get_dist

<a href="https://lifecycle.r-lib.org/articles/stages.html#stable"><img src="figures/lifecycle-stable.svg?package=EpiNow2&version=1.3.4" alt="[Stable]"></a>
Search a data frame for a distribution and return it in the format expected
by <code>delay_opts()</code> and the <code>generation_time</code> argument of <code>epinow</code> and
<code>estimate_infections</code>.

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.

Sam Abbott 

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

Robin Thompson

Sophie Meakin

James Munday

Nikos Bosse

Paul Mee

Peter Ellis

Pietro Monticone

Lloyd Chapman

EpiForecasts 

Sebastian Funk

get_dist function

<dl><dt>data</dt>
<dd>A <code>data.table</code> in the format of <code>generation_times</code>.</dd>
<dt>disease</dt>
<dd>A character string indicating the disease of interest.</dd>
<dt>source</dt>
<dd>A character string indicating the source of interest.</dd>
<dt>max_value</dt>
<dd>Numeric, the maximum value to allow. Defaults to 15 days.</dd>
<dt>fixed</dt>
<dd>Logical, defaults to <code>FALSE</code>. Should distributions be supplied
as fixed values (vs with uncertainty)?</dd></dl>

Arguments

Author

<a href='https://lifecycle.r-lib.org/articles/stages.html#stable'><img src='figures/lifecycle-stable.svg' alt='[Stable]' /></a>
Search a data frame for a distribution and return it in the format expected
by <code>delay_opts()</code> and the <code>generation_time</code> argument of <code>epinow</code> and
<code>estimate_infections</code>.

Get a Literature Distribution — get_dist

<dl>

<dt>data</dt>
<dd>A <code>data.table</code> in the format of <code>generation_times</code>.</dd>


<dt>disease</dt>
<dd>A character string indicating the disease of interest.</dd>


<dt>source</dt>
<dd>A character string indicating the source of interest.</dd>


<dt>max_value</dt>
<dd>Numeric, the maximum value to allow. Defaults to 15 days.</dd>


<dt>fixed</dt>
<dd>Logical, defaults to <code>FALSE</code>. Should distributions be supplied
as fixed values (vs with uncertainty)?</dd>

</dl>

Get a Literature Distribution

get_dist: Get a Literature Distribution

Description

Usage

Value

Arguments

Author

Examples