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Table 2 Data sets used for testing findNeighbour performance

From: BugMat and FindNeighbour: command line and server applications for investigating bacterial relatedness

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
  1. Data sets studied and FindNeighbour2 performance
  2. The data sets studied, which can be downloaded at https://ora.ox.ac.uk/objects/uuid:82ce6500-fa71-496a-8ba5-ba822b6cbb50 are described. Also shown are performance characteristics of Findneighbour2 operating on them using the hardware in Additional file 2