Table 6.
HG002 assembly statistics for the Flye and HiCanu assemblies as well as the Ash1 reference assembly. Misassemblies are filtered to exclude errors in known SVs and segmental duplication sites as well as centromeric, telomeric, and gap regions. All metrics are computed by QUAST except k-mer completeness and quality value which are computed by Merqury. Best results are highlighted
| ONT Flye | ONT+Ratatosk Flye | PacBio HiFi HiCanu | Ash1 | |
|---|---|---|---|---|
| Reference coverage (%) | 94.90 | 95.85 | 96.71 | 98.50 |
| k-mer completeness (%) | 95.79 | 97.27 | 97.45 | 97.67 |
| Quality value | 33.97 | 47.90 | 55.17 | 41.341 |
| N50 (Mbp) | 37.98 | 45.05 | 44.67 | 34.30 |
| NA50 (Mbp) | 20.83 | 25.46 | 19.78 | 16.48 |
| # contigs | 972 | 430 | 422 | 2,412 |
| # misassemblies | 68 | 75 | 84 | 188 |
| # mismatches / 100 kbp | 121.71 | 112.66 | 178.36 | 161.09 |
| # indels / 100 kbp | 109.67 | 26.66 | 26.84 | 27.00 |