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ECDC.html
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ECDC.html
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<img src="../logo.png" class="logo" alt=""><h1>R6 Class containing specific attributes and methods for the European Centre
for Disease Prevention and Control dataset</h1>
<small class="dont-index">Source: <a href="https://github.com/epiforecasts/covidregionaldata/blob/HEAD/R/ECDC.R" class="external-link"><code>R/ECDC.R</code></a></small>
<div class="d-none name"><code>ECDC.Rd</code></div>
</div>
<div class="ref-description section level2">
<p>Information for downloading, cleaning
and processing the European Centre for
Disease Prevention and Control COVID-19 data.</p>
</div>
<div class="section level2">
<h2 id="source">Source<a class="anchor" aria-label="anchor" href="#source"></a></h2>
<p><a href="https://www.ecdc.europa.eu/en/publications-data/download-todays-data-geographic-distribution-covid-19-cases-worldwide" class="external-link">https://www.ecdc.europa.eu/en/publications-data/download-todays-data-geographic-distribution-covid-19-cases-worldwide</a></p>
</div>
<div class="section level2">
<h2 id="see-also">See also<a class="anchor" aria-label="anchor" href="#see-also"></a></h2>
<div class="dont-index"><p>National data sources
<code><a href="Covid19DataHub.html">Covid19DataHub</a></code>,
<code><a href="Google.html">Google</a></code>,
<code><a href="JHU.html">JHU</a></code>,
<code><a href="JRC.html">JRC</a></code>,
<code><a href="WHO.html">WHO</a></code></p></div>
</div>
<div class="section level2">
<h2 id="super-classes">Super classes<a class="anchor" aria-label="anchor" href="#super-classes"></a></h2>
<p><code><a href="DataClass.html">covidregionaldata::DataClass</a></code> -> <code><a href="CountryDataClass.html">covidregionaldata::CountryDataClass</a></code> -> <code>ECDC</code></p>
</div>
<div class="section level2">
<h2 id="public-fields">Public fields<a class="anchor" aria-label="anchor" href="#public-fields"></a></h2>
<p></p><div class="r6-fields"><dl><dt><code>origin</code></dt>
<dd><p>name of origin to fetch data for</p></dd>
<dt><code>supported_levels</code></dt>
<dd><p>A list of supported levels.</p></dd>
<dt><code>supported_region_names</code></dt>
<dd><p>A list of region names in order of level.</p></dd>
<dt><code>supported_region_codes</code></dt>
<dd><p>A list of region codes in order of level.</p></dd>
<dt><code>common_data_urls</code></dt>
<dd><p>List of named links to raw data.</p></dd>
<dt><code>source_data_cols</code></dt>
<dd><p>existing columns within the raw data</p></dd>
<dt><code>source_text</code></dt>
<dd><p>Plain text description of the source of the data</p></dd>
<dt><code>source_url</code></dt>
<dd><p>Website address for explanation/introduction of the
data</p></dd>
</dl><p></p></div>
</div>
<div class="section level2">
<h2 id="methods">Methods<a class="anchor" aria-label="anchor" href="#methods"></a></h2>
<div class="section">
<h3 id="public-methods">Public methods<a class="anchor" aria-label="anchor" href="#public-methods"></a></h3>
<ul><li><p><a href="#method-clean_common"><code>ECDC$clean_common()</code></a></p></li>
<li><p><a href="#method-return"><code>ECDC$return()</code></a></p></li>
<li><p><a href="#method-specific_tests"><code>ECDC$specific_tests()</code></a></p></li>
<li><p><a href="#method-clone"><code>ECDC$clone()</code></a></p></li>
</ul></div><p><details><summary>Inherited methods</summary><ul><li><p><span class="pkg-link" data-pkg="covidregionaldata" data-topic="DataClass" data-id="available_regions"><a href="DataClass.html#method-available_regions"><code>covidregionaldata::DataClass$available_regions()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="covidregionaldata" data-topic="DataClass" data-id="clean"><a href="DataClass.html#method-clean"><code>covidregionaldata::DataClass$clean()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="covidregionaldata" data-topic="DataClass" data-id="download"><a href="DataClass.html#method-download"><code>covidregionaldata::DataClass$download()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="covidregionaldata" data-topic="DataClass" data-id="download_JSON"><a href="DataClass.html#method-download_JSON"><code>covidregionaldata::DataClass$download_JSON()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="covidregionaldata" data-topic="DataClass" data-id="get"><a href="DataClass.html#method-get"><code>covidregionaldata::DataClass$get()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="covidregionaldata" data-topic="DataClass" data-id="initialize"><a href="DataClass.html#method-initialize"><code>covidregionaldata::DataClass$initialize()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="covidregionaldata" data-topic="DataClass" data-id="process"><a href="DataClass.html#method-process"><code>covidregionaldata::DataClass$process()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="covidregionaldata" data-topic="DataClass" data-id="set_region_codes"><a href="DataClass.html#method-set_region_codes"><code>covidregionaldata::DataClass$set_region_codes()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="covidregionaldata" data-topic="DataClass" data-id="summary"><a href="DataClass.html#method-summary"><code>covidregionaldata::DataClass$summary()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="covidregionaldata" data-topic="DataClass" data-id="test"><a href="DataClass.html#method-test"><code>covidregionaldata::DataClass$test()</code></a></span></p></li>
