| 123456789101112131415161718192021222324252627282930313233343536373839404142434445464748495051525354555657585960616263646566676869707172737475767778798081828384858687888990919293949596979899100101102103104105106107108109110111112113114115116117118119120121122123124125126127128129130131132133134135136137138139140141142143144145146147148149150151152153154155156157158159160161162163164165166167168169170171172173174175176177178179180181182183184185186187188189190191192193194195196197198199200201202203204205206207208209210211212213214215216217218219220221222223224225226227228229230231232233234235236237238239240241242243244245246247248249250251252253254255256257258259260261262263264265266267268269270271272273274275276277278279280281282283284285286287288289290291292293294295296297298299300301302303304305306307308309310311312313314315316317318319320321322323324325326327328329330331332333334335336337338339340341342343344345346347348349350351352353354355356357358359360361362363364365366367368369370371372373374375376377378379380381382383384385386387388389390391392393394395396397398399400401402403404405406407408409410411412413414415416417418419420421422423424425426427428429430431432433434435436437438439440441442443444445446447448449450451452453454455456457458459460461462463464465466467468469470471472473474475476477478479480481482483484485486487488489490491492493494495496497498499500501502503504505506507508509510511512513514515516517518519520521522523524525526527528529530531532533534535536537538539540541542543544545546547548549550551552553554555556557558559560561562563564565566567568569570571572573574575576577578579580581582583584585586587588589590591592593594595596597598599600601602603604605606607608609610611612613614615616617618619620621622623624625626627628629630631632633634635636637638639640641642643644645646647648649650651652653654655656657658659660661662663664665666 |
- <!DOCTYPE html>
- <html lang="en" data-default-color-scheme=auto>
- <head><!-- hexo injector head_begin start -->
- <script async src="https://analytics.umami.is/script.js" data-website-id="e59ec28a-c9a7-4104-9e62-a9f7eb3fac0b"></script>
- <!-- hexo injector head_begin end -->
- <meta charset="UTF-8">
- <link rel="apple-touch-icon" sizes="76x76" href="https://img.limour.top/2023/08/29/64ee07361815a.webp">
- <link rel="icon" href="https://img.limour.top/2023/08/29/64ee07361815a.webp">
- <meta name="viewport" content="width=device-width, initial-scale=1.0, maximum-scale=5.0, shrink-to-fit=no">
- <meta http-equiv="x-ua-compatible" content="ie=edge">
-
- <meta name="theme-color" content="#2f4154">
- <meta name="author" content="Limour">
- <meta name="keywords" content="">
-
- <meta name="description" content="安装补充包 conda activate ggsurvplot install.packages(‘survIDINRI’) 构建两个COXPH模型准备数据123456789101112131415library(survival)library(car)library(rms)library(pROC)library(timeROC)library(ggDCA)library(surviv">
- <meta property="og:type" content="article">
- <meta property="og:title" content="比较两个COXPH模型的性能">
- <meta property="og:url" content="https://occdn.limour.top/2215.html">
- <meta property="og:site_name" content="Limour's Blog">
- <meta property="og:description" content="安装补充包 conda activate ggsurvplot install.packages(‘survIDINRI’) 构建两个COXPH模型准备数据123456789101112131415library(survival)library(car)library(rms)library(pROC)library(timeROC)library(ggDCA)library(surviv">
- <meta property="og:locale" content="en_US">
- <meta property="article:published_time" content="2022-08-10T16:25:34.000Z">
- <meta property="article:modified_time" content="2023-09-01T13:28:03.357Z">
- <meta property="article:author" content="Limour">
- <meta name="twitter:card" content="summary_large_image">
-
-
-
- <title>比较两个COXPH模型的性能 - Limour's Blog</title>
- <link rel="stylesheet" href="https://jscdn.limour.top/npm/bootstrap@4.6.1/dist/css/bootstrap.min.css" />
- <link rel="stylesheet" href="https://jscdn.limour.top/npm/github-markdown-css@4.0.0/github-markdown.min.css" />
- <link rel="stylesheet" href="https://jscdn.limour.top/npm/hint.css@2.7.0/hint.min.css" />
- <link rel="stylesheet" href="https://lib.baomitu.com/fancybox/3.5.7/jquery.fancybox.min.css" />
- <!-- 主题依赖的图标库，不要自行修改 -->
- <!-- Do not modify the link that theme dependent icons -->
- <link rel="stylesheet" href="//at.alicdn.com/t/font_1749284_hj8rtnfg7um.css">
- <link rel="stylesheet" href="//at.alicdn.com/t/font_1736178_lbnruvf0jn.css">
- <link rel="stylesheet" href="/css/main.css" />
- <link id="highlight-css" rel="stylesheet" href="/css/highlight.css" />
-
- <link id="highlight-css-dark" rel="stylesheet" href="/css/highlight-dark.css" />
-
-
- <link rel="stylesheet" href="/theme-inject/custom.css">
- <script id="fluid-configs">
- var Fluid = window.Fluid || {};
- Fluid.ctx = Object.assign({}, Fluid.ctx)
- var CONFIG = {"hostname":"occdn.limour.top","root":"/","version":"1.9.5-a","typing":{"enable":true,"typeSpeed":70,"cursorChar":"_","loop":false,"scope":[]},"anchorjs":{"enable":true,"element":"h1,h2,h3,h4,h5,h6","placement":"left","visible":"hover","icon":"§"},"progressbar":{"enable":true,"height_px":3,"color":"#29d","options":{"showSpinner":false,"trickleSpeed":100}},"code_language":{"enable":true,"default":"TEXT"},"copy_btn":true,"image_caption":{"enable":true},"image_zoom":{"enable":true,"img_url_replace":["",""]},"toc":{"enable":true,"placement":"right","headingSelector":"h1,h2,h3,h4,h5,h6","collapseDepth":0},"lazyload":{"enable":true,"loading_img":"https://jscdn.limour.top/gh/Limour-dev/Sakurairo_Vision/load_svg/inload.svg","onlypost":false,"offset_factor":2},"web_analytics":{"enable":false,"follow_dnt":true,"baidu":null,"google":{"measurement_id":null},"tencent":{"sid":null,"cid":null},"woyaola":null,"cnzz":null,"leancloud":{"app_id":null,"app_key":null,"server_url":null,"path":"window.location.pathname","ignore_local":false}},"search_path":"/local-search.xml","include_content_in_search":true};
- if (CONFIG.web_analytics.follow_dnt) {
- var dntVal = navigator.doNotTrack || window.doNotTrack || navigator.msDoNotTrack;
- Fluid.ctx.dnt = dntVal && (dntVal.startsWith('1') || dntVal.startsWith('yes') || dntVal.startsWith('on'));
- }
- </script>
- <script src="/js/utils.js" ></script>
- <script src="/js/color-schema.js" ></script>
-
-
- <meta name="generator" content="Hexo 6.3.0"></head>
- <body>
-
- <header>
-
- <div class="header-inner" style="height: 70vh;">
- <nav id="navbar" class="navbar fixed-top navbar-expand-lg navbar-dark scrolling-navbar">
- <div class="container">
- <a class="navbar-brand" href="/">
- <strong>Limour's Blog</strong>
- </a>
- <button id="navbar-toggler-btn" class="navbar-toggler" type="button" data-toggle="collapse"
- data-target="#navbarSupportedContent"
- aria-controls="navbarSupportedContent" aria-expanded="false" aria-label="Toggle navigation">
- <div class="animated-icon"><span></span><span></span><span></span></div>
- </button>
- <!-- Collapsible content -->
- <div class="collapse navbar-collapse" id="navbarSupportedContent">
- <ul class="navbar-nav ml-auto text-center">
-
-
-
-
-
- <li class="nav-item">
- <a class="nav-link" href="/">
- <i class="iconfont icon-home-fill"></i>
- <span>Home</span>
- </a>
- </li>
-
-
-
-
-
-
- <li class="nav-item">
- <a class="nav-link" href="/archives/">
- <i class="iconfont icon-archive-fill"></i>
- <span>Archives</span>
- </a>
- </li>
-
-
-
- <li class="nav-item" id="search-btn">
- <a class="nav-link" target="_self" href="javascript:;" data-toggle="modal" data-target="#modalSearch" aria-label="Search">
- <i class="iconfont icon-search"></i>
- </a>
- </li>
-
-
-
- <li class="nav-item" id="color-toggle-btn">
- <a class="nav-link" target="_self" href="javascript:;" aria-label="Color Toggle">
- <i class="iconfont icon-dark" id="color-toggle-icon"></i>
- </a>
- </li>
-
- </ul>
- </div>
- </div>
- </nav>
-
- <div id="banner" class="banner" parallax=true
- style="background: url('https://img.limour.top/2023/08/29/64ee08e108638.webp') no-repeat center center; background-size: cover;">
- <div class="full-bg-img">
- <div class="mask flex-center" style="background-color: rgba(0, 0, 0, 0.3)">
- <div class="banner-text text-center fade-in-up">
- <div class="h2">
-
- <span id="subtitle" data-typed-text="比较两个COXPH模型的性能"></span>
-
- </div>
-
-
- <div class="mt-3">
-
-
- <span class="post-meta">
- <i class="iconfont icon-date-fill" aria-hidden="true"></i>
- <time datetime="2022-08-11 00:25" pubdate>
- August 11, 2022 am
- </time>
- </span>
-
- </div>
- <div class="mt-1">
-
- <span class="post-meta mr-2">
- <i class="iconfont icon-chart"></i>
-
- 8.4k words
-
- </span>
-
-
- <span class="post-meta mr-2">
- <i class="iconfont icon-clock-fill"></i>
-
-
-
- 71 mins
-
- </span>
-
-
-
- </div>
-
- </div>
-
- </div>
- </div>
- </div>
- </div>
- </header>
- <main>
-
-
- <div class="container-fluid nopadding-x">
- <div class="row nomargin-x">
- <div class="side-col d-none d-lg-block col-lg-2">
-
- </div>
- <div class="col-lg-8 nopadding-x-md">
- <div class="container nopadding-x-md" id="board-ctn">
- <div id="board">
- <article class="post-content mx-auto">
- <h1 id="seo-header">比较两个COXPH模型的性能</h1>
-
-
- <div class="markdown-body">
-
- <h2 id="安装补充包"><a href="#安装补充包" class="headerlink" title="安装补充包"></a>安装补充包</h2><ul>
- <li><p><a href="https://occdn.limour.top/2213.html">conda activate ggsurvplot</a></p>
- </li>
- <li><p>install.packages(‘survIDINRI’)</p>
- </li>
- </ul>
