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<title>Function to plot residuals stored in an mkin object — mkinresplot • mkin</title>


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<meta property="og:title" content="Function to plot residuals stored in an mkin object — mkinresplot" />
<meta property="og:description" content="This function plots the residuals for the specified subset of the observed
variables from an mkinfit object. A combined plot of the fitted model and
the residuals can be obtained using plot.mkinfit using the
argument show_residuals = TRUE." />




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    <h1>Function to plot residuals stored in an mkin object</h1>
    <small class="dont-index">Source: <a href='https://github.com/jranke/mkin/blob/master/R/mkinresplot.R'><code>R/mkinresplot.R</code></a></small>
    <div class="hidden name"><code>mkinresplot.Rd</code></div>
    </div>

    <div class="ref-description">
    <p>This function plots the residuals for the specified subset of the observed
variables from an mkinfit object. A combined plot of the fitted model and
the residuals can be obtained using <code><a href='plot.mkinfit.html'>plot.mkinfit</a></code> using the
argument <code>show_residuals = TRUE</code>.</p>
    </div>

    <pre class="usage"><span class='fu'>mkinresplot</span><span class='op'>(</span>
  <span class='va'>object</span>,
  obs_vars <span class='op'>=</span> <span class='fu'><a href='https://rdrr.io/r/base/names.html'>names</a></span><span class='op'>(</span><span class='va'>object</span><span class='op'>$</span><span class='va'>mkinmod</span><span class='op'>$</span><span class='va'>map</span><span class='op'>)</span>,
  xlim <span class='op'>=</span> <span class='fu'><a href='https://rdrr.io/r/base/c.html'>c</a></span><span class='op'>(</span><span class='fl'>0</span>, <span class='fl'>1.1</span> <span class='op'>*</span> <span class='fu'><a href='https://rdrr.io/r/base/Extremes.html'>max</a></span><span class='op'>(</span><span class='va'>object</span><span class='op'>$</span><span class='va'>data</span><span class='op'>$</span><span class='va'>time</span><span class='op'>)</span><span class='op'>)</span>,
  standardized <span class='op'>=</span> <span class='cn'>FALSE</span>,
  xlab <span class='op'>=</span> <span class='st'>"Time"</span>,
  ylab <span class='op'>=</span> <span class='fu'><a href='https://rdrr.io/r/base/ifelse.html'>ifelse</a></span><span class='op'>(</span><span class='va'>standardized</span>, <span class='st'>"Standardized residual"</span>, <span class='st'>"Residual"</span><span class='op'>)</span>,
  maxabs <span class='op'>=</span> <span class='st'>"auto"</span>,
  legend <span class='op'>=</span> <span class='cn'>TRUE</span>,
  lpos <span class='op'>=</span> <span class='st'>"topright"</span>,
  col_obs <span class='op'>=</span> <span class='st'>"auto"</span>,
  pch_obs <span class='op'>=</span> <span class='st'>"auto"</span>,
  frame <span class='op'>=</span> <span class='cn'>TRUE</span>,
  <span class='va'>...</span>
<span class='op'>)</span></pre>

