From: GreenHill: a de novo chromosome-level scaffolding and phasing tool using Hi-C
Species | Assembler | Input for contigs | Size (bp) | Max Length (bp) | N50 (bp) | QV | Switch error rate | Phasing accuracy |
---|---|---|---|---|---|---|---|---|
Budgerigar | FALCON-Unzip + GreenHill | CLR | 2,273,118,342 | 140,405,933 | 88,135,996 | 40.78 | 0.28 | 0.896 |
FALCON-Unzip + 3D-DNA | 2,620,388,952 | 159,155,647 | 90,074,506 | 39.20 | 0.36 | 0.701 | ||
FALCON-Unzip + SALSA2 | 2,437,415,698 | 95,254,517 | 34,574,245 | 39.31 | 0.34 | 0.741 | ||
Black rhinoceros | Hifiasm + GreenHill | HiFi | 5,325,705,542 | 101,752,101 | 52,259,952 | 58.44 | 0.05 | 0.982 |
Hifiasm + 3D-DNA | 6,523,963,142 | 136,733,613 | 48,162,421 | 55.16 | 0.09 | 0.615 | ||
Hifiasm + SALSA2 | 6,206,904,826 | 40,586,421 | 3,069,332 | 55.53 | 0.05 | 0.785 | ||
Hifiasm Hi-C mode | 6,047,793,056 | 94,248,160 | 30,503,132 | 67.13 | 0.06 | 0.995 | ||
Sterlet | Hifiasm + GreenHill | HiFi | 3,712,891,508 | 83,435,872 | 25,813,405 | 58.82 | 0.03 | 0.849 |
Hifiasm + 3D-DNA | 3,882,750,516 | 14,958,612 | 1,019,399 | 54.98 | 0.04 | 0.889 | ||
Hifiasm + SALSA2 | 3,474,135,770 | 47,228,216 | 7,128,235 | 55.15 | 0.04 | 0.751 | ||
Hifiasm Hi-C mode | 3,748,196,843 | 55,271,118 | 9,593,284 | 60.99 | 0.02 | 0.975 |