- <h2 id="构建两个COXPH模型"><a href="#构建两个COXPH模型" class="headerlink" title="构建两个COXPH模型"></a>构建两个COXPH模型</h2><h3 id="准备数据"><a href="#准备数据" class="headerlink" title="准备数据"></a>准备数据</h3><figure class="highlight r"><table><tr><td class="gutter"><pre><span class="line">1</span><br><span class="line">2</span><br><span class="line">3</span><br><span class="line">4</span><br><span class="line">5</span><br><span class="line">6</span><br><span class="line">7</span><br><span class="line">8</span><br><span class="line">9</span><br><span class="line">10</span><br><span class="line">11</span><br><span class="line">12</span><br><span class="line">13</span><br><span class="line">14</span><br><span class="line">15</span><br></pre></td><td class="code"><pre><code class="hljs R">library<span class="hljs-punctuation">(</span>survival<span class="hljs-punctuation">)</span><br>library<span class="hljs-punctuation">(</span>car<span class="hljs-punctuation">)</span><br>library<span class="hljs-punctuation">(</span>rms<span class="hljs-punctuation">)</span><br>library<span class="hljs-punctuation">(</span>pROC<span class="hljs-punctuation">)</span><br>library<span class="hljs-punctuation">(</span>timeROC<span class="hljs-punctuation">)</span><br>library<span class="hljs-punctuation">(</span>ggDCA<span class="hljs-punctuation">)</span><br>library<span class="hljs-punctuation">(</span>survivalROC<span class="hljs-punctuation">)</span><br>library<span class="hljs-punctuation">(</span>pec<span class="hljs-punctuation">)</span><br>require<span class="hljs-punctuation">(</span>ggsci<span class="hljs-punctuation">)</span><br>library<span class="hljs-punctuation">(</span><span class="hljs-string">"scales"</span><span class="hljs-punctuation">)</span><br>library<span class="hljs-punctuation">(</span>nomogramFormula<span class="hljs-punctuation">)</span><br>library<span class="hljs-punctuation">(</span>survIDINRI<span class="hljs-punctuation">)</span><br>df1 <span class="hljs-operator"><-</span> readRDS<span class="hljs-punctuation">(</span><span class="hljs-string">'df.rds'</span><span class="hljs-punctuation">)</span><br>df2 <span class="hljs-operator"><-</span> readRDS<span class="hljs-punctuation">(</span><span class="hljs-string">'clinical.rds'</span><span class="hljs-punctuation">)</span><br>df <span class="hljs-operator"><-</span> cbind<span class="hljs-punctuation">(</span>df1<span class="hljs-punctuation">[</span>rownames<span class="hljs-punctuation">(</span>df2<span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span><span class="hljs-number">1</span><span class="hljs-operator">:</span><span class="hljs-number">11</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span>df2<span class="hljs-punctuation">)</span><br></code></pre></td></tr></table></figure>
- <h3 id="选择配色"><a href="#选择配色" class="headerlink" title="选择配色"></a>选择配色</h3><figure class="highlight r"><table><tr><td class="gutter"><pre><span class="line">1</span><br><span class="line">2</span><br></pre></td><td class="code"><pre><code class="hljs R">pal_nejm<span class="hljs-punctuation">(</span><span class="hljs-string">"default"</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">(</span><span class="hljs-number">8</span><span class="hljs-punctuation">)</span><br>show_col<span class="hljs-punctuation">(</span>pal_nejm<span class="hljs-punctuation">(</span><span class="hljs-string">"default"</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">(</span><span class="hljs-number">8</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">)</span> <span class="hljs-comment">#挑选配色</span><br></code></pre></td></tr></table></figure>
- <h3 id="计算某风险指标"><a href="#计算某风险指标" class="headerlink" title="计算某风险指标"></a>计算某风险指标</h3><figure class="highlight r"><table><tr><td class="gutter"><pre><span class="line">1</span><br><span class="line">2</span><br><span class="line">3</span><br><span class="line">4</span><br><span class="line">5</span><br><span class="line">6</span><br><span class="line">7</span><br><span class="line">8</span><br><span class="line">9</span><br><span class="line">10</span><br><span class="line">11</span><br><span class="line">12</span><br><span class="line">13</span><br><span class="line">14</span><br><span class="line">15</span><br><span class="line">16</span><br><span class="line">17</span><br><span class="line">18</span><br><span class="line">19</span><br><span class="line">20</span><br><span class="line">21</span><br><span class="line">22</span><br><span class="line">23</span><br><span class="line">24</span><br><span class="line">25</span><br><span class="line">26</span><br><span class="line">27</span><br><span class="line">28</span><br><span class="line">29</span><br><span class="line">30</span><br><span class="line">31</span><br><span class="line">32</span><br><span class="line">33</span><br><span class="line">34</span><br><span class="line">35</span><br><span class="line">36</span><br><span class="line">37</span><br><span class="line">38</span><br></pre></td><td class="code"><pre><code class="hljs R">coxmf1 <span class="hljs-operator"><-</span> paste0<span class="hljs-punctuation">(</span><span class="hljs-string">"Surv(time, status==1)~"</span><span class="hljs-punctuation">,</span> paste<span class="hljs-punctuation">(</span>colnames<span class="hljs-punctuation">(</span>df<span class="hljs-punctuation">)</span><span class="hljs-punctuation">[</span><span class="hljs-number">1</span><span class="hljs-operator">:</span><span class="hljs-number">11</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span> collapse <span class="hljs-operator">=</span> <span class="hljs-string">'+'</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">)</span><br>coxmf1<br>f1 <span class="hljs-operator"><-</span> cph<span class="hljs-punctuation">(</span>formula<span class="hljs-punctuation">(</span>coxmf1<span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span> data<span class="hljs-operator">=</span>df1<span class="hljs-punctuation">,</span> x<span class="hljs-operator">=</span><span class="hljs-built_in">T</span><span class="hljs-punctuation">,</span> y<span class="hljs-operator">=</span><span class="hljs-built_in">T</span><span class="hljs-punctuation">,</span> surv <span class="hljs-operator">=</span> <span class="hljs-built_in">T</span><span class="hljs-punctuation">)</span> <span class="hljs-comment"># 构建COX比例风险模型</span><br>surv1 <span class="hljs-operator"><-</span> Survival<span class="hljs-punctuation">(</span>f1<span class="hljs-punctuation">)</span> <span class="hljs-comment"># 构建生存概率函数</span><br>dd<span class="hljs-operator">=</span>datadist<span class="hljs-punctuation">(</span>df1<span class="hljs-punctuation">)</span><br>options<span class="hljs-punctuation">(</span>datadist<span class="hljs-operator">=</span><span class="hljs-string">"dd"</span><span class="hljs-punctuation">)</span> <br>nom1 <span class="hljs-operator"><-</span> nomogram<span class="hljs-punctuation">(</span>f1<span class="hljs-punctuation">,</span> fun<span class="hljs-operator">=</span><span class="hljs-built_in">list</span><span class="hljs-punctuation">(</span><span class="hljs-keyword">function</span><span class="hljs-punctuation">(</span>x<span class="hljs-punctuation">)</span> <span class="hljs-punctuation">{</span>surv1<span class="hljs-punctuation">(</span><span class="hljs-number">1</span><span class="hljs-operator">*</span><span class="hljs-number">12</span><span class="hljs-punctuation">,</span> x<span class="hljs-punctuation">)</span><span class="hljs-punctuation">}</span><span class="hljs-punctuation">,</span><br> <span class="hljs-keyword">function</span><span class="hljs-punctuation">(</span>x<span class="hljs-punctuation">)</span> <span class="hljs-punctuation">{</span>surv1<span class="hljs-punctuation">(</span><span class="hljs-number">3</span><span class="hljs-operator">*</span><span class="hljs-number">12</span><span class="hljs-punctuation">,</span> x<span class="hljs-punctuation">)</span><span class="hljs-punctuation">}</span><span class="hljs-punctuation">,</span><br> <span class="hljs-keyword">function</span><span class="hljs-punctuation">(</span>x<span class="hljs-punctuation">)</span> <span class="hljs-punctuation">{</span>surv1<span class="hljs-punctuation">(</span><span class="hljs-number">5</span><span class="hljs-operator">*</span><span class="hljs-number">12</span><span class="hljs-punctuation">,</span> x<span class="hljs-punctuation">)</span><span class="hljs-punctuation">}</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span><br> funlabel<span class="hljs-operator">=</span><span class="hljs-built_in">c</span><span class="hljs-punctuation">(</span><span class="hljs-string">"1-year Disease-free Probability"</span><span class="hljs-punctuation">,</span><br> <span class="hljs-string">"3-year Disease-free Probability"</span><span class="hljs-punctuation">,</span><br> <span class="hljs-string">"5-year Disease-free Probability"</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">)</span><br> <br>options<span class="hljs-punctuation">(</span>repr.plot.width<span class="hljs-operator">=</span><span class="hljs-number">12</span><span class="hljs-punctuation">,</span> repr.plot.height<span class="hljs-operator">=</span><span class="hljs-number">8</span><span class="hljs-punctuation">)</span><br>plot<span class="hljs-punctuation">(</span>nom1<span class="hljs-punctuation">,</span> xfrac<span class="hljs-operator">=</span><span class="hljs-number">.2</span><span class="hljs-punctuation">)</span><br>results <span class="hljs-operator"><-</span> formula_rd<span class="hljs-punctuation">(</span>nomogram <span class="hljs-operator">=</span> nom1<span class="hljs-punctuation">)</span><br>df<span class="hljs-operator">$</span>f1_points <span class="hljs-operator"><-</span> points_cal<span class="hljs-punctuation">(</span>formula <span class="hljs-operator">=</span> results<span class="hljs-operator">$</span>formula<span class="hljs-punctuation">,</span>rd<span class="hljs-operator">=</span>df<span class="hljs-punctuation">)</span><br>df<br>years1 <span class="hljs-operator"><-</span> timeROC<span class="hljs-punctuation">(</span><span class="hljs-built_in">T</span><span class="hljs-operator">=</span>df<span class="hljs-operator">$</span>time<span class="hljs-punctuation">,</span>delta<span class="hljs-operator">=</span>df<span class="hljs-operator">$</span>status<span class="hljs-punctuation">,</span><br> marker<span class="hljs-operator">=</span>df<span class="hljs-operator">$</span>f1_points<span class="hljs-punctuation">,</span>cause<span