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<title>plot.mkinfit. mkin 0.9.42</title>
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Johannes Ranke
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<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>
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<h2>Author</h2>
Johannes Ranke
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