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and child tables for each repeating instrument. Metadata
is used to determine which fields should be included in each resultant table."><title>Split REDCap repeating instruments table into multiple tables — REDCap_split • REDCapCAST</title><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.2.2/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.2.2/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Split REDCap repeating instruments table into multiple tables — REDCap_split"><meta property="og:description" content="This will take output from a REDCap export and split it into a base table
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<main id="main" class="col-md-9"><div class="page-header">
<img src="" class="logo" alt=""><h1>Split REDCap repeating instruments table into multiple tables</h1>
<small class="dont-index">Source: <a href="https://github.com/agdamsbo/REDCapRITS/blob/HEAD/R/REDCap_split.r" class="external-link"><code>R/REDCap_split.r</code></a></small>
<div class="d-none name"><code>REDCap_split.Rd</code></div>
</div>
<div class="ref-description section level2">
<p>This will take output from a REDCap export and split it into a base table
and child tables for each repeating instrument. Metadata
is used to determine which fields should be included in each resultant table.</p>
</div>
<div class="section level2">
<h2 id="ref-usage">Usage<a class="anchor" aria-label="anchor" href="#ref-usage"></a></h2>
<div class="sourceCode"><pre class="sourceCode r"><code><span><span class="fu">REDCap_split</span><span class="op">(</span></span>
<span> <span class="va">records</span>,</span>
<span> <span class="va">metadata</span>,</span>
<span> primary_table_name <span class="op">=</span> <span class="st">""</span>,</span>
<span> forms <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"repeating"</span>, <span class="st">"all"</span><span class="op">)</span></span>
<span><span class="op">)</span></span></code></pre></div>
</div>
<div class="section level2">
<h2 id="arguments">Arguments<a class="anchor" aria-label="anchor" href="#arguments"></a></h2>
<dl><dt>records</dt>
<dd><p>Exported project records. May be a <code>data.frame</code>,
<code>response</code>, or <code>character</code> vector containing JSON from an API
call.</p></dd>
<dt>metadata</dt>
<dd><p>Project metadata (the data dictionary). May be a
<code>data.frame</code>, <code>response</code>, or <code>character</code> vector containing
JSON from an API call.</p></dd>
<dt>primary_table_name</dt>
<dd><p>Name given to the list element for the primary
output table (as described in <em>README.md</em>). Ignored if
<code>forms = 'all'</code>.</p></dd>
<dt>forms</dt>
<dd><p>Indicate whether to create separate tables for repeating
instruments only or for all forms.</p></dd>
</dl></div>
<div class="section level2">
<h2 id="value">Value<a class="anchor" aria-label="anchor" href="#value"></a></h2>
<p>A list of <code>"data.frame"</code>s. The number of tables will differ
depending on the <code>forms</code> option selected.</p>
<p></p>
<ul><li><p><code>'repeating'</code>: one base table and one or more
tables for each repeating instrument.</p></li>
<li><p><code>'all'</code>: a data.frame for each instrument, regardless of
whether it is a repeating instrument or not.</p></li>
</ul></div>
<div class="section level2">
<h2 id="author">Author<a class="anchor" aria-label="anchor" href="#author"></a></h2>
<p>Paul W. Egeler, M.S., GStat</p>
</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><span class="kw">if</span> <span class="op">(</span><span class="cn">FALSE</span><span class="op">)</span> <span class="op">{</span></span></span>
<span class="r-in"><span><span class="co"># Using an API call -------------------------------------------------------</span></span></span>
<span class="r-in"><span></span></span>
<span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/library.html" class="external-link">library</a></span><span class="op">(</span><span class="va">RCurl</span><span class="op">)</span></span></span>
<span class="r-in"><span></span></span>
<span class="r-in"><span><span class="co"># Get the records</span></span></span>
<span class="r-in"><span><span class="va">records</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/pkg/RCurl/man/postForm.html" class="external-link">postForm</a></span><span class="op">(</span></span></span>
<span class="r-in"><span> uri <span class="op">=</span> <span class="va">api_url</span>, <span class="co"># Supply your site-specific URI</span></span></span>
<span class="r-in"><span> token <span class="op">=</span> <span class="va">api_token</span>, <span class="co"># Supply your own API token</span></span></span>
<span class="r-in"><span> content <span class="op">=</span> <span class="st">'record'</span>,</span></span>
