I would like to add an argument to the plotMA function in DESeq2. Specifically, I would like to highlight points on the MA plot that are not only alpha<0.1, but also log2FoldChange <-1 or >1. Is there a way to achieve this? I tried the following "ifelse" statement but it did not work.
plotMA(res,alpha=0.1,col=ifesle(log2FoldChange>0.75 | log2FoldChange<-0.75, "red", "grey"), cex=2, ylim=c(-2,2))