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model\uff09\uff0c\u8bc4\u4f30\u57fa\u56e0\u8868\u8fbe\u4e0e\u751f\u5b58\u65f6\u95f4\u4e4b\u95f4\u7684\u5173\u8054\u3002\u8be5\u5206\u6790\u53ef\u4ee5\u5e2e\u52a9\u7814\u7a76\u4eba\u5458\u786e\u5b9a\u54ea\u4e9b\u57fa\u56e0\u5bf9\u751f\u5b58\u65f6\u95f4\u5177\u6709\u663e\u8457\u7684\u5f71\u54cd\u3002<\/p>\n<p style=\"text-indent: 0em;text-wrap: wrap;\">\u68ee\u6797\u56fe\u7ed8\u5236\uff1a\u68ee\u6797\u56fe\u662f\u4e00\u79cd\u5e38\u7528\u7684\u56fe\u5f62\u8868\u793a\u65b9\u5f0f\uff0c\u7528\u4e8e\u5c55\u793a\u591a\u4e2a\u9884\u540e\u56e0\u7d20\u7684\u6548\u5e94\u91cf\uff08\u5982\u98ce\u9669\u6bd4\u6216\u5371\u9669\u6bd4\uff09\u548c\u663e\u8457\u6027\u6c34\u5e73\uff08\u5982p\u503c\uff09\u3002\u901a\u8fc7\u7ed8\u5236\u68ee\u6797\u56fe\uff0c\u53ef\u4ee5\u76f4\u89c2\u5730\u6bd4\u8f83\u4e0d\u540c\u57fa\u56e0\u6216\u9884\u540e\u56e0\u7d20\u5bf9\u751f\u5b58\u65f6\u95f4\u7684\u5f71\u54cd\u3002<\/p>\n<p style=\"text-indent: 0em;text-wrap: wrap;\">\u5355\u56e0\u7d20\u72ec\u7acb\u9884\u540e\u5206\u6790\uff1a\u4ee3\u7801\u4f7f\u7528coxph\u51fd\u6570\u8ba1\u7b97\u6bcf\u4e2a\u57fa\u56e0\uff08\u6216\u9884\u540e\u56e0\u7d20\uff09\u4e0e\u751f\u5b58\u65f6\u95f4\u7684\u5173\u8054\uff0c\u5f97\u5230\u6548\u5e94\u91cf\uff08HR\uff09\u548c\u663e\u8457\u6027\u6c34\u5e73\uff08p\u503c\uff09\u3002\u5c06\u7ed3\u679c\u4fdd\u5b58\u5230\u5355\u56e0\u7d20\u9884\u540e\u5206\u6790\u7ed3\u679c\u8f93\u51fa\u6587\u4ef6\uff08uniOutFile\uff09\uff0c\u7136\u540e\u8c03\u7528bioForest\u51fd\u6570\u7ed8\u5236\u5bf9\u5e94\u7684\u5355\u56e0\u7d20\u68ee\u6797\u56fe\u3002\u591a\u56e0\u7d20\u72ec\u7acb\u9884\u540e\u5206\u6790\uff1a\u6839\u636e\u5355\u56e0\u7d20\u9884\u540e\u5206\u6790\u7ed3\u679c\uff0c\u9009\u62e9p\u503c\u5c0f\u4e8e1\u7684\u57fa\u56e0\uff0c\u5c06\u5b83\u4eec\u4f5c\u4e3a\u9884\u540e\u56e0\u7d20\u8fdb\u884c\u591a\u56e0\u7d20\u72ec\u7acb\u9884\u540e\u5206\u6790\u3002\u8fd9\u6837\u53ef\u4ee5\u8003\u8651\u591a\u4e2a\u56e0\u7d20\u5bf9\u751f\u5b58\u65f6\u95f4\u7684\u7efc\u5408\u5f71\u54cd\u3002\u591a\u56e0\u7d20\u9884\u540e\u5206\u6790\u7ed3\u679c\u4fdd\u5b58\u5230\u591a\u56e0\u7d20\u9884\u540e\u5206\u6790\u7ed3\u679c\u8f93\u51fa\u6587\u4ef6\uff08multiOutFile\uff09\uff0c\u5e76\u7ed8\u5236\u591a\u56e0\u7d20\u68ee\u6797\u56fe\uff08\u8c03\u7528bioForest\u51fd\u6570\uff09\u3002<\/p>\n<\/section>\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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"c\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__meta\">#install.packages(<span class=\"code-snippet__meta-string\">'survival'<\/span>)<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">library(survival) #\u5f15\u7528\u5305<\/span><\/code><code><span class=\"code-snippet_outer\">setwd(<span class=\"code-snippet__string\">\"C:\\biowolf\\Gene\\16.indep\"<\/span>) #\u8bbe\u7f6e\u5de5\u4f5c\u76ee\u5f55<\/span><\/code><\/pre>\n<\/section>\n<p powered-by=\"xiumi.us\"><br \/><\/p>\n<section style=\"padding-right: 12px;padding-left: 12px;\" powered-by=\"xiumi.us\">\n<p style=\"text-indent: 0em;text-wrap: wrap;\">\u5b9a\u4e49\u68ee\u6797\u56fe\u51fd\u6570\uff08bioForest\uff09\uff1a\u7528\u4e8e\u7ed8\u5236\u68ee\u6797\u56fe\uff0c\u5c55\u793a\u72ec\u7acb\u9884\u540e\u5206\u6790\u7ed3\u679c\u7684\u6548\u5e94\u91cf\uff08Hazard Ratio\uff09\u548c\u663e\u8457\u6027\u6c34\u5e73\uff08p-value\uff09\u3002\u51fd\u6570\u63a5\u53d7\u4e09\u4e2a\u53c2\u6570\uff1acoxFile\uff08\u72ec\u7acb\u9884\u540e\u5206\u6790\u7ed3\u679c\u6587\u4ef6\uff09\uff0cforestFile\uff08\u68ee\u6797\u56fe\u8f93\u51fa\u6587\u4ef6\uff09\uff0cforestCol\uff08\u68ee\u6797\u56fe\u989c\u8272\uff09\u3002\u51fd\u6570\u8bfb\u53d6\u72ec\u7acb\u9884\u540e\u5206\u6790\u7ed3\u679c\u6587\u4ef6\uff0c\u63d0\u53d6\u76f8\u5173\u4fe1\u606f\uff0c\u5e76\u7ed8\u5236\u68ee\u6797\u56fe\u3002<\/p>\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=\"2.0354430379746837\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/1_XsVvuFTNJCHORP3MkGvzjYvFaZib5A-3.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSY3PbLY2sWX4luykbG6vprB8via6ia6Aa13M70L3tLIskHTQaiaXsVvuFTNJCHORP3MkGvzjYvFaZib5A\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"395\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\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<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\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\">bioForest=<span class=\"code-snippet__keyword\">function<\/span>(coxFile=null, forestFile=null, forestCol=null){<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u8bfb\u53d6\u8f93\u5165\u6587\u4ef6<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">rt <- read.table(coxFile, header=<span class=\"code-snippet__built_in\">T<\/span>, sep=<span class=\"code-snippet__string\">\"t\"<\/span>, check.names=<span class=\"code-snippet__built_in\">F<\/span>, row.names=<span class=\"code-snippet__number\">1<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">gene <- rownames(rt)<\/span><\/code><code><span class=\"code-snippet_outer\">hr <- sprintf(<span class=\"code-snippet__string\">\"%.3f\"<\/span>,rt$<span class=\"code-snippet__string\">\"HR\"<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">hrLow <- sprintf(<span class=\"code-snippet__string\">\"%.3f\"<\/span>,rt$<span class=\"code-snippet__string\">\"HR.95L\"<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">hrHigh <- sprintf(<span class=\"code-snippet__string\">\"%.3f\"<\/span>,rt$<span class=\"code-snippet__string\">\"HR.95H\"<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">Hazard.ratio <- paste0(hr,<span class=\"code-snippet__string\">\"(\"<\/span>,hrLow,<span class=\"code-snippet__string\">\"-\"<\/span>,hrHigh,<span class=\"code-snippet__string\">\")\"<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">pVal <- ifelse(rt$pvalue<<span class=\"code-snippet__number\">0.001<\/span>, <span class=\"code-snippet__string\">\"<0.001\"<\/span>, sprintf(<span class=\"code-snippet__string\">\"%.3f\"<\/span>, rt$pvalue))<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u8f93\u51fa\u56fe\u5f62<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">pdf(file=forestFile, width=<span class=\"code-snippet__number\">6.5<\/span>, height=<span class=\"code-snippet__number\">4.5<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">n <- nrow(rt)<\/span><\/code><code><span class=\"code-snippet_outer\">nRow <- n+<span class=\"code-snippet__number\">1<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">ylim <- <span class=\"code-snippet__built_in\">c<\/span>(<span class=\"code-snippet__number\">1<\/span>,nRow)<\/span><\/code><code><span class=\"code-snippet_outer\">layout(matrix(<span class=\"code-snippet__built_in\">c<\/span>(<span class=\"code-snippet__number\">1<\/span>,<span class=\"code-snippet__number\">2<\/span>),nc=<span class=\"code-snippet__number\">2<\/span>),width=<span class=\"code-snippet__built_in\">c<\/span>(<span class=\"code-snippet__number\">3<\/span>,<span class=\"code-snippet__number\">2.5<\/span>))<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u7ed8\u5236\u68ee\u6797\u56fe\u5de6\u8fb9\u7684\u4e34\u5e8a\u4fe1\u606f<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">xlim = <span class=\"code-snippet__built_in\">c<\/span>(<span class=\"code-snippet__number\">0<\/span>,<span class=\"code-snippet__number\">3<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">par(mar=<span class=\"code-snippet__built_in\">c<\/span>(<span class=\"code-snippet__number\">4<\/span>,<span class=\"code-snippet__number\">2.5<\/span>,<span class=\"code-snippet__number\">2<\/span>,<span class=\"code-snippet__number\">1<\/span>))<\/span><\/code><code><span class=\"code-snippet_outer\">plot(<span class=\"code-snippet__number\">1<\/span>,xlim=xlim,ylim=ylim,type=<span class=\"code-snippet__string\">\"n\"<\/span>,axes=<span class=\"code-snippet__built_in\">F<\/span>,xlab=<span class=\"code-snippet__string\">\"\"<\/span>,ylab=<span class=\"code-snippet__string\">\"\"<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">text.cex=<span class=\"code-snippet__number\">0.8<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">text(<span class=\"code-snippet__number\">0<\/span>,n:<span class=\"code-snippet__number\">1<\/span>,gene,adj=<span class=\"code-snippet__number\">0<\/span>,cex=text.cex)<\/span><\/code><code><span class=\"code-snippet_outer\">text(<span class=\"code-snippet__number\">1.5<\/span>-<span class=\"code-snippet__number\">0.5<\/span>*<span class=\"code-snippet__number\">0.2<\/span>,n:<span class=\"code-snippet__number\">1<\/span>,pVal,adj=<span class=\"code-snippet__number\">1<\/span>,cex=text.cex);text(<span class=\"code-snippet__number\">1.5<\/span>-<span class=\"code-snippet__number\">0.5<\/span>*<span class=\"code-snippet__number\">0.2<\/span>,n+<span class=\"code-snippet__number\">1<\/span>,<span class=\"code-snippet__string\">'pvalue'<\/span>,cex=text.cex,font=<span class=\"code-snippet__number\">2<\/span>,adj=<span class=\"code-snippet__number\">1<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">text(<span class=\"code-snippet__number\">3.1<\/span>,n:<span class=\"code-snippet__number\">1<\/span>,Hazard.ratio,adj=<span class=\"code-snippet__number\">1<\/span>,cex=text.cex);text(<span class=\"code-snippet__number\">3.1<\/span>,n+<span class=\"code-snippet__number\">1<\/span>,<span class=\"code-snippet__string\">'Hazard ratio'<\/span>,cex=text.cex,font=<span class=\"code-snippet__number\">2<\/span>,adj=<span class=\"code-snippet__number\">1<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u7ed8\u5236\u53f3\u8fb9\u7684\u68ee\u6797\u56fe<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">par(mar=<span class=\"code-snippet__built_in\">c<\/span>(<span class=\"code-snippet__number\">4<\/span>,<span class=\"code-snippet__number\">1<\/span>,<span class=\"code-snippet__number\">2<\/span>,<span class=\"code-snippet__number\">1<\/span>),mgp=<span class=\"code-snippet__built_in\">c<\/span>(<span class=\"code-snippet__number\">2<\/span>,<span class=\"code-snippet__number\">0.5<\/span>,<span class=\"code-snippet__number\">0<\/span>))<\/span><\/code><code><span class=\"code-snippet_outer\">xlim = <span class=\"code-snippet__built_in\">c<\/span>(<span class=\"code-snippet__number\">0<\/span>,<span class=\"code-snippet__built_in\">max<\/span>(<span class=\"code-snippet__built_in\">as.numeric<\/span>(hrLow),<span class=\"code-snippet__built_in\">as.numeric<\/span>(hrHigh)))<\/span><\/code><code><span class=\"code-snippet_outer\">plot(<span class=\"code-snippet__number\">1<\/span>,xlim=xlim,ylim=ylim,type=<span class=\"code-snippet__string\">\"n\"<\/span>,axes=<span class=\"code-snippet__built_in\">F<\/span>,ylab=<span class=\"code-snippet__string\">\"\"<\/span>,xaxs=<span class=\"code-snippet__string\">\"i\"<\/span>,xlab=<span class=\"code-snippet__string\">\"Hazard ratio\"<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">arrows(<span class=\"code-snippet__built_in\">as.numeric<\/span>(hrLow),n:<span class=\"code-snippet__number\">1<\/span>,<span class=\"code-snippet__built_in\">as.numeric<\/span>(hrHigh),n:<span class=\"code-snippet__number\">1<\/span>,angle=<span class=\"code-snippet__number\">90<\/span>,code=<span class=\"code-snippet__number\">3<\/span>,<span class=\"code-snippet__built_in\">length<\/span>=<span class=\"code-snippet__number\">0.05<\/span>,col=<span class=\"code-snippet__string\">\"darkblue\"<\/span>,lwd=<span class=\"code-snippet__number\">3<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">abline(v=<span class=\"code-snippet__number\">1<\/span>, col=<span class=\"code-snippet__string\">\"black\"<\/span>, lty=<span class=\"code-snippet__number\">2<\/span>, lwd=<span class=\"code-snippet__number\">2<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">boxcolor = ifelse(<span class=\"code-snippet__built_in\">as.numeric<\/span>(hr) > <span class=\"code-snippet__number\">1<\/span>, forestCol, forestCol)<\/span><\/code><code><span class=\"code-snippet_outer\">points(<span class=\"code-snippet__built_in\">as.numeric<\/span>(hr), n:<span class=\"code-snippet__number\">1<\/span>, pch = <span class=\"code-snippet__number\">15<\/span>, col = boxcolor, cex=<span class=\"code-snippet__number\">2<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">axis(<span class=\"code-snippet__number\">1<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">dev.off()<\/span><\/code><code><span class=\"code-snippet_outer\">}<\/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;margin-top: 10px;margin-bottom: 10px;transform: translate3d(-15px, 0px, 0px);\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: middle;width: auto;min-width: 5%;flex: 0 0 auto;height: auto;align-self: center;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<section style=\"display: inline-block;vertical-align: middle;width: auto;align-self: center;flex: 0 0 auto;min-width: 5%;height: auto;background-color: rgb(129, 167, 211);padding: 13px;\">\n<section style=\"text-align: justify;color: rgb(19, 53, 102);font-size: 16px;padding-right: 12px;padding-left: 12px;\" powered-by=\"xiumi.us\">\n<p><strong>\u5b9a\u4e49\u68ee\u6797\u56fe\u51fd\u6570<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"padding-right: 12px;padding-left: 12px;\" powered-by=\"xiumi.us\">\n<p style=\"text-indent: 0em;text-wrap: wrap;\">\u5b9a\u4e49\u72ec\u7acb\u9884\u540e\u5206\u6790\u51fd\u6570\uff08indep\uff09\uff1a\u8be5\u51fd\u6570\u7528\u4e8e\u8fdb\u884c\u57fa\u56e0\u8868\u8fbe\u6570\u636e\u7684\u72ec\u7acb\u9884\u540e\u5206\u6790\u3002\u51fd\u6570\u63a5\u53d7\u516d\u4e2a\u53c2\u6570\uff1aexpFile\uff08\u8868\u8fbe\u6570\u636e\u6587\u4ef6\uff09\uff0ccliFile\uff08\u4e34\u5e8a\u6570\u636e\u6587\u4ef6\uff09\uff0cuniOutFile\uff08\u5355\u56e0\u7d20\u9884\u540e\u5206\u6790\u7ed3\u679c\u8f93\u51fa\u6587\u4ef6\uff09\uff0cmultiOutFile\uff08\u591a\u56e0\u7d20\u9884\u540e\u5206\u6790\u7ed3\u679c\u8f93\u51fa\u6587\u4ef6\uff09\uff0cuniForest\uff08\u5355\u56e0\u7d20\u68ee\u6797\u56fe\u8f93\u51fa\u6587\u4ef6\uff09\uff0cmultiForest\uff08\u591a\u56e0\u7d20\u68ee\u6797\u56fe\u8f93\u51fa\u6587\u4ef6\uff09\u3002<\/p>\n<\/section>\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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u5b9a\u4e49\u72ec\u7acb\u9884\u540e\u5206\u6790\u51fd\u6570<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">indep=<span class=\"code-snippet__keyword\">function<\/span>(expFile=null,cliFile=null,uniOutFile=null,multiOutFile=null,uniForest=null,multiForest=null){<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__built_in\">exp<\/span>=read.table(expFile, header=<span class=\"code-snippet__built_in\">T<\/span>, sep=<span class=\"code-snippet__string\">\"t\"<\/span>, check.names=<span class=\"code-snippet__built_in\">F<\/span>, row.names=<span class=\"code-snippet__number\">1<\/span>) <span class=\"code-snippet__comment\">#\u8bfb\u53d6\u8868\u8fbe\u6587\u4ef6<\/span><\/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=\"1.2156196943972835\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/2_t1bM299XpK8SiaxwqfprV16BPy7ibA-3.