add R0 howto

[avallecam]

compare methods on: how to quantify the basic reproductive number?

ingredients:

• linelist
• serial interval (from systematic review or contact data):

methods:

• use lm2R0_sample() from {epitrix}
  • ref: https://www.reconlearn.org/solutions/real-time-response-2.html
• use estimate_R() from {epiestim} assuming that R is constant in time
  • step in code: how to change from constant to time-varying? using fixed or seq of t_start
  • ref: https://www.reconlearn.org/solutions/real-time-response-2.html
  • ref: https://mrc-ide.github.io/EpiEstim/articles/full_EpiEstim_vignette.html#time-window-for-estimating-rt
• use {epicontacts} and {fitdistrplus} to get the mean of the offspring distribution
  • ref: https://community.appliedepi.org/t/estimating-the-degree-of-super-spreading-from-transmission-chain-data/103/2
  • ref: https://epiverse-trace.github.io/superspreading/articles/estimate_individual_level_transmission.html

[avallecam]

use incidence2 + fitting linear model + using the growth rate to estimate the R0 relationship as in https://epiverse-trace.github.io/howto/analyses/forecast_cases/projections_incidence_epitrix.html