summarise_key_measures

<a href="https://lifecycle.r-lib.org/articles/stages.html#maturing"><img src="figures/lifecycle-maturing.svg?package=EpiNow2&version=1.6.1" alt="[Maturing]"></a>
Produces summarised <code>&lt;data.frame&gt;</code>s of output across regions.
Used internally by <code>regional_summary</code>.

internal

Estimates the time-varying reproduction number,
rate of spread, and doubling time using a range of open-source tools
(Abbott et al. (2020) <doi:10.12688/wellcomeopenres.16006.1>), and
current best practices (Gostic et al. (2020)
<doi:10.1101/2020.06.18.20134858>). It aims to help users avoid some
of the limitations of naive implementations in a framework that is
informed by community feedback and is actively supported.

Sebastian Funk

EpiNow2

Estimate Real-Time Case Counts and Time-Varying Epidemiological
Parameters

Sam Abbott

Joel Hellewell

Katharine Sherratt

Katelyn Gostic

Joe Hickson

Hamada S. Badr

Michael DeWitt

James M. Azam

Robin Thompson

Sophie Meakin

James Munday

Nikos Bosse

Paul Mee

Peter Ellis

Pietro Monticone

Lloyd Chapman

Andrew Johnson

Kaitlyn Johnson

EpiForecasts 

summarise_key_measures function

<dl><dt>regional_results</dt>
<dd>A list of dataframes as produced by
<code>get_regional_results</code></dd>
<dt>results_dir</dt>
<dd>Character string indicating the directory from which to
extract results.</dd>
<dt>summary_dir</dt>
<dd>Character string the directory into which to save results
as a csv.</dd>
<dt>type</dt>
<dd>Character string, the region identifier to apply (defaults to
region).</dd>
<dt>date</dt>
<dd>A Character string (in the format "yyyy-mm-dd") indicating the
date to extract data for. Defaults to "latest" which finds the latest
results available.</dd></dl>

Arguments

<a href='https://lifecycle.r-lib.org/articles/stages.html#maturing'><img src='figures/lifecycle-maturing.svg' alt='[Maturing]' /></a>
Produces summarised <code>&lt;data.frame&gt;</code>s of output across regions.
Used internally by <code>regional_summary</code>.

Summarise rt and cases — summarise_key_measures

<dl>

<dt>regional_results</dt>
<dd>A list of dataframes as produced by
<code>get_regional_results</code></dd>


<dt>results_dir</dt>
<dd>Character string indicating the directory from which to
extract results.</dd>


<dt>summary_dir</dt>
<dd>Character string the directory into which to save results
as a csv.</dd>


<dt>type</dt>
<dd>Character string, the region identifier to apply (defaults to
region).</dd>


<dt>date</dt>
<dd>A Character string (in the format "yyyy-mm-dd") indicating the
date to extract data for. Defaults to "latest" which finds the latest
results available.</dd>

</dl>

Summarise rt and cases

summarise_key_measures: Summarise rt and cases

Description

Usage

Value

Arguments

See Also