class="hljs-operator">=</span><span class="hljs-number">1</span><span class="hljs-punctuation">,</span><br> weighting<span class="hljs-operator">=</span><span class="hljs-string">"marginal"</span><span class="hljs-punctuation">,</span><br> <span class="hljs-comment"># other_markers=as.matrix(df$`1-year`),</span><br> times<span class="hljs-operator">=</span><span class="hljs-number">12</span><span class="hljs-operator">*</span><span class="hljs-built_in">c</span><span class="hljs-punctuation">(</span><span class="hljs-number">1</span><span class="hljs-punctuation">,</span><span class="hljs-number">3</span><span class="hljs-punctuation">,</span><span class="hljs-number">5</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span> ROC<span class="hljs-operator">=</span><span class="hljs-built_in">T</span><span class="hljs-punctuation">,</span> iid<span class="hljs-operator">=</span><span class="hljs-built_in">T</span><span class="hljs-punctuation">)</span><br>years1<br>auc1.ci <span class="hljs-operator"><-</span> confint<span class="hljs-punctuation">(</span>years1<span class="hljs-punctuation">,</span> parm<span class="hljs-operator">=</span><span class="hljs-literal">NULL</span><span class="hljs-punctuation">,</span> level <span class="hljs-operator">=</span> <span class="hljs-number">0.95</span><span class="hljs-punctuation">,</span>n.sim<span class="hljs-operator">=</span><span class="hljs-number">2000</span><span class="hljs-punctuation">)</span><br>auc1.ci <span class="hljs-operator"><-</span> auc1.ci<span class="hljs-operator">$</span>CI_AUC<br>auc1.ci<br>years1.auc1 <span class="hljs-operator"><-</span> paste0<span class="hljs-punctuation">(</span><span class="hljs-built_in">round</span><span class="hljs-punctuation">(</span>years1<span class="hljs-operator">$</span>AUC<span class="hljs-punctuation">[</span><span class="hljs-number">1</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span><span class="hljs-number">4</span><span class="hljs-punctuation">)</span><span class="hljs-operator">*</span><span class="hljs-number">100</span><span class="hljs-punctuation">,</span><span class="hljs-string">'('</span><span class="hljs-punctuation">,</span>auc1.ci<span class="hljs-punctuation">[</span><span class="hljs-number">1</span><span class="hljs-punctuation">,</span><span class="hljs-number">1</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span><span class="hljs-string">'~'</span><span class="hljs-punctuation">,</span>auc1.ci<span class="hljs-punctuation">[</span><span class="hljs-number">1</span><span class="hljs-punctuation">,</span><span class="hljs-number">2</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span><span class="hljs-string">')%'</span><span class="hljs-punctuation">)</span><br>years1.auc2 <span class="hljs-operator"><-</span> paste0<span class="hljs-punctuation">(</span><span class="hljs-built_in">round</span><span class="hljs-punctuation">(</span>years1<span class="hljs-operator">$</span>AUC<span class="hljs-punctuation">[</span><span class="hljs-number">2</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span><span class="hljs-number">4</span><span class="hljs-punctuation">)</span><span class="hljs-operator">*</span><span class="hljs-number">100</span><span class="hljs-punctuation">,</span><span class="hljs-string">'('</span><span class="hljs-punctuation">,</span>auc1.ci<span class="hljs-punctuation">[</span><span class="hljs-number">2</span><span class="hljs-punctuation">,</span><span class="hljs-number">1</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span><span class="hljs-string">'~'</span><span class="hljs-punctuation">,</span>auc1.ci<span class="hljs-punctuation">[</span><span class="hljs-number">2</span><span class="hljs-punctuation">,</span><span class="hljs-number">2</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span><span class="hljs-string">')%'</span><span class="hljs-punctuation">)</span><br>years1.auc3 <span class="hljs-operator"><-</span> paste0<span class="hljs-punctuation">(</span><span class="hljs-built_in">round</span><span class="hljs-punctuation">(</span>years1<span class="hljs-operator">$</span>AUC<span class="hljs-punctuation">[</span><span class="hljs-number">3</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span><span class="hljs-number">4</span><span class="hljs-punctuation">)</span><span class="hljs-operator">*</span><span class="hljs-number">100</span><span class="hljs-punctuation">,</span><span class="hljs-string">'('</span><span class="hljs-punctuation">,</span>auc1.ci<span class="hljs-punctuation">[</span><span class="hljs-number">3</span><span class="hljs-punctuation">,</span><span class="hljs-number">1</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span><span class="hljs-string">'~'</span><span class="hljs-punctuation">,</span>auc1.ci<span class="hljs-punctuation">[</span><span class="hljs-number">3</span><span class="hljs-punctuation">,</span><span class="hljs-number">2</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span><span class="hljs-string">')%'</span><span class="hljs-punctuation">)</span><br>options<span class="hljs-punctuation">(</span>repr.plot.width<span class="hljs-operator">=</span><span class="hljs-number">8</span><span class="hljs-punctuation">,</span> repr.plot.height<span class="hljs-operator">=</span><span class="hljs-number">8</span><span class="hljs-punctuation">)</span><br>plot<span class="hljs-punctuation">(</span>years1<span class="hljs-punctuation">,</span>time<span class="hljs-operator">=</span><span class="hljs-number">12</span><span class="hljs-operator">*</span><span class="hljs-number">1</span><span class="hljs-punctuation">,</span>title<span class="hljs-operator">=</span><span class="hljs-string">"Time dependent ROC"</span><span class="hljs-punctuation">,</span>col<span class="hljs-operator">=</span><span class="hljs-string">"#BC3C29FF"</span><span class="hljs-punctuation">)</span> <br>plot<span class="hljs-punctuation">(</span>years1<span class="hljs-punctuation">,</span>time<span class="hljs-operator">=</span><span class="hljs-number">12</span><span class="hljs-operator">*</span><span class="hljs-number">3</span><span class="hljs-punctuation">,</span>add<span class="hljs-operator">=</span><span class="hljs-literal">TRUE</span><span class="hljs-punctuation">,</span>col<span class="hljs-operator">=</span><span class="hljs-string">"#0072B5FF"</span><span class="hljs-punctuation">)</span> <br>plot<span class="hljs-punctuation">(</span>years1<span class="hljs-punctuation">,</span>time<span class="hljs-operator">=</span><span class="hljs-number">12</span><span class="hljs-operator">*</span><span class="hljs-number">5</span><span class="hljs-punctuation">,</span>add<span class="hljs-operator">=</span><span class="hljs-literal">TRUE</span><span class="hljs-punctuation">,</span>col<span class="hljs-operator">=</span><span class="hljs-string">"#E18727FF"</span><span class="hljs-punctuation">)</span> <br>legend<span class="hljs-punctuation">(</span><span class="hljs-string">"bottomright"</span><span class="hljs-punctuation">,</span><span class="hljs-built_in">c</span><span class="hljs-punctuation">(</span>paste<span class="hljs-punctuation">(</span><span class="hljs-string">"AUC of 1-year ="</span><span class="hljs-punctuation">,</span>years1.auc1<span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span><br> paste<span class="hljs-punctuation">(</span><span class="hljs-string">"AUC of 3-year ="</span><span class="hljs-punctuation">,</span>years1.auc2<span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span><br> paste<span class="hljs-punctuation">(</span><span class="hljs-string">"AUC of 5-year ="</span><span class="hljs-punctuation">,</span>years1.auc3<span class="hljs-punctuation">)</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span><br> col<span class="hljs-operator">=</span><span class="hljs-built_in">c</span><span class="hljs-punctuation">(</span><span class="hljs-string">"#BC3C29FF"</span><span class="hljs-punctuation">,</span><span class="hljs-string">"#0072B5FF"</span><span class="hljs-punctuation">,</span><span class="hljs-string">"#E18727FF"</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span>lty<span class="hljs-operator">=</span><span class="hljs-number">1</span><span class="hljs-punctuation">,</span>lwd<span class="hljs-operator">=</span><span class="hljs-number">2</span><span class="hljs-punctuation">)</span><br></code></pre></td></tr></table></figure>
- <h3 id="计算第一个模型"><a href="#计算第一个模型" class="headerlink" title="计算第一个模型"></a>计算第一个模型</h3><figure class="highlight r"><table><tr><td class="gutter"><pre><span class="line">1</span><br><span class="line">2</span><br><span class="line">3</span><br><span class="line">4</span><br><span class="line">5</span><br><span class="line">6</span><br><span class="line">7</span><br><span class="line">8</span><br><span class="line">9</span><br><span class="line">10</span><br><span class="line">11</span><br><span class="line">12</span><br><span class="line">13</span><br><span class="line">14</span><br><span class="line">15</span><br><span class="line">16</span><br><span class="line">17</span><br><span class="line">18</span><br><span class="line">19</span><br><span class="line">20</span><br><span class="line">21</span><br><span class="line">22</span><br><span class="line">23</span><br><span class="line">24</span><br><span class="line">25</span><br><span class="line">26</span><br><span class="line">27</span><br><span class="line">28</span><br><span class="line">29</span><br><span class="line">30</span><br><span class="line">31</span><br><span class="line">32</span><br><span class="line">33</span><br><span class="line">34</span><br><span class="line">35</span><br><span class="line">36</span><br><span class="line">37</span><br><span class="line">38</span><br></pre></td><td class="code"><pre><code class="hljs R">dd<span class="hljs-operator">=</span>datadist<span class="hljs-punctuation">(</span>df<span