Giovanni Palla

apologies for late reply, I must say it's difficult to debug with this info. Are you sure that image features calculcation is computed on the same (or a scaled version)...

@DaisyCuttie I'll close this issue due to inactivity, let me know if the problem persist and feel free to reopen the issue!

hi @K10308 thanks for the interest in Squidpy, indeed that argument return the means of the non-permuted results, there is no way to return all permuted results, how would that...

thanks @michalk8 for prompt reply! > As for adding a new dimension (such as time), pinging @hspitzer for opinion; however this would require a non-trivial amount of work at the...

hi @mkunst23 thanks for the interest in Squidpy. I think this is very doable and we are working on something related. For now, you'd have to apply the transform before...

> Figures size and position differed a lot when setting "img=False", it seems that sq.pl.spatial_scatter doesn't recognize scale_factor ? when img=FAlse, scale_factor is not used anymore, since it's a simple...

can you provide some examples and the code you are using? also I'd be happy to assist you if you want to learn how to contribute!

> In [9]: sq.pl.spatial_scatter(adata,img=False,library_id= ['A1', 'A2', 'B1', 'B2'],library_key='batch',color='leiden') This time everything was OK, excepting that the HE-stained image could not be shown. this makes sense, since img=False and therefore mno...

another point: > sq.pl.spatial_scatter(adata,img="hires",library_id= ['A1', 'A2', 'B1', 'B2'],library_key='batch',color='leiden') here `img=True` (or leave as default) and if you want to pass hires it needs to be in `img_res_key="hires"` . Let us...

> The four library of my anndata has different size and shape, did it cause the failure ? mmh it shouldn't be, as long as you have all the relevant...