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSY3PbLY2sWX4luykbG6vprBzg9W1OaPYsYmIC2pOcm9eRofZrt1bM299XpK8SiaxwqfprV16BPy7ibA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"589\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\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\">cli=read.table(cliFile, header=<span class=\"code-snippet__built_in\">T<\/span>, sep=<span class=\"code-snippet__string\">\"t\"<\/span>, check.names=<span class=\"code-snippet__built_in\">F<\/span>, row.names=<span class=\"code-snippet__number\">1<\/span>) <span class=\"code-snippet__comment\">#\u8bfb\u53d6\u4e34\u5e8a\u6587\u4ef6<\/span><\/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=\"1.132183908045977\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/3_NIMZZngIzPTJCwNnsU9ePHq5tqMD4A-3.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSY3PbLY2sWX4luykbG6vprBaiasiao6qvn0cbsLam1axDicZFTNIMZZngIzPTJCwNnsU9ePHq5tqMD4A\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"348\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\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<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\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__comment\">#\u6570\u636e\u5408\u5e76\uff0c\u8bfb\u53d6\u8868\u8fbe\u6570\u636e\u6587\u4ef6\u548c\u4e34\u5e8a\u6570\u636e\u6587\u4ef6\uff0c\u7136\u540e\u5c06\u5b83\u4eec\u5408\u5e76\u4e3a\u4e00\u4e2a\u6570\u636e\u6846\u3002<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">sameSample=intersect(row.names(cli),row.names(<span class=\"code-snippet__built_in\">exp<\/span>))<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__built_in\">exp<\/span>=<span class=\"code-snippet__built_in\">exp<\/span>[sameSample,]<\/span><\/code><code><span class=\"code-snippet_outer\">cli=cli[sameSample,]<\/span><\/code><code><span class=\"code-snippet_outer\">rt=cbind(<span class=\"code-snippet__built_in\">exp<\/span>, cli)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u8fdb\u884c\u5355\u56e0\u7d20\u72ec\u7acb\u9884\u540e\u5206\u6790\uff0c\u8ba1\u7b97\u6bcf\u4e2a\u57fa\u56e0\u4e0e\u751f\u5b58\u98ce\u9669\u7684\u76f8\u5173\u6027\uff0c\u5e76\u5c06\u7ed3\u679c\u4fdd\u5b58\u5230\u5355\u56e0\u7d20\u9884\u540e\u5206\u6790\u7ed3\u679c\u8f93\u51fa\u6587\u4ef6\u3002<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">uniTab=data.frame()<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__keyword\">for<\/span>(i <span class=\"code-snippet__keyword\">in<\/span> colnames(rt[,<span class=\"code-snippet__number\">3<\/span>:ncol(rt)])){<\/span><\/code><code><span class=\"code-snippet_outer\">cox <- coxph(Surv(futime, fustat) ~ rt[,i], data = rt)<\/span><\/code><code><span class=\"code-snippet_outer\">coxSummary = summary(cox)<\/span><\/code><code><span class=\"code-snippet_outer\">uniTab=rbind(uniTab,<\/span><\/code><code><span class=\"code-snippet_outer\">cbind(id=i,<\/span><\/code><code><span class=\"code-snippet_outer\">HR=coxSummary$conf.int[,<span class=\"code-snippet__string\">\"exp(coef)\"<\/span>],<\/span><\/code><code><span class=\"code-snippet_outer\">HR.95L=coxSummary$conf.int[,<span class=\"code-snippet__string\">\"lower .95\"<\/span>],<\/span><\/code><code><span class=\"code-snippet_outer\">HR.95H=coxSummary$conf.int[,<span class=\"code-snippet__string\">\"upper .95\"<\/span>],<\/span><\/code><code><span class=\"code-snippet_outer\">pvalue=coxSummary$coefficients[,<span class=\"code-snippet__string\">\"Pr(>|z|)\"<\/span>])<\/span><\/code><code><span class=\"code-snippet_outer\">)<\/span><\/code><code><span class=\"code-snippet_outer\">}<\/span><\/code><code><span class=\"code-snippet_outer\">write.table(uniTab,file=uniOutFile,sep=<span class=\"code-snippet__string\">\"t\"<\/span>,row.names=<span class=\"code-snippet__built_in\">F<\/span>,<span class=\"code-snippet__built_in\">quote<\/span>=<span class=\"code-snippet__built_in\">F<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u51fd\u6570\u8c03\u7528bioForest\u51fd\u6570\u7ed8\u5236\u5355\u56e0\u7d20\u68ee\u6797\u56fe\uff0c\u5c06\u9884\u540e\u5206\u6790\u7ed3\u679c\u53ef\u89c6\u5316\u3002<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">bioForest(coxFile=uniOutFile, forestFile=uniForest, forestCol=<span class=\"code-snippet__string\">\"green\"<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u591a\u56e0\u7d20\u72ec\u7acb\u9884\u540e\u5206\u6790\uff0c\u51fd\u6570\u8fdb\u884c\u591a\u56e0\u7d20\u72ec\u7acb\u9884\u540e\u5206\u6790\uff0c\u8ba1\u7b97\u591a\u4e2a\u56e0\u7d20\u5bf9\u751f\u5b58\u98ce\u9669\u7684\u7efc\u5408\u5f71\u54cd\uff0c\u5e76\u5c06\u7ed3\u679c\u4fdd\u5b58\u5230\u591a\u56e0\u7d20\u9884\u540e\u5206\u6790\u7ed3\u679c\u8f93\u51fa\u6587\u4ef6\u3002<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">uniTab=uniTab[<span class=\"code-snippet__built_in\">as.numeric<\/span>(uniTab[,<span class=\"code-snippet__string\">\"pvalue\"<\/span>])<<span class=\"code-snippet__number\">1<\/span>,]<\/span><\/code><code><span class=\"code-snippet_outer\">rt1=rt[,<span class=\"code-snippet__built_in\">c<\/span>(<span class=\"code-snippet__string\">\"futime\"<\/span>, <span class=\"code-snippet__string\">\"fustat\"<\/span>, as.vector(uniTab[,<span class=\"code-snippet__string\">\"id\"<\/span>]))]<\/span><\/code><code><span class=\"code-snippet_outer\">multiCox=coxph(Surv(futime, fustat) ~ ., data = rt1)<\/span><\/code><code><span class=\"code-snippet_outer\">multiCoxSum=summary(multiCox)<\/span><\/code><code><span class=\"code-snippet_outer\">multiTab=data.frame()<\/span><\/code><code><span class=\"code-snippet_outer\">multiTab=cbind(<\/span><\/code><code><span class=\"code-snippet_outer\">HR=multiCoxSum$conf.int[,<span class=\"code-snippet__string\">\"exp(coef)\"<\/span>],<\/span><\/code><code><span class=\"code-snippet_outer\">HR.95L=multiCoxSum$conf.int[,<span class=\"code-snippet__string\">\"lower .95\"<\/span>],<\/span><\/code><code><span class=\"code-snippet_outer\">HR.95H=multiCoxSum$conf.int[,<span class=\"code-snippet__string\">\"upper .95\"<\/span>],<\/span><\/code><code><span class=\"code-snippet_outer\">pvalue=multiCoxSum$coefficients[,<span class=\"code-snippet__string\">\"Pr(>|z|)\"<\/span>])<\/span><\/code><code><span class=\"code-snippet_outer\">multiTab=cbind(id=row.names(multiTab),multiTab)<\/span><\/code><code><span