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    <h1>Create an nlme model for an mmkin row object</h1>
    <small class="dont-index">Source: <a href='http://github.com/jranke/mkin/blob/master/R/nlme.mmkin.R'><code>R/nlme.mmkin.R</code></a></small>
    <div class="hidden name"><code>nlme.mmkin.Rd</code></div>
    </div>

    <div class="ref-description">
    <p>This functions sets up a nonlinear mixed effects model for an mmkin row
object. An mmkin row object is essentially a list of mkinfit objects that
have been obtained by fitting the same model to a list of datasets.</p>
    </div>

    <pre class="usage"><span class='co'># S3 method for mmkin</span>
<span class='fu'>nlme</span>(
  <span class='no'>model</span>,
  <span class='kw'>data</span> <span class='kw'>=</span> <span class='fu'><a href='https://rdrr.io/r/base/sys.parent.html'>sys.frame</a></span>(<span class='fu'><a href='https://rdrr.io/r/base/sys.parent.html'>sys.parent</a></span>()),
  <span class='no'>fixed</span>,
  <span class='kw'>random</span> <span class='kw'>=</span> <span class='no'>fixed</span>,
  <span class='no'>groups</span>,
  <span class='no'>start</span>,
  <span class='kw'>correlation</span> <span class='kw'>=</span> <span class='kw'>NULL</span>,
  <span class='kw'>weights</span> <span class='kw'>=</span> <span class='kw'>NULL</span>,
  <span class='no'>subset</span>,
  <span class='kw'>method</span> <span class='kw'>=</span> <span class='fu'><a href='https://rdrr.io/r/base/c.html'>c</a></span>(<span class='st'>"ML"</span>, <span class='st'>"REML"</span>),
  <span class='kw'>na.action</span> <span class='kw'>=</span> <span class='no'>na.fail</span>,
  <span class='no'>naPattern</span>,
  <span class='kw'>control</span> <span class='kw'>=</span> <span class='fu'><a href='https://rdrr.io/r/base/list.html'>list</a></span>(),
  <span class='kw'>verbose</span> <span class='kw'>=</span> <span class='fl'>FALSE</span>
)

<span class='co'># S3 method for nlme.mmkin</span>
<span class='fu'><a href='https://rdrr.io/r/base/print.html'>print</a></span>(<span class='no'>x</span>, <span class='no'>...</span>)

<span class='co'># S3 method for nlme.mmkin</span>
<span class='fu'><a href='https://rdrr.io/r/stats/update.html'>update</a></span>(<span class='no'>object</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>model</th>
      <td><p>An <code><a href='mmkin.html'>mmkin</a></code> row object.</p></td>
    </tr>
    <tr>
      <th>data</th>
      <td><p>Should the data be printed?</p></td>
    </tr>
    <tr>
      <th>fixed</th>
      <td><p>Ignored, all degradation parameters fitted in the
mmkin model are used as fixed parameters</p></td>
    </tr>
    <tr>
      <th>random</th>
      <td><p>If not specified, all fixed effects are complemented
with uncorrelated random effects</p></td>
    </tr>
    <tr>
      <th>groups</th>
      <td><p>See the documentation of nlme</p></td>
    </tr>
    <tr>
      <th>start</th>
      <td><p>If not specified, mean values of the fitted degradation
parameters taken from the mmkin object are used</p></td>
    </tr>
    <tr>
      <th>correlation</th>
      <td><p>See the documentation of nlme</p></td>
    </tr>
    <tr>
      <th>weights</th>
      <td><p>passed to nlme</p></td>
    </tr>
    <tr>
      <th>subset</th>
      <td><p>passed to nlme</p></td>
    </tr>
    <tr>
      <th>method</th>
      <td><p>passed to nlme</p></td>
    </tr>
    <tr>
      <th>na.action</th>
      <td><p>passed to nlme</p></td>
    </tr>
    <tr>
      <th>naPattern</th>
      <td><p>passed to nlme</p></td>
    </tr>
    <tr>
      <th>control</th>
      <td><p>passed to nlme</p></td>
    </tr>
    <tr>
      <th>verbose</th>
      <td><p>passed to nlme</p></td>
    </tr>
    <tr>
      <th>x</th>
      <td><p>An nlme.mmkin object to print</p></td>
    </tr>
    <tr>
      <th>...</th>
      <td><p>Update specifications passed to update.nlme</p></td>
    </tr>
    <tr>
      <th>object</th>
      <td><p>An nlme.mmkin object to update</p></td>
    </tr>
    </table>

