Static documentation rebuilt by pkgdown::build_site()

author: Johannes Ranke <jranke@uni-bremen.de> 2016-10-26 23:18:20 +0200
committer: Johannes Ranke <jranke@uni-bremen.de> 2016-10-26 23:18:20 +0200
commit: 8f38147e145c66ebd27f5d9fcc6f00172c25872f (patch)
tree: 35123308ef781f6ad4b83b6d421d5e0e35d2e574 /docs/reference/plot.mkinfit.html
parent: d106bebafe070cb803dd7205b1581b20eaf61cb5 (diff)
1 files changed, 46 insertions, 26 deletions
diff --git a/docs/reference/plot.mkinfit.html b/docs/reference/plot.mkinfit.html
index 94aebf63..631ea429 100644
--- a/docs/reference/plot.mkinfit.html
+++ b/docs/reference/plot.mkinfit.html
@@ -6,14 +6,14 @@
 <meta http-equiv="X-UA-Compatible" content="IE=edge">
 <meta name="viewport" content="width=device-width, initial-scale=1.0">
 
-<title>plot.mkinfit. mkin</title>
+<title>
+ — plot.mkinfit • mkin</title>
 
 <!-- jquery -->
 <script src="https://code.jquery.com/jquery-3.1.0.min.js" integrity="sha384-nrOSfDHtoPMzJHjVTdCopGqIqeYETSXhZDFyniQ8ZHcVy08QesyHcnOUpMpqnmWq" crossorigin="anonymous"></script>
-
 <!-- Bootstrap -->
-<link href="https://maxcdn.bootstrapcdn.com/bootswatch/3.3.7/cerulean/bootstrap.min.css" rel="stylesheet" crossorigin="anonymous">
 
+<link href="https://maxcdn.bootstrapcdn.com/bootstrap/3.3.7/css/bootstrap.min.css" rel="stylesheet" integrity="sha384-BVYiiSIFeK1dGmJRAkycuHAHRg32OmUcww7on3RYdg4Va+PmSTsz/K68vbdEjh4u" crossorigin="anonymous">
 <script src="https://maxcdn.bootstrapcdn.com/bootstrap/3.3.7/js/bootstrap.min.js" integrity="sha384-Tc5IQib027qvyjSMfHjOMaLkfuWVxZxUPnCJA7l2mCWNIpG9mGCD8wGNIcPD7Txa" crossorigin="anonymous"></script>
 
 <!-- Font Awesome icons -->
@@ -22,6 +22,7 @@
 
 <!-- pkgdown -->
 <link href="../pkgdown.css" rel="stylesheet">
+<script src="../jquery.sticky-kit.min.js"></script>
 <script src="../pkgdown.js"></script>
 
 <!-- mathjax -->
@@ -34,10 +35,9 @@
   </head>
 
   <body>
-    <div class="container">
+    <div class="container template-reference-topic">
       <header>
-      
-<div class="navbar navbar-default  navbar-fixed-top" role="navigation">
+      <div class="navbar navbar-default navbar-fixed-top" role="navigation">
   <div class="container">
     <div class="navbar-header">
       <button type="button" class="navbar-toggle collapsed" data-toggle="collapse" data-target="#navbar">
@@ -56,6 +56,7 @@
   <a href="../reference/index.html">Reference</a>
 </li>
       </ul>
+      
       <ul class="nav navbar-nav navbar-right">
         <li>
   <a href="https://github.com/jranke/mkin">
@@ -67,19 +68,20 @@
     </div><!--/.nav-collapse -->
   </div><!--/.container -->
 </div><!--/.navbar -->
+
       
       </header>
 
-      <div class="page-header">
-  <h1>
+      <div class="row">
+  <div class="col-md-9 contents">
+    <div class="page-header">
+    <h1>
 </h1>
-</div>
+    </div>
 
-<div class="row">
-  <div class="col-md-9">
     
     <p>Solves the differential equations with the optimised and fixed parameters
-  from a previous successful call to <code>mkinfit</code> and plots 
+  from a previous successful call to <code><a href='mkinfit.html'>mkinfit</a></code> and plots 
   the observed data together with the solution of the fitted model.</p>
     
