differences for PR #26

config.yaml

@@ -0,0 +1,111 @@
+---
+#------------------------------------------------------------
+# Values for this lesson.
+#------------------------------------------------------------
+
+# Which carpentry is this (swc, dc, lc, or cp)?
+# swc: Software Carpentry
+# dc: Data Carpentry
+# lc: Library Carpentry
+# cp: Carpentries (to use for instructor training for instance)
+# incubator: The Carpentries Incubator
+carpentry: "swc"
+
+# Overall title for pages.
+title: "R for AMR Epidemiology"
+
+# Date the lesson was created (YYYY-MM-DD, this is empty by default)
+created: "2015-04-18"
+
+# Comma-separated list of keywords for the lesson
+keywords: "software, data, lesson, The Carpentries"
+
+# Life cycle stage of the lesson
+# possible values: pre-alpha, alpha, beta, stable
+life_cycle: "stable"
+
+# License of the lesson materials (recommended CC-BY 4.0)
+license: "CC-BY 4.0"
+
+# Link to the source repository for this lesson
+source: "https://github.com/UCL-ARC/r-amr-epidemiology"
+
+# Default branch of your lesson
+branch: "main"
+
+# Who to contact if there are any issues
+contact: "[email protected]"
+
+# Navigation ------------------------------------------------
+#
+# Use the following menu items to specify the order of
+# individual pages in each dropdown section. Leave blank to
+# include all pages in the folder.
+#
+# Example -------------
+#
+# episodes:
+# - introduction.md
+# - first-steps.md
+#
+# learners:
+# - setup.md
+#
+# instructors:
+# - instructor-notes.md
+#
+# profiles:
+# - one-learner.md
+# - another-learner.md
+
+# Order of episodes in your lesson
+episodes:
+  - 01-rstudio-intro.Rmd
+  - 02-project-intro.Rmd
+  - 03-seeking-help.Rmd
+  - 04-data-structures-part1.Rmd
+  - 05-data-structures-part2.Rmd
+  - 06-filedir.md
+  - 07-basics.md
+  - 08-setup.md
+  - 09-create.md
+  - 10-changes.md
+  - 11-history.md
+  - 12-ignore.md
+  - 13-supplemental-rstudio.md
+  - 14-data-subsetting.Rmd
+  # - 07-control-flow.Rmd
+  - 15-plot-ggplot2.Rmd
+  # - 09-vectorization.Rmd
+  # - 10-functions.Rmd
+  - 16-writing-data.Rmd
+  - 17-github.md
+  - 18-collab.md
+  - 19-conflict.md
+  - 20-dplyr.Rmd
+  - 21-tidyr.Rmd
+  # basic stats
+  - 22-quarto.md
+  - 23-statistics.Rmd
+  - 24-linear-reg-broom.Rmd
+  - 25-linreg-diagnostics.Rmd
+  # 26-r-sql
+  - 27-wrap-up.Rmd
+
+# Information for Learners
+learners:
+
+# Information for Instructors
+instructors:
+
+# Learner Profiles
+profiles:
+
+# Customisation ---------------------------------------------
+#
+# This space below is where custom yaml items (e.g. pinning
+# sandpaper and varnish versions) should live
+
+url: "https://UCL-ARC.github.io/R-AMR-Epidemiology"
+analytics: carpentries
+lang: en

index.md

@@ -2,21 +2,16 @@
 site: sandpaper::sandpaper_site
 ---
 
-*an introduction to R for non-programmers using gapminder data*
+*This material was commisioned by the EPSRC Digital Health Hub for AMR, for delivery to the UK HSA w/c 16th September 2024.*
 
-The goal of this lesson is to teach novice programmers to write modular code
-and best practices for using R for data analysis. R is commonly used in many
-scientific disciplines for statistical analysis and its array of third-party
-packages. We find that many scientists who come to Software Carpentry workshops
-use R and want to learn more. The emphasis of these materials is to give
-attendees a strong foundation in the fundamentals of R, and to teach best
-practices for scientific computing: breaking down analyses into modular units,
-task automation, and encapsulation.
+An introduction to R for non-programmers using the Gapminder data. In addition, this lesson makes use of open data from the Centre for Consumer Research Data and bespoke synthetic data provided by UKHSA.
 
-Note that this workshop will focus on teaching the fundamentals of the
-programming language R, and will not teach statistical analysis.
+The goal of this lesson is to teach novice programmers to write modular code and best practices for using R for data analysis. R is commonly used in many scientific disciplines for statistical analysis and its array of third-party packages. We find that many scientists who come to Software Carpentry workshops use R and want to learn more. The emphasis of these materials is to give attendees a strong foundation in the fundamentals of R, and to teach best practices for scientific computing: breaking down analyses into modular units, task automation, and encapsulation.
 
-The lesson contains more material than can be taught in a day.  The [instructor notes page](instructors/instructor-notes.md) has some suggested lesson plans suitable for a one or half day workshop.
+This lesson has been expanded to incorporate additional content on the use of Git for Version Control, navigating files and directories in a terminal, creation and validation of regression models and SQL.
+
+This content has been developed to form a five day course.  
+The [instructor notes page](instructors/instructor-notes.md) has some suggested lesson plans suitable for shorter workshops.
 
 A variety of third party packages are used throughout this workshop. These
 are not necessarily the best, nor are they comprehensive, but they are

md5sum.txt

@@ -2,7 +2,7 @@
 "CODE_OF_CONDUCT.md" "c93c83c630db2fe2462240bf72552548" "site/built/CODE_OF_CONDUCT.md" "2024-09-01"
 "LICENSE.md" "b24ebbb41b14ca25cf6b8216dda83e5f" "site/built/LICENSE.md" "2024-09-01"
 "config.yaml" "f5aec482d77f4f45989f7ca67bde084e" "site/built/config.yaml" "2024-09-01"
-"index.md" "86c8fb559b13d1695d55b52dd6cbf574" "site/built/index.md" "2024-09-01"
+"index.md" "55ccb4b98f8ab8f877f208d10456d6b9" "site/built/index.md" "2024-09-01"
 "episodes/01-rstudio-intro.Rmd" "04f6b758558750cef962768d78dd63b0" "site/built/01-rstudio-intro.md" "2024-09-01"
 "episodes/02-project-intro.Rmd" "cd60cc3116d4f6be92f03f5cc51bcc3b" "site/built/02-project-intro.md" "2024-09-01"
 "episodes/03-seeking-help.Rmd" "d24c310b8f36930e70379458f3c93461" "site/built/03-seeking-help.md" "2024-09-01"