<span class="r-in"><span> format <span class="op">=</span> <span class="st">'json'</span>,</span></span>
<span class="r-in"><span> returnFormat <span class="op">=</span> <span class="st">'json'</span></span></span>
<span class="r-in"><span><span class="op">)</span></span></span>
<span class="r-in"><span></span></span>
<span class="r-in"><span><span class="co"># Get the metadata</span></span></span>
<span class="r-in"><span><span class="va">metadata</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/pkg/RCurl/man/postForm.html" class="external-link">postForm</a></span><span class="op">(</span></span></span>
<span class="r-in"><span> uri <span class="op">=</span> <span class="va">api_url</span>, <span class="co"># Supply your site-specific URI</span></span></span>
<span class="r-in"><span> token <span class="op">=</span> <span class="va">api_token</span>, <span class="co"># Supply your own API token</span></span></span>
<span class="r-in"><span> content <span class="op">=</span> <span class="st">'metadata'</span>,</span></span>
<span class="r-in"><span> format <span class="op">=</span> <span class="st">'json'</span></span></span>
<span class="r-in"><span><span class="op">)</span></span></span>
<span class="r-in"><span></span></span>
<span class="r-in"><span><span class="co"># Convert exported JSON strings into a list of data.frames</span></span></span>
<span class="r-in"><span><span class="fu">REDCapRITS</span><span class="fu">::</span><span class="fu">REDCap_split</span><span class="op">(</span><span class="va">records</span>, <span class="va">metadata</span><span class="op">)</span></span></span>
<span class="r-in"><span></span></span>
<span class="r-in"><span><span class="co"># Using a raw data export -------------------------------------------------</span></span></span>
<span class="r-in"><span></span></span>
<span class="r-in"><span><span class="co"># Get the records</span></span></span>
<span class="r-in"><span><span class="va">records</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/utils/read.table.html" class="external-link">read.csv</a></span><span class="op">(</span><span class="st">"/path/to/data/ExampleProject_DATA_2018-06-03_1700.csv"</span><span class="op">)</span></span></span>
<span class="r-in"><span></span></span>
<span class="r-in"><span><span class="co"># Get the metadata</span></span></span>
<span class="r-in"><span><span class="va">metadata</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/utils/read.table.html" class="external-link">read.csv</a></span><span class="op">(</span></span></span>
<span class="r-in"><span><span class="st">"/path/to/data/ExampleProject_DataDictionary_2018-06-03.csv"</span><span class="op">)</span></span></span>
<span class="r-in"><span></span></span>
<span class="r-in"><span><span class="co"># Split the tables</span></span></span>
<span class="r-in"><span><span class="fu">REDCapRITS</span><span class="fu">::</span><span class="fu">REDCap_split</span><span class="op">(</span><span class="va">records</span>, <span class="va">metadata</span><span class="op">)</span></span></span>
<span class="r-in"><span></span></span>
<span class="r-in"><span><span class="co"># In conjunction with the R export script ---------------------------------</span></span></span>
<span class="r-in"><span></span></span>
<span class="r-in"><span><span class="co"># You must set the working directory first since the REDCap data export</span></span></span>
<span class="r-in"><span><span class="co"># script contains relative file references.</span></span></span>
<span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/base/getwd.html" class="external-link">setwd</a></span><span class="op">(</span><span class="st">"/path/to/data/"</span><span class="op">)</span></span></span>
<span class="r-in"><span></span></span>
<span class="r-in"><span><span class="co"># Run the data export script supplied by REDCap.</span></span></span>
<span class="r-in"><span><span class="co"># This will create a data.frame of your records called 'data'</span></span></span>
<span class="r-in"><span><span class="kw"><a href="https://rdrr.io/r/base/source.html" class="external-link">source</a></span><span class="op">(</span><span class="st">"ExampleProject_R_2018-06-03_1700.r"</span><span class="op">)</span></span></span>
<span class="r-in"><span></span></span>
<span class="r-in"><span><span class="co"># Get the metadata</span></span></span>
<span class="r-in"><span><span class="va">metadata</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/utils/read.table.html" class="external-link">read.csv</a></span><span class="op">(</span><span class="st">"ExampleProject_DataDictionary_2018-06-03.csv"</span><span class="op">)</span></span></span>
<span class="r-in"><span></span></span>
<span class="r-in"><span><span class="co"># Split the tables</span></span></span>
