Hi,

I'm learning this workflow of single cell analysis and I'm very confused about the explanation of the plot of plotExplanatoryVariables function. In the section 2.7, you mentioned that "The percentages are generally small (1-3%), indicating that the expression profiles of most genes are not strongly associated with this factor." But according to the plot, the peak is at 1. If 1 is in log10-scale, then it's 10 and it should be generally large (10%)?

Looking forward to your reply. Thanks very much!

Xingyu

No. Those axis values are the percentages. Otherwise the value of 100 would be (10^100)%, which is ridiculous.

Perhaps the axis label could just drop the "(log10-scale)", which is probably unnecessary here.

In any case, I don't use plotExplanatoryVariables any more in the new version of the workflow (see https://bioconductor.org/help/workflows/simpleSingleCell/intro/ for the landing page).