From: NextDenovo: an efficient error correction and accurate assembly tool for noisy long reads
Sample | Software | Assembly size (Mb) | NG50 (Mb)/LG50 | NGA50 (Mb)/LGA50 | No. of misassemblies | QV | Gene completeness (%) | Wall clock time (hour) |
---|---|---|---|---|---|---|---|---|
A. thaliana (452X) | NextDenovo | 128.37 | 15.18/5 | 15.18/5 | 19 | 33.25 | 99.20 | 6.83 |
Necat | 124.55 | 15.01/5 | 14.98/5 | 44 | 31.93 | 99.20 | 6.82 | |
Canu | 138.29 | 9.31/5 | 9.31/6 | 430 | 25.09 | 99.20 | 312.13 | |
Flye | 121.16 | 14.63/5 | 14.63/5 | 17 | 35.65 | 99.20 | 12.00 | |
Wtdbg2 | 157.75 | 2.68/14 | 1.87/19 | 326 | 19.78 | 94.80 | 2.10 | |
D. melanogaster (62X) | NextDenovo | 134.34 | 18.11/4 | 15.68/4 | 196 | 30.99 | 98.70 | 1.07 |
Necat | 144.01 | 19.55/4 | 15.90/4 | 1,200 | 25.86 | 98.70 | 2.45 | |
Canu | 154.94 | 8.58/6 | 5.68/7 | 1,738 | 23.53 | 98.80 | 45.55 | |
Flye | 135.82 | 18.89/4 | 17.32/4 | 335 | 29.97 | 98.80 | 1.58 | |
Wtdbg2 | 137.49 | 6.32/7 | 5.33/9 | 919 | 26.07 | 97.20 | 0.57 | |
O. sativa (230X) | NextDenovo | 392.56 | 30.55/6 | 18.00/9 | 81 | 26.45 | 98.60 | 13.05 |
Necat | 394.40 | 25.44/7 | 17.86/9 | 183 | 25.83 | 98.70 | 10.85 | |
Canu | 395.23 | 11.57/13 | 9.41/15 | 204 | 24.94 | 98.70 | 728.78 | |
Flye | 403.45 | 11.10/14 | 7.84/18 | 115 | 24.76 | 98.70 | 25.02 | |
Wtdbg2 | 488.33 | 0.96/88 | 0.81/95 | 553 | 17.90 | 94.10 | 5.85 | |
Z. mays (51X) | NextDenovo | 2,118.82 | 44.44/17 | 37.90/21 | 700 | 20.74 | 98.20 | 75.90 |
Necat | 2,171.54 | 22.76/32 | 17.71/38 | 3,307 | 20.41 | 98.20 | 87.87 | |
Canu | 2,240.87 | 0.65/950 | 0.62/995 | 6,284 | 19.14 | 98.10 | 1,741.77 | |
Flye | 2,122.73 | 2.87/222 | 2.59/242 | 863 | 20.63 | 98.20 | - | |
Wtdbg2 | 4,068.86 | 0.07/11298 | 0.05/13848 | 22,258 | 14.07 | 97.00 | - |