{"id":605,"date":"2024-04-25T18:38:17","date_gmt":"2024-04-25T10:38:17","guid":{"rendered":"https:\/\/linguopeng.top\/?p=605"},"modified":"2024-04-26T09:27:59","modified_gmt":"2024-04-26T01:27:59","slug":"%e6%a0%b9%e6%8d%aek0%e6%9f%a5%e5%af%b9%e5%ba%94%e7%9a%84%e9%80%9a%e8%b7%af","status":"publish","type":"post","link":"https:\/\/linguopeng.top\/?p=605","title":{"rendered":"\u6839\u636eK0\u67e5\u5bf9\u5e94\u7684\u901a\u8def"},"content":{"rendered":"\n<pre class=\"wp-block-code\"><code>#######\u603b\u7684K0\u57fa\u56e0\u5bf9\u5e94\u7684\u901a\u8def\nemapper1 &lt;- read_delim(\"KEGG_KO_ENZYME_PATHWAY.txt\",\"\\t\", escape_double = FALSE,col_names = FALSE) %>%\n  dplyr::select(K0_id = X1, \n                Pathway = X8,\n                level1 = X9,\n                level2 = X10,\n                level3 = X11\n  )\n#\nemapper1\n###\u5047\u8bbe\u53d6\u524d\u4e00\u767e\u4e2a\u662f\u6240\u9700\u7684\u76ee\u7684K0\u57fa\u56e0\ntest&lt;-emapper1&#91;1:100,]\ntest\n##########\u8f6c\u5316\u6bcf\u4e2a\u57fa\u56e0\u5bf9\u5e94\u7684pathway\ngene2pathway &lt;- dplyr::select(test, K0_id, Pathway) %>%\n  separate_rows(Pathway, sep = ';', convert = F) %>%\n  filter(str_detect(Pathway, 'ko'))\ngene2pathway\n#\u52a0\u8f7d\u901a\u8def\u4fe1\u606f\nload(file = paste(\"kegg_info.RData\"))\npathway2name\ngene2pathway &lt;- gene2pathway %>%\n  left_join(pathway2name, by = \"Pathway\") %>%\n  dplyr::select(K0_id, Pathway, Pathway_Name, Pathway_Class, Pathway_Subclass) %>%\n  distinct() %>%\n  na.omit()\ngene2pathway\n################################\u7b80\u6d01\u7248\n# if (!require(\"BiocManager\", quietly = TRUE))\n#   install.packages(\"BiocManager\")\n# \n# BiocManager::install(\"clusterProfiler\")\nlibrary(clusterProfiler)\nk &lt;- c(\"K00799\",\"K00844\")\nx &lt;- bitr_kegg(k,\"kegg\",\"Path\",\"ko\")\nx\n#\u52a0\u8f7d\u5df2\u77e5\u901a\u8def\u4fe1\u606f\nload(file = paste(\"kegg_info.RData\"))\npathway2name\ngene2pathway &lt;- x %>%\n  left_join(pathway2name, by = c(\"Path\"=\"Pathway\")) %>%\n  #dplyr::select(K0_id, Pathway, Pathway_Name, Pathway_Class, Pathway_Subclass) %>%\n  distinct() %>%\n  na.omit()\ngene2pathway\n<\/code><\/pre>\n\n\n\n<figure class=\"wp-block-image size-full is-resized\"><div class='fancybox-wrapper lazyload-container-unload' data-fancybox='post-images' href='https:\/\/linguopeng.top\/wp-content\/uploads\/2024\/04\/1.png'><img class=\"lazyload lazyload-style-1\" src=\"data:image\/svg+xml;base64,PCEtLUFyZ29uTG9hZGluZy0tPgo8c3ZnIHdpZHRoPSIxIiBoZWlnaHQ9IjEiIHhtbG5zPSJodHRwOi8vd3d3LnczLm9yZy8yMDAwL3N2ZyIgc3Ryb2tlPSIjZmZmZmZmMDAiPjxnPjwvZz4KPC9zdmc+\"  loading=\"lazy\" decoding=\"async\" width=\"1205\" height=\"674\" data-original=\"https:\/\/linguopeng.top\/wp-content\/uploads\/2024\/04\/1.png\" 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