deconv_ww_inc

Function estimates incidence from smoothed data

internal

Estimate the effective reproduction number from wastewater
and clinical data sources.

David Champredon

Effective Reproduction Number Estimation

Warsame Yusuf

Irena Papst

deconv_ww_inc function

<dl><dt>d</dt>
<dd>Data frame. Wastewater dataframe. Must include at least <code>date</code>, time <code>t</code> and
<code>obs</code> columns.</dd>
<dt>fec</dt>
<dd>List. Parameters for a single fecal shedding distribution, as generated by <code>sample_a_dist()</code>.</dd>
<dt>scaling.factor</dt>
<dd>Numeric. Scaling from wastewater concentration to
prevalence. This value may be assumed or independently calibrated to data.</dd>
<dt>silent</dt>
<dd>Logical. Flag to suppress all output messages, warnings, and progress bars.</dd>
<dt>RL.max.iter</dt>
<dd>Integer. Maximum of iterations for the Richardson-Lucy deconvolution algorithm.</dd></dl>

Arguments

Deconvoluting Wastewater Data to Incidence — deconv_ww_inc

<dl>

<dt>d</dt>
<dd>Data frame. Wastewater dataframe. Must include at least <code>date</code>, time <code>t</code> and
<code>obs</code> columns.</dd>


<dt>fec</dt>
<dd>List. Parameters for a single fecal shedding distribution, as generated by <code>sample_a_dist()</code>.</dd>


<dt>scaling.factor</dt>
<dd>Numeric. Scaling from wastewater concentration to
prevalence. This value may be assumed or independently calibrated to data.</dd>


<dt>silent</dt>
<dd>Logical. Flag to suppress all output messages, warnings, and progress bars.</dd>


<dt>RL.max.iter</dt>
<dd>Integer. Maximum of iterations for the Richardson-Lucy deconvolution algorithm.</dd>

</dl>

deconv_ww_inc: Deconvoluting Wastewater Data to Incidence

Description

Usage

Value

Arguments