class="hljs-punctuation">)</span><br>options<span class="hljs-punctuation">(</span>datadist<span class="hljs-operator">=</span><span class="hljs-string">"dd"</span><span class="hljs-punctuation">)</span> <br>coxmf2 <span class="hljs-operator"><-</span> paste0<span class="hljs-punctuation">(</span><span class="hljs-string">"Surv(time, status==1)~PSA+Age+T2vs3+N0vs1+GS"</span><span class="hljs-punctuation">)</span><br>coxmf2<br>f2 <span class="hljs-operator"><-</span> cph<span class="hljs-punctuation">(</span>formula<span class="hljs-punctuation">(</span>coxmf2<span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span> data<span class="hljs-operator">=</span>df<span class="hljs-punctuation">,</span> x<span class="hljs-operator">=</span><span class="hljs-built_in">T</span><span class="hljs-punctuation">,</span> y<span class="hljs-operator">=</span><span class="hljs-built_in">T</span><span class="hljs-punctuation">,</span> surv <span class="hljs-operator">=</span> <span class="hljs-built_in">T</span><span class="hljs-punctuation">)</span> <span class="hljs-comment"># 构建COX比例风险模型</span><br>surv2 <span class="hljs-operator"><-</span> Survival<span class="hljs-punctuation">(</span>f2<span class="hljs-punctuation">)</span> <span class="hljs-comment"># 构建生存概率函数</span><br>nom2 <span class="hljs-operator"><-</span> nomogram<span class="hljs-punctuation">(</span>f2<span class="hljs-punctuation">,</span> fun<span class="hljs-operator">=</span><span class="hljs-built_in">list</span><span class="hljs-punctuation">(</span><span class="hljs-keyword">function</span><span class="hljs-punctuation">(</span>x<span class="hljs-punctuation">)</span> <span class="hljs-punctuation">{</span>surv2<span class="hljs-punctuation">(</span><span class="hljs-number">1</span><span class="hljs-operator">*</span><span class="hljs-number">12</span><span class="hljs-punctuation">,</span> x<span class="hljs-punctuation">)</span><span class="hljs-punctuation">}</span><span class="hljs-punctuation">,</span><br> <span class="hljs-keyword">function</span><span class="hljs-punctuation">(</span>x<span class="hljs-punctuation">)</span> <span class="hljs-punctuation">{</span>surv2<span class="hljs-punctuation">(</span><span class="hljs-number">3</span><span class="hljs-operator">*</span><span class="hljs-number">12</span><span class="hljs-punctuation">,</span> x<span class="hljs-punctuation">)</span><span class="hljs-punctuation">}</span><span class="hljs-punctuation">,</span><br> <span class="hljs-keyword">function</span><span class="hljs-punctuation">(</span>x<span class="hljs-punctuation">)</span> <span class="hljs-punctuation">{</span>surv2<span class="hljs-punctuation">(</span><span class="hljs-number">5</span><span class="hljs-operator">*</span><span class="hljs-number">12</span><span class="hljs-punctuation">,</span> x<span class="hljs-punctuation">)</span><span class="hljs-punctuation">}</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span><br> funlabel<span class="hljs-operator">=</span><span class="hljs-built_in">c</span><span class="hljs-punctuation">(</span><span class="hljs-string">"1-year Disease-free Probability"</span><span class="hljs-punctuation">,</span><br> <span class="hljs-string">"3-year Disease-free Probability"</span><span class="hljs-punctuation">,</span><br> <span class="hljs-string">"5-year Disease-free Probability"</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">)</span><br> <br>options<span class="hljs-punctuation">(</span>repr.plot.width<span class="hljs-operator">=</span><span class="hljs-number">12</span><span class="hljs-punctuation">,</span> repr.plot.height<span class="hljs-operator">=</span><span class="hljs-number">8</span><span class="hljs-punctuation">)</span><br>plot<span class="hljs-punctuation">(</span>nom2<span class="hljs-punctuation">,</span> xfrac<span class="hljs-operator">=</span><span class="hljs-number">.2</span><span class="hljs-punctuation">)</span><br>results <span class="hljs-operator"><-</span> formula_rd<span class="hljs-punctuation">(</span>nomogram <span class="hljs-operator">=</span> nom2<span class="hljs-punctuation">)</span><br>df<span class="hljs-operator">$</span>f2_points <span class="hljs-operator"><-</span> points_cal<span class="hljs-punctuation">(</span>formula <span class="hljs-operator">=</span> results<span class="hljs-operator">$</span>formula<span class="hljs-punctuation">,</span>rd<span class="hljs-operator">=</span>df<span class="hljs-punctuation">)</span><br>df<br>years2 <span class="hljs-operator"><-</span> timeROC<span class="hljs-punctuation">(</span><span class="hljs-built_in">T</span><span class="hljs-operator">=</span>df<span class="hljs-operator">$</span>time<span class="hljs-punctuation">,</span>delta<span class="hljs-operator">=</span>df<span class="hljs-operator">$</span>status<span class="hljs-punctuation">,</span><br> marker<span class="hljs-operator">=</span>df<span class="hljs-operator">$</span>f2_points<span class="hljs-punctuation">,</span>cause<span class="hljs-operator">=</span><span class="hljs-number">1</span><span class="hljs-punctuation">,</span><br> weighting<span class="hljs-operator">=</span><span class="hljs-string">"marginal"</span><span class="hljs-punctuation">,</span><br> <span class="hljs-comment"># other_markers=as.matrix(df$`1-year`),</span><br> times<span class="hljs-operator">=</span><span class="hljs-number">12</span><span class="hljs-operator">*</span><span class="hljs-built_in">c</span><span class="hljs-punctuation">(</span><span class="hljs-number">1</span><span class="hljs-punctuation">,</span><span class="hljs-number">3</span><span class="hljs-punctuation">,</span><span class="hljs-number">5</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span> ROC<span class="hljs-operator">=</span><span class="hljs-built_in">T</span><span class="hljs-punctuation">,</span> iid<span class="hljs-operator">=</span><span class="hljs-built_in">T</span><span class="hljs-punctuation">)</span><br>years2<br>auc2.ci <span class="hljs-operator"><-</span> confint<span class="hljs-punctuation">(</span>years2<span class="hljs-punctuation">,</span> parm<span class="hljs-operator">=</span><span class="hljs-literal">NULL</span><span class="hljs-punctuation">,</span> level <span class="hljs-operator">=</span> <span class="hljs-number">0.95</span><span class="hljs-punctuation">,</span>n.sim<span class="hljs-operator">=</span><span class="hljs-number">2000</span><span class="hljs-punctuation">)</span><br>auc2.ci <span class="hljs-operator"><-</span> auc2.ci<span class="hljs-operator">$</span>CI_AUC<br>auc2.ci<br>years2.auc1 <span class="hljs-operator"><-</span> paste0<span class="hljs-punctuation">(</span><span class="hljs-built_in">round</span><span class="hljs-punctuation">(</span>years2<span class="hljs-operator">$</span>AUC<span class="hljs-punctuation">[</span><span class="hljs-number">1</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span><span class="hljs-number">4</span><span class="hljs-punctuation">)</span><span class="hljs-operator">*</span><span class="hljs-number">100</span><span class="hljs-punctuation">,</span><span class="hljs-string">'('</span><span class="hljs-punctuation">,</span>auc2.ci<span class="hljs-punctuation">[</span><span class="hljs-number">1</span><span class="hljs-punctuation">,</span><span class="hljs-number">1</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span><span class="hljs-string">'~'</span><span class="hljs-punctuation">,</span>auc2.ci<span class="hljs-punctuation">[</span><span class="hljs-number">1</span><span class="hljs-punctuation">,</span><span class="hljs-number">2</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span><span class="hljs-string">')%'</span><span class="hljs-punctuation">)</span><br>years2.auc2 <span class="hljs-operator"><-</span> paste0<span class="hljs-punctuation">(</span><span class="hljs-built_in">round</span><span class="hljs-punctuation">(</span>years2<span class="hljs-operator">$</span>AUC<span class="hljs-punctuation">[</span><span class="hljs-number">2</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span><span class="hljs-number">4</span><span class="hljs-punctuation">)</span><span class="hljs-operator">*</span><span class="hljs-number">100</span><span class="hljs-punctuation">,</span><span class="hljs-string">'('</span><span class="hljs-punctuation">,</span>auc2.ci<span class="hljs-punctuation">[</span><span class="hljs-number">2</span><span class="hljs-punctuation">,</span><span class="hljs-number">1</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span><span class="hljs-string">'~'</span><span class="hljs-punctuation">,</span>auc2.ci<span class="hljs-punctuation">[</span><span class="hljs-number">2</span><span class="hljs-punctuation">,</span><span class="hljs-number">2</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span><span class="hljs-string">')%'</span><span class="hljs-punctuation">)</span><br>years2.auc3 <span class="hljs-operator"><-</span> paste0<span class="hljs-punctuation">(</span><span class="hljs-built_in">round</span><span class="hljs-punctuation">(</span>years2<span class="hljs-operator">$</span>AUC<span class="hljs-punctuation">[</span><span class="hljs-number">3</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span><span class="hljs-number">4</span><span class="hljs-punctuation">)</span><span class="hljs-operator">*</span><span class="hljs-number">100</span><span class="hljs-punctuation">,</span><span class="hljs-string">'('</span><span class="hljs-punctuation">,</span>auc2.ci<span class="hljs-punctuation">[</span><span class="hljs-number">3</span><span class="hljs-punctuation">,</span><span class="hljs-number">1</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span><span class="hljs-string">'~'</span><span class="hljs-punctuation">,</span>auc2.ci<span class="hljs-punctuation">[</span><span class="hljs-number">3</span><span class="hljs-punctuation">,</span><span class="hljs-number">2</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span><span