Table 4 NGA50 of respectively contigs (top) and scaffolds (bottom) assembled by SPAdes before and after error correction
From: Evaluation of the impact of Illumina error correction tools on de novo genome assembly
Tools | D1 | D2 | D3 | D4 | D5 | D6 | D7 | D8 |
|---|---|---|---|---|---|---|---|---|
Contig NGA50 | ||||||||
 Uncorrected | 397 392 | 92 570 | 119 253 | 231 409 | 264 881 | 8 559 | 6 429 | 50 484 |
 ACE | 397 392 = | 92 570 = | 125 608 ↑ | 231 409 = | 264 881 = | 8 771 ↑ | 3 143 \(\downdownarrows \) | 28 679 \(\downdownarrows \) |
 BayesHammer | 397 392 = | 92 344 ↓ | 132 564 \(\upuparrows \) | 231 409 = | 264 881 = | 9 075 ↑ | 6 540 ↑ | 53 534 ↑ |
 BFC | 397 392 = | 92 570 = | 132 876 \(\upuparrows \) | 231 409 = | 264 881 = | 9 375 ↑ | 6 389 ↓ | 49 185 ↓ |
 BLESS 2 | 397 392 = | 92 570 = | 119 265 ↑ | 231 409 = | 264 881 = | 7 975 ↓ | 3 047 \(\downdownarrows \) | 23 814 \(\downdownarrows \) |
 Blue | 397 392 = | 92 708 ↑ | 132 876 \(\upuparrows \) | 231 409 = | 289 353 ↑ | 7 628 \(\downdownarrows \) | 6 191 ↓ | 50 486 ↑ |
 Fiona | 397 392 = | 92 611 ↑ | 119 253 = | 231 409 = | 264 881 = | 9 224 ↑ | 5 346 \(\downdownarrows \) | 45 472 ↓ |
 Karect | 397 392 = | 92 611 ↑ | 132 876 \(\upuparrows \) | 231 409 = | 264 881 = | 9 865 \(\upuparrows \) | 6 392 ↓ | 54 132 ↑ |
 Lighter | 397 392 = | 92 570 = | 132 564 \(\upuparrows \) | 231 409 = | 289 353 ↑ | 9 609 \(\upuparrows \) | 6 423 ↓ | 50 440 ↓ |
 Musket | 397 392 = | 92 566 ↓ | 132 876 \(\upuparrows \) | 231 409 = | 264 881 = | 9 293 ↑ | 6 170 ↓ | 46 377 ↓ |
 RACER | 397 392 = | 92 523 ↓ | 112 393 ↓ | 231 409 = | 264 881 = | 7 336 \(\downdownarrows \) | 3 244 \(\downdownarrows \) | 21 538 \(\downdownarrows \) |
 SGA-EC | 397 392 = | 92 344 ↓ | 119 255 ↑ | 231 409 = | 264 881 = | 9 296 ↑ | 6 435 ↑ | 52 105 ↑ |
 Trowel | 397 392 = | 92 344 ↓ | 119 335 ↑ | 231 409 = | 264 881 = | 7 808 ↓ | 6 389 ↓ | 48 357 ↓ |
Scaffold NGA50 | ||||||||
 Uncorrected | 397 392 | 97 353 | 132 876 | 231 409 | 289 353 | 8 829 | 6 472 | 60 554 |
 ACE | 397 392 = | 97 353 = | 133 713 ↑ | 231 409 = | 264 881 ↓ | 9 190 ↑ | 3 158 \(\downdownarrows \) | 35 392 \(\downdownarrows \) |
 BayesHammer | 397 392 = | 97 353 = | 133 309 ↑ | 231 409 = | 264 881 ↓ | 9 443 ↑ | 6 576 ↑ | 58 570 ↓ |
 BFC | 397 392 = | 97 353 = | 133 088 ↑ | 231 409 = | 264 881 ↓ | 9 664 ↑ | 6 419 ↓ | 59 613 ↓ |
 BLESS 2 | 397 392 = | 97 353 = | 132 876 = | 231 409 = | 264 881 ↓ | 8 441 ↓ | 3 073 \(\downdownarrows \) | 35 638 \(\downdownarrows \) |
 Blue | 397 392 = | 97 288 ↓ | 133 309 ↑ | 231 409 = | 289 353 = | 7 841 \(\downdownarrows \) | 6 183 ↓ | 61 289 ↑ |
 Fiona | 397 392 = | 97 353 = | 132 876 = | 231 409 = | 264 881 ↓ | 9 491 ↑ | 5 385 \(\downdownarrows \) | 54 188 \(\downdownarrows \) |
 Karect | 397 392 = | 97 353 = | 133 058 ↑ | 231 409 = | 264 881 ↓ | 10 302 \(\upuparrows \) | 6 446 ↓ | 62 304 ↑ |
 Lighter | 397 392 = | 97 353 = | 133 309 ↑ | 231 409 = | 289 353 = | 9 955 \(\upuparrows \) | 6 468 ↓ | 59 697 ↓ |
 Musket | 397 392 = | 97 353 = | 133 088 ↑ | 231 409 = | 264 881 ↓ | 9 502 ↑ | 6 219 ↓ | 55 842 ↓ |
 RACER | 397 392 = | 97 353 = | 132 876 = | 231 409 = | 264 881 ↓ | 7 603 \(\downdownarrows \) | 3 266 \(\downdownarrows \) | 23 783 \(\downdownarrows \) |
 SGA-EC | 397 392 = | 97 353 = | 132 876 = | 231 409 = | 264 881 ↓ | 9 640 ↑ | 6 483 ↑ | 60 636 ↑ |
 Trowel | 397 392 = | 97 353 = | 132 876 = | 231 409 = | 264 881 ↓ | 8 107 ↓ | 6 435 ↓ | 57 078 ↓ |