<li><p><span class="pkg-link" data-pkg="covidregionaldata" data-topic="CountryDataClass" data-id="filter"><a href="CountryDataClass.html#method-filter"><code>covidregionaldata::CountryDataClass$filter()</code></a></span></p></li>
</ul></details></p><hr><a id="method-clean_common"></a><div class="section">
<h3 id="method-clean-common-">Method <code>clean_common()</code><a class="anchor" aria-label="anchor" href="#method-clean-common-"></a></h3>
<p>ECDC specific state level data cleaning</p><div class="section">
<h4 id="usage">Usage<a class="anchor" aria-label="anchor" href="#usage"></a></h4>
<p></p><div class="r"><div class="sourceCode"><pre><code><span class="va">ECDC</span><span class="op">$</span><span class="fu">clean_common</span><span class="op">(</span><span class="op">)</span></code></pre></div><p></p></div>
</div>
</div><p></p><hr><a id="method-return"></a><div class="section">
<h3 id="method-return-">Method <code><a href="https://rdrr.io/r/base/function.html" class="external-link">return()</a></code><a class="anchor" aria-label="anchor" href="#method-return-"></a></h3>
<p>Specific return settings for the ECDC dataset.</p><div class="section">
<h4 id="usage-1">Usage<a class="anchor" aria-label="anchor" href="#usage-1"></a></h4>
<p></p><div class="r"><div class="sourceCode"><pre><code><span class="va">ECDC</span><span class="op">$</span><span class="kw">return</span><span class="op">(</span><span class="op">)</span></code></pre></div><p></p></div>
</div>
</div><p></p><hr><a id="method-specific_tests"></a><div class="section">
<h3 id="method-specific-tests-">Method <code>specific_tests()</code><a class="anchor" aria-label="anchor" href="#method-specific-tests-"></a></h3>
<p>Run additional tests on ECDC class. Tests ECDC has required
additional columns and that there is only one row per country. Designed
to be run from <code>test</code> and not run directly.</p><div class="section">
<h4 id="usage-2">Usage<a class="anchor" aria-label="anchor" href="#usage-2"></a></h4>
<p></p><div class="r"><div class="sourceCode"><pre><code><span class="va">ECDC</span><span class="op">$</span><span class="fu">specific_tests</span><span class="op">(</span><span class="va">self_copy</span>, <span class="va">...</span><span class="op">)</span></code></pre></div><p></p></div>
</div>
<div class="section">
<h4 id="arguments">Arguments<a class="anchor" aria-label="anchor" href="#arguments"></a></h4>
<p></p><div class="arguments"><dl><dt><code>self_copy</code></dt>
<dd><p>R6class the object to test</p></dd>
<dt><code>...</code></dt>
<dd><p>Extra params passed to specific download functions</p></dd>
</dl><p></p></div>
</div>
</div><p></p><hr><a id="method-clone"></a><div class="section">
<h3 id="method-clone-">Method <code>clone()</code><a class="anchor" aria-label="anchor" href="#method-clone-"></a></h3>
<p>The objects of this class are cloneable with this method.</p><div class="section">
<h4 id="usage-3">Usage<a class="anchor" aria-label="anchor" href="#usage-3"></a></h4>
<p></p><div class="r"><div class="sourceCode"><pre><code><span class="va">ECDC</span><span class="op">$</span><span class="fu">clone</span><span class="op">(</span>deep <span class="op">=</span> <span class="cn">FALSE</span><span class="op">)</span></code></pre></div><p></p></div>
</div>
<div class="section">
<h4 id="arguments-1">Arguments<a class="anchor" aria-label="anchor" href="#arguments-1"></a></h4>
<p></p><div class="arguments"><dl><dt><code>deep</code></dt>
<dd><p>Whether to make a deep clone.</p></dd>
</dl><p></p></div>
</div>
</div>
</div>
<div class="section level2">
<h2 id="ref-examples">Examples<a class="anchor" aria-label="anchor" href="#ref-examples"></a></h2>
<div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span>
<span class="r-in"><span class="va">national</span> <span class="op"><-</span> <span class="va">ECDC</span><span class="op">$</span><span class="fu">new</span><span class="op">(</span>verbose <span class="op">=</span> <span class="cn">TRUE</span>, steps <span class="op">=</span> <span class="cn">TRUE</span>, get <span class="op">=</span> <span class="cn">TRUE</span><span class="op">)</span></span>
<span class="r-in"><span class="va">national</span><span class="op">$</span><span class="kw">return</span><span class="op">(</span><span class="op">)</span></span>
<span class="r-in"><span class="op">}</span></span>
<span class="r-in"></span>
</code></pre></div>
</div>
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