<span class="r-in"><span><span class="fu">REDCapRITS</span><span class="fu">::</span><span class="fu">REDCap_split</span><span class="op">(</span><span class="va">data</span>, <span class="va">metadata</span><span class="op">)</span></span></span>
<span class="r-in"><span><span class="op">}</span></span></span>
</code></pre></div>
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<small class="dont-index">Source: <a href="https://github.com/agdamsbo/REDCapRITS/blob/HEAD/R/utils.r" class="external-link"><code>R/utils.r</code></a></small>
<div class="d-none name"><code>focused_metadata.Rd</code></div>
</div>
<div class="ref-description section level2">
<p>Extracts limited metadata for variables in a dataset</p>
</div>
<div class="section level2">
<h2 id="ref-usage">Usage<a class="anchor" aria-label="anchor" href="#ref-usage"></a></h2>
<div class="sourceCode"><pre class="sourceCode r"><code><span><span class="fu">focused_metadata</span><span class="op">(</span><span class="va">metadata</span>, <span class="va">vars_in_data</span><span class="op">)</span></span></code></pre></div>
</div>
<div class="section level2">
<h2 id="arguments">Arguments<a class="anchor" aria-label="anchor" href="#arguments"></a></h2>
<dl><dt>metadata</dt>
<dd><p>A dataframe containing metadata</p></dd>
<dt>vars_in_data</dt>
<dd><p>Vector of variable names in the dataset</p></dd>
</dl></div>
<div class="section level2">
<h2 id="value">Value<a class="anchor" aria-label="anchor" href="#value"></a></h2>
<p>A dataframe containing metadata for the variables in the dataset</p>
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<img src="" class="logo" alt=""><h1>Function reference</h1>
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<div class="section level2">
<h2 id="all-functions">All functions<a class="anchor" aria-label="anchor" href="#all-functions"></a></h2>
</div><div id="" class="section level2">
<dl><dt>
<code><a href="REDCap_split.html">REDCap_split()</a></code>
</dt>
<dd>Split REDCap repeating instruments table into multiple tables</dd>
</dl><dl><dt>
<code><a href="focused_metadata.html">focused_metadata()</a></code>
</dt>
<dd>focused_metadata</dd>
</dl><dl><dt>
<code><a href="match_fields_to_form.html">match_fields_to_form()</a></code>
</dt>
<dd>Match fields to forms</dd>
</dl><dl><dt>
<code><a href="read_redcap_tables.html">read_redcap_tables()</a></code>
</dt>
<dd>Download REDCap data</dd>
</dl><dl><dt>
<code><a href="redcap_wider.html">redcap_wider()</a></code>
</dt>
<dd>Redcap Wider</dd>
</dl><dl><dt>
<code><a href="redcapcast_data.html">redcapcast_data</a></code>
</dt>
<dd>Data set for demonstration</dd>
</dl><dl><dt>
<code><a href="redcapcast_meta.html">redcapcast_meta</a></code>
</dt>
<dd>REDCap matedata from data base</dd>
</dl><dl><dt>
<code><a href="sanitize_split.html">sanitize_split()</a></code>
</dt>
<dd>Sanitize list of data frames</dd>
</dl><dl><dt>
<code><a href="split_non_repeating_forms.html">split_non_repeating_forms()</a></code>
</dt>
<dd>Split a data frame into separate tables for each form</dd>
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<div class="d-none name"><code>match_fields_to_form.Rd</code></div>
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<p>Match fields to forms</p>
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<div class="section level2">
<h2 id="ref-usage">Usage<a class="anchor" aria-label="anchor" href="#ref-usage"></a></h2>
<div class="sourceCode"><pre class="sourceCode r"><code><span><span class="fu">match_fields_to_form</span><span class="op">(</span><span class="va">metadata</span>, <span class="va">vars_in_data</span><span class="op">)</span></span></code></pre></div>
</div>
<div class="section level2">
<h2 id="arguments">Arguments<a class="anchor" aria-label="anchor" href="#arguments"></a></h2>
<dl><dt>metadata</dt>
<dd><p>A data frame containing field names and form names</p></dd>
<dt>vars_in_data</dt>
<dd><p>A character vector of variable names</p></dd>
</dl></div>
<div class="section level2">
<h2 id="value">Value<a class="anchor" aria-label="anchor" href="#value"></a></h2>
<p>A data frame containing field names and form names</p>
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<img src="" class="logo" alt=""><h1>Download REDCap data</h1>
<small class="dont-index">Source: <a href="https://github.com/agdamsbo/REDCapRITS/blob/HEAD/R/read_redcap_tables.R" class="external-link"><code>R/read_redcap_tables.R</code></a></small>
<div class="d-none name"><code>read_redcap_tables.Rd</code></div>
</div>
<div class="ref-description section level2">
<p>Implementation of REDCap_split with a focused data acquisition approach using
REDCapR::redcap_read nad only downloading specified fields, forms and/or
events using the built-in focused_metadata including some clean-up.
