template_WES_data

The <code>template_WES_data</code> object provides a template of the data format required by the 'WES' package.

datasets

Provides reproducible functions for collating and analyzing
data from environmental sampling studies. Environmental Sampling (ES)
of infectious diseases involves collecting samples from various sources
(such as sewage, water, air, soil, or surfaces) to monitor the presence
of pathogens in the environment. Analysis of ES data often requires the
calculation of Real-Time Quantitative PCR (qPCR) variables, normalizing
ES observations, and analyzing sampling site characteristics. To help
reduce the complexity of these analyses we have implemented tools that
assist with establishing standardized ES data formats, absolute and
relative quantification of qPCR data, estimation of qPCR amplification
efficiency, and collating open-source spatial data for sampling sites.

John R Giles

Tools for Analyzing Wastewater and Environmental Sampling Data

template_WES_data function

<div class="section" id="template-wes-data">
<h3><code>template_WES_data</code></h3>
A data frame with 6 columns:<dl>
<dt>date</dt>
<dd>The date each sample was collected. Formate is "YYYY-MM-DD".</dd><dt>location_id</dt>
<dd>A unique identifier for each of the sampling locations.</dd><dt>lat</dt>
<dd>The lattitude of the sampling location in decimal degrees.</dd><dt>lon</dt>
<dd>The longitude of the sampling location in decimal degrees.</dd><dt>target_name</dt>
<dd>The unique name of the gene target for which the Ct values correspond.</dd><dt>ct_value</dt>
<dd>The Cycle Threshold (Ct) of the qPCR assay.</dd>
</dl></div>

Format

Template environmental sampling data — template_WES_data

<div class='section' id='template-wes-data'>
<h3><code>template_WES_data</code></h3>


A data frame with 6 columns:<dl>
<dt>date</dt>
<dd>The date each sample was collected. Formate is "YYYY-MM-DD".</dd>

<dt>location_id</dt>
<dd>A unique identifier for each of the sampling locations.</dd>

<dt>lat</dt>
<dd>The lattitude of the sampling location in decimal degrees.</dd>

<dt>lon</dt>
<dd>The longitude of the sampling location in decimal degrees.</dd>

<dt>target_name</dt>
<dd>The unique name of the gene target for which the Ct values correspond.</dd>

<dt>ct_value</dt>
<dd>The Cycle Threshold (Ct) of the qPCR assay.</dd>


</dl>

</div>

template_WES_data: Template environmental sampling data

Description

Usage

Arguments

Format

`template_WES_data`