 
@@ -98,7 +100,7 @@ plot(x, fit = x,
   show_errmin = FALSE, errmin_digits = 3, &#8230;)
 plot_sep(fit, sep_obs = TRUE,  show_residuals = TRUE, show_errmin = TRUE, &#8230;)</pre>
     
-    <h2>Arguments</h2>
+    <h2 class="hasAnchor" id="arguments"><a class="anchor" href="#arguments"></a> Arguments</h2>
     <dl class="dl-horizontal">
       <dt>x</dt>
       <dd>
@@ -106,7 +108,7 @@ plot_sep(fit, sep_obs = TRUE,  show_residuals = TRUE, show_errmin = TRUE, &#8230
   </dd>
       <dt>fit</dt>
       <dd>
-    An object of class <code>mkinfit</code>.
+    An object of class <code><a href='mkinfit.html'>mkinfit</a></code>.
   </dd>
       <dt>obs_vars</dt>
       <dd>
@@ -194,27 +196,38 @@ plot_sep(fit, sep_obs = TRUE,  show_residuals = TRUE, show_errmin = TRUE, &#8230
   </dd>
     </dl>
     
-    <div class="Value">
-      <h2>Value</h2>
+    <h2 class="hasAnchor" id="value"><a class="anchor" href="#value"></a>Value</h2>
 
-      <p>The function is called for its side effect.</p>
-    </div>
+    <p>The function is called for its side effect.</p>
     
