differences for PR #64

config.yaml

@@ -11,7 +11,7 @@
 carpentry: 'incubator'
 
 # Overall title for pages.
-title: 'Accessing and using delays to Quantify transmission'
+title: 'Accessing and using delays to quantify transmission'
 
 # Date the lesson was created (YYYY-MM-DD, this is empty by default)
 created:

md5sum.txt

@@ -1,14 +1,14 @@
 "file" "checksum" "built" "date"
 "CODE_OF_CONDUCT.md" "549f00b0992a7743c2bc16ea6ce3db57" "site/built/CODE_OF_CONDUCT.md" "2024-03-28"
 "LICENSE.md" "14377518ee654005a18cf28549eb30e3" "site/built/LICENSE.md" "2024-03-28"
-"config.yaml" "60bcd408d5c52c87dcde88475d3f1748" "site/built/config.yaml" "2024-04-08"
+"config.yaml" "4dea249856f65ec77bd9087f7741cea2" "site/built/config.yaml" "2024-04-18"
 "index.md" "32bc80d6f4816435cc0e01540cb2a513" "site/built/index.md" "2024-03-28"
 "links.md" "fe82d0a436c46f4b07b82684ed2cceaf" "site/built/links.md" "2024-03-28"
 "episodes/delays-reuse.Rmd" "99c8549fdb699dea71a19f6022ddbeff" "site/built/delays-reuse.md" "2024-04-08"
 "episodes/quantify-transmissibility.Rmd" "87679a9120c62fde0f6a647d80b72c46" "site/built/quantify-transmissibility.md" "2024-04-08"
 "episodes/delays-functions.Rmd" "53216ab4c9d20d5e157bf4a06429f7a9" "site/built/delays-functions.md" "2024-04-08"
 "instructors/instructor-notes.md" "ca3834a1b0f9e70c4702aa7a367a6bb5" "site/built/instructor-notes.md" "2024-03-28"
 "learners/reference.md" "e030f09656b2233a643e7aa2727e4fab" "site/built/reference.md" "2024-03-28"
-"learners/setup.md" "64f432f4e2d4e1986341fd106f85b23d" "site/built/setup.md" "2024-04-08"
+"learners/setup.md" "3e64f735ad0024b64b6f263d42f222f6" "site/built/setup.md" "2024-04-18"
 "profiles/learner-profiles.md" "31b503c4b5bd1f0960ada730eca4a25e" "site/built/learner-profiles.md" "2024-03-28"
 "renv/profiles/lesson-requirements/renv.lock" "66cc4d60718393932c53d9e114e5af9f" "site/built/renv.lock" "2024-03-28"

setup.md

@@ -18,8 +18,8 @@ Each task has its tutorial website. Each tutorial website consists of a set of e
 
 | [Early task tutorials ➠](https://epiverse-trace.github.io/tutorials-early/) | [Middle task tutorials ➠](https://epiverse-trace.github.io/tutorials-middle) | [Late task tutorials ➠](https://epiverse-trace.github.io/tutorials-late/) |
 |---|---|---|
-| Reading and cleaning case data | Real-time analysis and forecasting | Scenario modelling |
-| Read and clean linelist data, Access delay distributions, and Estimate transmission metrics. | Forecast cases, Estimate severity, and Estimate superspreading. | Simulate disease spread and Investigate interventions. |
+| Reading, cleaning, and validating case data | Real-time analysis and forecasting | Scenario modelling |
+| Access delay distributions, and estimate transmission metrics. | Forecast cases, estimate severity, and estimate superspreading. | Simulate disease spread and investigate impact of interventions. |
 
 Each episode contains:
 
@@ -33,17 +33,18 @@ Also check out the [glossary](../reference.md) for any terms you may be unfamili
 
 ### Epiverse-TRACE R packages
 
-Our strategy is to gradually incorporate specialised **R packages** into our traditional analysis pipeline. These packages should fill the gaps in these epidemiology-specific tasks in response to outbreaks.
+Our strategy is to gradually incorporate specialised **R packages** into traditional analysis pipeline. These packages should fill the gaps in these epidemiology-specific tasks in response to outbreaks.
 
-![In **R**, the fundamental unit of shareable code is the **package**. A package bundles together code, data, documentation, and tests and is easy to share with others ([Wickham and Bryan, 2023](https://r-pkgs.org/introduction.html))](episodes/fig/pkgs-hexlogos-2.png)
+![In **R**, the fundamental unit of shareable code is the **package**. A package bundles together code, data, documentation, and tests and is easy to share with others ([Wickham and Bryan, 2023](https://r-pkgs.org/introduction.html))](episodes/fig/pkgs-hexlogos-2.png).
 
 :::::::::::::::::::::::::::: prereq
 
 This course assumes intermediate R knowledge. This workshop is for you if:
 
-- You can use the magrittr pipe `%>%` and/or native pipe `|>`
-- You are familiar with functions from `{dplyr}`, `{tidyr}`, and `{ggplot2}`
 - You can read data into R, transform and reshape data, and make a wide variety of graphs
+- You are familiar with functions from `{dplyr}`, `{tidyr}`, and `{ggplot2}`
+- You can use the magrittr pipe `%>%` and/or native pipe `|>`.
+
 
 We expect participants to have some exposure to basic Statistical, Mathematical and Epidemic theory concepts, but NOT intermediate or expert familiarity with modeling.
 
@@ -74,7 +75,7 @@ This tutorial requires **R version 4.0.0 or later**.
 
 To check if your R version is up to date:
 
-- In RStudio your R version will be printed in [the console window](https://docs.posit.co/ide/user/ide/guide/code/console.html). Or run `sessionInfo()` there.
+- In RStudio your R version will be printed in [the console window](https://docs.posit.co/ide/user/ide/guide/code/console.html). Or run `sessionInfo()`.
 
 - **To update R**, download and install the latest version from the [R project website](https://cran.rstudio.com/) for your operating system.
 
@@ -117,7 +118,8 @@ pak::pak(new_packages)
 
 These installation steps could ask you `? Do you want to continue (Y/n)` write `Y` and press <kbd>Enter</kbd>.
 
-You should update **all of the packages** required for the tutorial, even if you installed them relatively recently. New versions bring improvements and important bug fixes.
+You should update **all of the packages** required for the tutorial, even if you installed them relatively recently. 
+New versions bring improvements and fix  bugs.
 
 When the installation has finished, you can try to load the packages by pasting the following code into the console: