Vignette updateS

saketkc · Jan 20, 2024 · 68e5510 · 68e5510
1 parent 92163f5
commit 68e5510
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Showing 99 changed files with 246 additions and 224 deletions.
diff --git a/R/visualization.R b/R/visualization.R
@@ -257,7 +257,7 @@ PlotVariantPrevalenceAnimated <- function(df, title = NULL, caption = "**Source:
     geom_line() +
     scale_x_yearweek(date_breaks = date_breaks, date_labels = "%d %b %Y", guide = guide_axis(angle = 90)) +
     scale_y_continuous(labels = label_number(accuracy = NULL, scale_cut = cut_short_scale())) + # , trans = trans_y) +
-    #scale_y_continuous(labels = label_number(accuracy = 1, scale_cut = cut_short_scale()), trans = trans_y) +
+    # scale_y_continuous(labels = label_number(accuracy = 1, scale_cut = cut_short_scale()), trans = trans_y) +
     geom_label(hjust = 0, aes(label = variant), nudge_x = 10, show.legend = FALSE) +
     geom_point() +
     coord_cartesian(ylim = c(0, NA), clip = "off") +

diff --git a/_pkgdown.yml b/_pkgdown.yml
@@ -20,20 +20,20 @@ navbar:
       href: articles/Introduction.html
     - text: "Projected varaint-wise cases"
       menu:
-        - text: "Animated prevalence in Germany"
-          href: articles/VariantAnimation-Germany.html
+        - text: "Animated prevalence in Australia"
+          href: articles/VariantAnimation-Australia.html
         - text: "Animated prevalence in India"
           href: articles/VariantAnimation-India.html
-        - text: "Animated prevalence in New York state"
-          href: articles/VariantAnimation-NewYork.html
-        - text: "Animated prevalence in New York City"
-          href: articles/VariantAnimation-NYC.html
-        - text: "Animated prevalence in South Africa"
-          href: articles/VariantAnimation-SouthAfrica.html
+        - text: "Animated prevalence in Switzerland"
+          href: articles/VariantAnimation-Switzerland.html
         - text: "Animated prevalence in United Kingdom"
           href: articles/VariantAnimation-UK.html
         - text: "Animated prevalence in USA"
           href: articles/VariantAnimation-USA.html
+        - text: "Animated prevalence in New York state"
+          href: articles/VariantAnimation-NewYork.html
+        - text: "Animated prevalence in New York City"
+          href: articles/VariantAnimation-NYC.html
     - text: "Reference"
       href: reference/index.html
     - text: "News"

