Performing Differential Analysis with NarrowPeak Files in ATAC-seq: Tumour vs. Control

Question

[Thom]

Hi everyone,

I’m new to ATAC-seq and working in R with narrowPeak files (BED 6+4) from online sources about a specific cell type. I want to compare it with RNA-seq data. Unfortunately, I don’t have access to the ATAC original RAW data or BAM files.

Is it possible to perform differential analysis (tumour vs. control) with only these narrowPeak files? If not, are there methods I could use to extract useful insights despite this limitation?

Any advice would be much appreciated!