Table 1.
Optimized Parameters
| Dataset | Fixed BW KDE | Adaptive BW KDE | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| Opt. h | NLM | CPU time (s) | Opt. k | NLM | CPU time (s) (Gau/Tri/Sq) | |||||
| H3K27ac | 1024 | 40892 | 395 | 18 | 32357 | 1563 | / | 653 | / | 161 |
| H3K27me3 | 2048 | 21476 | 230 | 16 | 12291 | 1513 | / | 620 | / | 128 |
| H3K36me3 | 2048 | 21052 | 679 | 25 | 19035 | 2117 | / | 946 | / | 217 |
| H3K4me1 | 1448 | 28264 | 240 | 7 | 43188 | 763 | / | 300 | / | 74 |
| H3K4me2 | 724 | 55799 | 336 | 11 | 41147 | 934 | / | 376 | / | 83 |
| BRCA1 | 1448 | 29078 | 861 | 24 | 33822 | 2158 | / | 842 | / | 233 |
| CTCF | 512 | 82386 | 184 | 8 | 53094 | 685 | / | 249 | / | 54 |
| GTF2F1 | 1024 | 40399 | 573 | 22 | 37024 | 1776 | / | 633 | / | 148 |
| RAD21 | 362 | 111671 | 158 | 7 | 51692 | 629 | / | 256 | / | 61 |
| REST | 724 | 57598 | 287 | 14 | 29816 | 1213 | / | 455 | / | 104 |