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            <h1 id="seo-header">Seurat (八) BoxPlot：不同组间不同细胞的基因表达</h1>
            
            
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                <figure class="highlight r"><table><tr><td class="gutter"><pre><span class="line">1</span><br><span class="line">2</span><br><span class="line">3</span><br><span class="line">4</span><br><span class="line">5</span><br><span class="line">6</span><br><span class="line">7</span><br><span class="line">8</span><br><span class="line">9</span><br><span class="line">10</span><br><span class="line">11</span><br><span class="line">12</span><br><span class="line">13</span><br><span class="line">14</span><br><span class="line">15</span><br><span class="line">16</span><br><span class="line">17</span><br><span class="line">18</span><br><span class="line">19</span><br><span class="line">20</span><br><span class="line">21</span><br><span class="line">22</span><br><span class="line">23</span><br><span class="line">24</span><br><span class="line">25</span><br><span class="line">26</span><br><span class="line">27</span><br><span class="line">28</span><br><span class="line">29</span><br><span class="line">30</span><br><span class="line">31</span><br><span class="line">32</span><br><span class="line">33</span><br><span class="line">34</span><br><span class="line">35</span><br><span class="line">36</span><br><span class="line">37</span><br><span class="line">38</span><br><span class="line">39</span><br><span class="line">40</span><br><span class="line">41</span><br><span class="line">42</span><br><span class="line">43</span><br><span class="line">44</span><br><span class="line">45</span><br><span class="line">46</span><br><span class="line">47</span><br><span class="line">48</span><br><span class="line">49</span><br><span class="line">50</span><br><span class="line">51</span><br><span class="line">52</span><br><span class="line">53</span><br><span class="line">54</span><br><span class="line">55</span><br><span class="line">56</span><br><span class="line">57</span><br><span class="line">58</span><br></pre></td><td class="code"><pre><code 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class="hljs-operator">=</span><span class="hljs-number">1</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span>axis.title<span class="hljs-operator">=</span>element_blank<span class="hljs-punctuation">(</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">)</span><br>    <span class="hljs-keyword">if</span> <span class="hljs-punctuation">(</span><span class="hljs-built_in">length</span><span class="hljs-punctuation">(</span>title<span class="hljs-punctuation">)</span> <span class="hljs-operator">==</span> <span class="hljs-number">0</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">&#123;</span>title <span class="hljs-operator">=</span> lc_icg<span class="hljs-punctuation">&#125;</span><br>    p<span class="hljs-operator">=</span>p<span class="hljs-operator">+</span>ggtitle<span class="hljs-punctuation">(</span>title<span class="hljs-punctuation">)</span><span class="hljs-operator">+</span>theme<span class="hljs-punctuation">(</span>plot.title <span class="hljs-operator">=</span> element_text<span class="hljs-punctuation">(</span>hjust <span class="hljs-operator">=</span> <span class="hljs-number">0.5</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">)</span><br>    p<br><span class="hljs-punctuation">&#125;</span><br><br>f_bp_gcg <span class="hljs-operator">&lt;-</span> <span class="hljs-keyword">function</span><span class="hljs-punctuation">(</span>sObject<span class="hljs-punctuation">,</span> lc_groupN<span class="hljs-punctuation">,</span> lc_labelN<span class="hljs-punctuation">,</span> gG<span class="hljs-punctuation">)</span><span class="hljs-punctuation">&#123;</span><br>    ss <span class="hljs-operator">&lt;-</span> SplitObject<span class="hljs-punctuation">(</span>sObject<span class="hljs-punctuation">,</span> split.by <span class="hljs-operator">=</span> lc_groupN<span class="hljs-punctuation">)</span><br>    lc_N <span class="hljs-operator">=</span>  <span class="hljs-built_in">names</span><span class="hljs-punctuation">(</span>ss<span class="hljs-punctuation">)</span><span class="hljs-punctuation">[</span><span class="hljs-number">1</span><span class="hljs-punctuation">]</span><br>    p <span class="hljs-operator">=</span> f_icg_boxp<span class="hljs-punctuation">(</span>ss<span class="hljs-punctuation">[[</span>lc_N<span class="hljs-punctuation">]</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">[[</span><span class="hljs-string">&#x27;RNA&#x27;</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">]</span><span class="hljs-operator">@</span>data<span class="hljs-punctuation">,</span> gG<span class="hljs-punctuation">,</span> ss<span class="hljs-punctuation">[[</span>lc_N<span class="hljs-punctuation">]</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">[[</span>lc_labelN<span class="hljs-punctuation">]</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span> sprintf<span class="hljs-punctuation">(</span><span class="hljs-string">&#x27;%s