Table 7 Number of datasets for which each algorithm produces peaks with the greatest overlap between biological replicates
From: WACS: improving ChIP-seq peak calling by optimally weighting controls
Cell Line | WACS | WACS AllCtrls | Matched MACS2 | All MACS2 | AIControl |
|---|---|---|---|---|---|
All peaks | |||||
A549 | 0 | 8 | 1 | 0 | 1 |
GM12878 | 3 | 4 | 1 | 1 | 1 |
HepG2 | 1 | 7 | 2 | 0 | 0 |
Standardized | |||||
A549 | 2 | 8 | 0 | 0 | 0 |
GM12878 | 2 | 4 | 3 | 1 | 0 |
HepG2 | 1 | 8 | 1 | 0 | 0 |