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<section id="spapros-ev-probesetevaluator-plot-coexpression">
<h1>spapros.ev.ProbesetEvaluator.plot_coexpression<a class="headerlink" href="#spapros-ev-probesetevaluator-plot-coexpression" title="Permalink to this heading"></a></h1>
<dl class="py method">
<dt class="sig sig-object py" id="spapros.ev.ProbesetEvaluator.plot_coexpression">
<span class="sig-prename descclassname"><span class="pre">ProbesetEvaluator.</span></span><span class="sig-name descname"><span class="pre">plot_coexpression</span></span><span class="sig-paren">(</span><em class="sig-param"><span class="n"><span class="pre">set_ids</span></span><span class="o"><span class="pre">=</span></span><span class="default_value"><span class="pre">None</span></span></em>, <em class="sig-param"><span class="o"><span class="pre">**</span></span><span class="n"><span class="pre">kwargs</span></span></em><span class="sig-paren">)</span><a class="headerlink" href="#spapros.ev.ProbesetEvaluator.plot_coexpression" title="Permalink to this definition"></a></dt>
<dd><p>Plot heatmaps of gene correlation matrices</p>
<dl class="field-list simple">
<dt class="field-odd">Parameters<span class="colon">:</span></dt>
<dd class="field-odd"><ul class="simple">
<li><p><strong>set_ids</strong> (<em>Optional</em><em>[</em><em>List</em><em>[</em><em>str</em><em>]</em><em>]</em>) – List of probeset IDs. Check out <code class="xref py py-attr docutils literal notranslate"><span class="pre">ProbesetEvaluator.summary_results</span></code> for available sets.</p></li>
<li><p><strong>**kwargs</strong> – Any keyword argument from <a class="reference internal" href="../pl/spapros.pl.correlation_matrix.html#spapros.pl.correlation_matrix" title="spapros.pl.correlation_matrix"><code class="xref py py-func docutils literal notranslate"><span class="pre">correlation_matrix()</span></code></a>.</p></li>
</ul>
</dd>
<dt class="field-even">Return type<span class="colon">:</span></dt>
<dd class="field-even"><p>None</p>
</dd>
</dl>
<p class="rubric">Example</p>
<div class="highlight-python notranslate"><div class="highlight"><pre><span></span><span class="kn">import</span> <span class="nn">spapros</span> <span class="k">as</span> <span class="nn">sp</span>
<span class="n">adata</span> <span class="o">=</span> <span class="n">sp</span><span class="o">.</span><span class="n">ut</span><span class="o">.</span><span class="n">get_processed_pbmc_data</span><span class="p">()</span>
<span class="n">selections</span> <span class="o">=</span> <span class="n">sp</span><span class="o">.</span><span class="n">se</span><span class="o">.</span><span class="n">select_reference_probesets</span><span class="p">(</span><span class="n">adata</span><span class="p">,</span> <span class="n">methods</span><span class="o">=</span><span class="p">[</span><span class="s2">"PCA"</span><span class="p">,</span><span class="s2">"DE"</span><span class="p">,</span> <span class="s2">"HVG"</span><span class="p">,</span> <span class="s2">"random"</span><span class="p">],</span> <span class="n">n</span><span class="o">=</span><span class="mi">30</span><span class="p">,</span> <span class="n">verbosity</span><span class="o">=</span><span class="mi">0</span><span class="p">)</span>
<span class="n">evaluator</span> <span class="o">=</span> <span class="n">sp</span><span class="o">.</span><span class="n">ev</span><span class="o">.</span><span class="n">ProbesetEvaluator</span><span class="p">(</span><span class="n">adata</span><span class="p">,</span> <span class="n">verbosity</span><span class="o">=</span><span class="mi">0</span><span class="p">,</span> <span class="n">results_dir</span><span class="o">=</span><span class="kc">None</span><span class="p">,</span> <span class="n">scheme</span><span class="o">=</span><span class="s2">"custom"</span><span class="p">,</span> <span class="n">metrics</span><span class="o">=</span><span class="p">[</span><span class="s2">"gene_corr"</span><span class="p">])</span>
<span class="k">for</span> <span class="n">set_id</span><span class="p">,</span> <span class="n">df</span> <span class="ow">in</span> <span class="n">selections</span><span class="o">.</span><span class="n">items</span><span class="p">():</span>
<span class="n">gene_set</span> <span class="o">=</span> <span class="n">df</span><span class="p">[</span><span class="n">df</span><span class="p">[</span><span class="s2">"selection"</span><span class="p">]]</span><span class="o">.</span><span class="n">index</span><span class="o">.</span><span class="n">to_list</span><span class="p">()</span>
<span class="n">evaluator</span><span class="o">.</span><span class="n">evaluate_probeset</span><span class="p">(</span><span class="n">gene_set</span><span class="p">,</span> <span class="n">set_id</span><span class="o">=</span><span class="n">set_id</span><span class="p">)</span>
<span class="n">evaluator</span><span class="o">.</span><span class="n">plot_coexpression</span><span class="p">(</span><span class="n">n_cols</span><span class="o">=</span><span class="mi">4</span><span class="p">)</span>
</pre></div>
</div>
<img alt="../_images/Evaluator_plot_coexpression.png" src="../_images/Evaluator_plot_coexpression.png" />
</dd></dl>
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