Giovanni Palla

hi @stela2502 , thanks for the inteerst in SQuidpy, have you checked out the signature of the class? https://squidpy.readthedocs.io/en/latest/classes/squidpy.im.ImageContainer.html you can also put the storage path as input ```python img...

> A short follow up question - how can a generate_spot_crops fail with the error: "ValueError: Expected `height` to be in interval `[0, 1937]`, found `21035`." if a call to...

hi @stela2502 , squidpy doesn't crop the image cause the heuristics we used in scanpy wasn't very robust. But you can still crop it manually with `crop_coords`, you can check...

you can use `crop_coords` argument in `squidpy.pl.spatial_scatter`. The heuristics were computed implicitly by the way the plotting was performed with the scanpy scatter functions. It is not possible to retrieve...

hi @YuanningEric which error?

hi @YuanningEric can you please make a reproducible example and post the full traceback>? It's very difficult to help debug your code with such little information

hi @wangjiawen2013 thank you so much for the very detailed issue, this is tremendously useful! I've just pushed a quick fix here: https://github.com/scverse/squidpy/pull/600 would you be able to give it...

hi @wangjiawen2013 , will close this issue as per this conversation https://github.com/scverse/scanpy/pull/2296#issuecomment-1273309536

hi @LLehner thanks a lot for this PR! looks good! Couple of things before I code review it: - can you create a new module (folder) named `tl` - can...

@LLehner I added couple of TODOs on teh function and started skeleton of plotting test. Test for the function itself also should be added.