{"id":54360,"date":"2024-06-16T14:09:54","date_gmt":"2024-06-16T06:09:54","guid":{"rendered":"http:\/\/www.biocloudservice.com\/wordpress\/?p=54360"},"modified":"2024-06-16T14:09:54","modified_gmt":"2024-06-16T06:09:54","slug":"rrvgo-%e4%bb%8e%e9%9b%b6%e5%bc%80%e5%a7%8b%ef%bc%8c%e5%bf%ab%e9%80%9f%e4%b8%8a%e6%89%8b%e7%ae%80%e5%8c%96%e5%af%8c%e9%9b%86%e5%88%86%e6%9e%90%e4%b8%8e%e5%8f%af%e8%a7%86%e5%8c%96%e7%9a%84%e5%88%a9","status":"publish","type":"post","link":"http:\/\/www.biocloudservice.com\/wordpress\/?p=54360","title":{"rendered":"rrvgo: \u4ece\u96f6\u5f00\u59cb\uff0c\u5feb\u901f\u4e0a\u624b\u7b80\u5316\u5bcc\u96c6\u5206\u6790\u4e0e\u53ef\u89c6\u5316\u7684\u5229\u5668"},"content":{"rendered":"


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wrap;\">\u73b0\u5728\uff0c\u8ba9\u6211\u4eec\u4e00\u8d77\u5b66\u4e60\u5982\u4f55\u4f7f\u7528rrvgo\u5305\u6765\u7b80\u5316GO\u5bcc\u96c6\u7ed3\u679c\u3002<\/p>\n<\/section>\n<section style=\"text-align: left;justify-content: flex-start;display: flex;flex-flow: row nowrap;margin-top: 10px;margin-bottom: 10px;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: top;width: auto;align-self: flex-start;flex: 0 0 auto;min-width: 5%;height: auto;\">\n<section style=\"justify-content: flex-start;display: flex;flex-flow: row nowrap;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: auto;vertical-align: top;align-self: flex-start;flex: 0 0 auto;background-color: rgb(189, 216, 245);min-width: 5%;height: auto;padding: 6px 15px;\">\n<section style=\"color: rgb(255, 255, 255);text-align: justify;\" powered-by=\"xiumi.us\">\n<p><strong>\u4e00<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"margin-bottom: -6px;transform: scale(0.66);transform-origin: left top;\" powered-by=\"xiumi.us\">\n<section style=\"line-height: 1;transform: translate3d(12px, 0px, 0px);\">\n<section style=\"width: 0px;display: inline-block;border-top: 0.6em solid rgb(247, 221, 223);border-left: 0.6em solid rgb(247, 221, 223);border-bottom: 0.6em solid transparent !important;border-right: 0.6em solid transparent !important;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: auto;flex: 100 100 0%;height: auto;align-self: flex-start;background-color: rgb(255, 229, 231);padding: 6px 6px 6px 14px;\">\n<section style=\"text-align: justify;\" powered-by=\"xiumi.us\">\n<p><strong>\u5b89\u88c5\u548c\u52a0\u8f7drrvgo\u5305<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\n<section powered-by=\"xiumi.us\">\n<p style=\"text-indent: 0em;text-wrap: wrap;\">\u9996\u5148\uff0c\u6211\u4eec\u9700\u8981\u5b89\u88c5\u548c\u52a0\u8f7drrvgo\u5305\uff0c\u8fd9\u6837\u624d\u80fd\u5728R\u73af\u5883\u4e2d\u4f7f\u7528\u76f8\u5173\u7684\u51fd\u6570\u548c\u529f\u80fd\u3002<\/p>\n<p style=\"text-indent: 0em;text-wrap: wrap;\">\u5728R\u63a7\u5236\u53f0\u4e2d\u6267\u884c\u4ee5\u4e0b\u547d\u4ee4\uff1a<\/p>\n<\/section>\n<p powered-by=\"xiumi.us\">\u4ee3\u7801\uff1a<\/p>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__keyword\">if<\/span> (!require(<span class=\"code-snippet__string\">\"BiocManager\"<\/span>, quietly = <span class=\"code-snippet__literal\">TRUE<\/span>))<\/span><\/code><code><span class=\"code-snippet_outer\">install.packages(<span class=\"code-snippet__string\">\"BiocManager\"<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">BiocManager::install(<span class=\"code-snippet__string\">\"rrvgo\"<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">library(<span