Quantifying Peak Height Difference in ATAC-seq
Hi, everyone. How would I go about quantifying the peak height difference of a particular gene between two a wild type and a mutant in ATAC-seq? A colleague mentioned possibly calculating a moving average of read depths for smoothing and then comparing the peaks after normalization across conditions but said they weren’t sure about what the standard workflow is. What are your thoughts on this? Any help would be much appreciated, as I’m very new to this!
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