scverse / scverse/spatialdata

Is there currently a way to plot 3D data?

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@melonora is already working on this.

Since Sep 23, 2024.

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Description

I'm looking for even just the simplest case, i.e. fixing a z-location and visualizing x, y coordinates in 2D. I tried naively with spatialdata-plot, i.e. just

sdata.pl.render_images("image", channel="DAPI").pl.show(), but that fails with TypeError: Invalid shape (7, 9512, 9788) for image data.

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