class=\"code-snippet__string\">\"rrvgo\"<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<p powered-by=\"xiumi.us\"><br \/><\/p>\n<section style=\"text-align: left;justify-content: flex-start;display: flex;flex-flow: row nowrap;margin-top: 10px;margin-bottom: 10px;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: top;width: auto;align-self: flex-start;flex: 0 0 auto;min-width: 5%;height: auto;\">\n<section style=\"justify-content: flex-start;display: flex;flex-flow: row nowrap;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: auto;vertical-align: top;align-self: flex-start;flex: 0 0 auto;background-color: rgb(189, 216, 245);min-width: 5%;height: auto;padding: 6px 15px;\">\n<section style=\"color: rgb(255, 255, 255);text-align: justify;\" powered-by=\"xiumi.us\">\n<p><strong>\u4e8c<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"margin-bottom: -6px;transform: scale(0.66);transform-origin: left top;\" powered-by=\"xiumi.us\">\n<section style=\"line-height: 1;transform: translate3d(12px, 0px, 0px);\">\n<section style=\"width: 0px;display: inline-block;border-top: 0.6em solid rgb(247, 221, 223);border-left: 0.6em solid rgb(247, 221, 223);border-bottom: 0.6em solid transparent !important;border-right: 0.6em solid transparent !important;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: auto;flex: 100 100 0%;height: auto;align-self: flex-start;background-color: rgb(255, 229, 231);padding: 6px 6px 6px 14px;\">\n<section style=\"text-align: justify;\" powered-by=\"xiumi.us\">\n<p><strong>\u51c6\u5907GO\u5bcc\u96c6\u7ed3\u679c\u6570\u636e<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\n<section powered-by=\"xiumi.us\">\n<p style=\"text-indent: 0em;text-wrap: wrap;\">\u5728\u4f7f\u7528rrvgo\u4e4b\u524d\uff0c\u6211\u4eec\u9700\u8981\u51c6\u5907GO\u5bcc\u96c6\u5206\u6790\u7684\u7ed3\u679c\u6570\u636e\u3002\u7ed3\u679c\u6570\u636e\u901a\u5e38\u4ee5\u8868\u683c\u5f62\u5f0f\u5b58\u50a8\uff0c\u5305\u542b\u6709\u5173\u5bcc\u96c6\u8282\u70b9\u3001\u57fa\u56e0\u6570\u3001p\u503c\u7b49\u4fe1\u606f\u3002<\/p>\n<p style=\"text-indent: 0em;text-wrap: wrap;\">\u786e\u4fdd\u60a8\u6709\u4e00\u4e2a\u5305\u542bGO\u5bcc\u96c6\u7ed3\u679c\u7684\u6570\u636e\u6846\u6216\u6587\u4ef6\u3002\u6570\u636e\u6846\u5e94\u81f3\u5c11\u5305\u542b\u4ee5\u4e0b\u5217\uff1a<\/p>\n<\/section>\n<ul class=\"list-paddingleft-1\" style=\"padding-left: 40px;list-style-position: outside;\" powered-by=\"xiumi.us\">\n<li>\n<p>GO_ID\uff1a\u5bcc\u96c6\u8282\u70b9\u7684\u552f\u4e00\u6807\u8bc6\u7b26\u3002<\/p>\n<\/li>\n<li>\n<p>Description\uff1a\u5bcc\u96c6\u8282\u70b9\u7684\u63cf\u8ff0\u6216\u540d\u79f0\u3002<\/p>\n<\/li>\n<li>\n<p>GeneCount\uff1a\u5bcc\u96c6\u8282\u70b9\u4e2d\u7684\u57fa\u56e0\u6570\u3002<\/p>\n<\/li>\n<li>\n<p>P-value\uff1a\u5bcc\u96c6\u8282\u70b9\u7684p\u503c\u6216\u8c03\u6574\u7684p\u503c\u3002<\/p>\n<\/li>\n<\/ul>\n<p style=\"text-indent: 0em;text-wrap: wrap;\" powered-by=\"xiumi.us\">\u4f8b\u5982\uff0c\u4ee5\u4e0b\u662f\u4e00\u4e2a\u793a\u4f8bGO\u5bcc\u96c6\u7ed3\u679c\u6570\u636e\u6846\uff1a<\/p>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.18846153846153846\" src=\"http:\/\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/1_iac5kdEra0qnXy1EWzomibrIbQKtfA.