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  136. <h1 id="seo-header">clusterProfiler:自定义数据库</h1>
  137. <div class="markdown-body">
  138. <p>clusterProfiler中提供了enricher和GSEA两个函数,enricher包装了**<a target="_blank" rel="noopener" href="https://zhuanlan.zhihu.com/p/453991735">Over-representation analysis</a>**,GSEA包装了<a target="_blank" rel="noopener" href="https://www.jianshu.com/p/48d1e043fb63">Gene Set Enrichment Analysis</a>。这两个函数与其他的enrichKEGG、gseKEGG的唯一不同点是提供的不是KEGG数据库,而是TERM2GENE和TERM2NAME两个参数。</p>
  139. <p>从<a target="_blank" rel="noopener" href="https://occdn.limour.top/2126.html">gson格式初探</a>中,我们可以得到一个Anno对象kk,恰好其中就有kk@gsid2gene、kk@gsid2name两个属性,因此我们可以得知gsid2gene、gsid2name都是一个两列的长数据框:gsid2gene的第一列是<strong>gsid</strong>、表示通路ID,第二列是<strong>gene</strong>、表示通路基因;gsid2name的第一列是<strong>gsid</strong>,第二列是<strong><strong>name</strong></strong>、对通路的描述。有了这些知识,我们可以尝试自己构建一个数据库。</p>
  140. <h2 id="构建尝试"><a href="#构建尝试" class="headerlink" title="构建尝试"></a>构建尝试</h2><p>包自带的KEGG数据分析起来需要输入ENTREZID。而常规的GTF文件中并不包含这个,通过<a target="_blank" rel="noopener" href="https://occdn.limour.top/1934.html">对比</a>得到的结果只有SYMBOL和ENSEMBL,因此直接转换难免出现不能对应的情况。所以我们需要一个以SYMBOL为<strong>gene</strong>的gsid2gene数据库。</p>
  141. <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></pre></td><td class="code"><pre><code class="hljs R">kk_SYMBOL <span class="hljs-operator">&lt;-</span> <span class="hljs-built_in">list</span><span class="hljs-punctuation">(</span><span class="hljs-punctuation">)</span><br>kk_SYMBOL<span class="hljs-punctuation">[[</span><span class="hljs-string">&#x27;TERM2NAME&#x27;</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">]</span> <span class="hljs-operator">&lt;-</span> kk<span class="hljs-operator">@</span>gsid2name<br>kk_SYMBOL<span class="hljs-punctuation">[[</span><span class="hljs-string">&#x27;TERM2GENE&#x27;</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">]</span> <span class="hljs-operator">&lt;-</span> kk<span class="hljs-operator">@</span>gsid2gene<br>tmp <span class="hljs-operator">&lt;-</span> AnnotationDbi<span class="hljs-operator">::</span>select<span class="hljs-punctuation">(</span>org.Hs.eg.db<span class="hljs-operator">::</span>org.Hs.eg.db<span class="hljs-punctuation">,</span>keys<span class="hljs-operator">=</span>kk_SYMBOL<span class="hljs-operator">$</span>TERM2GENE<span class="hljs-operator">$</span>gene<span class="hljs-punctuation">,</span>columns<span class="hljs-operator">=</span><span class="hljs-string">&#x27;SYMBOL&#x27;</span><span class="hljs-punctuation">,</span> keytype<span class="hljs-operator">=</span><span class="hljs-string">&#x27;ENTREZID&#x27;</span><span class="hljs-punctuation">)</span><br>kk_SYMBOL<span class="hljs-operator">$</span>TERM2GENE<span class="hljs-operator">$</span>gene <span class="hljs-operator">&lt;-</span> tmp<span class="hljs-operator">$</span>SYMBOL<br>kk_SYMBOL<span class="hljs-operator">$</span>TERM2GENE<br></code></pre></td></tr></table></figure>
  142. <p>通过上面的代码,我们得到了一个<strong>gene</strong>为SYMBOL,其他与KEGG完全一致的新数据库,让我们放入enricher中进行测试,看看是否能行。</p>