    <h2 class="hasAnchor" id="arguments"><a class="anchor" href="#arguments"></a>Arguments</h2>
    <table class="ref-arguments">
    <colgroup><col class="name" /><col class="desc" /></colgroup>
    <tr>
      <th>object</th>
      <td><p>A fit represented in an <code><a href='mkinfit.html'>mkinfit</a></code> object.</p></td>
    </tr>
    <tr>
      <th>obs_vars</th>
      <td><p>A character vector of names of the observed variables for
which residuals should be plotted. Defaults to all observed variables in
the model</p></td>
    </tr>
    <tr>
      <th>xlim</th>
      <td><p>plot range in x direction.</p></td>
    </tr>
    <tr>
      <th>standardized</th>
      <td><p>Should the residuals be standardized by dividing by the
standard deviation given by the error model of the fit?</p></td>
    </tr>
    <tr>
      <th>xlab</th>
      <td><p>Label for the x axis.</p></td>
    </tr>
    <tr>
      <th>ylab</th>
      <td><p>Label for the y axis.</p></td>
    </tr>
    <tr>
      <th>maxabs</th>
      <td><p>Maximum absolute value of the residuals. This is used for the
scaling of the y axis and defaults to "auto".</p></td>
    </tr>
    <tr>
      <th>legend</th>
      <td><p>Should a legend be plotted?</p></td>
    </tr>
    <tr>
      <th>lpos</th>
      <td><p>Where should the legend be placed? Default is "topright". Will
be passed on to <code><a href='https://rdrr.io/r/graphics/legend.html'>legend</a></code>.</p></td>
    </tr>
    <tr>
      <th>col_obs</th>
      <td><p>Colors for the observed variables.</p></td>
    </tr>
    <tr>
      <th>pch_obs</th>
      <td><p>Symbols to be used for the observed variables.</p></td>
    </tr>
    <tr>
      <th>frame</th>
      <td><p>Should a frame be drawn around the plots?</p></td>
    </tr>
    <tr>
      <th>...</th>
      <td><p>further arguments passed to <code><a href='https://rdrr.io/r/graphics/plot.default.html'>plot</a></code>.</p></td>
    </tr>
    </table>

    <h2 class="hasAnchor" id="value"><a class="anchor" href="#value"></a>Value</h2>

    <p>Nothing is returned by this function, as it is called for its side
effect, namely to produce a plot.</p>
    <h2 class="hasAnchor" id="see-also"><a class="anchor" href="#see-also"></a>See also</h2>

    <div class='dont-index'><p><code><a href='mkinplot.html'>mkinplot</a></code>, for a way to plot the data and the fitted
lines of the mkinfit object, and <code><a href='plot.mkinfit.html'>plot_res</a></code> for a function
combining the plot of the fit and the residual plot.</p></div>
    <h2 class="hasAnchor" id="author"><a class="anchor" href="#author"></a>Author</h2>

    <p>Johannes Ranke</p>

    <h2 class="hasAnchor" id="examples"><a class="anchor" href="#examples"></a>Examples</h2>
    <pre class="examples"><div class='input'>
<span class='va'>model</span> <span class='op'>&lt;-</span> <span class='fu'><a href='mkinmod.html'>mkinmod</a></span><span class='op'>(</span>parent <span class='op'>=</span> <span class='fu'><a href='mkinsub.html'>mkinsub</a></span><span class='op'>(</span><span class='st'>"SFO"</span>, <span class='st'>"m1"</span><span class='op'>)</span>, m1 <span class='op'>=</span> <span class='fu'><a href='mkinsub.html'>mkinsub</a></span><span class='op'>(</span><span class='st'>"SFO"</span><span class='op'>)</span><span class='op'>)</span>
</div><div class='output co'>#&gt; <span class='message'>Successfully compiled differential equation model from auto-generated C code.</span></div><div class='input'><span class='va'>fit</span> <span class='op'>&lt;-</span> <span class='fu'><a href='mkinfit.html'>mkinfit</a></span><span class='op'>(</span><span class='va'>model</span>, <span class='va'>FOCUS_2006_D</span>, quiet <span class='op'>=</span> <span class='cn'>TRUE</span><span class='op'>)</span>
</div><div class='output co'>#&gt; <span class='warning'>Warning: Observations with value of zero were removed from the data</span></div><div class='output co'>#&gt; <span class='warning'>Warning: Shapiro-Wilk test for standardized residuals: p =  0.0165</span></div><div class='input'><span class='fu'>mkinresplot</span><span class='op'>(</span><span class='va'>fit</span>, <span class='st'>"m1"</span><span class='op'>)</span>
</div><div class='img'><img src='mkinresplot-1.png' alt='' width='700' height='433' /></div><div class='input'>
</div></pre>
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