Table 6. Timing and memory usage to align Illumina and PacBio reads to human reference.
| Illumina reads to Human reference | ||||||
| build index | align | result | ||||
| time (min) | memory (GB) | time (min) | memory (GB) | aligned bases (Gbp) | aligned reads | |
| bwa-mem | 96 | 4.5 | 197 | 11.2 | 38.46 | 263155221 |
| bowtie2 | 51 | 18.6 | 163 | 4.0 | 38.00 | 258560571 |
| nucmer4 | 36 | 45.1 | 146 | 45.5 | 36.71 | 250689492 |
| PacBio reads to Human reference | ||||||
| build index | align | result | ||||
| time (min) | memory (GB) | time (min) | memory (GB) | aligned bases (Gbp) | aligned reads | |
| blasr | 40 | 29.4 | 1680 | 47.9 | 24.41 | 3836927 |
| bwa-mem | 96 | 4.5 | 1473 | 7.7 | 25.86 | 3820163 |
| nucmer4 | 36 | 45.1 | 850 | 50.1 | 23.02 | 3784039 |