<!DOCTYPE html> <html lang="en"> <head> <meta charset="utf-8"> <title>plot.mkinfit. mkin 0.9.42</title> <meta name="viewport" content="width=device-width, initial-scale=1.0"> <meta name="author" content=" Johannes Ranke "> <link href="css/bootstrap.css" rel="stylesheet"> <link href="css/bootstrap-responsive.css" rel="stylesheet"> <link href="css/highlight.css" rel="stylesheet"> <link href="css/staticdocs.css" rel="stylesheet"> <!--[if lt IE 9]> <script src="http://html5shim.googlecode.com/svn/trunk/html5.js"></script> <![endif]--> <script type="text/x-mathjax-config"> MathJax.Hub.Config({ tex2jax: { inlineMath: [ ['$','$'], ["\\(","\\)"] ], processEscapes: true } }); </script> <script type="text/javascript" src="http://cdn.mathjax.org/mathjax/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML"> </script> </head> <body> <div class="navbar"> <div class="navbar-inner"> <div class="container"> <a class="brand" href="#">mkin 0.9.42</a> <div class="nav"> <ul class="nav"> <li><a href="index.html"><i class="icon-home icon-white"></i> Index</a></li> </ul> </div> </div> </div> </div> <div class="container"> <header> </header> <h1> Plot the observed data and the fitted model of an mkinfit object </h1> <div class="row"> <div class="span8"> <h2>Usage</h2> <pre><div>"plot"(x, fit = x, obs_vars = names(fit$mkinmod$map), xlab = "Time", ylab = "Observed", xlim = range(fit$data$time), ylim = "default", col_obs = 1:length(fit$mkinmod$map), pch_obs = col_obs, lty_obs = rep(1, length(fit$mkinmod$map)), add = FALSE, legend = !add, show_residuals = FALSE, maxabs = "auto", lpos = "topright", inset = c(0.05, 0.05), ...)</div></pre> <h2>Arguments</h2> <dl> <dt>x</dt> <dd> Alias for fit introduced for compatibility with the generic S3 method. </dd> <dt>fit</dt> <dd> an object of class <code><a href='mkinfit.html'>mkinfit</a></code>. </dd> <dt>obs_vars</dt> <dd> A character vector of names of the observed variables for which the data and the model should be plotted. Defauls to all observed variables in the model. </dd> <dt>xlab</dt> <dd> label for the x axis. </dd> <dt>ylab</dt> <dd> label for the y axis. </dd> <dt>xlim</dt> <dd> plot range in x direction. </dd> <dt>ylim</dt> <dd> plot range in y direction. </dd> <dt>col_obs</dt> <dd> colors used for plotting the observed data and the corresponding model prediction lines. </dd> <dt>pch_obs</dt> <dd> symbols to be used for plotting the data. </dd> <dt>lty_obs</dt> <dd> line types to be used for the model predictions. </dd> <dt>add</dt> <dd> should the plot be added to an existing plot? </dd> <dt>legend</dt> <dd> should a legend be added to the plot? </dd> <dt>show_residuals</dt> <dd> should residuals be shown in the lower third of the plot? </dd> <dt>maxabs</dt> <dd> Maximum absolute value of the residuals. This is used for the scaling of the y axis and defaults to "auto". </dd> <dt>lpos</dt> <dd> position of the legend. Passed to <code><a href='http://www.inside-r.org/r-doc/graphics/legend'>legend</a></code> as the first argument. </dd> <dt>inset</dt> <dd> Passed to <code><a href='http://www.inside-r.org/r-doc/graphics/legend'>legend</a></code> if applicable. </dd> <dt>...</dt> <dd> further arguments passed to <code><a href='http://www.inside-r.org/r-doc/graphics/plot'>plot</a></code>. </dd> </dl> <div class="Description"> <h2>Description</h2> <p>Solves the differential equations with the optimised and fixed parameters 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> </div> <div class="Value"> <h2>Value</h2> <p><dl> The function is called for its side effect. </dl></p> </div> <h2 id="examples">Examples</h2> <pre class="examples"><div class='input'># One parent compound, one metabolite, both single first order, path from # parent to sink included SFO_SFO <- mkinmod(parent = mkinsub("SFO", "m1", full = "Parent"), m1 = mkinsub("SFO", full = "Metabolite M1" )) </div> <strong class='message'>Successfully compiled differential equation model from auto-generated C code.</strong> <div class='input'>fit <- mkinfit(SFO_SFO, FOCUS_2006_D, quiet = TRUE) plot(fit) </div> <p><img src='plot.mkinfit-4.png' alt='' width='540' height='400' /></p></pre> </div> <div class="span4"> <!-- <ul> <li>plot.mkinfit</li> </ul> <ul> <li> hplot </li> </ul> --> <h2>Author</h2> Johannes Ranke </div> </div> <footer> <p class="pull-right"><a href="#">Back to top</a></p> <p>Built by <a href="https://github.com/hadley/staticdocs">staticdocs</a>. Styled with <a href="http://twitter.github.com/bootstrap">bootstrap</a>.</p> </footer> </div> </body> </html>