Works with longitudinal projects with repeating instruments.</p>
</div>
<div class="section level2">
<h2 id="ref-usage">Usage<a class="anchor" aria-label="anchor" href="#ref-usage"></a></h2>
<div class="sourceCode"><pre class="sourceCode r"><code><span><span class="fu">read_redcap_tables</span><span class="op">(</span></span>
<span> <span class="va">uri</span>,</span>
<span> <span class="va">token</span>,</span>
<span> records <span class="op">=</span> <span class="cn">NULL</span>,</span>
<span> fields <span class="op">=</span> <span class="cn">NULL</span>,</span>
<span> events <span class="op">=</span> <span class="cn">NULL</span>,</span>
<span> forms <span class="op">=</span> <span class="cn">NULL</span>,</span>
<span> raw_or_label <span class="op">=</span> <span class="st">"label"</span>,</span>
<span> split_forms <span class="op">=</span> <span class="st">"all"</span>,</span>
<span> generics <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"record_id"</span>, <span class="st">"redcap_event_name"</span>, <span class="st">"redcap_repeat_instrument"</span>,</span>
<span> <span class="st">"redcap_repeat_instance"</span><span class="op">)</span></span>
<span><span class="op">)</span></span></code></pre></div>
</div>
<div class="section level2">
<h2 id="arguments">Arguments<a class="anchor" aria-label="anchor" href="#arguments"></a></h2>
<dl><dt>uri</dt>
<dd><p>REDCap database uri</p></dd>
<dt>token</dt>
<dd><p>API token</p></dd>
<dt>records</dt>
<dd><p>records to download</p></dd>
<dt>fields</dt>
<dd><p>fields to download</p></dd>
<dt>events</dt>
<dd><p>events to download</p></dd>
<dt>forms</dt>
<dd><p>forms to download</p></dd>
<dt>raw_or_label</dt>
<dd><p>raw or label tags</p></dd>
<dt>split_forms</dt>
<dd><p>Whether to split "repeating" or "all" forms, default is
all.</p></dd>
<dt>generics</dt>
<dd><p>vector of auto-generated generic variable names to
ignore when discarding empty rows</p></dd>
</dl></div>
<div class="section level2">
<h2 id="value">Value<a class="anchor" aria-label="anchor" href="#value"></a></h2>
<p>list of instruments</p>
</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><span class="co"># Examples will be provided later</span></span></span>
<span class="r-in"></span>
</code></pre></div>
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Handles longitudinal projects, but not yet repeated instruments."><title>Redcap Wider — redcap_wider • REDCapCAST</title><script src="../deps/jquery-3.6.0/jquery-3.6.0.min.js"></script><meta name="viewport" content="width=device-width, initial-scale=1, shrink-to-fit=no"><link href="../deps/bootstrap-5.2.2/bootstrap.min.css" rel="stylesheet"><script src="../deps/bootstrap-5.2.2/bootstrap.bundle.min.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- bootstrap-toc --><script src="https://cdn.jsdelivr.net/gh/afeld/bootstrap-toc@v1.0.1/dist/bootstrap-toc.min.js" integrity="sha256-4veVQbu7//Lk5TSmc7YV48MxtMy98e26cf5MrgZYnwo=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- search --><script src="https://cdnjs.cloudflare.com/ajax/libs/fuse.js/6.4.6/fuse.js" integrity="sha512-zv6Ywkjyktsohkbp9bb45V6tEMoWhzFzXis+LrMehmJZZSys19Yxf1dopHx7WzIKxr5tK2dVcYmaCk2uqdjF4A==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/autocomplete.js/0.38.0/autocomplete.jquery.min.js" integrity="sha512-GU9ayf+66Xx2TmpxqJpliWbT5PiGYxpaG8rfnBEk1LL8l1KGkRShhngwdXK1UgqhAzWpZHSiYPc09/NwDQIGyg==" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mark.js/8.11.1/mark.min.js" integrity="sha512-5CYOlHXGh6QpOFA/TeTylKLWfB3ftPsde7AnmhuitiTX4K5SqCLBeKro6sPS8ilsz1Q4NRx3v8Ko2IBiszzdww==" crossorigin="anonymous"></script><!-- pkgdown --><script src="../pkgdown.js"></script><meta property="og:title" content="Redcap Wider — redcap_wider"><meta property="og:description" content="Converts a list of REDCap data frames from long to wide format.
