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Table 1 Summary statistics for nestedness and modularity analysis

From: Analysis of whole genome sequencing for the Escherichia coli O157:H7 typing phages

   Modularity Nestedness
Measure   QB NODF NTC BR
Measure score x 0.1575 27.9199 30.2532 130
Null model 1 N 1000 1300 1300 1300
  p-value <1/N <1/N <1/N <1/N
  z-score 4.8602 -7.5382 -11.9831 -11.7632
Null model 2 N 1000 1000 1000 1000
  p-value <1/N <1/N <1/N <1/N
  z-score 5.7693 -4.6740 -6.7842 -7.1554
  1. Barber’s modularity (Qb) and three nestedness measures (NODF, NTC and BR) were calculated. Two null models were used to generate ensembles of networks (of size N) to evaluate the strength of the modularity and nestedness observed in the classified Escherichia coli O157:H7 phage-bacteria infection network. This is done by reporting the significance (as a p-value) and effect size (as a z-score) of the phage-bacteria infection network relative to the networks found in each null model ensemble. Note that, due to differences in how these measures are calculated, for modularity a positive z-score indicates that modularity is greater in the observed network than the mean average of the ensemble; whilst in the nestedness analysis a negative z-score indicates the observed network is more nested than the mean nestedness found within the null ensemble. The classified Escherichia coli O157:H7 phage-bacteria infection network was found to be both more nested and more modular than any of the networks generated by the tested null models.