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/oCSOtP61aEVusWenSiard0Tw0U65uHaR1JKLUS72Z4wG6zeHmQ637h7N82Tiac5kdEra0qnXy1EWzomibrIbQKtfA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1040\" style=\"vertical-align: middle;width: 100%;\" \/><\/section>\n<\/section>\n<section style=\"text-align: center;font-size: 12px;color: rgb(160, 160, 160);\" powered-by=\"xiumi.us\">\n<p>\u56fe1 \u793a\u4f8bGO\u5bcc\u96c6\u7ed3\u679c<\/p>\n<\/section>\n<p style=\"text-indent: 0em;text-wrap: wrap;\" powered-by=\"xiumi.us\"><span style=\"text-indent: 2em;\">\u5982\u679c\u60a8\u7684\u6570\u636e\u5b58\u50a8\u5728\u6587\u4ef6\u4e2d\uff0c\u60a8\u53ef\u4ee5\u4f7f\u7528\u9002\u5f53\u7684\u51fd\u6570\uff08\u4f8b\u5982read.table()\u6216read.csv()\uff09\u5c06\u5176\u52a0\u8f7d\u5230R\u73af\u5883\u4e2d\u3002<\/span><br \/><\/p>\n<p powered-by=\"xiumi.us\">\u4ee3\u7801\uff1a<\/p>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\">go_analysis <- read.delim(system.file(<span class=\"code-snippet__string\">\"extdata\/example.txt\"<\/span>, package=<span class=\"code-snippet__string\">\"rrvgo\"<\/span>))<\/span><\/code><\/pre>\n<\/section>\n<p powered-by=\"xiumi.us\"><br \/><\/p>\n<section style=\"text-align: left;justify-content: flex-start;display: flex;flex-flow: row nowrap;margin-top: 10px;margin-bottom: 10px;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: top;width: auto;align-self: flex-start;flex: 0 0 auto;min-width: 5%;height: auto;\">\n<section style=\"justify-content: flex-start;display: flex;flex-flow: row nowrap;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: auto;vertical-align: top;align-self: flex-start;flex: 0 0 auto;background-color: rgb(189, 216, 245);min-width: 5%;height: auto;padding: 6px 15px;\">\n<section style=\"color: rgb(255, 255, 255);text-align: justify;\" powered-by=\"xiumi.us\">\n<p><strong>\u4e09<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"margin-bottom: -6px;transform: scale(0.66);transform-origin: left top;\" powered-by=\"xiumi.us\">\n<section style=\"line-height: 1;transform: translate3d(12px, 0px, 0px);\">\n<section style=\"width: 0px;display: inline-block;border-top: 0.6em solid rgb(247, 221, 223);border-left: 0.6em solid rgb(247, 221, 223);border-bottom: 0.6em solid transparent !important;border-right: 0.6em solid transparent !important;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: auto;flex: 100 100 0%;height: auto;align-self: flex-start;background-color: rgb(255, 229, 231);padding: 6px 6px 6px 14px;\">\n<section style=\"text-align: justify;\" powered-by=\"xiumi.us\">\n<p><strong>\u8ba1\u7b97\u57fa\u56e0\u4e4b\u95f4\u7684\u8bed\u4e49\u76f8\u4f3c\u5ea6\u77e9\u9635<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\n<p powered-by=\"xiumi.us\">Rrvgo\u63d0\u4f9bcalculateSimMatrix\u51fd\u6570\u8ba1\u7b97\u8bed\u4e49\u76f8\u4f3c\u5ea6\uff0c\u8be5\u51fd\u6570\u662f\u4f7f\u7528GOSemSim\u5305\u6765\u5b9e\u73b0\u7684\u3002<\/p>\n<p powered-by=\"xiumi.us\">\u4ee3\u7801\uff1a<\/p>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\">simMatrix <- calculateSimMatrix(go_analysis$ID, orgdb=<span class=\"code-snippet__string\">\"org.Hs.eg.db\"<\/span>, ont=<span class=\"code-snippet__string\">\"BP\"<\/span>, method=<span class=\"code-snippet__string\">\"Rel\"<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<p powered-by=\"xiumi.us\"><br \/><\/p>\n<section style=\"text-align: left;justify-content: flex-start;display: flex;flex-flow: row nowrap;margin-top: 10px;margin-bottom: 10px;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: top;width: auto;align-self: flex-start;flex: 0 0 auto;min-width: 5%;height: auto;\">\n<section