rstan_opts

<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>
Defines a list specifying the arguments passed to underlying <code>rstan</code>
functions via <code>rstan_sampling_opts()</code> and <code>rstan_vb_opts()</code>.Custom settings
can be supplied which override the defaults.

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

rstan_opts function

<dl><dt>object</dt>
<dd>Stan model object. By default uses the compiled package
default.</dd>
<dt>samples</dt>
<dd>Numeric, default 2000. Overall number of posterior samples.
When using multiple chains iterations per chain is samples / chains.</dd>
<dt>method</dt>
<dd>A character string, defaulting to sampling. Currently supports
<code>rstan::sampling</code> ("sampling") or <code>rstan:vb</code> ("vb").</dd>
<dt>...</dt>
<dd>Additional parameters to pass underlying option functions.</dd></dl>

Arguments

Author

<a href='https://lifecycle.r-lib.org/articles/stages.html#stable'><img src='figures/lifecycle-stable.svg' alt='[Stable]' /></a>
Defines a list specifying the arguments passed to underlying <code>rstan</code>
functions via <code>rstan_sampling_opts()</code> and <code>rstan_vb_opts()</code>.Custom settings
can be supplied which override the defaults.

Rstan Options — rstan_opts

<dl>

<dt>object</dt>
<dd>Stan model object. By default uses the compiled package
default.</dd>


<dt>samples</dt>
<dd>Numeric, default 2000. Overall number of posterior samples.
When using multiple chains iterations per chain is samples / chains.</dd>


<dt>method</dt>
<dd>A character string, defaulting to sampling. Currently supports
<code>rstan::sampling</code> ("sampling") or <code>rstan:vb</code> ("vb").</dd>


<dt>...</dt>
<dd>Additional parameters to pass underlying option functions.</dd>

</dl>

Rstan Options

rstan_opts: Rstan Options

Description

Usage

Value

Arguments

Author

See Also

Examples