Entering edit mode

Dear guys,

I am trying to use limma to find the DEGs, and the topTable function has a parameter **sort.by**, which explains that "p" for "P", so when code as **topTreat(fit, coef=1, sort.by="p", resort.by=NULL, ...)** , is it sort by p-value or adjusted p-value?

Thanks a lot!

https://www.rdocumentation.org/packages/limma/versions/3.28.14/topics/toptable

Thanks a lot! What if the p-value has much difference from the adjusted p-value?