Fig. 4: Estimated generation interval distribution in each transmission setting.

a Estimated mean generation interval (as shown in points, which is the pooled mean of point-estimated mean generation interval over 100 sample sets of each cluster’s index-case-to-case infection intervals in each setting) with 95% bootstrap confidence interval (as shown in error bars, which is the 2.5% to 97.5% quantile of estimated mean generation interval over 100\(\times\)100 bootstrap resampled data) in each transmission setting, horizontal dashed line indicate pooled mean generation interval of all clusters; b Estimated standard deviation of the generation interval (as shown in points, which is the pooled mean of point-estimated standard deviation of the generation interval over 100 sample sets of each cluster’s index-case-to-case infection intervals in each setting) with 95% bootstrap confidence interval (as shown in error bars, which is the 2.5% to 97.5% quantile of estimated standard deviation of the generation interval over 100\(\times\)100 bootstrap resampled data) in each transmission setting, horizontal dashed line indicate pooled standard deviation of all clusters; c, Probability density of inferred generation interval distribution based on central estimates in each transmission setting, density plotted by dashed line indicate inferred distribution based on pooled mean and standard deviation of all clusters. Colors in green, grey, orange, blue, teal, purple, pink and brown represent all clusters, households, office work, restaurants, manual labour work, retail & leisure, nosocomial, close-social indoor and care homes respectively.