style=\"justify-content: flex-start;display: flex;flex-flow: row nowrap;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: auto;vertical-align: top;align-self: flex-start;flex: 0 0 auto;background-color: rgb(189, 216, 245);min-width: 5%;height: auto;padding: 6px 15px;\">\n<section style=\"color: rgb(255, 255, 255);text-align: justify;\" powered-by=\"xiumi.us\">\n<p><strong>\u56db<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"margin-bottom: -6px;transform: scale(0.66);transform-origin: left top;\" powered-by=\"xiumi.us\">\n<section style=\"line-height: 1;transform: translate3d(12px, 0px, 0px);\">\n<section style=\"width: 0px;display: inline-block;border-top: 0.6em solid rgb(247, 221, 223);border-left: 0.6em solid rgb(247, 221, 223);border-bottom: 0.6em solid transparent !important;border-right: 0.6em solid transparent !important;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: auto;flex: 100 100 0%;height: auto;align-self: flex-start;background-color: rgb(255, 229, 231);padding: 6px 6px 6px 14px;\">\n<section style=\"text-align: justify;\" powered-by=\"xiumi.us\">\n<p><strong>\u7b80\u5316GO\u5bcc\u96c6\u7ed3\u679c<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\n<p style=\"text-indent: 0em;text-wrap: wrap;\" powered-by=\"xiumi.us\">\u73b0\u5728\uff0c\u6211\u4eec\u53ef\u4ee5\u4f7f\u7528rrvgo\u6765\u7b80\u5316GO\u5bcc\u96c6\u7ed3\u679c\uff0c\u4f7f\u7528reduceSimMatrix\u51fd\u6570\uff0c\u5c06GO\u5bcc\u96c6\u7ed3\u679c\u6570\u636e\u548c\u57fa\u56e0\u4e4b\u95f4\u7684\u8bed\u4e49\u76f8\u4f3c\u5ea6\u77e9\u9635\u4f5c\u4e3a\u8f93\u5165\u3002<\/p>\n<p powered-by=\"xiumi.us\">\u4ee3\u7801\uff1a<\/p>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\">scores <- setNames(-log10(go_analysis$qvalue), go_analysis$ID)<\/span><\/code><code><span class=\"code-snippet_outer\">reducedTerms <- reduceSimMatrix(simMatrix, scores, threshold=<span class=\"code-snippet__number\">0.7<\/span>, orgdb=<span class=\"code-snippet__string\">\"org.Hs.eg.db\"<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<section powered-by=\"xiumi.us\">\n<p style=\"text-indent: 0em;text-wrap: wrap;\">scores\u662f\u57fa\u4e8eGO\u5bcc\u96c6\u7ed3\u679c\u7684\u5f97\u5206\u5411\u91cf\uff0c\u5b83\u8868\u793a\u6bcf\u4e2aGO\u8282\u70b9\u7684\u91cd\u8981\u6027\u6216\u663e\u8457\u6027\u3002\u6267\u884creduceSimMatrix()\u51fd\u6570\u540e\uff0c\u5c06\u5f97\u5230\u4e00\u4e2a\u7b80\u5316\u540e\u7684\u8bed\u4e49\u76f8\u4f3c\u5ea6\u77e9\u9635reducedTerms\u3002\u8fd9\u4e2a\u77e9\u9635\u5c06\u53ea\u5305\u542b\u8f83\u4e3a\u663e\u8457\u4e14\u4e0d\u5197\u4f59\u7684GO\u8282\u70b9\u3002<\/p>\n<p style=\"text-indent: 0em;text-wrap: wrap;\">\u901a\u8fc7\u8c03\u6574threshold\u53c2\u6570\u7684\u503c\uff0c\u53ef\u4ee5\u63a7\u5236\u7b80\u5316\u7684\u7a0b\u5ea6\u3002\u8f83\u9ad8\u7684\u9608\u503c\u5c06\u5bfc\u81f4\u66f4\u4e25\u683c\u7684\u7b80\u5316\uff0c\u53ef\u80fd\u4f1a\u5220\u9664\u8f83\u591a\u7684\u8282\u70b9\uff0c\u800c\u8f83\u4f4e\u7684\u9608\u503c\u5c06\u4fdd\u7559\u66f4\u591a\u7684\u8282\u70b9\u3002\u5728\u9009\u62e9\u9608\u503c\u65f6\uff0c\u9700\u8981\u6839\u636e\u5177\u4f53\u95ee\u9898\u7684\u9700\u6c42\u548c\u5206\u6790\u76ee\u6807\u8fdb\u884c\u6743\u8861<\/p>\n<\/section>\n<p powered-by=\"xiumi.us\"><br \/><\/p>\n<section style=\"text-align: left;justify-content: flex-start;display: flex;flex-flow: row nowrap;margin-top: 10px;margin-bottom: 10px;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: top;width: