diff --git a/episodes/introduction.Rmd b/episodes/introduction.Rmd index 440a5f6e..d3b1a504 100644 --- a/episodes/introduction.Rmd +++ b/episodes/introduction.Rmd @@ -85,9 +85,9 @@ Not all primary cases have the same probability of generating a secondary case. ```{r} generation_time <- dist_spec( - mean = 3.6, + mean = 3.6, sd = 3.1, - max = 20, + max = 20, distribution = "lognormal" ) ``` @@ -158,30 +158,6 @@ Epiverse-TRACE's aim is to provide a software ecosystem for outbreak analytics. ![](fig/pkgs-hexlogos.png) -```{r, results='asis', echo = FALSE, eval=FALSE} -# eval = TRUE -# turn on if maintainers manage to -# adapt css from main page to varnish -# pkg_list <- c("readepi","cleanepi","linelist","epiparameter","episoap") - -# from https://github.com/epiverse-trace/epiverse-trace.github.io/blob/main/index.qmd - -pkg_path <- "https://raw.githubusercontent.com/epiverse-trace/epiverse-trace.github.io/main/_data/epiverse_pkgs.csv" -hexwall_path<- "https://raw.githubusercontent.com/epiverse-trace/epiverse-trace.github.io/main/_templates/hexwall_element.Rmd" - -file.path(pkg_path) |> - read.csv() |> - # dplyr::filter( - # magrittr::is_in(pkgname,pkg_list)) |> - as.list() |> - purrr::transpose() |> - purrr::map_chr(~ knitr::knit_expand( - file = hexwall_path, - pkgname = .x$pkgname, - description = .x$description)) |> - cat(sep = "\n") -``` - ## How can I start? Our plan for these tutorials is to introduce key solutions from packages in all the tasks before and after the _Quantify transmission_ task, plus the required theory concepts to interpret modelling outputs and make rigorous conclusions.