Instructor Notes

Instructor notes

Read case data

Clean and validate

Aggregate and visulaize

Simple analysis

Access epidemiological delay distributions

Instructor Note

The objective of the assessment above is to assess the interpretation of a larger or shorter generation time.


Instructor Note

An interesting element is the method_assess nested entry, which refers to the methods used by the study authors to assess for bias while estimating the serial interval distribution.

R 

covid_serialint$method_assess

OUTPUT 

$censored
[1] TRUE

$right_truncated
[1] TRUE

$phase_bias_adjusted
[1] FALSE

We will explore these concepts following episodes!


Instructor Note

In the context of user interfaces and graphical user interfaces (GUIs), like the Distribution Zoo shiny app, a slider is a graphical control element that allows users to adjust a value by moving a handle along a track or bar. Conceptually, it provides a way to select a numeric value within a specified range by visually sliding or dragging a pointer (the handle) along a continuous axis.


Quantifying transmission

Instructor Note

This tutorial illustrates the usage of epinow() to estimate the time-varying reproduction number and infection times. Learners should understand the necessary inputs to the model and the limitations of the model output.


Instructor Note

Refer to the prior probability distribution and the posterior probability distribution.

In the “Expected change in daily cases” callout, by “the posterior probability that \(R_t < 1\)”, we refer specifically to the area under the posterior probability distribution curve.


Use delay distributions in analysis

Instructor Note

Access to the reference documentation (Help files) for these functions is accessible with the three double-colon notation: epiparameter:::

  • ?epiparameter:::density.epidist()
  • ?epiparameter:::cdf.epidist()
  • ?epiparameter:::quantile.epidist()
  • ?epiparameter:::generate.epidist()