ciarajudge
/ epinow2-covid-rt-national.R
Last active
November 30, 2021 13:25
— forked from seabbs/epinow2-covid-rt-national.R
Example of using EpiNow2 to estimate the Rt of Covid-19 in last 3 months for a country in the ECDC dataset. See the documentation for more details and examples of producing estimates for subregional areas: https://epiforecasts.io/EpiNow2/
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| # packages | |
| # install.packages(c("data.table", "remotes", "EpiNow2")) | |
| # remotes::install_github("epiforecasts/covidregionaldata") | |
| library(data.table) | |
| library(EpiNow2) | |
| library(covidregionaldata) | |
| # target country (must be present in ECDC data) | |
| country <- "france" |
ciarajudge
/ epinow2-covid-rt-region.R
Created
November 30, 2021 13:22
— forked from seabbs/epinow2-covid-rt-region.R
Example of using EpiNow2 to estimate the Rt of Covid-19 in last 3 months for a region in a country supported in covidregionaldata. See the documentation for more details and examples: https://epiforecasts.io/EpiNow2/
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| # packages | |
| # install.packages(c("data.table", "remotes", "EpiNow2")) | |
| # remotes::install_github("epiforecasts/EpiNow2") | |
| # remotes::install_github("epiforecasts/covidregionaldata") | |
| library(data.table) | |
| library(EpiNow2) | |
| library(covidregionaldata) | |
| # target country (must be supported in covidregionaldata) | |
| country <- "uk" # harder to fit "india" |