How to use MACS2 output for DESEQ2 differential analysis during ATAC-seq? How to get the intersect?

How to use MACS2 output for DESEQ2 differential analysis during ATAC-seq? How to get the intersect?

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I have processed my ATAC-seq reads and finally obtained MACs2 output bed files.
I am at a loss to proceed from here to DESeq2 analysis. I will be thankful to you if could briefly explain the way to process the reads to use them for DESeq2 analysis.


DESEQ2


ATAC-Seq


intersect


bedtools


MACS2

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