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<img src="" class="logo" alt=""><h1>Redcap Wider</h1>
<small class="dont-index">Source: <a href="https://github.com/agdamsbo/REDCapRITS/blob/HEAD/R/redcap_wider.R" class="external-link"><code>R/redcap_wider.R</code></a></small>
<div class="d-none name"><code>redcap_wider.Rd</code></div>
</div>
<div class="ref-description section level2">
<p>Converts a list of REDCap data frames from long to wide format.
Handles longitudinal projects, but not yet repeated instruments.</p>
</div>
<div class="section level2">
<h2 id="ref-usage">Usage<a class="anchor" aria-label="anchor" href="#ref-usage"></a></h2>
<div class="sourceCode"><pre class="sourceCode r"><code><span><span class="fu">redcap_wider</span><span class="op">(</span></span>
<span> <span class="va">list</span>,</span>
<span> event.glue <span class="op">=</span> <span class="st">"{.value}_{redcap_event_name}"</span>,</span>
<span> inst.glue <span class="op">=</span> <span class="st">"{.value}_{redcap_repeat_instance}"</span></span>
<span><span class="op">)</span></span></code></pre></div>
</div>
<div class="section level2">
<h2 id="arguments">Arguments<a class="anchor" aria-label="anchor" href="#arguments"></a></h2>
<dl><dt>list</dt>
<dd><p>A list of data frames.</p></dd>
<dt>event.glue</dt>
<dd><p>A dplyr::glue string for repeated events naming</p></dd>
<dt>inst.glue</dt>
<dd><p>A dplyr::glue string for repeated instruments naming</p></dd>
</dl></div>
<div class="section level2">
<h2 id="value">Value<a class="anchor" aria-label="anchor" href="#value"></a></h2>
<p>The list of data frames in wide format.</p>
</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><span class="va">list</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/list.html" class="external-link">list</a></span><span class="op">(</span><span class="fu"><a href="https://rdrr.io/r/base/data.frame.html" class="external-link">data.frame</a></span><span class="op">(</span>record_id <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">1</span>,<span class="fl">2</span>,<span class="fl">1</span>,<span class="fl">2</span><span class="op">)</span>,</span></span>
<span class="r-in"><span>redcap_event_name <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"baseline"</span>, <span class="st">"baseline"</span>, <span class="st">"followup"</span>, <span class="st">"followup"</span><span class="op">)</span>,</span></span>
<span class="r-in"><span>age <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">25</span>,<span class="fl">26</span>,<span class="fl">27</span>,<span class="fl">28</span><span class="op">)</span><span class="op">)</span>,</span></span>
<span class="r-in"><span><span class="fu"><a href="https://rdrr.io/r/base/data.frame.html" class="external-link">data.frame</a></span><span class="op">(</span>record_id <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">1</span>,<span class="fl">2</span><span class="op">)</span>,</span></span>
<span class="r-in"><span>redcap_event_name <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"baseline"</span>, <span class="st">"baseline"</span><span class="op">)</span>,</span></span>
<span class="r-in"><span>gender <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"male"</span>, <span class="st">"female"</span><span class="op">)</span><span class="op">)</span><span class="op">)</span></span></span>
<span class="r-in"><span><span class="fu">redcap_wider</span><span class="op">(</span><span class="va">list</span><span class="op">)</span></span></span>
<span class="r-msg co"><span class="r-pr">#&gt;</span> Joining with `by = join_by(record_id)`</span>
<span class="r-out co"><span class="r-pr">#&gt;</span> record_id age_baseline age_followup gender</span>
<span class="r-out co"><span class="r-pr">#&gt;</span> 1 1 25 27 male</span>
<span class="r-out co"><span class="r-pr">#&gt;</span> 2 2 26 28 female</span>
</code></pre></div>
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<img src="" class="logo" alt=""><h1>Data set for demonstration</h1>
<small class="dont-index">Source: <a href="https://github.com/agdamsbo/REDCapRITS/blob/HEAD/R/redcapcast_data.R" class="external-link"><code>R/redcapcast_data.R</code></a></small>
<div class="d-none name"><code>redcapcast_data.Rd</code></div>
</div>
<div class="ref-description section level2">
<p>This is a small dataset from a REDCap database for demonstrational purposes.
