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          <p><strong>Ilya Korsunsky</strong>. Maintainer, author. <a href="https://orcid.org/0000-0003-4848-3948" target="orcid.widget" aria-label="ORCID" class="external-link"><span class="fab fa-orcid orcid" aria-hidden="true"></span></a>

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          <p><strong>Soumya Raychaudhuri</strong>. Author. <a href="https://orcid.org/0000-0002-1901-8265" target="orcid.widget" aria-label="ORCID" class="external-link"><span class="fab fa-orcid orcid" aria-hidden="true"></span></a>

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    <p>Korsunsky I, Nathan A, Millard N, Raychaudhuri S (2022).

<em>presto: Fast Functions for Differential Expression using Wilcox and AUC</em>.

R package version 1.0.0. 

</p>

    <pre>@Manual{,

  title = {presto: Fast Functions for Differential Expression using Wilcox and AUC},

  author = {Ilya Korsunsky and Aparna Nathan and Nghia Millard and Soumya Raychaudhuri},

  year = {2022},

  note = {R package version 1.0.0},

}</pre>



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<div class="page-header"><h1 id="overview">Overview<a class="anchor" aria-label="anchor" href="#overview"></a>

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<p>Presto performs a fast Wilcoxon rank sum test and auROC analysis. Latest benchmark ran 1 million observations, 1K features, and 10 groups in 16 seconds (sparse input) and 85 seconds (dense input).</p>

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<h1 id="installation">Installation<a class="anchor" aria-label="anchor" href="#installation"></a>

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<p>We are working on getting presto into CRAN. For now, install Presto from github directly:</p>

<pre class="{r}"><code><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"><a href="https://devtools.r-lib.org/" class="external-link">devtools</a></span><span class="op">)</span></span>

<span><span class="fu"><a href="https://remotes.r-lib.org/reference/install_github.html" class="external-link">install_github</a></span><span class="op">(</span><span class="st">'immunogenomics/presto'</span><span class="op">)</span></span></code></pre>

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<h1 id="usage">Usage<a class="anchor" aria-label="anchor" href="#usage"></a>

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<p>Run presto on a matrix, Seurat, or SingleCellExperiment input object.</p>

<pre><code><span><span class="fu"><a href="reference/wilcoxauc.html">wilcoxauc</a></span><span class="op">(</span><span class="va">X</span>, <span class="va">y</span><span class="op">)</span></span>

<span><span class="fu"><a href="reference/wilcoxauc.html">wilcoxauc</a></span><span class="op">(</span><span class="va">seurat_object</span>, <span class="st">'group_name'</span><span class="op">)</span></span>

<span><span class="fu"><a href="reference/wilcoxauc.html">wilcoxauc</a></span><span class="op">(</span><span class="va">sce_object</span>, <span class="st">'group_name'</span><span class="op">)</span></span></code></pre>

<p>For examples, see <code><a href="reference/wilcoxauc.html">?wilcoxauc</a></code> and the <a href="http://htmlpreview.github.io/?https://github.com/immunogenomics/presto/blob/master/docs/getting-started.html" class="external-link">vignette</a></p>

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<li><a href="authors.html#citation">Citing presto</a></li>

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<h2 data-toc-skip>Developers</h2>

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<li>Ilya Korsunsky <br><small class="roles"> Maintainer, author </small> <a href="https://orcid.org/0000-0003-4848-3948" target="orcid.widget" aria-label="ORCID" class="external-link"><span class="fab fa-orcid orcid" aria-hidden="true"></span></a> </li>

<li>Aparna Nathan <br><small class="roles"> Author </small>  </li>

<li>Nghia Millard <br><small class="roles"> Author </small> <a href="https://orcid.org/0000-0002-0518-7674" target="orcid.widget" aria-label="ORCID" class="external-link"><span class="fab fa-orcid orcid" aria-hidden="true"></span></a> </li>

<li>Soumya Raychaudhuri <br><small class="roles"> Author </small> <a href="https://orcid.org/0000-0002-1901-8265" target="orcid.widget" aria-label="ORCID" class="external-link"><span class="fab fa-orcid orcid" aria-hidden="true"></span></a> </li>

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<p>Developed by Ilya Korsunsky, Aparna Nathan, Nghia Millard, Soumya Raychaudhuri.</p>

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