Table 6.
Comparison of meta-methods to NextGenMap and BWA
| (a) Percent of one million 250 bp reads mapped correctly to the human chromosome one genome. Shown in parenthesis are incorrectly mapped reads and remaining are rejected | |||
|---|---|---|---|
| Div | BWA | NextGenMap | NextGenMap+MaxSSmap_fast |
| Reads without gaps | |||
| .1 | 96(3) | 99 (1) | 99 (1) |
| .2 | 33 (6) | 86 (6) | 94 (6.2) |
| .3 | 0.8 (6) | 37 (9) | 88 (10.5) |
| Reads with gaps | |||
| .1 | 89 (3) | 96 (2) | 98 (2) |
| .2 | 28 (5) | 79 (6) | 92 (6.5) |
| .3 | 0.7 (0.5) | 30 (7) | 80 (9.4) |
| (b) Time in minutes to map one million 250 bp reads to the human chromosome one genome | |||
| Div | BWA | NextGenMap | NextGenMap+MaxSSmap_fast |
| Reads without gaps | |||
| .1 | 1.6 | 7.1 | 10.3 |
| .2 | 0.8 | 44 | 626 |
| .3 | 0.6 | 65 | 3992 |
| Reads with gaps | |||
| .1 | 1.5 | 9.8 | 176 |
| .2 | 0.7 | 51 | 1126 |
| .3 | 0.6 | 66 | 4611 |
See Table 3 caption for details about reads.