class="hljs-string">')%'</span><span class="hljs-punctuation">)</span><br>options<span class="hljs-punctuation">(</span>repr.plot.width<span class="hljs-operator">=</span><span class="hljs-number">8</span><span class="hljs-punctuation">,</span> repr.plot.height<span class="hljs-operator">=</span><span class="hljs-number">8</span><span class="hljs-punctuation">)</span><br>plot<span class="hljs-punctuation">(</span>years2<span class="hljs-punctuation">,</span>time<span class="hljs-operator">=</span><span class="hljs-number">12</span><span class="hljs-operator">*</span><span class="hljs-number">1</span><span class="hljs-punctuation">,</span>title<span class="hljs-operator">=</span><span class="hljs-string">"Time dependent ROC"</span><span class="hljs-punctuation">,</span>col<span class="hljs-operator">=</span><span class="hljs-string">"#BC3C29FF"</span><span class="hljs-punctuation">)</span> <br>plot<span class="hljs-punctuation">(</span>years2<span class="hljs-punctuation">,</span>time<span class="hljs-operator">=</span><span class="hljs-number">12</span><span class="hljs-operator">*</span><span class="hljs-number">3</span><span class="hljs-punctuation">,</span>add<span class="hljs-operator">=</span><span class="hljs-literal">TRUE</span><span class="hljs-punctuation">,</span>col<span class="hljs-operator">=</span><span class="hljs-string">"#0072B5FF"</span><span class="hljs-punctuation">)</span> <br>plot<span class="hljs-punctuation">(</span>years2<span class="hljs-punctuation">,</span>time<span class="hljs-operator">=</span><span class="hljs-number">12</span><span class="hljs-operator">*</span><span class="hljs-number">5</span><span class="hljs-punctuation">,</span>add<span class="hljs-operator">=</span><span class="hljs-literal">TRUE</span><span class="hljs-punctuation">,</span>col<span class="hljs-operator">=</span><span class="hljs-string">"#E18727FF"</span><span class="hljs-punctuation">)</span> <br>legend<span class="hljs-punctuation">(</span><span class="hljs-string">"bottomright"</span><span class="hljs-punctuation">,</span><span class="hljs-built_in">c</span><span class="hljs-punctuation">(</span>paste<span class="hljs-punctuation">(</span><span class="hljs-string">"AUC of 1-year ="</span><span class="hljs-punctuation">,</span>years2.auc1<span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span><br> paste<span class="hljs-punctuation">(</span><span class="hljs-string">"AUC of 3-year ="</span><span class="hljs-punctuation">,</span>years2.auc2<span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span><br> paste<span class="hljs-punctuation">(</span><span class="hljs-string">"AUC of 5-year ="</span><span class="hljs-punctuation">,</span>years2.auc3<span class="hljs-punctuation">)</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span><br> col<span class="hljs-operator">=</span><span class="hljs-built_in">c</span><span class="hljs-punctuation">(</span><span class="hljs-string">"#BC3C29FF"</span><span class="hljs-punctuation">,</span><span class="hljs-string">"#0072B5FF"</span><span class="hljs-punctuation">,</span><span class="hljs-string">"#E18727FF"</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span>lty<span class="hljs-operator">=</span><span class="hljs-number">1</span><span class="hljs-punctuation">,</span>lwd<span class="hljs-operator">=</span><span class="hljs-number">2</span><span class="hljs-punctuation">)</span><br></code></pre></td></tr></table></figure>
- <h3 id="计算第二个模型"><a href="#计算第二个模型" class="headerlink" title="计算第二个模型"></a>计算第二个模型</h3><figure class="highlight r"><table><tr><td class="gutter"><pre><span class="line">1</span><br><span class="line">2</span><br><span class="line">3</span><br><span class="line">4</span><br><span class="line">5</span><br><span class="line">6</span><br><span class="line">7</span><br><span class="line">8</span><br><span class="line">9</span><br><span class="line">10</span><br><span class="line">11</span><br><span class="line">12</span><br><span class="line">13</span><br><span class="line">14</span><br><span class="line">15</span><br><span class="line">16</span><br><span class="line">17</span><br><span class="line">18</span><br><span class="line">19</span><br><span class="line">20</span><br><span class="line">21</span><br><span class="line">22</span><br><span class="line">23</span><br><span class="line">24</span><br><span class="line">25</span><br><span class="line">26</span><br><span class="line">27</span><br><span class="line">28</span><br><span class="line">29</span><br><span class="line">30</span><br><span class="line">31</span><br><span class="line">32</span><br><span class="line">33</span><br><span class="line">34</span><br><span class="line">35</span><br><span class="line">36</span><br><span class="line">37</span><br><span class="line">38</span><br><span class="line">39</span><br></pre></td><td class="code"><pre><code class="hljs R">coxmf3 <span class="hljs-operator"><-</span> paste0<span class="hljs-punctuation">(</span><span class="hljs-string">"Surv(time, status==1)~PSA+Age+T2vs3+N0vs1+GS+f1_points"</span><span class="hljs-punctuation">)</span><br>coxmf3<br>res.cox <span class="hljs-operator"><-</span> coxph<span class="hljs-punctuation">(</span>formula<span class="hljs-punctuation">(</span>coxmf3<span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span> data <span class="hljs-operator">=</span> df<span class="hljs-punctuation">)</span><br>tmp_res <span class="hljs-operator"><-</span> summary<span class="hljs-punctuation">(</span>res.cox<span class="hljs-punctuation">)</span><br>tmp_res<br>f3 <span class="hljs-operator"><-</span> cph<span class="hljs-punctuation">(</span>formula<span class="hljs-punctuation">(</span>coxmf3<span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span> data<span class="hljs-operator">=</span>df<span class="hljs-punctuation">,</span> x<span class="hljs-operator">=</span><span class="hljs-built_in">T</span><span class="hljs-punctuation">,</span> y<span class="hljs-operator">=</span><span class="hljs-built_in">T</span><span class="hljs-punctuation">,</span> surv <span class="hljs-operator">=</span> <span class="hljs-built_in">T</span><span class="hljs-punctuation">)</span> <span class="hljs-comment"># 构建COX比例风险模型</span><br>surv3 <span class="hljs-operator"><-</span> Survival<span class="hljs-punctuation">(</span>f3<span class="hljs-punctuation">)</span> <span class="hljs-comment"># 构建生存概率函数</span><br>nom3 <span class="hljs-operator"><-</span> nomogram<span class="hljs-punctuation">(</span>f3<span class="hljs-punctuation">,</span> fun<span class="hljs-operator">=</span><span class="hljs-built_in">list</span><span class="hljs-punctuation">(</span><span class="hljs-keyword">function</span><span class="hljs-punctuation">(</span>x<span class="hljs-punctuation">)</span> <span class="hljs-punctuation">{</span>surv3<span class="hljs-punctuation">(</span><span class="hljs-number">1</span><span class="hljs-operator">*</span><span class="hljs-number">12</span><span class="hljs-punctuation">,</span> x<span class="hljs-punctuation">)</span><span class="hljs-punctuation">}</span><span class="hljs-punctuation">,</span><br> <span class="hljs-keyword">function</span><span class="hljs-punctuation">(</span>x<span class="hljs-punctuation">)</span> <span class="hljs-punctuation">{</span>surv3<span class="hljs-punctuation">(</span><span class="hljs-number">3</span><span class="hljs-operator">*</span><span class="hljs-number">12</span><span class="hljs-punctuation">,</span> x<span class="hljs-punctuation">)</span><span class="hljs-punctuation">}</span><span class="hljs-punctuation">,</span><br> <span class="hljs-keyword">function</span><span class="hljs-punctuation">(</span>x<span class="hljs-punctuation">)</span> <span class="hljs-punctuation">{</span>surv3<span class="hljs-punctuation">(</span><span class="hljs-number">5</span><span class="hljs-operator">*</span><span class="hljs-number">12</span><span class="hljs-punctuation">,</span> x<span class="hljs-punctuation">)</span><span class="hljs-punctuation">}</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span><br> funlabel<span class="hljs-operator">=</span><span class="hljs-built_in">c</span><span class="hljs-punctuation">(</span><span class="hljs-string">"1-year Disease-free Probability"</span><span class="hljs-punctuation">,</span><br> <span class="hljs-string">"3-year Disease-free Probability"</span><span class="hljs-punctuation">,</span><br> <span class="hljs-string">"5-year Disease-free Probability"</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">)</span><br> <br>options<span class="hljs-punctuation">(</span>repr.plot.width<span class="hljs-operator">=</span><span class="hljs-number">12</span><span class="hljs-punctuation">,</span> repr.plot.height<span class="hljs-operator">=</span><span class="hljs-number">8</span><span class="hljs-punctuation">)</span><br>plot<span class="hljs-punctuation">(</span>nom3<span class="hljs-punctuation">,</span> xfrac<span class="hljs-operator">=</span><span class="hljs-number">.2</span><span class="hljs-punctuation">)</span><br>results <span class="hljs-operator"><-</span> formula_rd<span class="hljs-punctuation">(</span>nomogram <span class="hljs-operator">=</span> nom3<span class="hljs-punctuation">)</span><br>df<span class="hljs-operator">$</span>f3_points <span class="hljs-operator"><-</span> points_cal<span class="hljs-punctuation">(</span>formula <span class="hljs-operator">=</span> results<span class="hljs-operator">$</span>formula<span class="hljs-punctuation">,</span>rd<span class="hljs-operator">=</span>df<span class="hljs-punctuation">)</span><br>df<br>years3 <span class="hljs-operator"><-</span> timeROC<span class="hljs-punctuation">(</span><span class="hljs-built_in">T</span><span class="hljs-operator">=</span>df<span class="hljs-operator">$</span>time<span class="hljs-punctuation">,</span>delta<span class="hljs-operator">=</span>df<span class="hljs-operator">$</span>status<span