Table 2 Data sets used for testing findNeighbour performance
Dataset | Sites called | Links less than SNP stored | Memory usage | Mean time to add one sample |
|---|---|---|---|---|
A: M. tuberculosis, n = 15,985 mapped to NC_000962 | 329,714 sites excluded | 20 | 23.5G | 2.23 s |
B: Neisseria gonorrhoea, n = 2455 mapped to NC_011035 | All sites included | 500 | 19.3G | 2.95 s |
C: Salmonella enterica, n = 5380 mapped to AM933172 | 51,897 sites excluded | 20 | 7.4G | 1.77 s |