I have a question regarding the
dba.plotPCA function and I hope some of you might help me. I am performing differential binding analysis for my ChIP-seq dataset and I am trying to interpret in a comprehensive way the PCA plot I get out of the function mentioned above.
Specifically, I am wondering how can I know what specific variables account for each principal component (PC1, PC2, ..). In this way, I aim to understand which variable in my dataset makes some samples cluster together and which other variable separates them in the plot.
I hope my question was clear enough and thanks in advance to anybody who will try to give me an answer.