Table 3.
Evaluation summary of assemblies using SOAPdenovo scaffolds and ONT contigs as input for HG001
| SLR-superscaffolder | fragScaff | Architect | ARKS | |
|---|---|---|---|---|
| Human (SOAPdenovo scaffolds) | ||||
| Number of scaffolds (> 1000 bp) | 48,278 | 54,193 | 79,435 | 80,400 |
| Largest scaffold (bp) | 35,605,665 | 59,127,605 | 796,758 | 10,897,000 |
| Total assembled length (bp) | 3,115,923,941 | 3,094,665,921 | 2,659,717,897 | 2,713,878,926 |
| NG50 (bp) | 9,113,260 | 2,346,521 | 54,245 | 468,461 |
| NGA50 (bp) | 1,510,911 | 101,813 | 44,836 | 59,899 |
| Relocation | 2373 | 32,588 | 1104 | 20,906 |
| Inversion | 105 | 1866 | 39 | 110 |
| Translocation | 3694 | 2926 | 875 | 4060 |
| Number of misassemblies | 6172 | 37,380 | 218 | 25,076 |
| Human (ONT contigs) | ||||
| Number of scaffolds (> 1000 bp) | 807 | 1051 | 1474 | 876 |
| Largest scaffold (bp) | 90,148,984 | 109,245,684 | 45,826,758 | 170,045,596 |
| Total assembled length (bp) | 2,829,830,390 | 2,828,106,943 | 2,823,722,824 | 2,823,836,148 |
| NG50 (bp) | 21,779,983 | 26,579,775 | 8,806,572 | 39,604,458 |
| NGA50 (bp) | 1,578,910 | 1,592,388 | 1,481,592 | 1,574,345 |
| Relocation | 4378 | 4182 | 3962 | 4266 |
| Inversion | 64 | 63 | 60 | 61 |
| Translocation | 1575 | 1453 | 1383 | 1607 |
| Number of misassemblies | 6017 | 5698 | 5405 | 5934 |