Filtering duplicates with MACS2 after re-sequencing a sample to increase read depth

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Hi all,

I am analyzing a ChIP-seq dataset. In order to increase read depth and obtain enough uniquely mapped reads, I decided to re-sequenced my sample and merge that dataset with the data I already have. However, I am concerned that macs2 will call more duplicates and omit them during the peak calling step. Is there anyway to avoid this? Any help will be greatly appreciated.

Thank you!


macs2


chip-seq

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