PCA of DNA methylation data can be hard to interpret. Our method annotates principal components (PCs) with region sets. A region set is a set of genomic regions that share a biological annotation, for instance transcription factor binding regions, regions with a certain histone modification, or chromatin accessibility regions. PCRSA can identify meaningful sources of variation for each principal component, giving insight into the biological significance of the PC and into the variation among samples.
PCRSA may be installed from Github:
or locally after downloading/cloning the source code:
install.packages(“path/to/PCRSA/directory”, repos=NULL, type=“source”)