class=\"code-snippet_outer\">write.table(multiTab,file=multiOutFile,sep=<span class=\"code-snippet__string\">\"t\"<\/span>,row.names=<span class=\"code-snippet__built_in\">F<\/span>,<span class=\"code-snippet__built_in\">quote<\/span>=<span class=\"code-snippet__built_in\">F<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">bioForest(coxFile=multiOutFile, forestFile=multiForest, forestCol=<span class=\"code-snippet__string\">\"red\"<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">}<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u8c03\u7528bioForest\u51fd\u6570\u7ed8\u5236\u591a\u56e0\u7d20\u68ee\u6797\u56fe\uff0c\u5c55\u793a\u591a\u56e0\u7d20\u9884\u540e\u5206\u6790\u7ed3\u679c\u7684\u6548\u5e94\u91cf\u548c\u663e\u8457\u6027\u6c34\u5e73<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u8c03\u7528\u51fd\u6570\uff0c\u8fdb\u884c\u72ec\u7acb\u9884\u540e\u5206\u6790\u3002\u8c03\u7528indep\u51fd\u6570\uff0c\u4f20\u5165\u76f8\u5e94\u7684\u53c2\u6570\u8fdb\u884c\u72ec\u7acb\u9884\u540e\u5206\u6790\u3002\u6839\u636e\u8f93\u5165\u7684\u8868\u8fbe\u6570\u636e\u6587\u4ef6\u548c\u4e34\u5e8a\u6570\u636e\u6587\u4ef6\uff0c\u4ee3\u7801\u5c06\u8fdb\u884c\u5355\u56e0\u7d20\u548c\u591a\u56e0\u7d20\u72ec\u7acb\u9884\u540e\u5206\u6790\uff0c\u5e76\u5c06\u7ed3\u679c\u4ee5\u6587\u4ef6\u548c\u68ee\u6797\u56fe\u7684\u5f62\u5f0f\u8f93\u51fa\u3002<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">indep(expFile=<span class=\"code-snippet__string\">\"expTime.txt\"<\/span>,<\/span><\/code><code><span class=\"code-snippet_outer\">cliFile=<span class=\"code-snippet__string\">\"clinical.txt\"<\/span>,<\/span><\/code><code><span class=\"code-snippet_outer\">uniOutFile=<span class=\"code-snippet__string\">\"uniCox.txt\"<\/span>,<\/span><\/code><code><span class=\"code-snippet_outer\">multiOutFile=<span class=\"code-snippet__string\">\"multiCox.txt\"<\/span>,<\/span><\/code><code><span class=\"code-snippet_outer\">uniForest=<span class=\"code-snippet__string\">\"uniForest.pdf\"<\/span>,<\/span><\/code><code><span class=\"code-snippet_outer\">multiForest=<span class=\"code-snippet__string\">\"multiForest.pdf\"<\/span>)<\/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=\"0.16430903155603918\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/4_a1icQIGsSxA0gOpxf7QZoXqkZWu8ng-3.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSY3PbLY2sWX4luykbG6vprBpichYaBQWDgjticSJRLicABia7GXWia1icQIGsSxA0gOpxf7QZoXqkZWu8ng\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"919\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\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=\"0.1484814398200225\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/5_RbT8Q9KgIX7xyM9hAAIu4O5QYOqO4A-3.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSY3PbLY2sWX4luykbG6vprBRAbFaefgNLqMy6AfBx9dv16cRbT8Q9KgIX7xyM9hAAIu4O5QYOqO4A\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"889\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<section style=\"padding-right: 12px;padding-left: 12px;\" powered-by=\"xiumi.us\">\n<p style=\"text-indent: 0em;text-wrap: wrap;\">\u6765\u7ed9\u5927\u5bb6\u5c55\u793a\u5c55\u793a\u7ed3\u679c\u56fe\u5427\uff0c\u4f7f\u7528firefox\u547d\u4ee4\u3002<\/p>\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=\"0.6443798449612403\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/6_4Q0BKjf7WyeN6PzGvJglnjNz121hMA-3.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSY3PbLY2sWX4luykbG6vprBSicN43YKLKrDw5u2V2RrZc7vE4Q0BKjf7WyeN6PzGvJglnjNz121hMA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1032\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\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=\"0.6487006737247353\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/7_yAhO5nUlTIzOOxD04t9MjHrcFjBKww-3.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSY3PbLY2sWX4luykbG6vprBvBER5JF8QGW6lMDicia6a5xWvTyAhO5nUlTIzOOxD04t9MjHrcFjBKww\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1039\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\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;margin-top: 10px;margin-bottom: 10px;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: 98%;vertical-align: top;align-self: flex-start;flex: 0 0 auto;height: auto;border-style: solid;border-width: 2px;border-color: rgb(160, 160, 160);padding: 27px;\">\n<section style=\"text-align: justify;line-height: 1.6;letter-spacing: 0px;padding-right: 6px;padding-left: 6px;\" powered-by=\"xiumi.us\">\n<p>\u72ec\u7acb\u9884\u540e\u5206\u6790\u662f\u4e00\u79cd\u5e38\u7528\u7684\u751f\u5b58\u5206\u6790\u65b9\u6cd5\uff0c\u7528\u4e8e\u8bc4\u4f30\u57fa\u56e0\u8868\u8fbe\u7b49\u56e0\u7d20\u5bf9\u751f\u5b58\u65f6\u95f4\u7684\u5f71\u54cd\u3002\u901a\u8fc7\u8be5\u5206\u6790\uff0c\u53ef\u4ee5\u8bc6\u522b\u4e0e\u751f\u5b58\u98ce\u9669\u76f8\u5173\u7684\u57fa\u56e0\uff0c\u5e76\u4e86\u89e3\u57fa\u56e0\u5bf9\u751f\u5b58\u65f6\u95f4\u7684\u5f71\u54cd\u7a0b\u5ea6\u3002\u68ee\u6797\u56fe\u5219\u63d0\u4f9b\u4e86\u4e00\u79cd\u53ef\u89c6\u5316\u5c55\u793a\u72ec\u7acb\u9884\u540e\u5206\u6790\u7ed3\u679c\u7684\u65b9\u5f0f\uff0c\u65b9\u4fbf\u5bf9\u7ed3\u679c\u8fdb\u884c\u89c2\u5bdf\u548c\u6bd4\u8f83\u3002<\/p>\n<p>\u4e0b\u671f\u5c06\u4e3a\u4f60\u5e26\u6765\u66f4\u591aR\u8bed\u8a00\u7684\u9a9a\u64cd\u4f5c\u6280\u5de7\uff0c\u4ee5\u4e0b\u63a8\u8350\u7684\u662f\u4e00\u4e2a\u591a\u529f\u80fd\u7684\u751f\u4fe1\u5e73\u53f0\u3002<\/p>\n<p><br \/><\/p>\n<p>\u6b22\u8fce\u4f7f\u7528\uff1a\u4e91\u751f\u4fe1 – \u5b66\u751f\u7269\u4fe1\u606f\u5b66 (biocloudservice.com)<\/p>\n<p><br \/><\/p>\n<p>\u5982\u679c\u60f3\u7528\u670d\u52a1\u5668\u53ef\u4ee5\u8054\u7cfb\u5fae\u4fe1\uff1a18502195490\uff08\u5feb\u6765\u8054\u7cfb\u6211\u4eec\u4f7f\u7528\u5427\uff01\uff09<\/p>\n<\/section>\n<section style=\"text-align: right;justify-content: flex-end;display: flex;flex-flow: row;transform: translate3d(40px, 0px, 0px);margin-bottom: -40px;\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;width: auto;vertical-align: top;align-self: flex-start;flex: 0 0 auto;min-width: 5%;height: auto;\">\n<section style=\"transform: rotateZ(45deg);\" powered-by=\"xiumi.us\">\n<section style=\"text-align: center;\">\n<section style=\"display: inline-block;width: 26px;height: 26px;vertical-align: top;overflow: hidden;background-color: rgb(255, 255, 255);border-left: 1px solid rgb(160, 160, 160);border-bottom-left-radius: 0px;\">\n<section style=\"text-align: justify;\" powered-by=\"xiumi.us\">\n<p><br \/><\/p>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<\/section>\n<p powered-by=\"xiumi.us\"><a target=\"_blank\" href=\"https:\/\/mp.weixin.qq.com\/s?__biz=MzAwNjE0MDY3MQ==&mid=2650761303&idx=2&sn=6f73471d1e82c56c0b2160d0fcd32d53&scene=21#wechat_redirect\" textvalue=\"\" linktype=\"image\" imgurl=\"https:\/\/mmbiz.qpic.cn\/mmbiz_jpg\/KDvR2NrGicSYCoxhZfqr5L0fxy3C9eSFdt72DV7zqsmrNaiaaoOhic3sHzUpBN4r4MaBCk9p9v16yZwvMvS5nM7sQ\/0?wx_fmt=jpeg\" imgdata=\"[object Object]\" tab=\"innerlink\" data-linktype=\"1\" rel=\"noopener\"><span class=\"js_jump_icon h5_image_link\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-ratio=\"0.35083798882681566\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/8_pBN4r4MaBCk9p9v16yZwvMvS5nM7sQ-8.jpg?