From 05c1576f4d79fd417d66a740766f5d64a071f271 Mon Sep 17 00:00:00 2001 From: GitHub Actions Date: Sat, 30 Mar 2024 18:03:19 +0000 Subject: [PATCH] site deploy Auto-generated via {sandpaper} Source : 24cb8faca9d0c1da987d4d556b83112391aa9874 Branch : md-outputs Author : GitHub Actions Time : 2024-03-30 18:03:07 +0000 Message : markdown source builds Auto-generated via {sandpaper} Source : 5ebea3adddcd03e138eed403af5867322abc7d3a Branch : main Author : Andree Valle Campos Time : 2024-03-30 17:07:46 +0000 Message : remove library messages + replace head --- aio.html | 304 ++++++++++------- create-forecast.html | 4 +- ...issibility-rendered-unnamed-chunk-16-1.png | Bin 30902 -> 31506 bytes ...issibility-rendered-unnamed-chunk-17-1.png | Bin 0 -> 30060 bytes ...issibility-rendered-unnamed-chunk-20-1.png | Bin 0 -> 84705 bytes images.html | 6 +- instructor/aio.html | 312 ++++++++++-------- instructor/create-forecast.html | 4 +- instructor/images.html | 6 +- instructor/index.html | 2 +- instructor/quantify-transmissibility.html | 274 ++++++++------- instructor/severity-static.html | 38 +-- md5sum.txt | 2 +- pkgdown.yml | 2 +- quantify-transmissibility.html | 270 ++++++++------- severity-static.html | 34 +- 16 files changed, 725 insertions(+), 533 deletions(-) create mode 100644 fig/quantify-transmissibility-rendered-unnamed-chunk-17-1.png create mode 100644 fig/quantify-transmissibility-rendered-unnamed-chunk-20-1.png diff --git a/aio.html b/aio.html index 330e68f6..6f2bb98f 100644 --- a/aio.html +++ b/aio.html @@ -276,7 +276,7 @@

Content from Quantifying transmission

-

Last updated on 2024-03-28 | +

Last updated on 2024-03-30 | Edit this page

@@ -412,32 +412,27 @@

Case dataR 

-head(incidence2::covidregionaldataUK)
+dplyr::as_tibble(incidence2::covidregionaldataUK)

OUTPUT

-
        date          region region_code cases_new cases_total deaths_new
-1 2020-01-30   East Midlands   E12000004        NA          NA         NA
-2 2020-01-30 East of England   E12000006        NA          NA         NA
-3 2020-01-30         England   E92000001         2           2         NA
-4 2020-01-30          London   E12000007        NA          NA         NA
-5 2020-01-30      North East   E12000001        NA          NA         NA
-6 2020-01-30      North West   E12000002        NA          NA         NA
-  deaths_total recovered_new recovered_total hosp_new hosp_total tested_new
-1           NA            NA              NA       NA         NA         NA
-2           NA            NA              NA       NA         NA         NA
-3           NA            NA              NA       NA         NA         NA
-4           NA            NA              NA       NA         NA         NA
-5           NA            NA              NA       NA         NA         NA
-6           NA            NA              NA       NA         NA         NA
-  tested_total
-1           NA
-2           NA
-3           NA
-4           NA
-5           NA
-6           NA
+
# A tibble: 6,370 × 13
+   date       region   region_code cases_new cases_total deaths_new deaths_total
+   <date>     <chr>    <chr>           <dbl>       <dbl>      <dbl>        <dbl>
+ 1 2020-01-30 East Mi… E12000004          NA          NA         NA           NA
+ 2 2020-01-30 East of… E12000006          NA          NA         NA           NA
+ 3 2020-01-30 England  E92000001           2           2         NA           NA
+ 4 2020-01-30 London   E12000007          NA          NA         NA           NA
+ 5 2020-01-30 North E… E12000001          NA          NA         NA           NA
+ 6 2020-01-30 North W… E12000002          NA          NA         NA           NA
+ 7 2020-01-30 Norther… N92000002          NA          NA         NA           NA
+ 8 2020-01-30 Scotland S92000003          NA          NA         NA           NA
+ 9 2020-01-30 South E… E12000008          NA          NA         NA           NA
+10 2020-01-30 South W… E12000009          NA          NA         NA           NA
+# ℹ 6,360 more rows
+# ℹ 6 more variables: recovered_new <dbl>, recovered_total <dbl>,
+#   hosp_new <dbl>, hosp_total <dbl>, tested_new <dbl>, tested_total <dbl>

To use the data, we must format the data to have two columns:

    @@ -447,18 +442,20 @@

    OUTPUT