ENCODE peaks files - do I use the IDR files?
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20 months ago
heskett ▴ 110

Hi! I see that each ENCODE eCLIP peaks data file has a replicate 1, replicate 2, and an IDR file. Is the IDR file the correct file to use for downstream analysis? Or is that just metadata? thank you!

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Entering edit mode
20 months ago

I'd recommend reading about the IDR method and its purpose. It's a method to identify concordance of peaks between replicates, so yes, that is likely the peakset you want.

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