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

    <p>Upon success, a fitted nlme.mmkin object, which is an nlme object
with additional elements</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='nlme.html'>nlme_function</a></code></p></div>

    <h2 class="hasAnchor" id="examples"><a class="anchor" href="#examples"></a>Examples</h2>
    <pre class="examples"><div class='input'><span class='no'>ds</span> <span class='kw'>&lt;-</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='no'>name</span> <span class='kw'>==</span> <span class='st'>"parent"</span>))
<span class='no'>f</span> <span class='kw'>&lt;-</span> <span class='fu'><a href='mmkin.html'>mmkin</a></span>(<span class='st'>"SFO"</span>, <span class='no'>ds</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>, <span class='kw'>cores</span> <span class='kw'>=</span> <span class='fl'>1</span>)
<span class='fu'><a href='https://rdrr.io/r/base/library.html'>library</a></span>(<span class='no'>nlme</span>)
<span class='fu'><a href='endpoints.html'>endpoints</a></span>(<span class='no'>f</span><span class='kw'>[[</span><span class='fl'>1</span>]])</div><div class='output co'>#&gt; $distimes
#&gt;            DT50     DT90
#&gt; parent 11.96183 39.73634
#&gt; </div><div class='input'><span class='no'>f_nlme</span> <span class='kw'>&lt;-</span> <span class='fu'><a href='https://rdrr.io/pkg/nlme/man/nlme.html'>nlme</a></span>(<span class='no'>f</span>)
<span class='fu'><a href='https://rdrr.io/r/base/print.html'>print</a></span>(<span class='no'>f_nlme</span>)</div><div class='output co'>#&gt; Nonlinear mixed-effects model fit by maximum likelihood
#&gt;   Model: value ~ (mkin::get_deg_func())(name, time, parent_0, log_k_parent_sink) 
#&gt;   Data: "Not shown" 
#&gt;   Log-likelihood: -307.5269
#&gt;   Fixed: list(parent_0 ~ 1, log_k_parent_sink ~ 1) 
#&gt;          parent_0 log_k_parent_sink 
#&gt;         85.541149         -3.229596 
#&gt; 
#&gt; Random effects:
#&gt;  Formula: list(parent_0 ~ 1, log_k_parent_sink ~ 1)
#&gt;  Level: ds
#&gt;  Structure: Diagonal
#&gt;         parent_0 log_k_parent_sink Residual
#&gt; StdDev:  1.30857          1.288591 6.304906
#&gt; 
#&gt; Number of Observations: 90
#&gt; Number of Groups: 5 </div><div class='input'><span class='fu'><a href='endpoints.html'>endpoints</a></span>(<span class='no'>f_nlme</span>)</div><div class='output co'>#&gt; $distimes
#&gt;            DT50     DT90
#&gt; parent 17.51545 58.18505
#&gt; </div><div class='input'><span class='co'># \dontrun{</span>
  <span class='no'>f_nlme_2</span> <span class='kw'>&lt;-</span> <span class='fu'><a href='https://rdrr.io/pkg/nlme/man/nlme.html'>nlme</a></span>(<span class='no'>f</span>, <span class='kw'>start</span> <span class='kw'>=</span> <span class='fu'><a href='https://rdrr.io/r/base/c.html'>c</a></span>(<span class='kw'>parent_0</span> <span class='kw'>=</span> <span class='fl'>100</span>, <span class='kw'>log_k_parent_sink</span> <span class='kw'>=</span> <span class='fl'>0.1</span>))
  <span class='fu'><a href='https://rdrr.io/r/stats/update.html'>update</a></span>(<span class='no'>f_nlme_2</span>, <span class='kw'>random</span> <span class='kw'>=</span> <span class='no'>parent_0</span> ~ <span class='fl'>1</span>)</div><div class='output co'>#&gt; Nonlinear mixed-effects model fit by maximum likelihood
#&gt;   Model: value ~ (mkin::get_deg_func())(name, time, parent_0, log_k_parent_sink) 
#&gt;   Data: "Not shown" 
#&gt;   Log-likelihood: -404.3729
#&gt;   Fixed: list(parent_0 ~ 1, log_k_parent_sink ~ 1) 
#&gt;          parent_0 log_k_parent_sink 
#&gt;         75.933480         -3.555983 
#&gt; 
#&gt; Random effects:
#&gt;  Formula: parent_0 ~ 1 | ds
#&gt;            parent_0 Residual
#&gt; StdDev: 0.002416792 21.63027
#&gt; 
#&gt; Number of Observations: 90
#&gt; Number of Groups: 5 </div><div class='input'>  <span class='co'># Test on some real data</span>
  <span class='no'>ds_2</span> <span class='kw'>&lt;-</span> <span class='fu'><a href='https://rdrr.io/r/base/lapply.html'>lapply</a></span>(<span class='no'>experimental_data_for_UBA_2019</span>[<span class='fl'>6</span>:<span class='fl'>10</span>],
   <span class='kw'>function</span>(<span class='no'>x</span>) <span class='no'>x</span>$<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='no'>m_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'>"A1"</span>),
    <span class='kw'>A1</span> <span class='kw'>=</span> <span class='fu'><a href='mkinsub.html'>mkinsub</a></span>(<span class='st'>"SFO"</span>), <span class='kw'>use_of_ff</span> <span class='kw'>=</span> <span class='st'>"min"</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)
  <span class='no'>m_sfo_sfo_ff</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'>"A1"</span>),
    <span class='kw'>A1</span> <span class='kw'>=</span> <span class='fu'><a href='mkinsub.html'>mkinsub</a></span>(<span class='st'>"SFO"</span>), <span class='kw'>use_of_ff</span> <span class='kw'>=</span> <span class='st'>"max"</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)
  <span class='no'>m_fomc_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'>"FOMC"</span>, <span class='st'>"A1"</span>),
    <span class='kw'>A1</span> <span class='kw'>=</span> <span class='fu'><a href='mkinsub.html'>mkinsub</a></span>(<span class='st'>"SFO"</span>), <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)
  <span class='no'>m_dfop_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'>"DFOP"</span>, <span class='st'>"A1"</span>),
    <span class='kw'>A1</span> <span class='kw'>=</span> <span class='fu'><a href='mkinsub.html'>mkinsub</a></span>(<span class='st'>"SFO"</span>), <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)

