Table 6.
Comparison of runtime and RAM in the computational demand test
| Bench.Seq (length: bp) | E.coli (4.6M) | C.ele (20.9M) | H.sap-2 (50.3M) | H.sap-3 (100.5M) | |
|---|---|---|---|---|---|
| Runtime (s) | |||||
| SE | SSAKE | 2776 | – | – | – |
| VCAKE | 1672 | 16 742 | – | – | |
| Euler-sr | 1689 | 11 961 | 29 622 | – | |
| Edena | 895 | 8450 | 17 043 | – | |
| Velvet | 205 | 1003 | 2786 | 6098 | |
| ABySS | 265 | 1300 | 3307 | 6608 | |
| SOAPdenovo | 62 | 253 | 560 | 1029 | |
| PE | SSAKE | 9163 | – | – | – |
| Euler-sr | 1455 | 15 068 | – | – | |
| Velvet | 229 | 1351 | 55 581 | – | |
| ABySS | 458 | 3081 | 9199 | 21 683 | |
| SOAPdenovo | 78 | 374 | 889 | 2257 | |
| RAM (MB) | |||||
| SE | SSAKE | 9933 | – | – | – |
| VCAKE | 4099 | 17 408 | – | – | |
| Euler-sr | 1536 | 7065 | 13 312 | – | |
| Edena | 1741 | 7557 | 30 720 | – | |
| Velvet | 1229 | 4045 | 9830 | 22 528 | |
| ABySS | 1126 | 3993 | 8909 | 18 432 | |
| SOAPdenovo | 935 | 2867 | 8089 | 18 227 | |
| PE | SSAKE | 16 384 | – | – | – |
| Euler-sr | 1638 | 7578 | – | – | |
| Velvet | 1331 | 5324 | 30 720 | – | |
| ABySS | 950 | 4505 | 9830 | 18 432 | |
| SOAPdenovo | 1638 | 5939 | 10 342 | 19 456 | |
Bench.Seq, benchmark sequence; SE, single-end reads assembly; PE, paired-end reads assembly. ‘–’ denotes the RAM of computer is not enough or runtime is too long (>10 days) to get assembly results.