in %s&#x27;</span><span class="hljs-punctuation">,</span> gG<span class="hljs-punctuation">,</span> lc_N<span class="hljs-punctuation">)</span><span class="hljs-punctuation">)</span><br>    <span class="hljs-keyword">for</span> <span class="hljs-punctuation">(</span>lc_N <span class="hljs-keyword">in</span> <span class="hljs-built_in">names</span><span class="hljs-punctuation">(</span>ss<span class="hljs-punctuation">)</span><span class="hljs-punctuation">[</span><span class="hljs-operator">-</span><span class="hljs-number">1</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">&#123;</span><br>        p <span class="hljs-operator">=</span> p <span class="hljs-operator">+</span> f_icg_boxp<span class="hljs-punctuation">(</span>ss<span class="hljs-punctuation">[[</span>lc_N<span class="hljs-punctuation">]</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">[[</span><span class="hljs-string">&#x27;RNA&#x27;</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">]</span><span class="hljs-operator">@</span>data<span class="hljs-punctuation">,</span> gG<span class="hljs-punctuation">,</span> ss<span class="hljs-punctuation">[[</span>lc_N<span class="hljs-punctuation">]</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">[[</span>lc_labelN<span class="hljs-punctuation">]</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span> sprintf<span class="hljs-punctuation">(</span><span class="hljs-string">&#x27;%s in %s&#x27;</span><span class="hljs-punctuation">,</span> gG<span class="hljs-punctuation">,</span> lc_N<span class="hljs-punctuation">)</span><span class="hljs-punctuation">)</span><br>    <span class="hljs-punctuation">&#125;</span><br>    p <span class="hljs-operator">+</span> plot_layout<span class="hljs-punctuation">(</span>ncol <span class="hljs-operator">=</span> <span class="hljs-number">3</span><span class="hljs-punctuation">)</span><br><span class="hljs-punctuation">&#125;</span><br><br>f_br_cluster_f <span class="hljs-operator">&lt;-</span> <span class="hljs-keyword">function</span><span class="hljs-punctuation">(</span>sObject<span class="hljs-punctuation">,</span> lc_groupN<span class="hljs-punctuation">)</span><span class="hljs-punctuation">&#123;</span><br>    lc_filter <span class="hljs-operator">&lt;-</span> unlist<span class="hljs-punctuation">(</span>unique<span class="hljs-punctuation">(</span>sObject<span class="hljs-punctuation">[[</span>lc_groupN<span class="hljs-punctuation">]</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">)</span><br>    lc_filter <span class="hljs-operator">&lt;-</span> lc_filter<span class="hljs-punctuation">[</span><span class="hljs-operator">!</span><span class="hljs-built_in">is.na</span><span class="hljs-punctuation">(</span>lc_filter<span class="hljs-punctuation">)</span><span class="hljs-punctuation">]</span><br>    lc_filter<br><span class="hljs-punctuation">&#125;</span><br><br>f_metadata_removeNA <span class="hljs-operator">&lt;-</span> <span class="hljs-keyword">function</span><span class="hljs-punctuation">(</span>sObject<span class="hljs-punctuation">,</span> lc_groupN<span class="hljs-punctuation">)</span><span class="hljs-punctuation">&#123;</span><br>    sObject<span class="hljs-operator">@</span>meta.data <span class="hljs-operator">&lt;-</span> sObject<span class="hljs-operator">@</span>meta.data<span class="hljs-punctuation">[</span>colnames<span class="hljs-punctuation">(</span>sObject<span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span><span class="hljs-punctuation">]</span><br>    sObject <span class="hljs-operator">&lt;-</span> subset<span class="hljs-punctuation">(</span>x <span class="hljs-operator">=</span> sObject<span class="hljs-punctuation">,</span> <span class="hljs-operator">!</span><span class="hljs-operator">!</span>sym<span class="hljs-punctuation">(</span>lc_groupN<span class="hljs-punctuation">)</span><span class="hljs-operator">%in%</span>f_br_cluster_f<span class="hljs-punctuation">(</span>sObject<span class="hljs-punctuation">,</span> lc_groupN<span class="hljs-punctuation">)</span><span class="hljs-punctuation">)</span><br>    sObject<br><span class="hljs-punctuation">&#125;</span><br><br>scRNA_split <span class="hljs-operator">=</span> readRDS<span class="hljs-punctuation">(</span><span class="hljs-string">&quot;~/zlliu/R_output/21.09.21.SingleR/scRNA.rds&quot;</span><span class="hljs-punctuation">)</span><br>scRNA_split <span class="hljs-operator">&lt;-</span> f_metadata_removeNA<span class="hljs-punctuation">(</span>scRNA_split<span class="hljs-punctuation">,</span> <span class="hljs-string">&#x27;Region&#x27;</span><span class="hljs-punctuation">)</span><br><br>f_bp_gcg<span class="hljs-punctuation">(</span>scRNA_split<span class="hljs-punctuation">,</span> <span class="hljs-string">&#x27;Region&#x27;</span><span class="hljs-punctuation">,</span> <span class="hljs-string">&#x27;hM1_hmca_class&#x27;</span><span class="hljs-punctuation">,</span> <span class="hljs-string">&#x27;NRXN3&#x27;</span><span class="hljs-punctuation">)</span><br></code></pre></td></tr></table></figure>

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