidpy and only gonna support the napari-spatialdata integration. https://github.com/scverse/napari-spatialdata