Table 1.
Runtimes obtained on one CPU and maximum memory consumption in the analyses of simulated outbreaks
| S. pneumoniae (n = 12) | M. tuberculosis (n = 30) | |||
|---|---|---|---|---|
| Runtime (min) | Memory (MB) | Runtime (min) | Memory (MB) | |
| BactSNP | 59.6 | 1955 | 330.1 | 2059 |
| Snippy | 20.1 | 338 | 90.9 | 1434 |
| BWA + BCFtools | 19.8 | 323 | 77.4 | 656 |
| SKA1 align | 2.3 | 424 | 20.1 | 865 |
| SKA2 align | 1.0 | 443 | 5.5 | 893 |
-
Values represent averages over 20 replicates. (n) Number of samples per outbreak. The lowest values are highlighted in bold.