Contains only synthetic data.</p>
</div>
<div class="section level2">
<h2 id="ref-usage">Usage<a class="anchor" aria-label="anchor" href="#ref-usage"></a></h2>
<div class="sourceCode"><pre class="sourceCode r"><code><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">redcapcast_data</span><span class="op">)</span></span></code></pre></div>
</div>
<div class="section level2">
<h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a></h2>
<p>A data frame with 22 variables:</p><dl><dt>record_id</dt>
<dd><p>ID, numeric</p></dd>
<dt>redcap_event_name</dt>
<dd><p>Event name, character</p></dd>
<dt>redcap_repeat_instrument</dt>
<dd><p>Repeat instrument, character</p></dd>
<dt>redcap_repeat_instance</dt>
<dd><p>Repeat instance, numeric</p></dd>
<dt>cpr</dt>
<dd><p>CPR number, character</p></dd>
<dt>inclusion</dt>
<dd><p>Inclusion date, date</p></dd>
<dt>dob</dt>
<dd><p>Date of birth, date</p></dd>
<dt>age</dt>
<dd><p>Age decimal, numeric</p></dd>
<dt>age_integer</dt>
<dd><p>Age integer, numeric</p></dd>
<dt>sex</dt>
<dd><p>Legal sex, character</p></dd>
<dt>cohabitation</dt>
<dd><p>Cohabitation status, character</p></dd>
<dt>hypertension</dt>
<dd><p>Hypertension, character</p></dd>
<dt>diabetes</dt>
<dd><p>diabetes, character</p></dd>
<dt>region</dt>
<dd><p>region, character</p></dd>
<dt>base_complete</dt>
<dd><p>Completed, character</p></dd>
<dt>mrs_assessed</dt>
<dd><p>mRS Assessed, character</p></dd>
<dt>mrs_date</dt>
<dd><p>Assesment date, date</p></dd>
<dt>mrs_score</dt>
<dd><p>Score, numeric</p></dd>
<dt>mrs_complete</dt>
<dd><p>Complete, numeric</p></dd>
<dt>event_date</dt>
<dd><p>Event date, date</p></dd>
<dt>event_type</dt>
<dd><p>Event type, character</p></dd>
<dt>event_complete</dt>
<dd><p>Completed, character</p></dd>
</dl></div>
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<img src="" class="logo" alt=""><h1>REDCap matedata from data base</h1>
<small class="dont-index">Source: <a href="https://github.com/agdamsbo/REDCapRITS/blob/HEAD/R/redcapcast_meta.R" class="external-link"><code>R/redcapcast_meta.R</code></a></small>
<div class="d-none name"><code>redcapcast_meta.Rd</code></div>
</div>
<div class="ref-description section level2">
<p>This metadata dataset from a REDCap database is for demonstrational purposes.</p>
</div>
<div class="section level2">
<h2 id="ref-usage">Usage<a class="anchor" aria-label="anchor" href="#ref-usage"></a></h2>
<div class="sourceCode"><pre class="sourceCode r"><code><span><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">redcapcast_meta</span><span class="op">)</span></span></code></pre></div>
</div>
<div class="section level2">
<h2 id="format">Format<a class="anchor" aria-label="anchor" href="#format"></a></h2>
<p>A data frame with 22 variables:</p><dl><dt>field_name</dt>
<dd><p>field_name, character</p></dd>
<dt>form_name</dt>
<dd><p>form_name, character</p></dd>
<dt>section_header</dt>
<dd><p>section_header, character</p></dd>
<dt>field_type</dt>
<dd><p>field_type, character</p></dd>
<dt>field_label</dt>
<dd><p>field_label, character</p></dd>
<dt>select_choices_or_calculations</dt>
<dd><p>select_choices_or_calculations, character</p></dd>
<dt>field_note</dt>
<dd><p>field_note, character</p></dd>
<dt>text_validation_type_or_show_slider_number</dt>
<dd><p>text_validation_type_or_show_slider_number, character</p></dd>
<dt>text_validation_min</dt>
<dd><p>text_validation_min, character</p></dd>
<dt>text_validation_max</dt>
<dd><p>text_validation_max, character</p></dd>
<dt>identifier</dt>
<dd><p>identifier, character</p></dd>
<dt>branching_logic</dt>
<dd><p>branching_logic, character</p></dd>
<dt>required_field</dt>
<dd><p>required_field, character</p></dd>
<dt>custom_alignment</dt>
