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<title>Conduct multiple tests — test.multiple • spliceQTL</title>

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<meta property="og:description" content="This function tests for alternative splicing." />
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    <h1>Conduct multiple tests</h1>
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    <small class="dont-index">Source: <a href='https://github.com/rauschenberger/spliceQTL/blob/master/R/functions.R'><code>R/functions.R</code></a></small>
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    <div class="hidden name"><code>test.multiple.Rd</code></div>
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    <div class="ref-description">
    
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    <p>This function tests for alternative splicing.</p>
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    </div>

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    <pre class="usage"><span class='fu'>test.multiple</span>(<span class='no'>Y</span>, <span class='no'>X</span>, <span class='no'>map</span>, <span class='kw'>rho</span> <span class='kw'>=</span> <span class='fu'>c</span>(<span class='fl'>0</span>, <span class='fl'>0.5</span>, <span class='fl'>1</span>), <span class='kw'>spec</span> <span class='kw'>=</span> <span class='fl'>1</span>, <span class='kw'>steps</span> <span class='kw'>=</span> <span class='fl'>20</span>)</pre>
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    <h2 class="hasAnchor" id="arguments"><a class="anchor" href="#arguments"></a>Arguments</h2>
    <table class="ref-arguments">
    <colgroup><col class="name" /><col class="desc" /></colgroup>
    <tr>
      <th>Y</th>
      <td><p>exon expression<strong>:</strong>
matrix with \(n\) rows (samples) and \(p\) columns (exons)</p></td>
    </tr>
    <tr>
      <th>X</th>
      <td><p>SNP genotype<strong>:</strong>
matrix with \(n\) rows (samples) and \(q\) columns (SNPs)</p></td>
    </tr>
    <tr>
      <th>map</th>
      <td><p>list with names "genes", "exons", and "snps"
(output from <code>map.genes</code>, <code>map.exons</code>, and <code>map.snps</code>)</p></td>
    </tr>
    <tr>
      <th>rho</th>
      <td><p>correlation<strong>:</strong>
numeric vector with values between \(0\) and \(1\)</p></td>
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    </tr>
    <tr>
      <th>spec</th>
      <td><p>number of cores<strong>:</strong>
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positive integer</p></td>
    </tr>
    <tr>
      <th>steps</th>
      <td><p>number of iteration chunks<strong>:</strong>
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positive integer</p></td>
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    </tr>
    </table>
    
    <h2 class="hasAnchor" id="details"><a class="anchor" href="#details"></a>Details</h2>

    <p>Automatic adjustment of the number of permutations
such that Bonferroni-significant p-values are possible.</p>
    

    <h2 class="hasAnchor" id="examples"><a class="anchor" href="#examples"></a>Examples</h2>
    <pre class="examples"><div class='input'><span class='fl'>NA</span></div><div class='output co'>#&gt; [1] NA</div><div class='input'>
</div></pre>
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    <h2>Contents</h2>
    <ul class="nav nav-pills nav-stacked">
      <li><a href="#arguments">Arguments</a></li>
      
      <li><a href="#details">Details</a></li>
      
      <li><a href="#examples">Examples</a></li>
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