Please can you tell me numbers of pairs for your serial interval analysis

[miriamcasey]

Dear Authors,

Re: Numbers of pairs used for serial interval estimation.

Many thanks for your great paper and code. I have searched in the paper and supplementary material to find the numbers of pairs you used for your analysis but cannot find them. I know I can run all of you code but really just want to know this one simple thing for a literature review and would rather not run all of the code.

Please can you tell me:
How many pairs used for your serial interval estimates that were (1) certain and (2) not certain but inferred from your algorithm?

I would be immensely grateful if this is possible. It would be so helpful to me and also you stated on your reporting summary in Nature that "The exact sample size (n) for each experimental group/condition, given as a discrete number and unit of measurement."

Thanks and kind regards,

Miriam

[miriamcasey]

P.S. Please would it be possible to report the shape and scale or rate parameters for the gamma distributions that you generated for serial interval? Or even standard deviation? (Ideally with 95% confidence intervals)?

[miriamcasey]

Dear Authors,

I have now run your code to get the parameters I requested above- thanks for sharing your code.

I think you have 41 pairs form 80 cases for SI calculation?

You reported mean SI (overall) of 7.2 days (95% CI 5.9, 9.6) in you paper.

I got a slightly different answer from your code:

mean(central_SI$mean)
[1] 7.13405
quantile(confidence_interval$mean, c(.025, .975))
2.5% 97.5%
6.016015 9.507844

Is this difference expected due to variation between runs?

All the best,

Miriam