<dd><p>custom_alignment, character</p></dd>
<dt>question_number</dt>
<dd><p>question_number, character</p></dd>
<dt>matrix_group_name</dt>
<dd><p>matrix_group_name, character</p></dd>
<dt>matrix_ranking</dt>
<dd><p>matrix_ranking, character</p></dd>
<dt>field_annotation</dt>
<dd><p>field_annotation, character</p></dd>
</dl></div>
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<img src="" class="logo" alt=""><h1>Sanitize list of data frames</h1>
<small class="dont-index">Source: <a href="https://github.com/agdamsbo/REDCapRITS/blob/HEAD/R/utils.r" class="external-link"><code>R/utils.r</code></a></small>
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<div class="ref-description section level2">
<p>Removing empty rows</p>
</div>
<div class="section level2">
<h2 id="ref-usage">Usage<a class="anchor" aria-label="anchor" href="#ref-usage"></a></h2>
<div class="sourceCode"><pre class="sourceCode r"><code><span><span class="fu">sanitize_split</span><span class="op">(</span></span>
<span> <span class="va">l</span>,</span>
<span> generic.names <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"record_id"</span>, <span class="st">"redcap_event_name"</span>, <span class="st">"redcap_repeat_instrument"</span>,</span>
<span> <span class="st">"redcap_repeat_instance"</span><span class="op">)</span></span>
<span><span class="op">)</span></span></code></pre></div>
</div>
<div class="section level2">
<h2 id="arguments">Arguments<a class="anchor" aria-label="anchor" href="#arguments"></a></h2>
<dl><dt>l</dt>
<dd><p>A list of data frames.</p></dd>
<dt>generic.names</dt>
<dd><p>A vector of generic names to be excluded.</p></dd>
</dl></div>
<div class="section level2">
<h2 id="value">Value<a class="anchor" aria-label="anchor" href="#value"></a></h2>
<p>A list of data frames with generic names excluded.</p>
</div>
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<img src="" class="logo" alt=""><h1>Split a data frame into separate tables for each form</h1>
<small class="dont-index">Source: <a href="https://github.com/agdamsbo/REDCapRITS/blob/HEAD/R/utils.r" class="external-link"><code>R/utils.r</code></a></small>
<div class="d-none name"><code>split_non_repeating_forms.Rd</code></div>
</div>
<div class="ref-description section level2">
<p>Split a data frame into separate tables for each form</p>
</div>
<div class="section level2">
<h2 id="ref-usage">Usage<a class="anchor" aria-label="anchor" href="#ref-usage"></a></h2>
<div class="sourceCode"><pre class="sourceCode r"><code><span><span class="fu">split_non_repeating_forms</span><span class="op">(</span><span class="va">table</span>, <span class="va">universal_fields</span>, <span class="va">fields</span><span class="op">)</span></span></code></pre></div>
</div>
<div class="section level2">
<h2 id="arguments">Arguments<a class="anchor" aria-label="anchor" href="#arguments"></a></h2>
<dl><dt>table</dt>
<dd><p>A data frame</p></dd>
<dt>universal_fields</dt>
<dd><p>A character vector of fields that should be included
in every table</p></dd>
<dt>fields</dt>
<dd><p>A two-column matrix containing the names of fields that should
be included in each form</p></dd>
</dl></div>
<div class="section level2">
<h2 id="value">Value<a class="anchor" aria-label="anchor" href="#value"></a></h2>
<p>A list of data frames, one for each non-repeating form</p>
</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><span class="co"># Create a table</span></span></span>
<span class="r-in"><span><span class="va">table</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/data.frame.html" class="external-link">data.frame</a></span><span class="op">(</span></span></span>
