CopyKit_paper/copykit_manuscript_code.html at main · navinlabcode/CopyKit_paper · GitHub

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<li><a href="./">CopyKit Manuscript Code</a></li>

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<li class="chapter" data-level="1" data-path=""><a href="#copykit_manuscript_code"><i class="fa fa-check"></i><b>1</b> CopyKit_Manuscript_Code</a>
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<li class="chapter" data-level="1.1" data-path=""><a href="#manuscript-code"><i class="fa fa-check"></i><b>1.1</b> Manuscript Code</a></li>
<li class="chapter" data-level="1.2" data-path=""><a href="#copykit-installation"><i class="fa fa-check"></i><b>1.2</b> CopyKit installation</a></li>
<li class="chapter" data-level="1.3" data-path=""><a href="#documentation"><i class="fa fa-check"></i><b>1.3</b> Documentation</a></li>
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<div id="copykit_manuscript_code" class="section level1" number="1">
<h1><span class="header-section-number">1</span> CopyKit_Manuscript_Code</h1>
<!-- badges: start -->
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<p>This repository contains the scripts to reproduce the figures for the CopyKit manuscript.
<strong>Resolving clonal substructure from single cell genomic data using CopyKit</strong></p>
<div id="manuscript-code" class="section level2" number="1.1">
<h2><span class="header-section-number">1.1</span> Manuscript Code</h2>
<p>Code to reproduce figures from the manuscript can be found here:
<a href="https://navinlabcode.github.io/CopyKit_paper/">https://navinlabcode.github.io/CopyKit_paper/</a></p>
</div>
<div id="copykit-installation" class="section level2" number="1.2">
<h2><span class="header-section-number">1.2</span> CopyKit installation</h2>
<p>You can install the development version of CopyKit from github with:</p>
<div class="sourceCode" id="cb1"><pre class="sourceCode r"><code class="sourceCode r"><span id="cb1-1"><a href="#cb1-1" aria-hidden="true" tabindex="-1"></a>devtools<span class="sc">::</span><span class="fu">install_github</span>(<span class="st">&quot;navinlabcode/copykit&quot;</span>)</span></code></pre></div>
<p>Please check CopyKit package GitHub repository as well:
<a href="https://github.com/navinlabcode/copykit">https://github.com/navinlabcode/copykit</a></p>
</div>
<div id="documentation" class="section level2" number="1.3">
<h2><span class="header-section-number">1.3</span> Documentation</h2>
<p>CopyKit complete documentation can be found here:
<a href="https://navinlabcode.github.io/CopyKit-UserGuide/">https://navinlabcode.github.io/CopyKit-UserGuide/</a></p>
</div>
<div id="datasets" class="section level2" number="1.4">
<h2><span class="header-section-number">1.4</span> Datasets</h2>
<p>Files used for this project are deposited to the sequence read archive (SRA) under BioProject PRJNA785341.</p>
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