Given a set of peaks from (biological or technical) replicates, MSPC combines the p-values of overlapping enriched regions: users can choose a threshold on the combined significance of overlapping peaks and set a minimum number of replicates where the overlapping peaks should be present. The method allows the “rescue” of weak peaks occuring in more than one replicate and outputs a new set of enriched regions for each replicate.
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Using combined evidence from replicates to evaluate ChIP-seq peaks.
Jalili V, Matteucci M, Masseroli M, Morelli MJ.
Bioinformatics. 2015 May 7. pii: btv293.