Update Shiny app

- Remove template/logic for single data entry
- Change 'Add estimators' to 'About estimators'; adding estimators and viewing estimates are now done in the same tab
- Swap rows and columns in estimates table (estimators as row names, datasets as column names)
- Add a separate column for the serial interval to the estimates table
- Add plots for daily and weekly data using the Plotly library
- Remove italics from the subscript in all occurences of 'R_0'
- Fix code/text formatting

3 files changed, 5 insertions, 16 deletions

diff --git a/inst/app/templates/content/help/example-help-1.html b/inst/app/templates/content/help/example-help-1.html
deleted file mode 100644
index 245b9b6..0000000
--- a/inst/app/templates/content/help/example-help-1.html
+++ /dev/null
@@ -1 +0,0 @@
-Example help 1
diff --git a/inst/app/templates/content/help/example-help-2.html b/inst/app/templates/content/help/example-help-2.html
deleted file mode 100644
index a4817b5..0000000
--- a/inst/app/templates/content/help/example-help-2.html
+++ /dev/null
@@ -1 +0,0 @@
-Example help 2
diff --git a/inst/app/templates/content/help/serial-interval.html b/inst/app/templates/content/help/serial-interval.html
index 88bf82c..e061115 100644
--- a/inst/app/templates/content/help/serial-interval.html
+++ b/inst/app/templates/content/help/serial-interval.html
@@ -1,18 +1,9 @@
-Reference
-<a href="https://en.wikipedia.org/wiki/Serial_interval" target="_blank"
-  ><i>Wikipedia</i></a
->
-<br />
-<br />
-
-<p>The serial interval (SI) is NOT one of the estimators.</p>
+<p>Reference: <a href="https://en.wikipedia.org/wiki/Serial_interval" target="_blank"><em>Wikipedia</em></a>
 <p>
-  The SI is a parameter required by all of the estimators, and can also be
-  estimated by the WP method.
+  The serial interval (SI) is not one of the estimators. It is a parameter required by most of the estimators, and can
+  also be estimated by some of them (if not specified).
 </p>
-
 <p>
-  The SI is defined as the average time between successive infections in a chain
-  of transmission i.e., the time between the infection of an infected and their
-  subsequent transmissions.
+  The SI is defined as the average time between successive infections in a chain of transmission (i.e., the time between
+  the infection of an infected individual and their subsequent transmissions).
 </p>