MalteDLuecken

Hi @gheimberg, In your example you are not using a deepcopy to assign `adata.X` to `adata.layers['other']`. So when you log transform the data in the layer, it automatically log transforms...

Ah, I must have missed that, thanks! I'll test it out soon! I guess then my feature request slims down to the calibrated linear layer for probabilities :).

A quick, naive question: What is the advantage of ICA over PCA? Components 1,3,5,7 of the ICA grid plot don't look particularly independent to me...

Thanks for the explanation. But what do you mean by "discrete" here? And so you're saying 1, 5, and 7 being given as solutions to ICA is non-optimal. I guess...

> ICA components may be easier to interpret than PCA components. I find this difficult to generalize. I know exactly that in PCA I can interpret a component based on...

I was referring to both the instability and what i understood to mean non-robustness to different datasets. But it seems a "use case" is an analytical step here, rather than...

You could also not make this breaking by checking if there are any `/` in the string and appending `umap` or `violin` after the last `/`? Would be a bit...

I quite like the saving of figures as it means people can use scanpy who otherwise aren't as familiar with data science in python. Calling a function on an axis...

Hey! You can check which columns are causing this issue by running `adata.obs.dtypes` and `adata.var.dtypes` and finding the columns that say `'Object'`. You can cast those to integer or strings...

Hi @levinhein, Sorry for the delayed response. I was on vacation. We defined the term meta-analysis vs a standard integrated analysis as no data integration method was used in this...