Assembly | # of Hi-C cis-contacts | # of Hi-C trans-contacts | False-positive rate of Hi-C contacts (% of Hi-C trans-contacts that are between haplotypes) |
---|---|---|---|
Nanopore assembly | 634,712 | 257,489 | 58.8% |
Nanopore assembly (without collapsed regions) | 497,011 | 175,295 | 62.5% |
Nanopore assembly (only collapsed regions) | 137,700 | 82,202 | 50.9% |
Nanopore unpolished assembly | 288,065 | 181,198 | 52.3% |
Nanopore unpolished assembly (without collapsed regions) | 212,923 | 104,190 | 55.6% |
Nanopore unpolished assembly (only collapsed regions) | 75,142 | 77,008 | 47.8% |
HiFi-Canu assembly | 304,860 | 56,033 | 8.6% |
HiFi-Canu assembly (without collapsed regions) | 297,661 | 52,445 | 7.7% |
HiFi-Canu assembly (only collapsed regions) | 7198 | 3587 | 21.3% |
HiFi- hifiasm assembly | 305,160 | 54,850 | 7.3% |
HiFi- hifiasm assembly (without collapsed regions) | 299,193 | 52,350 | 7.1% |
HiFi- hifiasm assembly (only collapsed regions) | 5967 | 2,500 | 12.2% |
Puccinia graminis 21-0 assembly (with phase switches) | 1,448,429 | 75,836 | 6.4% |
Puccinia graminis 21-0 assembly (without phase switches) | 1,315,483 | 65,565 | 2.7% |