Table 2.
Assembly performance comparison on the rice genome
| ( k = 31 ) | ABySS | Velvet | SOAPdenovo | SparseAssembler |
|---|---|---|---|---|
| Time (hr) | 13 | 7 | 16 | 5 |
| Memory peak (GB) | 69 | 51 | 29 | 4 |
| > 100 bp (# contigs) | 458,456 | 397,252 | 444,545 | 386,604 |
| Sum (kbp) | 253,708 | 225,618 | 258,106 | 262,988 |
| Mean size (bp) | 553 | 568 | 581 | 680 |
| N50 (bp) | 538 | 310 | 655 | 734 |
| N95 (bp) | 38 | 0 | 40 | 31 |
| Corr NG50 (bp) | 538 | 310 | 655 | 733 |
| Corr NG95 (bp) | 38 | 0 | 0 | 0 |
| Longest contig (bp) | 23,220 | 23,939 | 26,869 | 26,890 |
| Coverage (%) | 69.2 | 62.3 | 71.3 | 71.5 |
| Misjoins | 1 | 34 | 10 | 9 |
The performance on the rice genome dataset, genome size: 370,733 kbp. Programs are run using default settings.