Table 1.
Coverage summaries for HG002 assemblies evaluated in this analysis
| Assembler | Label | ONT |
CCS |
Hi-C/Pore-C | ||
|---|---|---|---|---|---|---|
| Coverage | N50 (kbp) | Coverage | N50 (kbp) | Coverage | ||
| HapDup v0.4 (Shasta) | HapDup | 38 | 31 | |||
| Shasta v0.10.0 | R9 standard | 37 | 60 | 45/30 | ||
| Shasta v0.10.0 | R9 UL | 60 | 80 | 45/30 | ||
| Shasta v0.10.0 | R9 UUL | 60 | 150 | 45/30 | ||
| Shasta v0.10.0 | R10 (1FC) | 26 | 32 | 45/30 | ||
| Shasta v0.10.0 | R10 UL (4FC) | 60 | 130 | 45/30 | ||
| Shasta v0.11.1 | R10 UUL (11FC) | ∼60 | 230 | 45/30 | ||
| Hifiasm v0.16 trio | Hifiasm trio | 30 | 17.5 | |||
| Hifiasm v0.16 Hi-C | Hifiasm Hi-C | 30 | 17.5 | 0/30 | ||
| Verkko v1.1 trio | Production | 185.77 | 81.20 | 42.66 | 14.75 | |
| Verkko v1.1 trio | Full coverage | 971.71 | 50.65 | 169.03 | 17.22 | |