<span class="r-in"><span> id <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">1</span>, <span class="fl">2</span>, <span class="fl">3</span>, <span class="fl">4</span>, <span class="fl">5</span><span class="op">)</span>,</span></span>
<span class="r-in"><span> form_a_name <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"John"</span>, <span class="st">"Alice"</span>, <span class="st">"Bob"</span>, <span class="st">"Eve"</span>, <span class="st">"Mallory"</span><span class="op">)</span>,</span></span>
<span class="r-in"><span> form_a_age <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="fl">25</span>, <span class="fl">30</span>, <span class="fl">25</span>, <span class="fl">15</span>, <span class="fl">20</span><span class="op">)</span>,</span></span>
<span class="r-in"><span> form_b_name <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"John"</span>, <span class="st">"Alice"</span>, <span class="st">"Bob"</span>, <span class="st">"Eve"</span>, <span class="st">"Mallory"</span><span class="op">)</span>,</span></span>
<span class="r-in"><span> form_b_gender <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"M"</span>, <span class="st">"F"</span>, <span class="st">"M"</span>, <span class="st">"F"</span>, <span class="st">"F"</span><span class="op">)</span></span></span>
<span class="r-in"><span><span class="op">)</span></span></span>
<span class="r-in"><span></span></span>
<span class="r-in"><span><span class="co"># Create the universal fields</span></span></span>
<span class="r-in"><span><span class="va">universal_fields</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"id"</span><span class="op">)</span></span></span>
<span class="r-in"><span></span></span>
<span class="r-in"><span><span class="co"># Create the fields</span></span></span>
<span class="r-in"><span><span class="va">fields</span> <span class="op">&lt;-</span> <span class="fu"><a href="https://rdrr.io/r/base/matrix.html" class="external-link">matrix</a></span><span class="op">(</span></span></span>
<span class="r-in"><span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"form_a_name"</span>, <span class="st">"form_a"</span>,</span></span>
<span class="r-in"><span> <span class="st">"form_a_age"</span>, <span class="st">"form_a"</span>,</span></span>
<span class="r-in"><span> <span class="st">"form_b_name"</span>, <span class="st">"form_b"</span>,</span></span>
<span class="r-in"><span> <span class="st">"form_b_gender"</span>, <span class="st">"form_b"</span><span class="op">)</span>,</span></span>
<span class="r-in"><span> ncol <span class="op">=</span> <span class="fl">2</span>, byrow <span class="op">=</span> <span class="cn">TRUE</span></span></span>
<span class="r-in"><span><span class="op">)</span></span></span>
<span class="r-in"><span></span></span>
<span class="r-in"><span><span class="co"># Split the table</span></span></span>
<span class="r-in"><span><span class="fu">split_non_repeating_forms</span><span class="op">(</span><span class="va">table</span>, <span class="va">universal_fields</span>, <span class="va">fields</span><span class="op">)</span></span></span>
<span class="r-out co"><span class="r-pr">#&gt;</span> $form_a_age</span>
<span class="r-out co"><span class="r-pr">#&gt;</span> id</span>
<span class="r-out co"><span class="r-pr">#&gt;</span> 1 1</span>
<span class="r-out co"><span class="r-pr">#&gt;</span> 2 2</span>
<span class="r-out co"><span class="r-pr">#&gt;</span> 3 3</span>
<span class="r-out co"><span class="r-pr">#&gt;</span> 4 4</span>
<span class="r-out co"><span class="r-pr">#&gt;</span> 5 5</span>
<span class="r-out co"><span class="r-pr">#&gt;</span> </span>
</code></pre></div>
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