Hi, I have created a PCA plot for my data using deseq2. But now I would like to add the sample labels to my PCA plot. Can anyone please show me how?
I have added my code below that I used to create the PCA plot

library(ggplot2)
plotPCA(rld, intgroup = c("Sample", "Celltype", "Subset", "Treatment"))

Thank you very much!

The plotPCA function uses ggplot2 to generate the PCA plot, so you can hypothetically do what you want directly. As an example

> library(DESeq2)
## after running example("plotPCA")
> z <- plotPCA(rld)
> z + geom_label(aes(label = name))
## That will only be able to use what's in the 
## or for arbitrary extra things
> zz <- plotPCA(rld, returnData = TRUE)
## add some random column 
> zz$whatever <- c("FOO","BAR")[sample(1:2, 12, TRUE)]
> z +  geom_label(data = zz, aes(label = whatever))

## or if you want to be cool
> library(ggrepel)
> z + geom_label_repel(data = zz, aes(label = whatever))