Table 2 Experimental results for E. coli ONT data set D1-O
From: A comprehensive evaluation of long read error correction methods
Method | # Reads | # Bases | # Aligned | # Aligned | Maximum | N50 | Genome | Alignment | CPU time | Wall time | Memory |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Â | Â | (Mbp) | reads | bases (Mbp) | length (bp) | (bp) | fraction (%) | identity (%) | (hh:mm:ss) | (hh:mm:ss) | usage (GB) |
Original | 163747 | 1481.5 | 163386 | 1454.4 | 131969 | 14895 | 100.000 | 81.3559 | - | - | - |
Non-hybrid methods | |||||||||||
FLAS | 138472 | 1401.3 | 138458 | 1392.9 | 130497 | 14748 | 99.997 | 93.0176 | 20:27:50 | 01:56:52 | 8.0 |
LoRMA | 595072 | 1433.5 | 595051 | 1432.5 | 31743 | 3333 | 99.924 | 96.6525 | 182:14:17 | 07:30:30 | 77.8 |
Canu | 19335 | 226.2 | 19326 | 225.0 | 133168 | 38034 | 99.953 | 94.5969 | 17:14:11 | 00:50:04 | 6.7 |
Short-read-assembly-based methods | |||||||||||
HG-CoLoR | 159856 | 1540.7 | 159854 | 1518.1 | 138002 | 15744 | 100.000 | 98.1308 | 231:20:30 | 44:41:19 | 13.8 |
FMLRC | 163749 | 1555.4 | 163593 | 1546.3 | 137960 | 15687 | 100.000 | 99.6423 | 05:50:54 | 00:32:27 | 3.3 |
HALC | - | - | - | - | - | - | - | - | - | >72:00:00 | - |
Jabba | 162970 | 1287.0 | 162970 | 1286.1 | 93923 | 12795 | 99.515 | 99.9557 | 02:51:05 | 00:10:33 | 37.1 |
LoRDEC | 163838 | 1555.5 | 163722 | 1530.1 | 137887 | 15664 | 100.000 | 98.9920 | 32:35:27 | 01:12:37 | 2.2 |
ECTools | 116868 | 1431.7 | 116868 | 1428.2 | 137863 | 16354 | 100.000 | 99.8116 | 19:44:40 | 00:46:51 | 8.1 |
Short-read-alignment-based methods | |||||||||||
Hercules | - | - | - | - | - | - | - | - | - | >72:00:00 | - |
CoLoRMap | 164072 | 1518.3 | 163782 | 1495.7 | 134302 | 15180 | 100.000 | 89.2049 | 32:55:26 | 04:01:18 | 35.5 |
Nanocorr | - | - | - | - | - | - | - | - | - | >72:00:00 | - |
proovread | 163815 | 1514.0 | 163481 | 1489.1 | 135798 | 15222 | 100.000 | 89.2071 | 104:33:09 | 18:35:46 | 47.8 |
LSC | - | - | - | - | - | - | - | - | - | >72:00:00 | - |