  143. <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></pre></td><td class="code"><pre><code class="hljs R">kegg.d <span class="hljs-operator">&lt;-</span> enricher<span class="hljs-punctuation">(</span>gene <span class="hljs-operator">=</span> subset<span class="hljs-punctuation">(</span>rres<span class="hljs-punctuation">,</span> log2FoldChange <span class="hljs-operator">&lt;</span> <span class="hljs-operator">-</span><span class="hljs-number">0.1</span> <span class="hljs-operator">&amp;</span> padj <span class="hljs-operator">&lt;</span> <span class="hljs-number">0.05</span><span class="hljs-punctuation">)</span><span class="hljs-operator">$</span>symbol<span class="hljs-punctuation">,</span><br> universe <span class="hljs-operator">=</span> rres<span class="hljs-operator">$</span>symbol<span class="hljs-punctuation">,</span><br> pAdjustMethod <span class="hljs-operator">=</span> <span class="hljs-string">&quot;fdr&quot;</span><span class="hljs-punctuation">,</span><br> qvalueCutoff <span class="hljs-operator">=</span> <span class="hljs-number">0.05</span><span class="hljs-punctuation">,</span><br> TERM2GENE <span class="hljs-operator">=</span> kk_SYMBOL<span class="hljs-operator">$</span>TERM2GENE<span class="hljs-punctuation">,</span><br> TERM2NAME <span class="hljs-operator">=</span> kk_SYMBOL<span class="hljs-operator">$</span>TERM2NAME<span class="hljs-punctuation">)</span><br>require<span class="hljs-punctuation">(</span>tidyverse<span class="hljs-punctuation">)</span><br>require<span class="hljs-punctuation">(</span>enrichplot<span class="hljs-punctuation">)</span><br>require<span class="hljs-punctuation">(</span>DOSE<span class="hljs-punctuation">)</span><br>f_kegg_p <span class="hljs-operator">&lt;-</span> <span class="hljs-keyword">function</span><span class="hljs-punctuation">(</span>keggr2<span class="hljs-punctuation">,</span> n <span class="hljs-operator">=</span> <span class="hljs-number">15</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">&#123;</span><br> keggr <span class="hljs-operator">&lt;-</span> subset<span class="hljs-punctuation">(</span>keggr2<span class="hljs-operator">@</span>result<span class="hljs-punctuation">,</span> p.adjust <span class="hljs-operator">&lt;</span> <span class="hljs-number">0.05</span><span class="hljs-punctuation">)</span><br> keggr<span class="hljs-punctuation">[[</span><span class="hljs-string">&#x27;-log(Padj)&#x27;</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">]</span> <span class="hljs-operator">&lt;-</span> <span class="hljs-operator">-</span>log10<span class="hljs-punctuation">(</span>keggr<span class="hljs-punctuation">[[</span><span class="hljs-string">&#x27;p.adjust&#x27;</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">)</span><br> keggr<span class="hljs-punctuation">[[</span><span class="hljs-string">&#x27;geneRatio&#x27;</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">]</span> <span class="hljs-operator">&lt;-</span> parse_ratio<span class="hljs-punctuation">(</span>keggr<span class="hljs-punctuation">[[</span><span class="hljs-string">&#x27;GeneRatio&#x27;</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">)</span><br> keggr<span class="hljs-operator">$</span>Description <span class="hljs-operator">&lt;-</span> factor<span class="hljs-punctuation">(</span>keggr<span class="hljs-operator">$</span>Description<span class="hljs-punctuation">,</span> <br> levels<span class="hljs-operator">=</span>keggr<span class="hljs-punctuation">[</span>order<span class="hljs-punctuation">(</span>keggr<span class="hljs-operator">$</span>geneRatio<span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span><span class="hljs-punctuation">]</span><span class="hljs-operator">$</span>Description<span class="hljs-punctuation">)</span><br> ggplot<span class="hljs-punctuation">(</span>head<span class="hljs-punctuation">(</span>keggr<span class="hljs-punctuation">,</span>n<span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span>aes<span class="hljs-punctuation">(</span>x<span class="hljs-operator">=</span>geneRatio<span class="hljs-punctuation">,</span>y<span