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  133. <h1 id="seo-header">Rstudio-server:安装seurat</h1>
  134. <div class="markdown-body">
  135. <p>与<a target="_blank" rel="noopener" href="https://occdn.limour.top/2179.html">Jupyter</a>相比,使用<a target="_blank" rel="noopener" href="https://occdn.limour.top/1677.html">Rstudio</a>可以更方便进行交互式绘图,比如<a target="_blank" rel="noopener" href="https://occdn.limour.top/1682.html">ggThemeAssist</a>,以及某些3D绘图需要旋转视角进行观察。因此这里记录一下在Rstudio里安装seurat的过程</p>
  136. <ul>
  137. <li><p><a target="_blank" rel="noopener" href="https://occdn.limour.top/1680.html">更改R版本</a></p>
  138. </li>
  139. <li><p>进入terminal,以下操作均在terminal中进行</p>
  140. </li>
  141. <li><p>export R_LIBS_SITE&#x3D;””</p>
  142. </li>
  143. <li><p>在terminal中进入R</p>
  144. </li>
  145. <li><p>.libPaths(‘&#x2F;home&#x2F;rstudio&#x2F;miniconda3&#x2F;envs&#x2F;r_4_1_3&#x2F;lib&#x2F;R&#x2F;library’)</p>
  146. </li>
  147. <li><p>.libPaths() 确保没有其他路径</p>
  148. </li>
  149. <li><p>remove.packages(“vctrs”)</p>
  150. </li>
  151. <li><p>install.packages(“vctrs”)</p>
  152. </li>
  153. <li><p>install.packages(‘Seurat’)</p>
  154. </li>
  155. <li><p>remove.packages(“cli”)</p>
  156. </li>
  157. <li><p>install.packages(“cli”)</p>
  158. </li>
  159. <li><p>install.packages(“tidyverse”)</p>
  160. </li>
  161. <li><p>重启R session</p>
  162. </li>
  163. <li><p>library(tidyverse)</p>
  164. </li>
  165. <li><p>library(Seurat)</p>
  166. </li>
  167. <li><p>如果conda有这个包,且环境不冲突,则简单一些。但这个Rstudio-server不支持conda虚拟环境。</p>
  168. </li>
  169. <li><p>进入terminal</p>
  170. </li>
  171. <li><p>conda install -c conda-forge r-seurat -y</p>
  172. </li>
  173. </ul>
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  195. <div>Limour</div>
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  198. <div>Posted on</div>
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  346. window.tocbot.init(Object.assign({
  347. tocSelector : '#toc-body',
  348. contentSelector : '.markdown-body',
  349. linkClass : 'tocbot-link',
  350. activeLinkClass : 'tocbot-active-link',
  351. listClass : 'tocbot-list',
  352. isCollapsedClass: 'tocbot-is-collapsed',
  353. collapsibleClass: 'tocbot-is-collapsible',
  354. scrollSmooth : true,
  355. includeTitleTags: true,
  356. headingsOffset : -boardTop,
  357. }, CONFIG.toc));
  358. if (toc.find('.toc-list-item').length > 0) {
  359. toc.css('visibility', 'visible');
  360. }
  361. Fluid.events.registerRefreshCallback(function() {
  362. if ('tocbot' in window) {
  363. tocbot.refresh();
  364. var toc = jQuery('#toc');
  365. if (toc.length === 0 || !tocbot) {
  366. return;
  367. }
  368. if (toc.find('.toc-list-item').length > 0) {
  369. toc.css('visibility', 'visible');
  370. }
  371. }
  372. });
  373. });
  374. </script>
  375. <script src=https://lib.baomitu.com/clipboard.js/2.0.11/clipboard.min.js></script>
  376. <script>Fluid.plugins.codeWidget();</script>
  377. <script>
  378. Fluid.utils.createScript('https://jscdn.limour.top/npm/anchor-js@4.3.1/anchor.min.js', function() {
  379. window.anchors.options = {
  380. placement: CONFIG.anchorjs.placement,
  381. visible : CONFIG.anchorjs.visible
  382. };
  383. if (CONFIG.anchorjs.icon) {
  384. window.anchors.options.icon = CONFIG.anchorjs.icon;
  385. }
  386. var el = (CONFIG.anchorjs.element || 'h1,h2,h3,h4,h5,h6').split(',');
  387. var res = [];
  388. for (var item of el) {
  389. res.push('.markdown-body > ' + item.trim());
  390. }
  391. if (CONFIG.anchorjs.placement === 'left') {
  392. window.anchors.options.class = 'anchorjs-link-left';
  393. }
  394. window.anchors.add(res.join(', '));
  395. Fluid.events.registerRefreshCallback(function() {
  396. if ('anchors' in window) {
  397. anchors.removeAll();
  398. var el = (CONFIG.anchorjs.element || 'h1,h2,h3,h4,h5,h6').split(',');
  399. var res = [];
  400. for (var item of el) {
  401. res.push('.markdown-body > ' + item.trim());
  402. }
  403. if (CONFIG.anchorjs.placement === 'left') {
  404. anchors.options.class = 'anchorjs-link-left';
  405. }
  406. anchors.add(res.join(', '));
  407. }
  408. });
  409. });
  410. </script>
  411. <script>
  412. Fluid.utils.createScript('https://lib.baomitu.com/fancybox/3.5.7/jquery.fancybox.min.js', function() {
  413. Fluid.plugins.fancyBox();
  414. });
  415. </script>
  416. <script>Fluid.plugins.imageCaption();</script>
  417. <script src="/js/local-search.js" ></script>
  418. <!-- 主题的启动项,将它保持在最底部 -->
  419. <!-- the boot of the theme, keep it at the bottom -->
  420. <script src="/js/boot.js" ></script>
  421. <noscript>
  422. <div class="noscript-warning">Blog works best with JavaScript enabled</div>
  423. </noscript>
  424. <!-- hexo injector body_end start -->
  425. <script defer src="/theme-inject/timeliness.js"></script>
  426. <!-- hexo injector body_end end --></body>
  427. </html>