As the question states, I am interested in an analysis similar to Gene Set Enrichment Analysis (ranked gene sets) but focused on locus-level data instead of genes.
To explain in greater detail: I have a set of genomic coordinates from DNA methylation data that are scored based on their contribution to components from a non-negative matrix factorization. I am interested in better understanding the biological underpinnings of what these NMF components represent. I know I can use Locus Overlap Analysis tools like GREAT or LOLA to tell me what GO/Functions are enriched in a particular BED file, but this type of analysis doesn't take into account the scores/rank of the loci in the BED file as would be done in an analysis akin to GSEA.
Does anyone know of any tools/methods for analyzing functional enrichment while taking advantage of feature/locus ranks/scores with locus-level data?
I know I probably didn't explain this very clearly, so please let me know if I can clarify anything for you. Thanks