dear squidpy dev,
again thanks for your useful work
I am struggling getting some information after cellpose nuclei deconvolution
I am following this tuto:
squidpy_reproducibility/hne_image_analysis.ipynb at master · theislab/squidpy_reproducibility (github.com)
When it comes to: calculate features: segmentation and summary
- in addition to fraction of area covered by cells, number of cells I would like to get the positions of the nuclei. I guess I would have to add “props”: [“label”, “centroid”] in features_kwargs but I don’t understand how to mix it with the custom function…
- Could you please explain me what is the
‘spot_scale’: 2, and ‘scale’: 1.0,?
Many thanks !!