vkavaka

Dear @yuhanH, thank you for your prompt reply. We created the reproducible example using the pbmc3k dataset. Here is the code: ``` pbmc[["percent.mt"]]

@yuhanH as a possible reason: we suggest it might be the noising build in the VlnPlot function leading to removing the violins in the graphical output. Would be very happy...

Dear @yuhanH , do you have any updates on that behalf? In our opinion, the issue is quite important and possibly leading to the misinterpretation of the "specific looking" results

@yuhanH thank you for your reply and suggestion. Would you consider still keeping the noise in the vlnplot function? The only clusters that are affected seem to be the ones...

@yuhanH thank you for the hint with the alpha values. And what do you think about the noise? I understand, that the developers wouldn't add it up if it would...