class="hljs-operator">=</span>Description<span class="hljs-punctuation">)</span><span class="hljs-punctuation">)</span><span class="hljs-operator">+</span><br> geom_point<span class="hljs-punctuation">(</span>aes<span class="hljs-punctuation">(</span>color<span class="hljs-operator">=</span>`-log(Padj)`<span class="hljs-punctuation">,</span><br> size<span class="hljs-operator">=</span>`Count`<span class="hljs-punctuation">)</span><span class="hljs-punctuation">)</span><span class="hljs-operator">+</span><br> theme_bw<span class="hljs-punctuation">(</span><span class="hljs-punctuation">)</span><span class="hljs-operator">+</span><br> scale_color_gradient<span class="hljs-punctuation">(</span>low<span class="hljs-operator">=</span><span class="hljs-string">&quot;blue1&quot;</span><span class="hljs-punctuation">,</span>high<span class="hljs-operator">=</span><span class="hljs-string">&quot;brown1&quot;</span><span class="hljs-punctuation">)</span><span class="hljs-operator">+</span><br> labs<span class="hljs-punctuation">(</span>y<span class="hljs-operator">=</span><span class="hljs-literal">NULL</span><span class="hljs-punctuation">)</span> <span class="hljs-operator">+</span> <br> theme<span class="hljs-punctuation">(</span>axis.text.x<span class="hljs-operator">=</span>element_text<span class="hljs-punctuation">(</span>angle<span class="hljs-operator">=</span><span class="hljs-number">90</span><span class="hljs-punctuation">,</span>hjust <span class="hljs-operator">=</span> <span class="hljs-number">1</span><span class="hljs-punctuation">,</span>vjust<span class="hljs-operator">=</span><span class="hljs-number">0.5</span><span class="hljs-punctuation">,</span> size <span class="hljs-operator">=</span> <span class="hljs-number">12</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span><br> axis.text.y<span class="hljs-operator">=</span>element_text<span class="hljs-punctuation">(</span>size <span class="hljs-operator">=</span> <span class="hljs-number">15</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">)</span><br><span class="hljs-punctuation">&#125;</span><br>f_title <span class="hljs-operator">&lt;-</span> <span class="hljs-keyword">function</span><span class="hljs-punctuation">(</span>gp<span class="hljs-punctuation">,</span>title<span class="hljs-punctuation">)</span><span class="hljs-punctuation">&#123;</span><br> gp <span class="hljs-operator">+</span> labs<span class="hljs-punctuation">(</span>title <span class="hljs-operator">=</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><span class="hljs-punctuation">&#125;</span><br>f_kegg_p<span class="hljs-punctuation">(</span>kegg.d<span class="hljs-punctuation">,</span> n <span class="hljs-operator">=</span><span class="hljs-number">15</span><span class="hljs-punctuation">)</span> <span class="hljs-operator">%&gt;%</span> f_title<span class="hljs-punctuation">(</span><span class="hljs-string">&quot;kegg.d&quot;</span><span class="hljs-punctuation">)</span><br>require<span class="hljs-punctuation">(</span>enrichplot<span class="hljs-punctuation">)</span><br><span class="hljs-comment"># options(BioC_mirror=&quot;https://mirrors.tuna.tsinghua.edu.cn/bioconductor&quot;)</span><br><span class="hljs-comment"># BiocManager::install(&quot;ggnewscale&quot;)</span><br>kegg.d2 <span class="hljs-operator">&lt;-</span> pairwise_termsim<span class="hljs-punctuation">(</span>kegg.d<span class="hljs-punctuation">)</span><br>emapplot<span class="hljs-punctuation">(</span>kegg.d2<span class="hljs-punctuation">,</span>showCategory<span class="hljs-operator">=</span><span class="hljs-number">15</span><span