Entering edit mode
6.3 years ago
salamandra
▴
550
In order to use IDR threshold to select consistent peaks between two replicates of ChIP-seq, samples have to pass the pseudo-replicate consistency test (Np/Nt < 2). My samples passed that test, but failed the self-consistency test (N1/N2 = 2.5 > 2), which is also mentioned by ENCODE. To use IDR, samples have to pass both tests or is it enough to pass the pseudo-replicate test?