diff --git a/episodes/model-choices.Rmd b/episodes/model-choices.Rmd index ba8f3456..b33f6b17 100644 --- a/episodes/model-choices.Rmd +++ b/episodes/model-choices.Rmd @@ -374,7 +374,10 @@ output_samples <- Map( output_samples <- bind_rows(output_samples) # requires the tidyverse package -ggplot(output_samples[output_samples$compartment == "infectious", ], aes(time, value)) + +ggplot( + output_samples[output_samples$compartment == "infectious", ], + aes(time, value) +) + stat_summary(geom = "line", fun = mean) + stat_summary( geom = "ribbon", diff --git a/episodes/simulating-transmission.Rmd b/episodes/simulating-transmission.Rmd index 98f10a1d..1348de63 100644 --- a/episodes/simulating-transmission.Rmd +++ b/episodes/simulating-transmission.Rmd @@ -516,7 +516,10 @@ output_samples <- bind_rows(output_samples) 3. Calculate the mean and 95% quantiles of number of infectious individuals across each model simulation and visualise output ```{r plot, fig.width = 10} -ggplot(output_samples[output_samples$compartment == "infectious", ], aes(time, value)) + +ggplot( + output_samples[output_samples$compartment == "infectious", ], + aes(time, value) +) + stat_summary(geom = "line", fun = mean) + stat_summary( geom = "ribbon",