class="hljs-punctuation">)</span> <br>rres <span class="hljs-operator">&lt;-</span> rres<span class="hljs-punctuation">[</span>order<span class="hljs-punctuation">(</span>rres<span class="hljs-operator">$</span>log2FoldChange<span class="hljs-punctuation">,</span> decreasing <span class="hljs-operator">=</span> <span class="hljs-built_in">T</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span><span class="hljs-punctuation">]</span><br>lgene <span class="hljs-operator">&lt;-</span> rres<span class="hljs-operator">$</span>log2FoldChange<br><span class="hljs-built_in">names</span><span class="hljs-punctuation">(</span>lgene<span class="hljs-punctuation">)</span> <span class="hljs-operator">&lt;-</span> rres<span class="hljs-operator">$</span>symbol<br>options<span class="hljs-punctuation">(</span>repr.plot.width<span class="hljs-operator">=</span><span class="hljs-number">8</span><span class="hljs-punctuation">,</span> repr.plot.height<span class="hljs-operator">=</span><span class="hljs-number">8</span><span class="hljs-punctuation">)</span><br>cnetplot<span class="hljs-punctuation">(</span>kegg.d2<span class="hljs-punctuation">,</span> foldChange<span class="hljs-operator">=</span>lgene<span class="hljs-punctuation">)</span><br></code></pre></td></tr></table></figure>
  144. <p><img src="https://img-cdn.limour.top/2022/07/21/62d88e9365f97.png" srcset="https://jscdn.limour.top/gh/Limour-dev/Sakurairo_Vision/load_svg/inload.svg" lazyload></p>
  145. <p>显然,结果是成功的!</p>
  146. <h2 id="豁然开朗"><a href="#豁然开朗" class="headerlink" title="豁然开朗"></a>豁然开朗</h2><p>既然可行,那我们来构建<a target="_blank" rel="noopener" href="http://www.gsea-msigdb.org/gsea/downloads.jsp">HALLMARKS</a>试试。</p>
  147. <ul>
  148. <li>下载 <a target="_blank" rel="noopener" href="http://www.gsea-msigdb.org/gsea/msigdb/download_file.jsp?filePath=/msigdb/release/7.5.1/h.all.v7.5.1.symbols.gmt">h.all.v7.5.1.symbols.gmt</a>,上传到服务器上</li>
  149. <li>GMT格式为制表符分隔文件,第一列是通路名称,第二列是描述,第三列以及之后是对应通路下的基因,每个通路为一行。</li>
  150. <li>使用下面的代码构建我们自己的clusterProfiler数据库</li>
  151. </ul>
  152. <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></pre></td><td class="code"><pre><code class="hljs R">text <span class="hljs-operator">&lt;-</span> readLines<span class="hljs-punctuation">(</span><span class="hljs-string">&quot;~/upload/zl_liu/gsea/h.all.v7.5.1.symbols.gmt&quot;</span><span class="hljs-punctuation">,</span> encoding <span class="hljs-operator">=</span> <span class="hljs-string">&quot;UTF-8&quot;</span><span class="hljs-punctuation">)</span><br>text <span class="hljs-operator">&lt;-</span> strsplit<span class="hljs-punctuation">(</span>text<span class="hljs-punctuation">,</span> <span class="hljs-string">&quot;\t&quot;</span><span class="hljs-punctuation">)</span><br>H.ALL <span class="hljs-operator">&lt;-</span> <span class="hljs-built_in">list</span><span class="hljs-punctuation">(</span>TERM2GENE<span class="hljs-operator">=</span>data.frame<span class="hljs-punctuation">(</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span> TERM2NAME<span class="hljs-operator">=</span>data.frame<span class="hljs-punctuation">(</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">)</span><br><span class="hljs-keyword">for</span> <span class="hljs-punctuation">(</span>i <span class="hljs-keyword">in</span> <span class="hljs-number">1</span><span class="hljs-operator">:</span><span class="hljs-built_in">length</span><span class="hljs-punctuation">(</span>text<span class="hljs-punctuation">)</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">&#123;</span><br> line <span