fit_model_with_vb

<a href="https://lifecycle.r-lib.org/articles/stages.html#maturing"><img src="figures/lifecycle-maturing.svg?package=EpiNow2&version=1.3.4" alt="[Maturing]"></a>
Fits a stan model using variational inference.

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

fit_model_with_vb function

<dl><dt>args</dt>
<dd>List of stan arguments.</dd>
<dt>future</dt>
<dd>Logical, defaults to <code>FALSE</code>. Should <code>future</code> be used to run
stan chains in parallel.</dd>
<dt>id</dt>
<dd>A character string used to assign logging information on error.
Used by <code>regional_epinow</code> to assign errors to regions. Alter the default to
run with error catching.</dd></dl>

Arguments

Author

<a href='https://lifecycle.r-lib.org/articles/stages.html#maturing'><img src='figures/lifecycle-maturing.svg' alt='[Maturing]' /></a>
Fits a stan model using variational inference.

Fit a Stan Model using Variational Inference — fit_model_with_vb

<dl>

<dt>args</dt>
<dd>List of stan arguments.</dd>


<dt>future</dt>
<dd>Logical, defaults to <code>FALSE</code>. Should <code>future</code> be used to run
stan chains in parallel.</dd>


<dt>id</dt>
<dd>A character string used to assign logging information on error.
Used by <code>regional_epinow</code> to assign errors to regions. Alter the default to
run with error catching.</dd>

</dl>

Fit a Stan Model using Variational Inference

fit_model_with_vb: Fit a Stan Model using Variational Inference

Description

Usage

Value

Arguments

Author