diff --git a/docs/404.html b/docs/404.html
diff --git a/docs/LICENSE-text.html b/docs/LICENSE-text.html
diff --git a/docs/articles/Brazil_animated.gif b/docs/articles/Brazil_animated.gif
diff --git a/docs/articles/Brazil_animated_2021.gif b/docs/articles/Brazil_animated_2021.gif
diff --git a/docs/articles/Brazil_animated_2023.gif b/docs/articles/Brazil_animated_2023.gif
diff --git a/docs/articles/Brazil_animated_2024.gif b/docs/articles/Brazil_animated_2024.gif
diff --git a/docs/articles/Germany_animated.gif b/docs/articles/Germany_animated.gif
diff --git a/docs/articles/Germany_animated_2021.gif b/docs/articles/Germany_animated_2021.gif
diff --git a/docs/articles/Germany_animated_2023.gif b/docs/articles/Germany_animated_2023.gif
diff --git a/docs/articles/Germany_animated_2024.gif b/docs/articles/Germany_animated_2024.gif
diff --git a/docs/articles/IN_animated.gif b/docs/articles/IN_animated.gif
diff --git a/docs/articles/IN_animated_2021.gif b/docs/articles/IN_animated_2021.gif
diff --git a/docs/articles/IN_animated_2022.gif b/docs/articles/IN_animated_2022.gif
diff --git a/docs/articles/IN_animated_2023.gif b/docs/articles/IN_animated_2023.gif
diff --git a/docs/articles/IN_animated_latest.gif b/docs/articles/IN_animated_latest.gif
diff --git a/docs/articles/Introduction.html b/docs/articles/Introduction.html
diff --git a/docs/articles/Introduction_files/figure-html/unnamed-chunk-10-1.png b/docs/articles/Introduction_files/figure-html/unnamed-chunk-10-1.png
diff --git a/docs/articles/Introduction_files/figure-html/unnamed-chunk-4-1.png b/docs/articles/Introduction_files/figure-html/unnamed-chunk-4-1.png
diff --git a/docs/articles/Introduction_files/figure-html/unnamed-chunk-6-1.png b/docs/articles/Introduction_files/figure-html/unnamed-chunk-6-1.png
diff --git a/docs/articles/Introduction_files/figure-html/unnamed-chunk-7-1.png b/docs/articles/Introduction_files/figure-html/unnamed-chunk-7-1.png
diff --git a/docs/articles/NYC_animated.gif b/docs/articles/NYC_animated.gif
diff --git a/docs/articles/NYC_animated_2023.gif b/docs/articles/NYC_animated_2023.gif
diff --git a/docs/articles/NY_animated.gif b/docs/articles/NY_animated.gif
diff --git a/docs/articles/NY_animated_2023.gif b/docs/articles/NY_animated_2023.gif
diff --git a/docs/articles/Singapore_animated.gif b/docs/articles/Singapore_animated.gif
diff --git a/docs/articles/Singapore_animated_2021.gif b/docs/articles/Singapore_animated_2021.gif
diff --git a/docs/articles/Singapore_animated_2023.gif b/docs/articles/Singapore_animated_2023.gif
diff --git a/docs/articles/Singapore_animated_2024.gif b/docs/articles/Singapore_animated_2024.gif
diff --git a/docs/articles/USA_animated.gif b/docs/articles/USA_animated.gif
diff --git a/docs/articles/USA_animated_2021.gif b/docs/articles/USA_animated_2021.gif
diff --git a/docs/articles/USA_animated_2023.gif b/docs/articles/USA_animated_2023.gif
diff --git a/docs/articles/United_Kingdom_animated.gif b/docs/articles/United_Kingdom_animated.gif
diff --git a/docs/articles/United_Kingdom_animated_2021.gif b/docs/articles/United_Kingdom_animated_2021.gif
diff --git a/docs/articles/United_Kingdom_animated_2023.gif b/docs/articles/United_Kingdom_animated_2023.gif
diff --git a/docs/articles/United_Kingdom_animated_2024.gif b/docs/articles/United_Kingdom_animated_2024.gif
diff --git a/docs/articles/VariantAnimation-Brazil.html b/docs/articles/VariantAnimation-Brazil.html
diff --git a/docs/articles/VariantAnimation-Brazil_files/figure-html/unnamed-chunk-5-1.png b/docs/articles/VariantAnimation-Brazil_files/figure-html/unnamed-chunk-5-1.png
diff --git a/docs/articles/VariantAnimation-Germany.html b/docs/articles/VariantAnimation-Germany.html
diff --git a/docs/articles/VariantAnimation-Germany_files/figure-html/unnamed-chunk-5-1.png b/docs/articles/VariantAnimation-Germany_files/figure-html/unnamed-chunk-5-1.png
diff --git a/docs/articles/VariantAnimation-India.html b/docs/articles/VariantAnimation-India.html
diff --git a/docs/articles/VariantAnimation-India_files/figure-html/unnamed-chunk-11-1.png b/docs/articles/VariantAnimation-India_files/figure-html/unnamed-chunk-11-1.png
diff --git a/docs/articles/VariantAnimation-India_files/figure-html/unnamed-chunk-4-1.png b/docs/articles/VariantAnimation-India_files/figure-html/unnamed-chunk-4-1.png
diff --git a/docs/articles/VariantAnimation-NYC.html b/docs/articles/VariantAnimation-NYC.html
diff --git a/docs/articles/VariantAnimation-NYC_files/figure-html/unnamed-chunk-4-1.png b/docs/articles/VariantAnimation-NYC_files/figure-html/unnamed-chunk-4-1.png
diff --git a/docs/articles/VariantAnimation-NewYork.html b/docs/articles/VariantAnimation-NewYork.html
diff --git a/docs/articles/VariantAnimation-NewYork_files/figure-html/unnamed-chunk-5-1.png b/docs/articles/VariantAnimation-NewYork_files/figure-html/unnamed-chunk-5-1.png