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_jpg\/KDvR2NrGicSYCoxhZfqr5L0fxy3C9eSFdt72DV7zqsmrNaiaaoOhic3sHzUpBN4r4MaBCk9p9v16yZwvMvS5nM7sQ\/640?wx_fmt=jpeg'\" data-type=\"jpeg\" data-w=\"895\" style=\"\" data-recalc-dims=\"1\" \/><\/span><\/a><br \/><\/p>\n<p style=\"text-align: center;\"><img decoding=\"async\" class=\"rich_pages wxw-img\" data-galleryid=\"\" data-ratio=\"0.3488888888888889\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/9_uKaqczIP6EMQhkT9sW7c1bKv6z9AAg-7.jpg?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_jpg\/KDvR2NrGicSYCoxhZfqr5L0fxy3C9eSFdD9CpdQZl2iaySUTmNepgg2BpMuKaqczIP6EMQhkT9sW7c1bKv6z9AAg\/640?wx_fmt=jpeg'\" data-type=\"jpeg\" data-w=\"900\" style=\"\" data-recalc-dims=\"1\" \/><\/p>\n<p powered-by=\"xiumi.us\">\uff08\u70b9\u51fb\u9605\u8bfb\u539f\u6587\u8df3\u8f6c\uff09<\/p>\n<section style=\"text-align: left;margin: 10px 0%;\" powered-by=\"xiumi.us\">\n<section 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powered-by=\"xiumi.us\">\n<section style=\"margin-top: 10px;margin-bottom: 10px;text-align: center;\">\n<section style=\"width: 100%;height: 5px;background-color: rgb(255, 255, 255);\"><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<\/section>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"padding-right: 12px;padding-left: 12px;\" powered-by=\"xiumi.us\">\n<p style=\"text-indent: 0em;text-wrap: wrap;\">\u72ec\u7acb\u9884\u540e\u5206\u6790\uff1a\u901a\u8fc7\u4f7f\u7528\u751f\u5b58\u5206\u6790\u4e2d\u7684Cox\u6bd4\u4f8b\u98ce\u9669\u6a21\u578b\uff08Cox proportional hazards model\uff09\uff0c\u8bc4\u4f30\u57fa\u56e0\u8868\u8fbe\u4e0e\u751f\u5b58\u65f6\u95f4\u4e4b\u95f4\u7684\u5173\u8054\u3002\u8be5\u5206\u6790\u53ef\u4ee5\u5e2e\u52a9\u7814\u7a76\u4eba\u5458\u786e\u5b9a\u54ea\u4e9b\u57fa\u56e0\u5bf9\u751f\u5b58\u65f6\u95f4\u5177\u6709\u663e\u8457\u7684\u5f71\u54cd\u3002<\/p>\n<p style=\"text-indent: 0em;text-wrap: wrap;\">\u68ee\u6797\u56fe\u7ed8\u5236\uff1a\u68ee\u6797\u56fe\u662f\u4e00\u79cd\u5e38\u7528\u7684\u56fe\u5f62\u8868\u793a\u65b9\u5f0f\uff0c\u7528\u4e8e\u5c55\u793a\u591a\u4e2a\u9884\u540e\u56e0\u7d20\u7684\u6548\u5e94\u91cf\uff08\u5982\u98ce\u9669\u6bd4\u6216\u5371\u9669\u6bd4\uff09\u548c\u663e\u8457\u6027\u6c34\u5e73\uff08\u5982p\u503c\uff09\u3002\u901a\u8fc7\u7ed8\u5236\u68ee\u6797\u56fe\uff0c\u53ef\u4ee5\u76f4\u89c2\u5730\u6bd4\u8f83\u4e0d\u540c\u57fa\u56e0\u6216\u9884\u540e\u56e0\u7d20\u5bf9\u751f\u5b58\u65f6\u95f4\u7684\u5f71\u54cd\u3002<\/p>\n<p style=\"text-indent: 0em;text-wrap: wrap;\">\u5355\u56e0\u7d20\u72ec\u7acb\u9884\u540e\u5206\u6790\uff1a\u4ee3\u7801\u4f7f\u7528coxph\u51fd\u6570\u8ba1\u7b97\u6bcf\u4e2a\u57fa\u56e0\uff08\u6216\u9884\u540e\u56e0\u7d20\uff09\u4e0e\u751f\u5b58\u65f6\u95f4\u7684\u5173\u8054\uff0c\u5f97\u5230\u6548\u5e94\u91cf\uff08HR\uff09\u548c\u663e\u8457\u6027\u6c34\u5e73\uff08p\u503c\uff09\u3002\u5c06\u7ed3\u679c\u4fdd\u5b58\u5230\u5355\u56e0\u7d20\u9884\u540e\u5206\u6790\u7ed3\u679c\u8f93\u51fa\u6587\u4ef6\uff08uniOutFile\uff09\uff0c\u7136\u540e\u8c03\u7528bioForest\u51fd\u6570\u7ed8\u5236\u5bf9\u5e94\u7684\u5355\u56e0\u7d20\u68ee\u6797\u56fe\u3002\u591a\u56e0\u7d20\u72ec\u7acb\u9884\u540e\u5206\u6790\uff1a\u6839\u636e\u5355\u56e0\u7d20\u9884\u540e\u5206\u6790\u7ed3\u679c\uff0c\u9009\u62e9p\u503c\u5c0f\u4e8e1\u7684\u57fa\u56e0\uff0c\u5c06\u5b83\u4eec\u4f5c\u4e3a\u9884\u540e\u56e0\u7d20\u8fdb\u884c\u591a\u56e0\u7d20\u72ec\u7acb\u9884\u540e\u5206\u6790\u3002\u8fd9\u6837\u53ef\u4ee5\u8003\u8651\u591a\u4e2a\u56e0\u7d20\u5bf9\u751f\u5b58\u65f6\u95f4\u7684\u7efc\u5408\u5f71\u54cd\u3002\u591a\u56e0\u7d20\u9884\u540e\u5206\u6790\u7ed3\u679c\u4fdd\u5b58\u5230\u591a\u56e0\u7d20\u9884\u540e\u5206\u6790\u7ed3\u679c\u8f93\u51fa\u6587\u4ef6\uff08multiOutFile\uff09\uff0c\u5e76\u7ed8\u5236\u591a\u56e0\u7d20\u68ee\u6797\u56fe\uff08\u8c03\u7528bioForest\u51fd\u6570\uff09\u3002<\/p>\n<\/section>\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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"c\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__meta\">#install.packages(<span class=\"code-snippet__meta-string\">'survival'<\/span>)<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">library(survival) #\u5f15\u7528\u5305<\/span><\/code><code><span class=\"code-snippet_outer\">setwd(<span class=\"code-snippet__string\">\"C:\\biowolf\\Gene\\16.indep\"<\/span>) #\u8bbe\u7f6e\u5de5\u4f5c\u76ee\u5f55<\/span><\/code><\/pre>\n<\/section>\n<p powered-by=\"xiumi.us\"><br \/><\/p>\n<section style=\"padding-right: 12px;padding-left: 12px;\" powered-by=\"xiumi.us\">\n<p style=\"text-indent: 0em;text-wrap: wrap;\">\u5b9a\u4e49\u68ee\u6797\u56fe\u51fd\u6570\uff08bioForest\uff09\uff1a\u7528\u4e8e\u7ed8\u5236\u68ee\u6797\u56fe\uff0c\u5c55\u793a\u72ec\u7acb\u9884\u540e\u5206\u6790\u7ed3\u679c\u7684\u6548\u5e94\u91cf\uff08Hazard Ratio\uff09\u548c\u663e\u8457\u6027\u6c34\u5e73\uff08p-value\uff09\u3002\u51fd\u6570\u63a5\u53d7\u4e09\u4e2a\u53c2\u6570\uff1acoxFile\uff08\u72ec\u7acb\u9884\u540e\u5206\u6790\u7ed3\u679c\u6587\u4ef6\uff09\uff0cforestFile\uff08\u68ee\u6797\u56fe\u8f93\u51fa\u6587\u4ef6\uff09\uff0cforestCol\uff08\u68ee\u6797\u56fe\u989c\u8272\uff09\u3002\u51fd\u6570\u8bfb\u53d6\u72ec\u7acb\u9884\u540e\u5206\u6790\u7ed3\u679c\u6587\u4ef6\uff0c\u63d0\u53d6\u76f8\u5173\u4fe1\u606f\uff0c\u5e76\u7ed8\u5236\u68ee\u6797\u56fe\u3002<\/p>\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=\"2.0354430379746837\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/1_XsVvuFTNJCHORP3MkGvzjYvFaZib5A-3.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSY3PbLY2sWX4luykbG6vprB8via6ia6Aa13M70L3tLIskHTQaiaXsVvuFTNJCHORP3MkGvzjYvFaZib5A\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"395\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\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<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\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\">bioForest=<span class=\"code-snippet__keyword\">function<\/span>(coxFile=null, forestFile=null, forestCol=null){<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u8bfb\u53d6\u8f93\u5165\u6587\u4ef6<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">rt <- read.table(coxFile, header=<span class=\"code-snippet__built_in\">T<\/span>, sep=<span class=\"code-snippet__string\">\"t\"<\/span>, check.names=<span class=\"code-snippet__built_in\">F<\/span>, row.names=<span class=\"code-snippet__number\">1<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">gene <- rownames(rt)<\/span><\/code><code><span class=\"code-snippet_outer\">hr <- sprintf(<span class=\"code-snippet__string\">\"%.3f\"<\/span>,rt$<span class=\"code-snippet__string\">\"HR\"<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">hrLow <- sprintf(<span class=\"code-snippet__string\">\"%.3f\"<\/span>,rt$<span class=\"code-snippet__string\">\"HR.95L\"<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">hrHigh <- sprintf(<span class=\"code-snippet__string\">\"%.3f\"<\/span>,rt$<span class=\"code-snippet__string\">\"HR.95H\"<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">Hazard.ratio <- paste0(hr,<span class=\"code-snippet__string\">\"(\"<\/span>,hrLow,<span class=\"code-snippet__string\">\"-\"<\/span>,hrHigh,<span class=\"code-snippet__string\">\")\"<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">pVal <- ifelse(rt$pvalue<<span class=\"code-snippet__number\">0.001<\/span>, <span class=\"code-snippet__string\">\"<0.001\"<\/span>, sprintf(<span class=\"code-snippet__string\">\"%.3f\"<\/span>, rt$pvalue))<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u8f93\u51fa\u56fe\u5f62<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">pdf(file=forestFile, width=<span class=\"code-snippet__number\">6.5<\/span>, height=<span class=\"code-snippet__number\">4.5<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">n <- nrow(rt)<\/span><\/code><code><span class=\"code-snippet_outer\">nRow <- n+<span class=\"code-snippet__number\">1<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">ylim <- <span class=\"code-snippet__built_in\">c<\/span>(<span class=\"code-snippet__number\">1<\/span>,nRow)<\/span><\/code><code><span class=\"code-snippet_outer\">layout(matrix(<span class=\"code-snippet__built_in\">c<\/span>(<span class=\"code-snippet__number\">1<\/span>,<span class=\"code-snippet__number\">2<\/span>),nc=<span class=\"code-snippet__number\">2<\/span>),width=<span class=\"code-snippet__built_in\">c<\/span>(<span class=\"code-snippet__number\">3<\/span>,<span class=\"code-snippet__number\">2.5<\/span>))<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u7ed8\u5236\u68ee\u6797\u56fe\u5de6\u8fb9\u7684\u4e34\u5e8a\u4fe1\u606f<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">xlim = <span class=\"code-snippet__built_in\">c<\/span>(<span class=\"code-snippet__number\">0<\/span>,<span class=\"code-snippet__number\">3<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">par(mar=<span class=\"code-snippet__built_in\">c<\/span>(<span class=\"code-snippet__number\">4<\/span>,<span class=\"code-snippet__number\">2.5<\/span>,<span class=\"code-snippet__number\">2<\/span>,<span class=\"code-snippet__number\">1<\/span>))<\/span><\/code><code><span class=\"code-snippet_outer\">plot(<span class=\"code-snippet__number\">1<\/span>,xlim=xlim,ylim=ylim,type=<span class=\"code-snippet__string\">\"n\"<\/span>,axes=<span class=\"code-snippet__built_in\">F<\/span>,xlab=<span class=\"code-snippet__string\">\"\"<\/span>,ylab=<span class=\"code-snippet__string\">\"\"<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">text.cex=<span class=\"code-snippet__number\">0.8<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">text(<span class=\"code-snippet__number\">0<\/span>,n:<span class=\"code-snippet__number\">1<\/span>,gene,adj=<span class=\"code-snippet__number\">0<\/span>,cex=text.cex)<\/span><\/code><code><span class=\"code-snippet_outer\">text(<span class=\"code-snippet__number\">1.5<\/span>-<span class=\"code-snippet__number\">0.5<\/span>*<span class=\"code-snippet__number\">0.2<\/span>,n:<span class=\"code-snippet__number\">1<\/span>,pVal,adj=<span class=\"code-snippet__number\">1<\/span>,cex=text.cex);text(<span class=\"code-snippet__number\">1.5<\/span>-<span class=\"code-snippet__number\">0.5<\/span>*<span class=\"code-snippet__number\">0.2<\/span>,n+<span class=\"code-snippet__number\">1<\/span>,<span class=\"code-snippet__string\">'pvalue'<\/span>,cex=text.cex,font=<span class=\"code-snippet__number\">2<\/span>,adj=<span class=\"code-snippet__number\">1<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">text(<span class=\"code-snippet__number\">3.1<\/span>,n:<span class=\"code-snippet__number\">1<\/span>,Hazard.ratio,adj=<span class=\"code-snippet__number\">1<\/span>,cex=text.cex);text(<span class=\"code-snippet__number\">3.1<\/span>,n+<span class=\"code-snippet__number\">1<\/span>,<span class=\"code-snippet__string\">'Hazard ratio'<\/span>,cex=text.cex,font=<span class=\"code-snippet__number\">2<\/span>,adj=<span class=\"code-snippet__number\">1<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u7ed8\u5236\u53f3\u8fb9\u7684\u68ee\u6797\u56fe<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">par(mar=<span class=\"code-snippet__built_in\">c<\/span>(<span class=\"code-snippet__number\">4<\/span>,<span class=\"code-snippet__number\">1<\/span>,<span class=\"code-snippet__number\">2<\/span>,<span class=\"code-snippet__number\">1<\/span>),mgp=<span class=\"code-snippet__built_in\">c<\/span>(<span class=\"code-snippet__number\">2<\/span>,<span class=\"code-snippet__number\">0.5<\/span>,<span class=\"code-snippet__number\">0<\/span>))<\/span><\/code><code><span class=\"code-snippet_outer\">xlim = <span class=\"code-snippet__built_in\">c<\/span>(<span class=\"code-snippet__number\">0<\/span>,<span class=\"code-snippet__built_in\">max<\/span>(<span class=\"code-snippet__built_in\">as.numeric<\/span>(hrLow),<span class=\"code-snippet__built_in\">as.numeric<\/span>(hrHigh)))<\/span><\/code><code><span class=\"code-snippet_outer\">plot(<span class=\"code-snippet__number\">1<\/span>,xlim=xlim,ylim=ylim,type=<span class=\"code-snippet__string\">\"n\"<\/span>,axes=<span class=\"code-snippet__built_in\">F<\/span>,ylab=<span class=\"code-snippet__string\">\"\"<\/span>,xaxs=<span class=\"code-snippet__string\">\"i\"<\/span>,xlab=<span class=\"code-snippet__string\">\"Hazard ratio\"<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">arrows(<span class=\"code-snippet__built_in\">as.numeric<\/span>(hrLow),n:<span class=\"code-snippet__number\">1<\/span>,<span class=\"code-snippet__built_in\">as.numeric<\/span>(hrHigh),n:<span class=\"code-snippet__number\">1<\/span>,angle=<span class=\"code-snippet__number\">90<\/span>,code=<span class=\"code-snippet__number\">3<\/span>,<span class=\"code-snippet__built_in\">length<\/span>=<span class=\"code-snippet__number\">0.05<\/span>,col=<span class=\"code-snippet__string\">\"darkblue\"<\/span>,lwd=<span class=\"code-snippet__number\">3<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">abline(v=<span class=\"code-snippet__number\">1<\/span>, col=<span class=\"code-snippet__string\">\"black\"<\/span>, lty=<span class=\"code-snippet__number\">2<\/span>, lwd=<span class=\"code-snippet__number\">2<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">boxcolor = ifelse(<span class=\"code-snippet__built_in\">as.numeric<\/span>(hr) > <span class=\"code-snippet__number\">1<\/span>, forestCol, forestCol)<\/span><\/code><code><span class=\"code-snippet_outer\">points(<span class=\"code-snippet__built_in\">as.numeric<\/span>(hr), n:<span class=\"code-snippet__number\">1<\/span>, pch = <span class=\"code-snippet__number\">15<\/span>, col = boxcolor, cex=<span class=\"code-snippet__number\">2<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">axis(<span class=\"code-snippet__number\">1<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">dev.off()<\/span><\/code><code><span class=\"code-snippet_outer\">}<\/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;margin-top: 10px;margin-bottom: 10px;transform: translate3d(-15px, 0px, 0px);\" powered-by=\"xiumi.us\">\n<section style=\"display: inline-block;vertical-align: middle;width: auto;min-width: 5%;flex: 0 0 auto;height: auto;align-self: center;\"><svg viewbox=\"0 0 1 1\" style=\"float:left;line-height:0;width:0;vertical-align:top;\"><\/svg><\/section>\n<section style=\"display: inline-block;vertical-align: middle;width: auto;align-self: center;flex: 0 0 auto;min-width: 5%;height: auto;background-color: rgb(129, 167, 211);padding: 13px;\">\n<section style=\"text-align: justify;color: rgb(19, 53, 102);font-size: 16px;padding-right: 12px;padding-left: 12px;\" powered-by=\"xiumi.us\">\n<p><strong>\u5b9a\u4e49\u68ee\u6797\u56fe\u51fd\u6570<\/strong><\/p>\n<\/section>\n<\/section>\n<\/section>\n<section style=\"padding-right: 12px;padding-left: 12px;\" powered-by=\"xiumi.us\">\n<p style=\"text-indent: 0em;text-wrap: wrap;\">\u5b9a\u4e49\u72ec\u7acb\u9884\u540e\u5206\u6790\u51fd\u6570\uff08indep\uff09\uff1a\u8be5\u51fd\u6570\u7528\u4e8e\u8fdb\u884c\u57fa\u56e0\u8868\u8fbe\u6570\u636e\u7684\u72ec\u7acb\u9884\u540e\u5206\u6790\u3002\u51fd\u6570\u63a5\u53d7\u516d\u4e2a\u53c2\u6570\uff1aexpFile\uff08\u8868\u8fbe\u6570\u636e\u6587\u4ef6\uff09\uff0ccliFile\uff08\u4e34\u5e8a\u6570\u636e\u6587\u4ef6\uff09\uff0cuniOutFile\uff08\u5355\u56e0\u7d20\u9884\u540e\u5206\u6790\u7ed3\u679c\u8f93\u51fa\u6587\u4ef6\uff09\uff0cmultiOutFile\uff08\u591a\u56e0\u7d20\u9884\u540e\u5206\u6790\u7ed3\u679c\u8f93\u51fa\u6587\u4ef6\uff09\uff0cuniForest\uff08\u5355\u56e0\u7d20\u68ee\u6797\u56fe\u8f93\u51fa\u6587\u4ef6\uff09\uff0cmultiForest\uff08\u591a\u56e0\u7d20\u68ee\u6797\u56fe\u8f93\u51fa\u6587\u4ef6\uff09\u3002<\/p>\n<\/section>\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<\/ul>\n<pre class=\"code-snippet__js\" data-lang=\"r\"><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u5b9a\u4e49\u72ec\u7acb\u9884\u540e\u5206\u6790\u51fd\u6570<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">indep=<span class=\"code-snippet__keyword\">function<\/span>(expFile=null,cliFile=null,uniOutFile=null,multiOutFile=null,uniForest=null,multiForest=null){<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__built_in\">exp<\/span>=read.table(expFile, header=<span class=\"code-snippet__built_in\">T<\/span>, sep=<span class=\"code-snippet__string\">\"t\"<\/span>, check.names=<span class=\"code-snippet__built_in\">F<\/span>, row.names=<span class=\"code-snippet__number\">1<\/span>) <span class=\"code-snippet__comment\">#\u8bfb\u53d6\u8868\u8fbe\u6587\u4ef6<\/span><\/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=\"1.2156196943972835\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/2_t1bM299XpK8SiaxwqfprV16BPy7ibA-3.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSY3PbLY2sWX4luykbG6vprBzg9W1OaPYsYmIC2pOcm9eRofZrt1bM299XpK8SiaxwqfprV16BPy7ibA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"589\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\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\">cli=read.table(cliFile, header=<span class=\"code-snippet__built_in\">T<\/span>, sep=<span class=\"code-snippet__string\">\"t\"<\/span>, check.names=<span class=\"code-snippet__built_in\">F<\/span>, row.names=<span class=\"code-snippet__number\">1<\/span>) <span class=\"code-snippet__comment\">#\u8bfb\u53d6\u4e34\u5e8a\u6587\u4ef6<\/span><\/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=\"1.132183908045977\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/3_NIMZZngIzPTJCwNnsU9ePHq5tqMD4A-3.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSY3PbLY2sWX4luykbG6vprBaiasiao6qvn0cbsLam1axDicZFTNIMZZngIzPTJCwNnsU9ePHq5tqMD4A\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"348\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\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<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\n<li><\/li>\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__comment\">#\u6570\u636e\u5408\u5e76\uff0c\u8bfb\u53d6\u8868\u8fbe\u6570\u636e\u6587\u4ef6\u548c\u4e34\u5e8a\u6570\u636e\u6587\u4ef6\uff0c\u7136\u540e\u5c06\u5b83\u4eec\u5408\u5e76\u4e3a\u4e00\u4e2a\u6570\u636e\u6846\u3002<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">sameSample=intersect(row.names(cli),row.names(<span class=\"code-snippet__built_in\">exp<\/span>))<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__built_in\">exp<\/span>=<span class=\"code-snippet__built_in\">exp<\/span>[sameSample,]<\/span><\/code><code><span class=\"code-snippet_outer\">cli=cli[sameSample,]<\/span><\/code><code><span class=\"code-snippet_outer\">rt=cbind(<span class=\"code-snippet__built_in\">exp<\/span>, cli)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u8fdb\u884c\u5355\u56e0\u7d20\u72ec\u7acb\u9884\u540e\u5206\u6790\uff0c\u8ba1\u7b97\u6bcf\u4e2a\u57fa\u56e0\u4e0e\u751f\u5b58\u98ce\u9669\u7684\u76f8\u5173\u6027\uff0c\u5e76\u5c06\u7ed3\u679c\u4fdd\u5b58\u5230\u5355\u56e0\u7d20\u9884\u540e\u5206\u6790\u7ed3\u679c\u8f93\u51fa\u6587\u4ef6\u3002<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">uniTab=data.frame()<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__keyword\">for<\/span>(i <span class=\"code-snippet__keyword\">in<\/span> colnames(rt[,<span class=\"code-snippet__number\">3<\/span>:ncol(rt)])){<\/span><\/code><code><span class=\"code-snippet_outer\">cox <- coxph(Surv(futime, fustat) ~ rt[,i], data = rt)<\/span><\/code><code><span class=\"code-snippet_outer\">coxSummary = summary(cox)<\/span><\/code><code><span class=\"code-snippet_outer\">uniTab=rbind(uniTab,<\/span><\/code><code><span class=\"code-snippet_outer\">cbind(id=i,<\/span><\/code><code><span class=\"code-snippet_outer\">HR=coxSummary$conf.int[,<span class=\"code-snippet__string\">\"exp(coef)\"<\/span>],<\/span><\/code><code><span class=\"code-snippet_outer\">HR.95L=coxSummary$conf.int[,<span class=\"code-snippet__string\">\"lower .95\"<\/span>],<\/span><\/code><code><span class=\"code-snippet_outer\">HR.95H=coxSummary$conf.int[,<span class=\"code-snippet__string\">\"upper .95\"<\/span>],<\/span><\/code><code><span class=\"code-snippet_outer\">pvalue=coxSummary$coefficients[,<span class=\"code-snippet__string\">\"Pr(>|z|)\"<\/span>])<\/span><\/code><code><span class=\"code-snippet_outer\">)<\/span><\/code><code><span class=\"code-snippet_outer\">}<\/span><\/code><code><span class=\"code-snippet_outer\">write.table(uniTab,file=uniOutFile,sep=<span class=\"code-snippet__string\">\"t\"<\/span>,row.names=<span class=\"code-snippet__built_in\">F<\/span>,<span class=\"code-snippet__built_in\">quote<\/span>=<span class=\"code-snippet__built_in\">F<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u51fd\u6570\u8c03\u7528bioForest\u51fd\u6570\u7ed8\u5236\u5355\u56e0\u7d20\u68ee\u6797\u56fe\uff0c\u5c06\u9884\u540e\u5206\u6790\u7ed3\u679c\u53ef\u89c6\u5316\u3002<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">bioForest(coxFile=uniOutFile, forestFile=uniForest, forestCol=<span class=\"code-snippet__string\">\"green\"<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u591a\u56e0\u7d20\u72ec\u7acb\u9884\u540e\u5206\u6790\uff0c\u51fd\u6570\u8fdb\u884c\u591a\u56e0\u7d20\u72ec\u7acb\u9884\u540e\u5206\u6790\uff0c\u8ba1\u7b97\u591a\u4e2a\u56e0\u7d20\u5bf9\u751f\u5b58\u98ce\u9669\u7684\u7efc\u5408\u5f71\u54cd\uff0c\u5e76\u5c06\u7ed3\u679c\u4fdd\u5b58\u5230\u591a\u56e0\u7d20\u9884\u540e\u5206\u6790\u7ed3\u679c\u8f93\u51fa\u6587\u4ef6\u3002<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">uniTab=uniTab[<span