Reconstructing contact network structure and cross-immunity patterns from multiple infection histories.

• Line 322: ‘Significance levels and correlation values appeared to be higher when tested for global network properties given by the shortest path matrix (bottom), which is consistent with the barcode similarity being a quantitative measure.’ Is this statement also only restricted to the results in the first three columns of Fig.2? Also, is there an intuitive reason why the significance levels are so low (even for 100% sampling) for the shortest path full-cross immunity case? • Line 325: ‘We found that the correlations were highly significant even at a network sampling rate of 10%’.

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