class="hljs-operator">&lt;-</span> text<span class="hljs-punctuation">[[</span>i<span class="hljs-punctuation">]</span><span class="hljs-punctuation">]</span><br> gsid <span class="hljs-operator">&lt;-</span> line<span class="hljs-punctuation">[</span><span class="hljs-number">1</span><span class="hljs-punctuation">]</span><br> H.ALL<span class="hljs-operator">$</span>TERM2NAME <span class="hljs-operator">&lt;-</span> rbind<span class="hljs-punctuation">(</span>H.ALL<span class="hljs-operator">$</span>TERM2NAME<span class="hljs-punctuation">,</span> <span class="hljs-built_in">c</span><span class="hljs-punctuation">(</span>i<span class="hljs-punctuation">,</span>gsid<span class="hljs-punctuation">)</span><span class="hljs-punctuation">)</span><br> <span class="hljs-keyword">for</span><span class="hljs-punctuation">(</span>k <span class="hljs-keyword">in</span> <span class="hljs-number">3</span><span class="hljs-operator">:</span><span class="hljs-built_in">length</span><span class="hljs-punctuation">(</span>line<span class="hljs-punctuation">)</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">&#123;</span><br> H.ALL<span class="hljs-operator">$</span>TERM2GENE <span class="hljs-operator">&lt;-</span> rbind<span class="hljs-punctuation">(</span>H.ALL<span class="hljs-operator">$</span>TERM2GENE<span class="hljs-punctuation">,</span> <span class="hljs-built_in">c</span><span class="hljs-punctuation">(</span>i<span class="hljs-punctuation">,</span>line<span class="hljs-punctuation">[</span>k<span class="hljs-punctuation">]</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">)</span><br> <span class="hljs-punctuation">&#125;</span><br><span class="hljs-punctuation">&#125;</span><br>colnames<span class="hljs-punctuation">(</span>H.ALL<span class="hljs-operator">$</span>TERM2NAME<span class="hljs-punctuation">)</span> <span class="hljs-operator">&lt;-</span> <span class="hljs-built_in">c</span><span class="hljs-punctuation">(</span><span class="hljs-string">&#x27;gsid&#x27;</span><span class="hljs-punctuation">,</span> <span class="hljs-string">&#x27;name&#x27;</span><span class="hljs-punctuation">)</span><br>colnames<span class="hljs-punctuation">(</span>H.ALL<span class="hljs-operator">$</span>TERM2GENE<span class="hljs-punctuation">)</span> <span class="hljs-operator">&lt;-</span> <span class="hljs-built_in">c</span><span class="hljs-punctuation">(</span><span class="hljs-string">&#x27;gsid&#x27;</span><span class="hljs-punctuation">,</span> <span class="hljs-string">&#x27;gene&#x27;</span><span class="hljs-punctuation">)</span><br>saveRDS<span class="hljs-punctuation">(</span>H.ALL<span class="hljs-punctuation">,</span> <span class="hljs-string">&#x27;HALLMARKS.rds&#x27;</span><span class="hljs-punctuation">)</span><br></code></pre></td></tr></table></figure>
  153. <p>得到自己的HALLMARKS后,使用前面的方法即可进行enricher和GSEA分析。</p>
  154. <figure class="highlight r"><table><tr><td class="gutter"><pre><span class="line">1</span><br><span class="line">2</span><br><span class="line">3</span><br><span class="line">4</span><br><span class="line">5</span><br><span class="line">6</span><br><span class="line">7</span><br></pre></td><td class="code"><pre><code class="hljs R">H.ALL <span class="hljs-operator">&lt;-</span> readRDS<span class="hljs-punctuation">(</span><span class="hljs-string">&#x27;HALLMARKS.rds&#x27;</span><span class="hljs-punctuation">)</span><br>gse.H <span class="hljs-operator">&lt;-</span> GSEA<span class="hljs-punctuation">(</span>gene <span class="hljs-operator">=</span> lgene<span class="hljs-punctuation">,</span><br> pAdjustMethod <span