auto;align-self: flex-start;flex: 0 0 auto;min-width: 5%;height: auto;\">\n<section style=\"justify-content: flex-start;display: flex;flex-flow: row nowrap;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: auto;vertical-align: top;align-self: flex-start;flex: 0 0 auto;background-color: rgb(189, 216, 245);min-width: 5%;height: auto;padding: 6px 15px;\">\n<section style=\"color: rgb(255, 255, 255);text-align: justify;\" powered-by=\"xiumi.us\">\n<p><strong>\u4e94<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"margin-bottom: -6px;transform: scale(0.66);transform-origin: left top;\" powered-by=\"xiumi.us\">\n<section style=\"line-height: 1;transform: translate3d(12px, 0px, 0px);\">\n<section style=\"width: 0px;display: inline-block;border-top: 0.6em solid rgb(247, 221, 223);border-left: 0.6em solid rgb(247, 221, 223);border-bottom: 0.6em solid transparent !important;border-right: 0.6em solid transparent !important;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: top;width: auto;flex: 100 100 0%;height: auto;align-self: flex-start;background-color: rgb(255, 229, 231);padding: 6px 6px 6px 14px;\">\n<section style=\"text-align: justify;\" powered-by=\"xiumi.us\">\n<p><strong>\u53ef\u89c6\u5316\u7ed3\u679c<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\n<p powered-by=\"xiumi.us\">rrvgo \u63d0\u4f9b\u4e86\u51e0\u79cd\u7ed8\u5236\u548c\u89e3\u91ca\u7ed3\u679c\u7684\u65b9\u6cd5\u3002<\/p>\n<p powered-by=\"xiumi.us\"><br \/><\/p>\n<p powered-by=\"xiumi.us\"><strong>1\uff09\u76f8\u4f3c\u5ea6\u77e9\u9635\u70ed\u56fe<\/strong><\/p>\n<p style=\"text-indent: 0em;text-wrap: wrap;\" powered-by=\"xiumi.us\">\u4ee3\u7801\uff1a<\/p>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\">heatmapPlot(simMatrix, reducedTerms, annotateParent=<span class=\"code-snippet__literal\">TRUE<\/span>, annotationLabel=<span class=\"code-snippet__string\">\"parentTerm\"<\/span>, fontsize=<span class=\"code-snippet__number\">6<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<p powered-by=\"xiumi.us\">\u8fd9\u5c06\u4f7f\u7528simMatrix\u4f5c\u4e3a\u8f93\u5165\u6570\u636e\uff0c\u7ed8\u5236\u4e00\u4e2a\u5177\u6709\u989c\u8272\u7f16\u7801\u7684\u70ed\u56fe\uff0c\u663e\u793a\u4e0d\u540c\u8282\u70b9\u4e4b\u95f4\u7684\u76f8\u4f3c\u5ea6\u3002\u60a8\u53ef\u4ee5\u6839\u636e\u9700\u8981\u8fdb\u884c\u81ea\u5b9a\u4e49\uff0c\u8c03\u6574\u70ed\u56fe\u7684\u989c\u8272\u3001\u6807\u7b7e\u3001\u6ce8\u91ca\u7b49\u53c2\u6570\u3002<\/p>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.5740740740740741\" src=\"http:\/\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/2_j4sbGD1VmRgGDSWtKv0PXBFdHUU6gA.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/oCSOtP61aEVusWenSiard0Tw0U65uHaR1cHbEjPluTfhZANwzmNEVtwkpj4sbGD1VmRgGDSWtKv0PXBFdHUU6gA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" style=\"vertical-align: middle;width: 100%;\" \/><\/section>\n<\/section>\n<section style=\"text-align: center;font-size: 12px;color: rgb(160, 160, 160);\" powered-by=\"xiumi.us\">\n<p>\u56fe2 \u76f8\u4f3c\u6027\u5ea6\u70ed\u56fe<\/p>\n<\/section>\n<p powered-by=\"xiumi.us\"><strong>2\uff09\u63cf\u8ff0\u7ec4\u548cterms\u4e4b\u95f4\u8ddd\u79bb\u7684\u6563\u70b9\u56fe<\/strong><\/p>\n<p style=\"text-indent: 0em;text-wrap: wrap;\" powered-by=\"xiumi.us\">scatterPlot\u51fd\u6570\u7528\u4e8e\u7ed8\u5236terms\u4e4b\u95f4\u7684\u6563\u70b9\u56fe\uff0c\u70b9\u4e8e\u70b9\u7684\u8ddd\u79bb\u663e\u793a\u5b83\u4eec\u4e4b\u95f4\u7684\u76f8\u4f3c\u6027\uff0c\u70b9\u7684\u5927\u5c0f\u4ee3\u8868\u6839\u636ep\u503c\u8ba1\u7b97\u7684\u5206\u6570\uff0c\u6216\u8005\u5728\u6ca1\u6709\u5206\u6570\u7684\u60c5\u51b5\u4e0b\uff0cGO terms\u5305\u542b\u7684\u57fa\u56e0\u6570\u91cf\u3002<\/p>\n<p style=\"text-indent: 0em;text-wrap: wrap;\" powered-by=\"xiumi.us\">\u4ee3\u7801\uff1a<\/p>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">## \u6563\u70b9\u56fe<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">scatterPlot(simMatrix, reducedTerms)<\/span><\/code><\/pre>\n<\/section>\n<p powered-by=\"xiumi.us\"><br \/><\/p>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"0.5740740740740741\" src=\"http:\/\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/3_xiaBQHtxD8fYUF427AwMa9HKeN3PKg.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/oCSOtP61aEVusWenSiard0Tw0U65uHaR1DSticbG0fxznBBnMNIPaGjNo08xiaBQHtxD8fYUF427AwMa9HKeN3PKg\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1080\" style=\"vertical-align: middle;width: 100%;\" \/><\/section>\n<\/section>\n<section style=\"text-align: center;font-size: 12px;color: rgb(160, 160, 160);\" powered-by=\"xiumi.us\">\n<p>\u56fe3 \u6563\u70b9\u56fe<\/p>\n<\/section>\n<p powered-by=\"xiumi.us\"><strong>3\uff09\u6811\u72b6\u56fe<\/strong><\/p>\n<p style=\"text-indent: 0em;text-wrap: wrap;\" powered-by=\"xiumi.us\">rrvgo\u5305\u4e2d\u7684treemapPlot()\u51fd\u6570\u7528\u4e8e\u7ed8\u5236\u57fa\u4e8eGO terms\u7684\u6811\u72b6\u56fe\u3002\u6811\u72b6\u56fe\u53ef\u4ee5\u5e2e\u52a9\u53ef\u89c6\u5316GO terms\u4e4b\u95f4\u7684\u5c42\u6b21\u7ed3\u6784\u548c\u5173\u7cfb\uff0cterms\u6240\u5360\u7684\u7a7a\u95f4\u5927\u5c0f\u4e0e\u5206\u6570\u6210\u6b63\u6bd4\u3002<\/p>\n<p style=\"text-indent: 0em;text-wrap: wrap;\" powered-by=\"xiumi.us\">\u4ee3\u7801\uff1a<\/p>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">##\u6811\u72b6\u56fe<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">treemapPlot(reducedTerms)<\/span><\/code><\/pre>\n<\/section>\n<p powered-by=\"xiumi.us\"><br \/><\/p>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"1\" src=\"http:\/\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/4_9ZbjVKypQg2Puib0JDajFHfMicdHNQ.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/oCSOtP61aEVusWenSiard0Tw0U65uHaR1PgJXBvGmxCFkcRu4aUjFkQrdfj9ZbjVKypQg2Puib0JDajFHfMicdHNQ\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"664\" style=\"vertical-align: middle;width: 100%;\" \/><\/section>\n<\/section>\n<section style=\"text-align: center;font-size: 12px;color: rgb(160, 160, 160);\" powered-by=\"xiumi.us\">\n<p>\u56fe4 \u6811\u72b6\u56fe<\/p>\n<\/section>\n<p powered-by=\"xiumi.us\"><strong>4\uff09\u8bcd\u4e91\u56fe<\/strong><\/p>\n<p style=\"text-indent: 0em;text-wrap: wrap;\" powered-by=\"xiumi.us\">rrvgo\u5305\u4e2d\u7684wordcloudPlot()\u51fd\u6570\u7528\u4e8e\u7ed8\u5236\u57fa\u4e8eGO terms\u7684\u8bcd\u4e91\u56fe\u3002\u8bcd\u4e91\u56fe\u53ef\u4ee5\u5e2e\u52a9\u53ef\u89c6\u5316GO terms\u7684\u9891\u7387\u6216\u6743\u91cd\uff0c\u5e76\u6839\u636e\u5176\u5728\u6570\u636e\u96c6\u4e2d\u7684\u91cd\u8981\u6027\u8c03\u6574\u8bcd\u7684\u5927\u5c0f\u3002<\/p>\n<p style=\"text-indent: 0em;text-wrap: wrap;\" powered-by=\"xiumi.us\">\u4ee3\u7801\uff1a<\/p>\n<section class=\"code-snippet__fix code-snippet__js\">\n<ul class=\"code-snippet__line-index