class="hljs-punctuation">,</span><br> marker<span class="hljs-operator">=</span>df<span class="hljs-operator">$</span>f3_points<span class="hljs-punctuation">,</span>cause<span class="hljs-operator">=</span><span class="hljs-number">1</span><span class="hljs-punctuation">,</span><br> weighting<span class="hljs-operator">=</span><span class="hljs-string">"marginal"</span><span class="hljs-punctuation">,</span><br> <span class="hljs-comment"># other_markers=as.matrix(df$`1-year`),</span><br> times<span class="hljs-operator">=</span><span class="hljs-number">12</span><span class="hljs-operator">*</span><span class="hljs-built_in">c</span><span class="hljs-punctuation">(</span><span class="hljs-number">1</span><span class="hljs-punctuation">,</span><span class="hljs-number">3</span><span class="hljs-punctuation">,</span><span class="hljs-number">5</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span> ROC<span class="hljs-operator">=</span><span class="hljs-built_in">T</span><span class="hljs-punctuation">,</span> iid<span class="hljs-operator">=</span><span class="hljs-built_in">T</span><span class="hljs-punctuation">)</span><br>years3<br>auc3.ci <span class="hljs-operator"><-</span> confint<span class="hljs-punctuation">(</span>years3<span class="hljs-punctuation">,</span> parm<span class="hljs-operator">=</span><span class="hljs-literal">NULL</span><span class="hljs-punctuation">,</span> level <span class="hljs-operator">=</span> <span class="hljs-number">0.95</span><span class="hljs-punctuation">,</span>n.sim<span class="hljs-operator">=</span><span class="hljs-number">2000</span><span class="hljs-punctuation">)</span><br>auc3.ci <span class="hljs-operator"><-</span> auc3.ci<span class="hljs-operator">$</span>CI_AUC<br>auc3.ci<br>years3.auc1 <span class="hljs-operator"><-</span> paste0<span class="hljs-punctuation">(</span><span class="hljs-built_in">round</span><span class="hljs-punctuation">(</span>years3<span class="hljs-operator">$</span>AUC<span class="hljs-punctuation">[</span><span class="hljs-number">1</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span><span class="hljs-number">4</span><span class="hljs-punctuation">)</span><span class="hljs-operator">*</span><span class="hljs-number">100</span><span class="hljs-punctuation">,</span><span class="hljs-string">'('</span><span class="hljs-punctuation">,</span>auc3.ci<span class="hljs-punctuation">[</span><span class="hljs-number">1</span><span class="hljs-punctuation">,</span><span class="hljs-number">1</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span><span class="hljs-string">'~'</span><span class="hljs-punctuation">,</span>auc3.ci<span class="hljs-punctuation">[</span><span class="hljs-number">1</span><span class="hljs-punctuation">,</span><span class="hljs-number">2</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span><span class="hljs-string">')%'</span><span class="hljs-punctuation">)</span><br>years3.auc2 <span class="hljs-operator"><-</span> paste0<span class="hljs-punctuation">(</span><span class="hljs-built_in">round</span><span class="hljs-punctuation">(</span>years3<span class="hljs-operator">$</span>AUC<span class="hljs-punctuation">[</span><span class="hljs-number">2</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span><span class="hljs-number">4</span><span class="hljs-punctuation">)</span><span class="hljs-operator">*</span><span class="hljs-number">100</span><span class="hljs-punctuation">,</span><span class="hljs-string">'('</span><span class="hljs-punctuation">,</span>auc3.ci<span class="hljs-punctuation">[</span><span class="hljs-number">2</span><span class="hljs-punctuation">,</span><span class="hljs-number">1</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span><span class="hljs-string">'~'</span><span class="hljs-punctuation">,</span>auc3.ci<span class="hljs-punctuation">[</span><span class="hljs-number">2</span><span class="hljs-punctuation">,</span><span class="hljs-number">2</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span><span class="hljs-string">')%'</span><span class="hljs-punctuation">)</span><br>years3.auc3 <span class="hljs-operator"><-</span> paste0<span class="hljs-punctuation">(</span><span class="hljs-built_in">round</span><span class="hljs-punctuation">(</span>years3<span class="hljs-operator">$</span>AUC<span class="hljs-punctuation">[</span><span class="hljs-number">3</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span><span class="hljs-number">4</span><span class="hljs-punctuation">)</span><span class="hljs-operator">*</span><span class="hljs-number">100</span><span class="hljs-punctuation">,</span><span class="hljs-string">'('</span><span class="hljs-punctuation">,</span>auc3.ci<span class="hljs-punctuation">[</span><span class="hljs-number">3</span><span class="hljs-punctuation">,</span><span class="hljs-number">1</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span><span class="hljs-string">'~'</span><span class="hljs-punctuation">,</span>auc3.ci<span class="hljs-punctuation">[</span><span class="hljs-number">3</span><span class="hljs-punctuation">,</span><span class="hljs-number">2</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span><span class="hljs-string">')%'</span><span class="hljs-punctuation">)</span><br>options<span class="hljs-punctuation">(</span>repr.plot.width<span class="hljs-operator">=</span><span class="hljs-number">8</span><span class="hljs-punctuation">,</span> repr.plot.height<span class="hljs-operator">=</span><span class="hljs-number">8</span><span class="hljs-punctuation">)</span><br>plot<span class="hljs-punctuation">(</span>years3<span class="hljs-punctuation">,</span>time<span class="hljs-operator">=</span><span class="hljs-number">12</span><span class="hljs-operator">*</span><span class="hljs-number">1</span><span class="hljs-punctuation">,</span>title<span class="hljs-operator">=</span><span class="hljs-string">"Time dependent ROC"</span><span class="hljs-punctuation">,</span>col<span class="hljs-operator">=</span><span class="hljs-string">"#BC3C29FF"</span><span class="hljs-punctuation">)</span> <br>plot<span class="hljs-punctuation">(</span>years3<span class="hljs-punctuation">,</span>time<span class="hljs-operator">=</span><span class="hljs-number">12</span><span class="hljs-operator">*</span><span class="hljs-number">3</span><span class="hljs-punctuation">,</span>add<span class="hljs-operator">=</span><span class="hljs-literal">TRUE</span><span class="hljs-punctuation">,</span>col<span class="hljs-operator">=</span><span class="hljs-string">"#0072B5FF"</span><span class="hljs-punctuation">)</span> <br>plot<span class="hljs-punctuation">(</span>years3<span class="hljs-punctuation">,</span>time<span class="hljs-operator">=</span><span class="hljs-number">12</span><span class="hljs-operator">*</span><span class="hljs-number">5</span><span class="hljs-punctuation">,</span>add<span class="hljs-operator">=</span><span class="hljs-literal">TRUE</span><span class="hljs-punctuation">,</span>col<span class="hljs-operator">=</span><span class="hljs-string">"#E18727FF"</span><span class="hljs-punctuation">)</span> <br>legend<span class="hljs-punctuation">(</span><span class="hljs-string">"bottomright"</span><span class="hljs-punctuation">,</span><span class="hljs-built_in">c</span><span class="hljs-punctuation">(</span>paste<span class="hljs-punctuation">(</span><span class="hljs-string">"AUC of 1-year ="</span><span class="hljs-punctuation">,</span>years3.auc1<span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span><br> paste<span class="hljs-punctuation">(</span><span class="hljs-string">"AUC of 3-year ="</span><span class="hljs-punctuation">,</span>years3.auc2<span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span><br> paste<span class="hljs-punctuation">(</span><span class="hljs-string">"AUC of 5-year ="</span><span class="hljs-punctuation">,</span>years3.auc3<span class="hljs-punctuation">)</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span><br> col<span class="hljs-operator">=</span><span class="hljs-built_in">c</span><span class="hljs-punctuation">(</span><span class="hljs-string">"#BC3C29FF"</span><span class="hljs-punctuation">,</span><span class="hljs-string">"#0072B5FF"</span><span class="hljs-punctuation">,</span><span class="hljs-string">"#E18727FF"</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span>lty<span class="hljs-operator">=</span><span class="hljs-number">1</span><span class="hljs-punctuation">,</span>lwd<span class="hljs-operator">=</span><span class="hljs-number">2</span><span class="hljs-punctuation">)</span><br></code></pre></td></tr></table></figure>
