amonell

I got the same error using squidpy on my own data. It happened when I was using raw counts. After log-normalizing, the function worked. ``` sc.pp.normalize_total(adata, target_sum=1e4) sc.pp.log1p(adata) ```

@Silaschuwen You have "use_raw" set to true which may be using un-normalized counts. I would try setting it to False. Maybe the default threshold is too high, you can try...