Table 1 Loop count of primary GM12878 at 5 KB, 10 KB, 100 KB and 250 KB resolution
From: Comparative study on chromatin loop callers using Hi-C data reveals their effectiveness
Tools | 5 KB | 10 KB | 100 KB | 250 KB | Average |
|---|---|---|---|---|---|
Chromosight | 15402 | 10542 | 562 | 85 | 6648 |
cLoops*** | 763 | 763 | 763 | 763 | 763 |
cLoops2*** | 18634 | 23986 | 282 | 2 | 10726 |
FitHiC2 | 463587 | 448482 | 378871 | 332268 | 405802 |
FitHiChIP | 8554 | 39239 | 62101 | 21139 | 32758 |
HiCCUPS* | 33196 | 41471 | 0 | 0 | 37334 |
HiCExplorer** | 26895 | 23212 | 0 | 0 | 25054 |
LASCA | 64975 | 33580 | 4876 | 1886 | 26329 |
Mustache | 20113 | 68703 | 18277 | 266 | 26840 |
Peakachu | 49668 | 28985 | 137 | 12 | 19701 |
SIP | 8765 | 4114 | 167 | 383 | 3357 |