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<h1>Extract model parameters from mkinfit models</h1>
<small class="dont-index">Source: <a href='http://github.com/jranke/mkin/blob/master/R/parms.mkinfit.R'><code>R/parms.mkinfit.R</code></a></small>
<div class="hidden name"><code>parms.Rd</code></div>
</div>
<div class="ref-description">
<p>This function always returns degradation model parameters as well as error
model parameters, in order to avoid working with a fitted model without
considering the error structure that was assumed for the fit.</p>
</div>
<pre class="usage"><span class='fu'>parms</span>(<span class='no'>object</span>, <span class='no'>...</span>)
<span class='co'># S3 method for mkinfit</span>
<span class='fu'>parms</span>(<span class='no'>object</span>, <span class='kw'>transformed</span> <span class='kw'>=</span> <span class='fl'>FALSE</span>, <span class='no'>...</span>)
<span class='co'># S3 method for mmkin</span>
<span class='fu'>parms</span>(<span class='no'>object</span>, <span class='kw'>transformed</span> <span class='kw'>=</span> <span class='fl'>FALSE</span>, <span class='no'>...</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 fitted model object. Methods are implemented for
<code><a href='mkinfit.html'>mkinfit()</a></code> objects and for <code><a href='mmkin.html'>mmkin()</a></code> objects.</p></td>
</tr>
<tr>
<th>...</th>
<td><p>Not used</p></td>
</tr>
<tr>
<th>transformed</th>
<td><p>Should the parameters be returned
as used internally during the optimisation?</p></td>
</tr>
</table>
<h2 class="hasAnchor" id="value"><a class="anchor" href="#value"></a>Value</h2>
<p>For mkinfit objects, a numeric vector of fitted model parameters.
For mmkin row objects, a matrix with the parameters with a
row for each dataset. If the mmkin object has more than one row, a list of
such matrices is returned.</p>
<h2 class="hasAnchor" id="examples"><a class="anchor" href="#examples"></a>Examples</h2>
<pre class="examples"><div class='input'><span class='no'>fit</span> <span class='kw'><-</span> <span class='fu'><a href='mkinfit.html'>mkinfit</a></span>(<span class='st'>"SFO"</span>, <span class='no'>FOCUS_2006_C</span>)</div><div class='output co'>#> <span class='message'>Ordinary least squares optimisation</span></div><div class='output co'>#> Sum of squared residuals at call 1: 2388.077
#> Sum of squared residuals at call 3: 2388.077
#> Sum of squared residuals at call 4: 247.1962
#> Sum of squared residuals at call 7: 200.6791
#> Sum of squared residuals at call 10: 197.7231
#> Sum of squared residuals at call 11: 197.0872
#> Sum of squared residuals at call 14: 196.535
#> Sum of squared residuals at call 15: 196.535
#> Sum of squared residuals at call 16: 196.535
#> Sum of squared residuals at call 17: 196.5334
#> Sum of squared residuals at call 20: 196.5334
#> Sum of squared residuals at call 25: 196.5334
#> Negative log-likelihood at call 31: 26.64668</div><div class='output co'>#> <span class='message'>Optimisation successfully terminated.</span></div><div class='input'><span class='fu'>parms</span>(<span class='no'>fit</span>)</div><div class='output co'>#> parent_0 k_parent_sink sigma
#> 82.4921598 0.3060633 4.6730124 </div><div class='input'><span class='fu'>parms</span>(<span class='no'>fit</span>, <span class='kw'>transformed</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)</div><div class='output co'>#> parent_0 log_k_parent_sink sigma
#> 82.492160 -1.183963 4.673012 </div><div class='input'><span class='no'>ds</span> <span class='kw'><-</span> <span class='fu'><a href='https://rdrr.io/r/base/lapply.html'>lapply</a></span>(<span class='no'>experimental_data_for_UBA_2019</span>[<span class='fl'>6</span>:<span class='fl'>10</span>],
<span class='kw'>function</span>(<span class='no'>x</span>) <span class='fu'><a href='https://rdrr.io/r/base/subset.html'>subset</a></span>(<span class='no'>x</span>$<span class='no'>data</span>[<span class='fu'><a href='https://rdrr.io/r/base/c.html'>c</a></span>(<span class='st'>"name"</span>, <span class='st'>"time"</span>, <span class='st'>"value"</span>)]))