- <h2 id="比较ROC曲线"><a href="#比较ROC曲线" class="headerlink" title="比较ROC曲线"></a>比较ROC曲线</h2><figure class="highlight r"><table><tr><td class="gutter"><pre><span class="line">1</span><br><span class="line">2</span><br><span class="line">3</span><br><span class="line">4</span><br><span class="line">5</span><br><span class="line">6</span><br><span class="line">7</span><br><span class="line">8</span><br><span class="line">9</span><br><span class="line">10</span><br><span class="line">11</span><br><span class="line">12</span><br><span class="line">13</span><br><span class="line">14</span><br><span class="line">15</span><br></pre></td><td class="code"><pre><code class="hljs R">options<span class="hljs-punctuation">(</span>repr.plot.width<span class="hljs-operator">=</span><span class="hljs-number">8</span><span class="hljs-punctuation">,</span> repr.plot.height<span class="hljs-operator">=</span><span class="hljs-number">8</span><span class="hljs-punctuation">)</span><br>plot<span class="hljs-punctuation">(</span>years2<span class="hljs-punctuation">,</span>time<span class="hljs-operator">=</span><span class="hljs-number">12</span><span class="hljs-operator">*</span><span class="hljs-number">1</span><span class="hljs-punctuation">,</span>title<span class="hljs-operator">=</span><span class="hljs-string">"Time dependent ROC"</span><span class="hljs-punctuation">,</span>col<span class="hljs-operator">=</span><span class="hljs-string">"#20854EFF"</span><span class="hljs-punctuation">)</span> <br>plot<span class="hljs-punctuation">(</span>years3<span class="hljs-punctuation">,</span>time<span class="hljs-operator">=</span><span class="hljs-number">12</span><span class="hljs-operator">*</span><span class="hljs-number">1</span><span class="hljs-punctuation">,</span>add<span class="hljs-operator">=</span><span class="hljs-built_in">T</span><span class="hljs-punctuation">,</span>col<span class="hljs-operator">=</span><span class="hljs-string">"#BC3C29FF"</span><span class="hljs-punctuation">)</span> <br>plot<span class="hljs-punctuation">(</span>years2<span class="hljs-punctuation">,</span>time<span class="hljs-operator">=</span><span class="hljs-number">12</span><span class="hljs-operator">*</span><span class="hljs-number">3</span><span class="hljs-punctuation">,</span>add<span class="hljs-operator">=</span><span class="hljs-literal">TRUE</span><span class="hljs-punctuation">,</span>col<span class="hljs-operator">=</span><span class="hljs-string">"#7876B1FF"</span><span class="hljs-punctuation">)</span> <br>plot<span class="hljs-punctuation">(</span>years3<span class="hljs-punctuation">,</span>time<span class="hljs-operator">=</span><span class="hljs-number">12</span><span class="hljs-operator">*</span><span class="hljs-number">3</span><span class="hljs-punctuation">,</span>add<span class="hljs-operator">=</span><span class="hljs-built_in">T</span><span class="hljs-punctuation">,</span>col<span class="hljs-operator">=</span><span class="hljs-string">"#0072B5FF"</span><span class="hljs-punctuation">)</span> <br>plot<span class="hljs-punctuation">(</span>years2<span class="hljs-punctuation">,</span>time<span class="hljs-operator">=</span><span class="hljs-number">12</span><span class="hljs-operator">*</span><span class="hljs-number">5</span><span class="hljs-punctuation">,</span>add<span class="hljs-operator">=</span><span class="hljs-literal">TRUE</span><span class="hljs-punctuation">,</span>col<span class="hljs-operator">=</span><span class="hljs-string">"#6F99ADFF"</span><span class="hljs-punctuation">)</span> <br>plot<span class="hljs-punctuation">(</span>years3<span class="hljs-punctuation">,</span>time<span class="hljs-operator">=</span><span class="hljs-number">12</span><span class="hljs-operator">*</span><span class="hljs-number">5</span><span class="hljs-punctuation">,</span>add<span class="hljs-operator">=</span><span class="hljs-built_in">T</span><span class="hljs-punctuation">,</span>col<span class="hljs-operator">=</span><span class="hljs-string">"#E18727FF"</span><span class="hljs-punctuation">)</span> <br>legend<span class="hljs-punctuation">(</span><span class="hljs-string">"bottomright"</span><span class="hljs-punctuation">,</span><span class="hljs-built_in">c</span><span class="hljs-punctuation">(</span>paste<span class="hljs-punctuation">(</span><span class="hljs-string">"Old AUC of 1-year ="</span><span class="hljs-punctuation">,</span>years2.auc1<span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span><br> paste<span class="hljs-punctuation">(</span><span class="hljs-string">"New AUC of 1-year ="</span><span class="hljs-punctuation">,</span>years3.auc1<span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span><br> paste<span class="hljs-punctuation">(</span><span class="hljs-string">"Old AUC of 3-year ="</span><span class="hljs-punctuation">,</span>years2.auc2<span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span><br> paste<span class="hljs-punctuation">(</span><span class="hljs-string">"New AUC of 3-year ="</span><span class="hljs-punctuation">,</span>years3.auc2<span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span><br> paste<span class="hljs-punctuation">(</span><span class="hljs-string">"Old AUC of 5-year ="</span><span class="hljs-punctuation">,</span>years2.auc3<span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span><br> paste<span class="hljs-punctuation">(</span><span class="hljs-string">"New AUC of 5-year ="</span><span class="hljs-punctuation">,</span>years3.auc3<span class="hljs-punctuation">)</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span><br> col<span class="hljs-operator">=</span><span class="hljs-built_in">c</span><span class="hljs-punctuation">(</span><span class="hljs-string">"#20854EFF"</span><span class="hljs-punctuation">,</span><span class="hljs-string">"#BC3C29FF"</span><span class="hljs-punctuation">,</span><span class="hljs-string">"#7876B1FF"</span><span class="hljs-punctuation">,</span><span class="hljs-string">"#0072B5FF"</span><span class="hljs-punctuation">,</span><span class="hljs-string">"#6F99ADFF"</span><span class="hljs-punctuation">,</span><span class="hljs-string">"#E18727FF"</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">,</span>lty<span class="hljs-operator">=</span><span class="hljs-number">1</span><span class="hljs-punctuation">,</span>lwd<span class="hljs-operator">=</span><span class="hljs-number">2</span><span class="hljs-punctuation">)</span><br>compare<span class="hljs-punctuation">(</span>years2<span class="hljs-punctuation">,</span>years3<span class="hljs-punctuation">,</span>adjusted<span class="hljs-operator">=</span><span class="hljs-built_in">T</span><span class="hljs-punctuation">)</span><br></code></pre></td></tr></table></figure>
- <h2 id="计算NRI和IDI"><a href="#计算NRI和IDI" class="headerlink" title="计算NRI和IDI"></a>计算NRI和IDI</h2><ul>
- <li>NRI = (c1-b1)/N1 + (b2-c2)/N2</li>
- <li>a1表示在患病组中新模型和旧模型都分类正确的样本数，b1则表示旧模型分类正确而新模型分类错误，b1越小越好，c1反映了从旧模型到新模型预测的改善情况，c1越大表示改进越多，同理计算出非患病组的a2、b2、c2、d2数值。</li>
- <li>当NRI>0,则为正改善，表示新模型较旧模型对事件的预测能力更好；</li>
- <li>IDI = (Pnew,events - Pold,events) - (Pnew,non-events - Pold,non-events)</li>
- <li>其中Pnew,events、Pold,events表示在患者组中，新模型和旧模型对于每个个体预测疾病发生概率的平均值，两者相减表示预测概率提高的变化量，对于患者来说，预测患病的概率越高，模型越准确，因此差值越大则提示新模型越好。</li>
- <li>而Pnew,non-events、Pold,non-events表示在非患者组中，新模型和旧模型对于每个个体预测疾病发生概率的平均值，两者相减表示预测概率减少的量，对于非患者来说，预测患病的概率越低，模型越准确，因此差值越小则提示新模型越好。</li>
- <li>与NRI类似，若IDI>0，则为正改善，说明新模型比旧模型的预测能力有所改善；</li>
- </ul>
- <figure class="highlight r"><table><tr><td class="gutter"><pre><span class="line">1</span><br><span class="line">2</span><br><span class="line">3</span><br><span class="line">4</span><br><span class="line">5</span><br><span class="line">6</span><br><span class="line">7</span><br><span class="line">8</span><br><span class="line">9</span><br><span class="line">10</span><br><span class="line">11</span><br></pre></td><td class="code"><pre><code class="hljs R">covs0 <span class="hljs-operator"><-</span> as.matrix<span class="hljs-punctuation">(</span>df<span class="hljs-punctuation">[</span><span class="hljs-built_in">c</span><span class="hljs-punctuation">(</span><span class="hljs-string">'PSA'</span><span class="hljs-punctuation">,</span><span class="hljs-string">'Age'</span><span class="hljs-punctuation">,</span><span class="hljs-string">'T2vs3'</span><span class="hljs-punctuation">,</span><span class="hljs-string">'N0vs1'</span><span class="hljs-punctuation">,</span><span class="hljs-string">'GS'</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">)</span><br>covs1 <span class="hljs-operator"><-</span> as.matrix<span class="hljs-punctuation">(</span>df<span class="hljs-punctuation">[</span><span class="hljs-built_in">c</span><span class="hljs-punctuation">(</span><span class="hljs-string">'PSA'</span><span class="hljs-punctuation">,</span><span class="hljs-string">'Age'</span><span class="hljs-punctuation">,</span><span class="hljs-string">'T2vs3'</span><span class="hljs-punctuation">,</span><span class="hljs-string">'N0vs1'</span><span class="hljs-punctuation">,</span><span class="hljs-string">'GS'</span><span class="hljs-punctuation">,</span><span class="hljs-string">'f1_points'</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">)</span><br>set.seed<span class="hljs-punctuation">(</span><span class="hljs-number">0</span><span class="hljs-punctuation">)</span><br>t1<span class="hljs-operator">=</span><span class="hljs-number">12</span><span class="hljs-operator">*</span><span class="hljs-number">3</span><br>res.IDI <span class="hljs-operator"><-</span> IDI.INF<span class="hljs-punctuation">(</span>df<span class="hljs-punctuation">[</span><span class="hljs-built_in">c</span><span class="hljs-punctuation">(</span><span class="hljs-string">'time'</span><span class="hljs-punctuation">,</span> <span class="hljs-string">'status'</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">]</span><span class="hljs-punctuation">,</span> covs0<span class="hljs-punctuation">,</span> covs1<span class="hljs-punctuation">,</span> t1<span class="hljs-punctuation">,</span> npert<span class="hljs-operator">=</span><span class="hljs-number">1000</span><span class="hljs-punctuation">)</span><br>IDI.INF.OUT<span class="hljs-punctuation">(</span>res.IDI<span class="hljs-punctuation">)</span><br><span class="hljs-comment"># M1表示IDI</span><br><span class="hljs-comment"># M2表示NRI</span><br><span class="hljs-comment"># M3表示中位数差异</span><br>IDI.INF.GRAPH<span class="hljs-punctuation">(</span>res.IDI<span class="hljs-punctuation">)</span><br><span class="hljs-comment">## M1 red area; M2 distance between black points; M3 distance between gray points</span><br></code></pre></td></tr></table></figure>
- <h2 id="绘制临床决策曲线DCA"><a href="#绘制临床决策曲线DCA" class="headerlink" title="绘制临床决策曲线DCA"></a>绘制临床决策曲线DCA</h2><ul>
- <li>DCA曲线，即决策曲线分析法（Decision Curve Analysis）,是用来帮助确定高风险患者进行干预，而低风险患者避免干预（避免过度医疗），即评价患者获益程度的一种评估方法。</li>
- <li>图中有两条虚线，横着的那条虚线表示所有样本均不进行干预，净获益为0，斜的虚线表示所有样本均进行干预。</li>
- <li>与两条虚线有交叉的模型没有临床价值，在上面的曲线临床价值比在下面的曲线大</li>
- </ul>