-    <h2 id="examples">Examples</h2>
+
+    <h2 class="hasAnchor" id="examples">
+      <a class="anchor" href="#examples"></a>
+      Examples
+    </h2>
     <pre class="examples"><div class='input'><span class='co'># One parent compound, one metabolite, both single first order, path from</span>
 <span class='co'># parent to sink included, use Levenberg-Marquardt for speed</span>
-<span class='no'>SFO_SFO</span> <span class='kw'>&lt;-</span> <span class='fu'>mkinmod</span>(<span class='kw'>parent</span> <span class='kw'>=</span> <span class='fu'>mkinsub</span>(<span class='st'>"SFO"</span>, <span class='st'>"m1"</span>, <span class='kw'>full</span> <span class='kw'>=</span> <span class='st'>"Parent"</span>),
-                   <span class='kw'>m1</span> <span class='kw'>=</span> <span class='fu'>mkinsub</span>(<span class='st'>"SFO"</span>, <span class='kw'>full</span> <span class='kw'>=</span> <span class='st'>"Metabolite M1"</span> ))</div><div class='output'><strong class='text-info'>Successfully compiled differential equation model from auto-generated C code.</strong></div><div class='input'><span class='no'>fit</span> <span class='kw'>&lt;-</span> <span class='fu'>mkinfit</span>(<span class='no'>SFO_SFO</span>, <span class='no'>FOCUS_2006_D</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>, <span class='kw'>method.modFit</span> <span class='kw'>=</span> <span class='st'>"Marq"</span>)
-<span class='fu'>plot</span>(<span class='no'>fit</span>)</div><img src='unknown-4.png' alt='' width='540' height='400' /><div class='input'><span class='fu'>plot</span>(<span class='no'>fit</span>, <span class='kw'>show_residuals</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)</div><img src='unknown-6.png' alt='' width='540' height='400' /><div class='input'>
+<span class='no'>SFO_SFO</span> <span class='kw'>&lt;-</span> <span class='fu'><a href='mkinmod.html'>mkinmod</a></span>(<span class='kw'>parent</span> <span class='kw'>=</span> <span class='fu'><a href='mkinsub.html'>mkinsub</a></span>(<span class='st'>"SFO"</span>, <span class='st'>"m1"</span>, <span class='kw'>full</span> <span class='kw'>=</span> <span class='st'>"Parent"</span>),
+                   <span class='kw'>m1</span> <span class='kw'>=</span> <span class='fu'><a href='mkinsub.html'>mkinsub</a></span>(<span class='st'>"SFO"</span>, <span class='kw'>full</span> <span class='kw'>=</span> <span class='st'>"Metabolite M1"</span> ))</div><div class='output'><strong class='text-info'>Successfully compiled differential equation model from auto-generated C code.</strong></div><div class='input'><span class='no'>fit</span> <span class='kw'>&lt;-</span> <span class='fu'><a href='mkinfit.html'>mkinfit</a></span>(<span class='no'>SFO_SFO</span>, <span class='no'>FOCUS_2006_D</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>, <span class='kw'>method.modFit</span> <span class='kw'>=</span> <span class='st'>"Marq"</span>)
+<span class='fu'>plot</span>(<span class='no'>fit</span>)</div><img src='plot.mkinfit-4.png' alt='' width='540' height='400' /><div class='input'><span class='fu'>plot</span>(<span class='no'>fit</span>, <span class='kw'>show_residuals</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)</div><img src='plot.mkinfit-6.png' alt='' width='540' height='400' /><div class='input'>
 <span class='co'># Show the observed variables separately</span>
-<span class='fu'>plot</span>(<span class='no'>fit</span>, <span class='kw'>sep_obs</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>, <span class='kw'>lpos</span> <span class='kw'>=</span> <span class='fu'>c</span>(<span class='st'>"topright"</span>, <span class='st'>"bottomright"</span>))</div><img src='unknown-8.png' alt='' width='540' height='400' /><div class='input'>
+<span class='fu'>plot</span>(<span class='no'>fit</span>, <span class='kw'>sep_obs</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>, <span class='kw'>lpos</span> <span class='kw'>=</span> <span class='fu'>c</span>(<span class='st'>"topright"</span>, <span class='st'>"bottomright"</span>))</div><img src='plot.mkinfit-8.png' alt='' width='540' height='400' /><div class='input'>
 <span class='co'># Show the observed variables separately, with residuals</span>
 <span class='fu'>plot</span>(<span class='no'>fit</span>, <span class='kw'>sep_obs</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>, <span class='kw'>show_residuals</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>, <span class='kw'>lpos</span> <span class='kw'>=</span> <span class='fu'>c</span>(<span class='st'>"topright"</span>, <span class='st'>"bottomright"</span>),
-     <span class='kw'>show_errmin</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)</div><img src='unknown-10.png' alt='' width='540' height='400' /><div class='input'>
+     <span class='kw'>show_errmin</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)</div><img src='plot.mkinfit-10.png' alt='' width='540' height='400' /><div class='input'>
 <span class='co'># The same can be obtained with less typing, using the convenience function plot_sep</span>
 <span class='fu'>plot_sep</span>(<span class='no'>fit</span>, <span class='kw'>lpos</span> <span class='kw'>=</span> <span class='fu'>c</span>(<span class='st'>"topright"</span>, <span class='st'>"bottomright"</span>))</div></pre>
   </div>
-  <div class="col-md-3">
+  <div class="col-md-3 hidden-xs hidden-sm" id="sidebar">
+    <h2>Contents</h2>
+    <ul class="nav nav-pills nav-stacked">
+      <li><a href="#arguments">Arguments</a></li>
+      
+      <li><a href="#value">Value</a></li>
+      
+      <li><a href="#examples">Examples</a></li>
+    </ul>
+
     <h2>Author</h2>
     
   Johannes Ranke
@@ -223,7 +236,14 @@ plot_sep(fit, sep_obs = TRUE,  show_residuals = TRUE, show_errmin = TRUE, &#8230
 </div>
 
       <footer>
-      <p>Built by <a href="http://hadley.github.io/pkgdown/">pkgdown</a>. Styled with <a href="http://getbootstrap.com">Bootstrap 3</a>.</p>
+      <div class="copyright">
+  <p>Developed by Johannes Ranke, Eurofins Regulatory AG.</p>
+</div>
+
+<div class="pkgdown">
+  <p>Site built with <a href="http://hadley.github.io/pkgdown/">pkgdown</a>.</p>
+</div>
+
       </footer>
    </div>
author	Johannes Ranke <jranke@uni-bremen.de>	2016-10-26 23:18:20 +0200
committer	Johannes Ranke <jranke@uni-bremen.de>	2016-10-26 23:18:20 +0200
commit	8f38147e145c66ebd27f5d9fcc6f00172c25872f (patch)
tree	35123308ef781f6ad4b83b6d421d5e0e35d2e574 /docs/reference/plot.mkinfit.html
parent	d106bebafe070cb803dd7205b1581b20eaf61cb5 (diff)