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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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Visualize adata interactively with Napari #762

Closed ZhengTiger closed 12 months ago

ZhengTiger commented 12 months ago

Hello， I want to visualize adata interactively with Napari, but I don't have image to generate ImageContainer object, such as MERFISH data. I follow this turorial. How can I visualize adata using Napari without ImageContainer object? Like this figure: figure ...

giovp commented 12 months ago

hi @zhenghu159 , thanks for the interest, unfortunately we don't have functionality for 3D of that case in napari. It will be possible to be done with https://github.com/scverse/napari-spatialdata but we don't have a tutorial for that atm, but watch that space!