Question: The explanation of plotExplanatoryVariables plot
0
20 months ago by
Xingyu0
Xingyu0 wrote:

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

simplesinglecell • 358 views
modified 20 months ago by Aaron Lun25k • written 20 months ago by Xingyu0
Answer: The explanation of plotExplanatoryVariables plot
0
20 months ago by
Aaron Lun25k
Cambridge, United Kingdom
Aaron Lun25k wrote:

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).

ADD COMMENTlink modified 20 months ago • written 20 months ago by Aaron Lun25k