Classify vignettes on the website (Open-Systems-Pharmacology#336)

Closes Open-Systems-Pharmacology#178

_pkgdown.yml

@@ -1,30 +1,23 @@
 url: https://www.open-systems-pharmacology.org/TLF-Library/
 
-# uncomment to turn on dark mode
 template:
   bootstrap: 5
-  # bootswatch: cyborg
-  # theme: arrow-dark
-  # bslib:
-  #   primary: "#0054AD"
-  #   border-radius: 0.5rem
-  #   btn-border-radius: 0.25rem
 
 development:
   mode: devel
 
 reference:
 - title: "Atom Plots"
   desc: "Functions for creating base plots"
-  contents: 
+  contents:
   - has_concept("atom plots")
 - title: "Molecule Plots"
   desc: "Functions for creating advanced plots"
-  contents: 
+  contents:
   - has_concept("molecule plots")
 - title: "Updating Plots"
   desc: "Functions for updating plot properties"
-  contents: 
+  contents:
   - starts_with("setBackground")
   - starts_with("setCaption")
   - starts_with("setLegend")
@@ -36,20 +29,20 @@ reference:
   - starts_with("update")
 - title: "PlotConfiguration Classes"
   desc: "Classes defining plot properties"
-  contents: 
+  contents:
   - has_concept("PlotConfiguration classes")
 - title: "DataMapping Classes"
   desc: "Classes defining what data to plot"
-  contents: 
+  contents:
   - has_concept("DataMapping classes")
   - matches("getLinesFromFoldDistance")
 - title: "Enum Helpers"
   desc: "Enums listing available values for specific properties"
-  contents: 
+  contents:
   - has_concept("enum helpers")
 - title: "Shiny Apps"
   desc: "Shiny applications"
-  contents: 
+  contents:
   - has_concept("shiny apps")
 - title: "Themes"
   desc: "Functions and classes defining default plot properties."
@@ -61,3 +54,22 @@ reference:
   desc: "Functions defining default package settings."
   contents:
   - starts_with("setDefault")
+
+articles:
+
+  - title: Primary plots
+    contents:
+    - atom-plots
+    - box-whisker-vignette
+    - histogram
+    - pk-ratio-vignette
+    - plot-time-profile
+
+  - title: Plot configuration
+    contents:
+    - plot-configuration
+
+  - title: Shiny apps
+    contents:
+    - plot-maker
+    - theme-maker