class=\"code-snippet__built_in\">as.numeric<\/span>(uniTab[,<span class=\"code-snippet__string\">\"pvalue\"<\/span>])<<span class=\"code-snippet__number\">1<\/span>,]<\/span><\/code><code><span class=\"code-snippet_outer\">rt1=rt[,<span class=\"code-snippet__built_in\">c<\/span>(<span class=\"code-snippet__string\">\"futime\"<\/span>, <span class=\"code-snippet__string\">\"fustat\"<\/span>, as.vector(uniTab[,<span class=\"code-snippet__string\">\"id\"<\/span>]))]<\/span><\/code><code><span class=\"code-snippet_outer\">multiCox=coxph(Surv(futime, fustat) ~ ., data = rt1)<\/span><\/code><code><span class=\"code-snippet_outer\">multiCoxSum=summary(multiCox)<\/span><\/code><code><span class=\"code-snippet_outer\">multiTab=data.frame()<\/span><\/code><code><span class=\"code-snippet_outer\">multiTab=cbind(<\/span><\/code><code><span class=\"code-snippet_outer\">HR=multiCoxSum$conf.int[,<span class=\"code-snippet__string\">\"exp(coef)\"<\/span>],<\/span><\/code><code><span class=\"code-snippet_outer\">HR.95L=multiCoxSum$conf.int[,<span class=\"code-snippet__string\">\"lower .95\"<\/span>],<\/span><\/code><code><span class=\"code-snippet_outer\">HR.95H=multiCoxSum$conf.int[,<span class=\"code-snippet__string\">\"upper .95\"<\/span>],<\/span><\/code><code><span class=\"code-snippet_outer\">pvalue=multiCoxSum$coefficients[,<span class=\"code-snippet__string\">\"Pr(>|z|)\"<\/span>])<\/span><\/code><code><span class=\"code-snippet_outer\">multiTab=cbind(id=row.names(multiTab),multiTab)<\/span><\/code><code><span class=\"code-snippet_outer\">write.table(multiTab,file=multiOutFile,sep=<span class=\"code-snippet__string\">\"t\"<\/span>,row.names=<span class=\"code-snippet__built_in\">F<\/span>,<span class=\"code-snippet__built_in\">quote<\/span>=<span class=\"code-snippet__built_in\">F<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">bioForest(coxFile=multiOutFile, forestFile=multiForest, forestCol=<span class=\"code-snippet__string\">\"red\"<\/span>)<\/span><\/code><code><span class=\"code-snippet_outer\">}<\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u8c03\u7528bioForest\u51fd\u6570\u7ed8\u5236\u591a\u56e0\u7d20\u68ee\u6797\u56fe\uff0c\u5c55\u793a\u591a\u56e0\u7d20\u9884\u540e\u5206\u6790\u7ed3\u679c\u7684\u6548\u5e94\u91cf\u548c\u663e\u8457\u6027\u6c34\u5e73<\/span><\/span><\/code><code><span class=\"code-snippet_outer\"><span class=\"code-snippet__comment\">#\u8c03\u7528\u51fd\u6570\uff0c\u8fdb\u884c\u72ec\u7acb\u9884\u540e\u5206\u6790\u3002\u8c03\u7528indep\u51fd\u6570\uff0c\u4f20\u5165\u76f8\u5e94\u7684\u53c2\u6570\u8fdb\u884c\u72ec\u7acb\u9884\u540e\u5206\u6790\u3002\u6839\u636e\u8f93\u5165\u7684\u8868\u8fbe\u6570\u636e\u6587\u4ef6\u548c\u4e34\u5e8a\u6570\u636e\u6587\u4ef6\uff0c\u4ee3\u7801\u5c06\u8fdb\u884c\u5355\u56e0\u7d20\u548c\u591a\u56e0\u7d20\u72ec\u7acb\u9884\u540e\u5206\u6790\uff0c\u5e76\u5c06\u7ed3\u679c\u4ee5\u6587\u4ef6\u548c\u68ee\u6797\u56fe\u7684\u5f62\u5f0f\u8f93\u51fa\u3002<\/span><\/span><\/code><code><span class=\"code-snippet_outer\">indep(expFile=<span class=\"code-snippet__string\">\"expTime.txt\"<\/span>,<\/span><\/code><code><span class=\"code-snippet_outer\">cliFile=<span class=\"code-snippet__string\">\"clinical.txt\"<\/span>,<\/span><\/code><code><span class=\"code-snippet_outer\">uniOutFile=<span class=\"code-snippet__string\">\"uniCox.txt\"<\/span>,<\/span><\/code><code><span class=\"code-snippet_outer\">multiOutFile=<span class=\"code-snippet__string\">\"multiCox.txt\"<\/span>,<\/span><\/code><code><span class=\"code-snippet_outer\">uniForest=<span class=\"code-snippet__string\">\"uniForest.pdf\"<\/span>,<\/span><\/code><code><span class=\"code-snippet_outer\">multiForest=<span class=\"code-snippet__string\">\"multiForest.pdf\"<\/span>)<\/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=\"0.16430903155603918\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/4_a1icQIGsSxA0gOpxf7QZoXqkZWu8ng-3.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSY3PbLY2sWX4luykbG6vprBpichYaBQWDgjticSJRLicABia7GXWia1icQIGsSxA0gOpxf7QZoXqkZWu8ng\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"919\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\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=\"0.1484814398200225\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/5_RbT8Q9KgIX7xyM9hAAIu4O5QYOqO4A-3.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSY3PbLY2sWX4luykbG6vprBRAbFaefgNLqMy6AfBx9dv16cRbT8Q9KgIX7xyM9hAAIu4O5QYOqO4A\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"889\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\n<\/section>\n<section style=\"padding-right: 12px;padding-left: 12px;\" powered-by=\"xiumi.us\">\n<p style=\"text-indent: 0em;text-wrap: wrap;\">\u6765\u7ed9\u5927\u5bb6\u5c55\u793a\u5c55\u793a\u7ed3\u679c\u56fe\u5427\uff0c\u4f7f\u7528firefox\u547d\u4ee4\u3002<\/p>\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=\"0.6443798449612403\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/6_4Q0BKjf7WyeN6PzGvJglnjNz121hMA-3.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSY3PbLY2sWX4luykbG6vprBSicN43YKLKrDw5u2V2RrZc7vE4Q0BKjf7WyeN6PzGvJglnjNz121hMA\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1032\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\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=\"0.6487006737247353\" data-s=\"300,640\" src=\"https:\/\/i0.wp.com\/www.biocloudservice.com\/wordpress\/wp-content\/uploads\/2024\/06\/7_yAhO5nUlTIzOOxD04t9MjHrcFjBKww-3.png?w=640\" onerror=\"this.src='https:\/\/mmbiz.qpic.cn\/mmbiz_png\/KDvR2NrGicSY3PbLY2sWX4luykbG6vprBvBER5JF8QGW6lMDicia6a5xWvTyAhO5nUlTIzOOxD04t9MjHrcFjBKww\/640?wx_fmt=png'\" data-type=\"png\" data-w=\"1039\" style=\"vertical-align: middle;width: 100%;\" data-recalc-dims=\"1\" \/><\/section>\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;margin-top: 10px;margin-bottom: 10px;\" 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powered-by=\"xiumi.us\">\n<p>\u72ec\u7acb\u9884\u540e\u5206\u6790\u662f\u4e00\u79cd\u5e38\u7528\u7684\u751f\u5b58\u5206\u6790\u65b9\u6cd5\uff0c\u7528\u4e8e\u8bc4\u4f30\u57fa\u56e0\u8868\u8fbe\u7b49\u56e0\u7d20\u5bf9\u751f\u5b58\u65f6\u95f4\u7684\u5f71\u54cd\u3002\u901a\u8fc7\u8be5\u5206\u6790\uff0c\u53ef\u4ee5\u8bc6\u522b\u4e0e\u751f\u5b58\u98ce\u9669\u76f8\u5173\u7684\u57fa\u56e0\uff0c\u5e76\u4e86\u89e3\u57fa\u56e0\u5bf9\u751f\u5b58\u65f6\u95f4\u7684\u5f71\u54cd\u7a0b\u5ea6\u3002\u68ee\u6797\u56fe\u5219\u63d0\u4f9b\u4e86\u4e00\u79cd\u53ef\u89c6\u5316\u5c55\u793a\u72ec\u7acb\u9884\u540e\u5206\u6790\u7ed3\u679c\u7684\u65b9\u5f0f\uff0c\u65b9\u4fbf\u5bf9\u7ed3\u679c\u8fdb\u884c\u89c2\u5bdf\u548c\u6bd4\u8f83\u3002<\/p>\n<p>\u4e0b\u671f\u5c06\u4e3a\u4f60\u5e26\u6765\u66f4\u591aR\u8bed\u8a00\u7684\u9a9a\u64cd\u4f5c\u6280\u5de7\uff0c\u4ee5\u4e0b\u63a8\u8350\u7684\u662f\u4e00\u4e2a\u591a\u529f\u80fd\u7684\u751f\u4fe1\u5e73\u53f0\u3002<\/p>\n<p><br 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