Figure 1.

Intersection of detected loops of HiCExplorer, HiCCUPS, and either HOMER, chromosight, cooltools, Fit-Hi-C 2, or Peakachu. HiCExplorer, HiCCUPS, and cooltools have the highest relative intersection. Chromosight has the most intersected loops but detects many false positives, predicting 6 times more interactions. HOMER, Fit-Hi-C 2, and Peakachu have only a minor intersection. Last, the loop results of Peakachu, as published by the authors (subfigure f), show a higher overlap with the detected loops of HiCExplorer and HiCCUPS compared to the results we computed.