- <figure class="highlight r"><table><tr><td class="gutter"><pre><span class="line">1</span><br><span class="line">2</span><br><span class="line">3</span><br></pre></td><td class="code"><pre><code class="hljs R">dca_p <span class="hljs-operator"><-</span> dca<span class="hljs-punctuation">(</span>f2<span class="hljs-punctuation">,</span> f3<span class="hljs-punctuation">,</span> times<span class="hljs-operator">=</span><span class="hljs-number">12</span><span class="hljs-operator">*</span><span class="hljs-built_in">c</span><span class="hljs-punctuation">(</span><span class="hljs-number">1</span><span class="hljs-punctuation">,</span> <span class="hljs-number">3</span><span class="hljs-punctuation">,</span> <span class="hljs-number">5</span><span class="hljs-punctuation">)</span><span class="hljs-punctuation">)</span><br>options<span class="hljs-punctuation">(</span>repr.plot.width<span class="hljs-operator">=</span><span class="hljs-number">12</span><span class="hljs-punctuation">,</span> repr.plot.height<span class="hljs-operator">=</span><span class="hljs-number">6</span><span class="hljs-punctuation">)</span><br>ggplot<span class="hljs-punctuation">(</span>dca_p<span class="hljs-punctuation">)</span> <span class="hljs-operator">+</span> scale_color_nejm<span class="hljs-punctuation">(</span><span class="hljs-punctuation">)</span><br></code></pre></td></tr></table></figure>
-
- </div>
-
- <hr/>
- <div>
- <div class="post-metas my-3">
-
- <div class="post-meta mr-3 d-flex align-items-center">
- <i class="iconfont icon-category"></i>
-
- <span class="category-chains">
-
-
-
- <span class="category-chain">
-
- <a href="/categories/%E7%BB%98%E5%9B%BE/" class="category-chain-item">绘图</a>
-
-
- </span>
-
-
-
- <span class="category-chain">
-
- <a href="/categories/%E7%BB%9F%E8%AE%A1%E5%AD%A6/" class="category-chain-item">统计学</a>
-
-
- </span>
-
-
- </span>
- </div>
-
-
- </div>
-
-
- <div class="license-box my-3">
- <div class="license-title">
- <div>比较两个COXPH模型的性能</div>
- <div>https://occdn.limour.top/2215.html</div>
- </div>
- <div class="license-meta">
-
- <div class="license-meta-item">
- <div>Author</div>
- <div>Limour</div>
- </div>
-
-
- <div class="license-meta-item license-meta-date">
- <div>Posted on</div>
- <div>August 11, 2022</div>
- </div>
-
-
-
- <div class="license-meta-item">
- <div>Licensed under</div>
- <div>
-
-
-
- <a class="print-no-link" target="_blank" href="https://creativecommons.org/licenses/by-nc-sa/4.0/">
- <span class="hint--top hint--rounded" aria-label="BY - Attribution">
- <i class="iconfont icon-by"></i>
- </span>
- </a>
-
- <a class="print-no-link" target="_blank" href="https://creativecommons.org/licenses/by-nc-sa/4.0/">
- <span class="hint--top hint--rounded" aria-label="NC - Non-commercial">
- <i class="iconfont icon-nc"></i>
- </span>
- </a>
-
- <a class="print-no-link" target="_blank" href="https://creativecommons.org/licenses/by-nc-sa/4.0/">
- <span class="hint--top hint--rounded" aria-label="SA - Share-alike">
- <i class="iconfont icon-sa"></i>
- </span>
- </a>
-
-
- </div>
- </div>
-
- </div>
- <div class="license-icon iconfont"></div>
- </div>
-
- <div class="post-prevnext my-3">
- <article class="post-prev col-6">
-
-
- <a href="/2219.html" title="ggplot配色修改方法">
- <i class="iconfont icon-arrowleft"></i>
- <span class="hidden-mobile">ggplot配色修改方法</span>
- <span class="visible-mobile">Previous</span>
- </a>
-
- </article>
- <article class="post-next col-6">
-
-
- <a href="/2213.html" title="COXPH绘制ROC曲线">
- <span class="hidden-mobile">COXPH绘制ROC曲线</span>
- <span class="visible-mobile">Next</span>
- <i class="iconfont icon-arrowright"></i>
- </a>
-
- </article>
- </div>
-
- </div>
-
- </article>
- </div>
- </div>
- </div>
- <div class="side-col d-none d-lg-block col-lg-2">
-
- <aside class="sidebar" style="margin-left: -1rem">
- <div id="toc">
- <p class="toc-header">
- <i class="iconfont icon-list"></i>
- <span>Table of Contents</span>
- </p>
- <div class="toc-body" id="toc-body"></div>
- </div>
- </aside>
- </div>
- </div>
- </div>
-
-
-
-
-
-
-
- <a id="scroll-top-button" aria-label="TOP" href="#" role="button">
- <i class="iconfont icon-arrowup" aria-hidden="true"></i>
- </a>
-
-
- <div class="modal fade" id="modalSearch" tabindex="-1" role="dialog" aria-labelledby="ModalLabel"
- aria-hidden="true">
- <div class="modal-dialog modal-dialog-scrollable modal-lg" role="document">
- <div class="modal-content">
- <div class="modal-header text-center">
- <h4 class="modal-title w-100 font-weight-bold">Search</h4>
- <button type="button" id="local-search-close" class="close" data-dismiss="modal" aria-label="Close">
- <span aria-hidden="true">×</span>
- </button>
- </div>
- <div class="modal-body mx-3">
- <div class="md-form mb-5">
- <input type="text" id="local-search-input" class="form-control validate">
- <label data-error="x" data-success="v" for="local-search-input">Keyword</label>
- </div>
- <div class="list-group" id="local-search-result"></div>
- </div>
- </div>
- </div>
- </div>
-
-
- </main>
- <footer>
- <div class="footer-inner">
-
- <div class="footer-content">
- <a target="_blank" rel="nofollow noopener" href="http://www.beian.gov.cn/portal/registerSystemInfo?recordcode=43130202000203"><img src="https://img.limour.top/2023/08/27/64eadeb81d6a0.webp" srcset="https://jscdn.limour.top/gh/Limour-dev/Sakurairo_Vision/load_svg/inload.svg" lazyload>湘公网安备 43130202000203号 </a> <a target="_blank" rel="nofollow noopener" href="https://beian.miit.gov.cn/">湘ICP备20008299号 </a> <a target="_blank" rel="nofollow noopener" href="https://icp.gov.moe/?keyword=20210128">萌ICP备20210128号</a> <br> <a href="https://www.foreverblog.cn/" target="_blank"> <img src="https://img.foreverblog.cn/logo_en_default.png" srcset="https://jscdn.limour.top/gh/Limour-dev/Sakurairo_Vision/load_svg/inload.svg" lazyload alt="" style="width:auto;height:24px"> </a> <br> <a href="https://hexo.io" target="_blank" rel="nofollow noopener"><span>Hexo</span></a> <i class="iconfont icon-love"></i> <a href="https://github.com/fluid-dev/hexo-theme-fluid" target="_blank" rel="nofollow noopener"><span>Fluid</span></a> <i class="iconfont icon-love"></i> <a href="https://github.com/limour-blog/archives-occdn" target="_blank" rel="nofollow noopener"><span>SRC</span></a>
- </div>
-
-
-
-
- </div>
- </footer>
- <!-- Scripts -->
-
- <script src="https://jscdn.limour.top/npm/nprogress@0.2.0/nprogress.min.js" ></script>
- <link rel="stylesheet" href="https://jscdn.limour.top/npm/nprogress@0.2.0/nprogress.min.css" />
- <script>
- NProgress.configure({"showSpinner":false,"trickleSpeed":100})
- NProgress.start()
- window.addEventListener('load', function() {
- NProgress.done();
- })
- </script>
- <script src="https://jscdn.limour.top/npm/jquery@3.6.4/dist/jquery.min.js" ></script>
- <script src="https://jscdn.limour.top/npm/bootstrap@4.6.1/dist/js/bootstrap.min.js" ></script>
- <script src="/js/events.js" ></script>
- <script src="/js/plugins.js" ></script>
- <script src="https://lib.baomitu.com/typed.js/2.0.12/typed.min.js" ></script>
- <script>
- (function (window, document) {
- var typing = Fluid.plugins.typing;
- var subtitle = document.getElementById('subtitle');
- if (!subtitle || !typing) {
- return;
- }
- var text = subtitle.getAttribute('data-typed-text');
-
- typing(text);
-
- })(window, document);
- </script>
-
- <script src="/js/img-lazyload.js" ></script>
-
-
- <script>
- Fluid.utils.createScript('https://jscdn.limour.top/npm/tocbot@4.20.1/dist/tocbot.min.js', function() {
- var toc = jQuery('#toc');
- if (toc.length === 0 || !window.tocbot) { return; }
- var boardCtn = jQuery('#board-ctn');
- var boardTop = boardCtn.offset().top;
- window.tocbot.init(Object.assign({
- tocSelector : '#toc-body',
- contentSelector : '.markdown-body',
- linkClass : 'tocbot-link',
- activeLinkClass : 'tocbot-active-link',
- listClass : 'tocbot-list',
- isCollapsedClass: 'tocbot-is-collapsed',
- collapsibleClass: 'tocbot-is-collapsible',
- scrollSmooth : true,
- includeTitleTags: true,
- headingsOffset : -boardTop,
- }, CONFIG.toc));
- if (toc.find('.toc-list-item').length > 0) {
- toc.css('visibility', 'visible');
- }
- Fluid.events.registerRefreshCallback(function() {
- if ('tocbot' in window) {
- tocbot.refresh();
- var toc = jQuery('#toc');
- if (toc.length === 0 || !tocbot) {
- return;
- }
- if (toc.find('.toc-list-item').length > 0) {
- toc.css('visibility', 'visible');
- }
- }
- });
- });
- </script>
- <script src=https://lib.baomitu.com/clipboard.js/2.0.11/clipboard.min.js></script>
- <script>Fluid.plugins.codeWidget();</script>
-
- <script>
- Fluid.utils.createScript('https://jscdn.limour.top/npm/anchor-js@4.3.1/anchor.min.js', function() {
- window.anchors.options = {
- placement: CONFIG.anchorjs.placement,
- visible : CONFIG.anchorjs.visible
- };
- if (CONFIG.anchorjs.icon) {
- window.anchors.options.icon = CONFIG.anchorjs.icon;
- }
- var el = (CONFIG.anchorjs.element || 'h1,h2,h3,h4,h5,h6').split(',');
- var res = [];
- for (var item of el) {
- res.push('.markdown-body > ' + item.trim());
- }
- if (CONFIG.anchorjs.placement === 'left') {
- window.anchors.options.class = 'anchorjs-link-left';
- }
- window.anchors.add(res.join(', '));
- Fluid.events.registerRefreshCallback(function() {
- if ('anchors' in window) {
- anchors.removeAll();
- var el = (CONFIG.anchorjs.element || 'h1,h2,h3,h4,h5,h6').split(',');
- var res = [];
- for (var item of el) {
- res.push('.markdown-body > ' + item.trim());
- }
- if (CONFIG.anchorjs.placement === 'left') {
- anchors.options.class = 'anchorjs-link-left';
- }
- anchors.add(res.join(', '));
- }
- });
- });
- </script>
-
- <script>
- Fluid.utils.createScript('https://lib.baomitu.com/fancybox/3.5.7/jquery.fancybox.min.js', function() {
- Fluid.plugins.fancyBox();
- });
- </script>
- <script>Fluid.plugins.imageCaption();</script>
- <script src="/js/local-search.js" ></script>
- <!-- 主题的启动项，将它保持在最底部 -->
- <!-- the boot of the theme, keep it at the bottom -->
- <script src="/js/boot.js" ></script>
-
- <noscript>
- <div class="noscript-warning">Blog works best with JavaScript enabled</div>
- </noscript>
- <!-- hexo injector body_end start -->
- <script defer src="/theme-inject/timeliness.js"></script>
- <!-- hexo injector body_end end --></body>
- </html>
|
