GSEA for ChIP/ATAC-seq

Question

[Orange]

Hi all

For non-RNA-seq data such as ATAC-seq or ChIP-seq, is there a way to perform pre-ranked GSEA that is not an ORA?

GREAT/rGREAT and chipenrich seem to be popular tools for these epigenomics studies but to my understanding, they are ORA where you provide an unranked gene set (let's say one set for genes upregulated in Treatment A, another set for genes upregulated in Treatment B, but not together).

Preferably, I would like to perform differential enrichment of pathways where I can provide a pre-ranked gene list going down from upregulated in Treatment A to upregulated in Treatment B.

Any recommendations are appreciated, thank you!