class="hljs-operator">=</span> <span class="hljs-string">&quot;fdr&quot;</span><span class="hljs-punctuation">,</span><br> eps <span class="hljs-operator">=</span> <span class="hljs-number">0</span><span class="hljs-punctuation">,</span><br> TERM2GENE <span class="hljs-operator">=</span> H.ALL<span class="hljs-operator">$</span>TERM2GENE<span class="hljs-punctuation">,</span><br> TERM2NAME <span class="hljs-operator">=</span> H.ALL<span class="hljs-operator">$</span>TERM2NAME<span class="hljs-punctuation">)</span><br>gseaplot2<span class="hljs-punctuation">(</span>gse.H<span class="hljs-punctuation">,</span>geneSetID<span class="hljs-operator">=</span>head<span class="hljs-punctuation">(</span>which<span class="hljs-punctuation">(</span>gse.H<span class="hljs-operator">@</span>result<span class="hljs-operator">$</span>enrichmentScore <span class="hljs-operator">&lt;</span> <span class="hljs-operator">-</span><span class="hljs-number">0.3</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span><span class="hljs-number">6</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">)</span><br></code></pre></td></tr></table></figure>
  155. <p><img src="https://img-cdn.limour.top/2022/07/21/62d8989995e3f.png" srcset="https://jscdn.limour.top/gh/Limour-dev/Sakurairo_Vision/load_svg/inload.svg" lazyload></p>
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  349. }
  350. if (toc.find('.toc-list-item').length > 0) {
  351. toc.css('visibility', 'visible');
  352. }
  353. }
  354. });
  355. });
  356. </script>
  357. <script src=https://lib.baomitu.com/clipboard.js/2.0.11/clipboard.min.js></script>
  358. <script>Fluid.plugins.codeWidget();</script>
  359. <script>
  360. Fluid.utils.createScript('https://jscdn.limour.top/npm/anchor-js@4.3.1/anchor.min.js', function() {
  361. window.anchors.options = {
  362. placement: CONFIG.anchorjs.placement,
  363. visible : CONFIG.anchorjs.visible
  364. };
  365. if (CONFIG.anchorjs.icon) {
  366. window.anchors.options.icon = CONFIG.anchorjs.icon;
  367. }
  368. var el = (CONFIG.anchorjs.element || 'h1,h2,h3,h4,h5,h6').split(',');
  369. var res = [];
  370. for (var item of el) {
  371. res.push('.markdown-body > ' + item.trim());
  372. }
  373. if (CONFIG.anchorjs.placement === 'left') {
  374. window.anchors.options.class = 'anchorjs-link-left';
  375. }
  376. window.anchors.add(res.join(', '));
  377. Fluid.events.registerRefreshCallback(function() {
  378. if ('anchors' in window) {
  379. anchors.removeAll();
  380. var el = (CONFIG.anchorjs.element || 'h1,h2,h3,h4,h5,h6').split(',');
  381. var res = [];
  382. for (var item of el) {
  383. res.push('.markdown-body > ' + item.trim());
  384. }
  385. if (CONFIG.anchorjs.placement === 'left') {
  386. anchors.options.class = 'anchorjs-link-left';
  387. }
  388. anchors.add(res.join(', '));
  389. }
  390. });
  391. });
  392. </script>
  393. <script>
  394. Fluid.utils.createScript('https://lib.baomitu.com/fancybox/3.5.7/jquery.fancybox.min.js', function() {
  395. Fluid.plugins.fancyBox();
  396. });
  397. </script>
  398. <script>Fluid.plugins.imageCaption();</script>
  399. <script src="/js/local-search.js" ></script>
  400. <!-- 主题的启动项,将它保持在最底部 -->
  401. <!-- the boot of the theme, keep it at the bottom -->
  402. <script src="/js/boot.js" ></script>
  403. <noscript>
  404. <div class="noscript-warning">Blog works best with JavaScript enabled</div>
  405. </noscript>
  406. <!-- hexo injector body_end start -->
  407. <script defer src="/theme-inject/timeliness.js"></script>
  408. <!-- hexo injector body_end end --></body>
  409. </html>