add zarr.zip to adata - Githubissues

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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add zarr.zip to adata #814

Closed rkulchar closed 5 months ago

rkulchar commented 6 months ago

Hi! It would be nice to be able to plot the outline of the cell, as opposed to only the x and y centroids, in sq.pl.spatial_scatter (this is usually .zarr.zip) for spatial. Is there a way to do this?

giovp commented 5 months ago

yes, it' sq.pl.spatial_segment for labels, if you are referring to polygons, then that is not possible, I would suggest you take a look at https://spatialdata.scverse.org/projects/plot/en/stable/plotting.html