diff --git a/episodes/quantify-transmissibility.Rmd b/episodes/quantify-transmissibility.Rmd index 13c3d662..e931c460 100644 --- a/episodes/quantify-transmissibility.Rmd +++ b/episodes/quantify-transmissibility.Rmd @@ -157,7 +157,7 @@ The number of delays and type of delay is a flexible input that depends on the d The distribution of incubation period can usually be obtained from the literature. The package `{epiparameter}` contains a library of epidemiological parameters for different diseases obtained from the literature. -We specify a (fixed) gamma distribution with mean $\mu = 4$ and standard deviation $\sigma^2= 2$ (shape = $4$, scale = $1$) using the function `dist_spec()` as follows: +We specify a (fixed) gamma distribution with mean $\mu = 4$ and standard deviation $\sigma= 2$ (shape = $4$, scale = $1$) using the function `dist_spec()` as follows: ```{r} incubation_period_fixed <- dist_spec( @@ -184,15 +184,15 @@ For all types of delay, we will need to use distributions for positive values on #### Including distribution uncertainty -To specify a **variable** distribution, we include uncertainty around the mean $\mu$ and standard deviation $\sigma^2$ of our gamma distribution. If our incubation period distribution has a mean $\mu$ and standard deviation $\sigma^2$, then we assume the mean ($\mu$) follows a Normal distribution with standard deviation $\sigma_{\mu}^2$: +To specify a **variable** distribution, we include uncertainty around the mean $\mu$ and standard deviation $\sigma$ of our gamma distribution. If our incubation period distribution has a mean $\mu$ and standard deviation $\sigma$, then we assume the mean ($\mu$) follows a Normal distribution with standard deviation $\sigma_{\mu}$: $$\mbox{Normal}(\mu,\sigma_{\mu}^2)$$ -and a standard deviation ($\sigma^2$) follows a Normal distribution with standard deviation $\sigma_{\sigma^2}^2$: +and a standard deviation ($\sigma$) follows a Normal distribution with standard deviation $\sigma_{\sigma}$: -$$\mbox{Normal}(\sigma^2,\sigma_{\sigma^2}^2).$$ +$$\mbox{Normal}(\sigma,\sigma_{\sigma}^2).$$ -We specify this using `dist_spec` with the additional arguments `mean_sd` ($\sigma_{\mu}^2$) and `sd_sd` ($\sigma_{\sigma^2}^2$). +We specify this using `dist_spec` with the additional arguments `mean_sd` ($\sigma_{\mu}$) and `sd_sd` ($\sigma_{\sigma}$). ```{r} incubation_period_variable <- dist_spec(