code-snippet__js\">\n<li><\/li>\n<li><\/li>\n<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">## \u8bcd\u4e91\u56fe<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">wordcloudPlot(reducedTerms, min.freq=<span class=\"code-snippet__number\">1<\/span>, colors=<span class=\"code-snippet__string\">\"black\"<\/span>)<\/span><\/code><\/pre>\n<\/section>\n<section style=\"text-align: center;margin-top: 10px;margin-bottom: 10px;line-height: 0;\" powered-by=\"xiumi.us\">\n<section style=\"vertical-align: middle;display: inline-block;line-height: 0;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-ratio=\"1\" src=\"http:\/\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/5_x6d2eARM2iaxU5rx6qZCa8PEsJvYxQ.png\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_png\/oCSOtP61aEVusWenSiard0Tw0U65uHaR1s6Y43km0b8bK9RBspyQKeX5BBx6d2eARM2iaxU5rx6qZCa8PEsJvYxQ\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"664\" style=\"vertical-align: middle;width: 100%;\" \/><\/section>\n<\/section>\n<section style=\"text-align: center;font-size: 12px;color: rgb(160, 160, 160);\" powered-by=\"xiumi.us\">\n<p>\u56fe5 \u8bcd\u4e91\u56fe<\/p>\n<\/section>\n<section powered-by=\"xiumi.us\">\n<p style=\"text-indent: 0em;text-wrap: wrap;\"><span style=\"text-indent: 0em;\">\u6839\u636e\u60a8\u7684\u9700\u6c42\u548c\u559c\u597d\uff0c\u60a8\u53ef\u4ee5\u4f7f\u7528\u4e0d\u540c\u7684\u56fe\u8868\u7c7b\u578b\u6765\u521b\u5efa\u66f4\u5177\u5438\u5f15\u529b\u548c\u6709\u610f\u4e49\u7684\u56fe\u8868\u3002<\/span><br \/><\/p>\n<p style=\"text-indent: 0em;text-wrap: wrap;\">\u4ee5\u4e0a\u5c31\u662f\u5c0f\u5e08\u59b9\u7ed9\u5927\u5bb6\u4ecb\u7ecd\u7684\u4f7f\u7528rrvgo\u5305\u7b80\u5316GO\u5bcc\u96c6\u7ed3\u679c\u7684\u57fa\u672c\u6b65\u9aa4\u3002\u901a\u8fc7\u7b80\u5316\u7ed3\u679c\uff0c\u60a8\u53ef\u4ee5\u83b7\u5f97\u66f4\u6e05\u6670\u3001\u66f4\u6613\u89e3\u91ca\u7684\u5bcc\u96c6\u7ed3\u679c\uff0c\u4ece\u800c\u66f4\u597d\u5730\u7406\u89e3\u57fa\u56e0\u96c6\u5408\u7684\u529f\u80fd\u7279\u5f81\u3002\u672c\u6559\u7a0b\u63d0\u4f9b\u4e86\u4e00\u4e2a\u57fa\u672c\u7684\u6307\u5bfc\uff0c\u4f9b\u65b0\u624b\u5165\u95e8\u3002\u6839\u636e\u60a8\u7684\u5177\u4f53\u6570\u636e\u548c\u5206\u6790\u9700\u6c42\uff0c\u60a8\u53ef\u80fd\u9700\u8981\u8fdb\u4e00\u6b65\u63a2\u7d22rrvgo\u5305\u7684\u529f\u80fd\u548c\u53c2\u6570\uff0c\u4ee5\u4f18\u5316\u5206\u6790\u7ed3\u679c\u3002\u5e0c\u671b\u8fd9\u7bc7\u6559\u7a0b\u5bf9\u60a8\u6709\u6240\u5e2e\u52a9\uff01\u66f4\u591a\u5b66\u4e60\u8d44\u6e90\u8bf7\u5927\u5bb6\u79fb\u6b65\u5c0f\u5e08\u59b9\u4e13\u5c5e\u4e91\u751f\u4fe1\u5e73\u53f0\uff08\u4e91\u751f\u4fe1  – \u5b66\u751f\u7269\u4fe1\u606f\u5b66 (<strong>biocloudservice.com<\/strong>)\uff09\u641c\u7d22\u66f4\u591a\u8d44\u6e90\u54e6\uff01<\/p>\n<section style=\"letter-spacing: 0.578px;text-wrap: wrap;font-size: 16px;\">\n<section powered-by=\"xiumi.us\" style=\"margin-top: 10px;margin-bottom: 10px;text-align: center;justify-content: center;display: flex;flex-flow: row nowrap;\">\n<section style=\"margin-right: 10px;display: inline-block;vertical-align: middle;width: auto;flex: 100 100 0%;height: auto;align-self: center;\">\n<section powered-by=\"xiumi.us\" style=\"margin-top: 10px;margin-bottom: 10px;\">\n<section style=\"background-color: rgb(249, 172, 172);height: 1px;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<section style=\"margin-right: 10px;padding-right: 8px;padding-left: 8px;display: inline-block;vertical-align: middle;width: auto;align-self: center;flex: 0 0 auto;min-width: 5%;height: auto;border-style: solid;border-width: 1px;border-color: rgb(249, 172, 172);\">\n<section powered-by=\"xiumi.us\" style=\"text-align: justify;color: rgb(249, 172, 172);\">\n<p>E<\/p>\n<\/section>\n<\/section>\n<section style=\"margin-right: 10px;padding-right: 8px;padding-left: 8px;display: inline-block;vertical-align: middle;width: auto;align-self: center;flex: 0 0 auto;min-width: 5%;height: auto;border-style: solid;border-width: 1px;border-color: rgb(249, 172, 172);\">\n<section powered-by=\"xiumi.us\" style=\"text-align: justify;color: rgb(249, 172, 172);\">\n<p>N<\/p>\n<\/section>\n<\/section>\n<section style=\"margin-right: 10px;padding-right: 8px;padding-left: 8px;display: inline-block;vertical-align: middle;width: auto;align-self: center;flex: 0 0 auto;min-width: 5%;height: auto;border-style: solid;border-width: 1px;border-color: rgb(249, 172, 172);\">\n<section powered-by=\"xiumi.us\" style=\"text-align: justify;color: rgb(249, 172, 172);\">\n<p>D<\/p>\n<\/section>\n<\/section>\n<section style=\"display: inline-block;vertical-align: middle;width: auto;align-self: center;flex: 100 100 0%;height: auto;\">\n<section powered-by=\"xiumi.us\" style=\"margin-top: 10px;margin-bottom: 10px;\">\n<section style=\"background-color: rgb(249, 172, 172);height: 1px;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<p style=\"letter-spacing: 0.578px;text-wrap: wrap;text-align: center;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-ratio=\"0.5555555555555556\" data-s=\"300,640\" src=\"http:\/\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/6_icWAmgGMVEzREAJmM59ov44ziaMCGg.jpg\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/sz_mmbiz_jpg\/oCSOtP61aEWjRWAeR9wicY9JyrK13cNBaR2PPYHOsBTrS4rJOUOnJCEIxt1icWAmgGMVEzREAJmM59ov44ziaMCGg\/640?wx_fmt=jpeg'\" data-type=\"jpeg\" data-w=\"900\" \/><\/p>\n<\/section>\n<\/section>\n<p style=\"display: none;margin-bottom: 24px;\"><mp-style-type data-value=\"3\"><\/mp-style-type><\/p>\n<p><\/content>\n<\/div>\n<p><\/body><br \/>\n<\/html><\/p>\n","protected":false},"excerpt":{"rendered":"<p>rrvgo: \u4ece\u96f6\u5f00\u59cb\uff0c\u5feb\u901f\u4e0a\u624b\u7b80\u5316\u5bcc\u96c6\u5206\u6790\u4e0e\u53ef\u89c6\u5316\u7684\u5229\u5668 \u5c0f\u5e08\u59b9  \u751f\u4fe1\u679c & […]<\/p>\n","protected":false},"author":1,"featured_media":0,"comment_status":"closed","ping_status":"","sticky":false,"template":"","format":"standard","meta":{"jetpack_post_was_ever_published":false,"_jetpack_newsletter_access":""},"categories":[1],"tags":[],"jetpack_featured_media_url":"","_links":{"self":[{"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/posts\/54360"}],"collection":[{"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/posts"}],"about":[{"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=%2Fwp%2Fv2%2Fcomments&post=54360"}],"version-history":[{"count":1,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/posts\/54360\/revisions"}],"predecessor-version":[{"id":54367,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=\/wp\/v2\/posts\/54360\/revisions\/54367"}],"wp:attachment":[{"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=%2Fwp%2Fv2%2Fmedia&parent=54360"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=%2Fwp%2Fv2%2Fcategories&post=54360"},{"taxonomy":"post_tag","embeddable":true,"href":"http:\/\/www.biocloudservice.com\/wordpress\/index.php?rest_route=%2Fwp%2Fv2%2Ftags&post=54360"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}