<span class='fu'><a href='https://rdrr.io/r/base/names.html'>names</a></span>(<span class='no'>ds</span>) <span class='kw'><-</span> <span class='fu'><a href='https://rdrr.io/r/base/paste.html'>paste</a></span>(<span class='st'>"Dataset"</span>, <span class='fl'>6</span>:<span class='fl'>10</span>)
<span class='no'>fits</span> <span class='kw'><-</span> <span class='fu'><a href='mmkin.html'>mmkin</a></span>(<span class='fu'><a href='https://rdrr.io/r/base/c.html'>c</a></span>(<span class='st'>"SFO"</span>, <span class='st'>"FOMC"</span>, <span class='st'>"DFOP"</span>), <span class='no'>ds</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)
<span class='fu'>parms</span>(<span class='no'>fits</span>[<span class='st'>"SFO"</span>, ])</div><div class='output co'>#> Dataset 6 Dataset 7 Dataset 8 Dataset 9 Dataset 10
#> parent_0 88.52275400 82.666781678 86.8547308 91.7779306 82.14809450
#> k_parent_sink 0.05794659 0.009647805 0.2102974 0.1232258 0.00720421
#> sigma 5.15274487 7.040168584 3.6769645 6.4669234 6.50457673</div><div class='input'><span class='fu'>parms</span>(<span class='no'>fits</span>[, <span class='fl'>2</span>])</div><div class='output co'>#> $SFO
#> Dataset 7
#> parent_0 82.666781678
#> k_parent_sink 0.009647805
#> sigma 7.040168584
#>
#> $FOMC
#> Dataset 7
#> parent_0 92.6837649
#> alpha 0.4967832
#> beta 14.1451255
#> sigma 1.9167519
#>
#> $DFOP
#> Dataset 7
#> parent_0 91.058971503
#> k1 0.044946770
#> k2 0.002868336
#> g 0.526942415
#> sigma 2.221302196
#> </div><div class='input'><span class='fu'>parms</span>(<span class='no'>fits</span>)</div><div class='output co'>#> $SFO
#> Dataset 6 Dataset 7 Dataset 8 Dataset 9 Dataset 10
#> parent_0 88.52275400 82.666781678 86.8547308 91.7779306 82.14809450
#> k_parent_sink 0.05794659 0.009647805 0.2102974 0.1232258 0.00720421
#> sigma 5.15274487 7.040168584 3.6769645 6.4669234 6.50457673
#>
#> $FOMC
#> Dataset 6 Dataset 7 Dataset 8 Dataset 9 Dataset 10
#> parent_0 95.558575 92.6837649 90.719787 98.383939 94.8481458
#> alpha 1.338667 0.4967832 1.639099 1.074460 0.2805272
#> beta 13.033315 14.1451255 5.007077 4.397126 6.9052224
#> sigma 1.847671 1.9167519 1.066063 3.146056 1.6222778
#>
#> $DFOP
#> Dataset 6 Dataset 7 Dataset 8 Dataset 9 Dataset 10
#> parent_0 96.55213663 91.058971503 90.34509469 98.14858850 94.311323409
#> k1 0.21954589 0.044946770 0.41232289 0.31697588 0.080663853
#> k2 0.02957934 0.002868336 0.07581767 0.03260384 0.003425417
#> g 0.44845068 0.526942415 0.66091965 0.65322767 0.342652880
#> sigma 1.35690468 2.221302196 1.34169076 2.87159846 1.942067831
#> </div><div class='input'><span class='fu'>parms</span>(<span class='no'>fits</span>, <span class='kw'>transformed</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)</div><div class='output co'>#> $SFO
#> Dataset 6 Dataset 7 Dataset 8 Dataset 9 Dataset 10
#> parent_0 88.522754 82.666782 86.854731 91.777931 82.148094
#> log_k_parent_sink -2.848234 -4.641025 -1.559232 -2.093737 -4.933090
#> sigma 5.152745 7.040169 3.676964 6.466923 6.504577
#>
#> $FOMC
#> Dataset 6 Dataset 7 Dataset 8 Dataset 9 Dataset 10
#> parent_0 95.5585751 92.6837649 90.7197870 98.38393897 94.848146
#> log_alpha 0.2916741 -0.6996015 0.4941466 0.07181816 -1.271085
#> log_beta 2.5675088 2.6493701 1.6108523 1.48095106 1.932278
#> sigma 1.8476712 1.9167519 1.0660627 3.14605557 1.622278
#>
#> $DFOP
#> Dataset 6 Dataset 7 Dataset 8 Dataset 9 Dataset 10
#> parent_0 96.5521366 91.05897150 90.3450947 98.1485885 94.311323
#> log_k1 -1.5161940 -3.10227638 -0.8859485 -1.1489296 -2.517465
#> log_k2 -3.5206791 -5.85402317 -2.5794240 -3.4233253 -5.676532
#> g_ilr -0.1463234 0.07627854 0.4719196 0.4477805 -0.460676
#> sigma 1.3569047 2.22130220 1.3416908 2.8715985 1.942068
#> </div></pre>
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