check_na_setting_against_data

<a href="https://lifecycle.r-lib.org/articles/stages.html#experimental"><img src="figures/lifecycle-experimental.svg?package=EpiNow2&version=1.6.1" alt="[Experimental]"></a>
This function checks the input data for implicit and/or explicit missingness
and checks if the user specified <code>na = "missing"</code> in <code>obs_opts()</code>.
If the two are TRUE, it throws a message about how the model treats
missingness and provides alternatives. It returns an unmodified <code>obs_opts()</code>.
This function is necessary because the data and observation model
do not currently interact internally. It will be deprecated in future
versions when the data specification interface is enhanced.

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 

check_na_setting_against_data function

<dl><dt>data</dt>
<dd>The raw data</dd>
<dt>cols_to_check</dt>
<dd>A character vector of the columns to check</dd>
<dt>obs</dt>
<dd>A call to <code>obs_opts()</code></dd></dl>

Arguments

<a href='https://lifecycle.r-lib.org/articles/stages.html#experimental'><img src='figures/lifecycle-experimental.svg' alt='[Experimental]' /></a>
This function checks the input data for implicit and/or explicit missingness
and checks if the user specified <code>na = "missing"</code> in <code>obs_opts()</code>.
If the two are TRUE, it throws a message about how the model treats
missingness and provides alternatives. It returns an unmodified <code>obs_opts()</code>.
This function is necessary because the data and observation model
do not currently interact internally. It will be deprecated in future
versions when the data specification interface is enhanced.

Cross-check treatment of NA in obs_opts() against input data — check_na_setting_against_data

<dl>

<dt>data</dt>
<dd>The raw data</dd>


<dt>cols_to_check</dt>
<dd>A character vector of the columns to check</dd>


<dt>obs</dt>
<dd>A call to <code>obs_opts()</code></dd>

</dl>

Cross-check treatment of <code>NA</code> in obs_opts() against input data

check_na_setting_against_data: Cross-check treatment of `NA` in obs_opts() against input data

Description

Usage

Value

Arguments