  <span class='no'>f_2</span> <span class='kw'>&lt;-</span> <span class='fu'><a href='mmkin.html'>mmkin</a></span>(<span class='fu'><a href='https://rdrr.io/r/base/list.html'>list</a></span>(<span class='st'>"SFO-SFO"</span> <span class='kw'>=</span> <span class='no'>m_sfo_sfo</span>,
   <span class='st'>"SFO-SFO-ff"</span> <span class='kw'>=</span> <span class='no'>m_sfo_sfo_ff</span>,
   <span class='st'>"FOMC-SFO"</span> <span class='kw'>=</span> <span class='no'>m_fomc_sfo</span>,
   <span class='st'>"DFOP-SFO"</span> <span class='kw'>=</span> <span class='no'>m_dfop_sfo</span>),
    <span class='no'>ds_2</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)
  <span class='fu'><a href='https://rdrr.io/r/base/plot.html'>plot</a></span>(<span class='no'>f_2</span>[<span class='st'>"SFO-SFO"</span>, <span class='fl'>3</span>:<span class='fl'>4</span>]) <span class='co'># Separate fits for datasets 3 and 4</span></div><div class='img'><img src='nlme.mmkin-1.png' alt='' width='700' height='433' /></div><div class='input'>
  <span class='no'>f_nlme_sfo_sfo</span> <span class='kw'>&lt;-</span> <span class='fu'><a href='https://rdrr.io/pkg/nlme/man/nlme.html'>nlme</a></span>(<span class='no'>f_2</span>[<span class='st'>"SFO-SFO"</span>, ])
  <span class='co'># plot(f_nlme_sfo_sfo) # not feasible with pkgdown figures</span>
  <span class='fu'><a href='https://rdrr.io/r/base/plot.html'>plot</a></span>(<span class='no'>f_nlme_sfo_sfo</span>, <span class='fl'>3</span>:<span class='fl'>4</span>) <span class='co'># Global mixed model: Fits for datasets 3 and 4</span></div><div class='img'><img src='nlme.mmkin-2.png' alt='' width='700' height='433' /></div><div class='input'>
  <span class='co'># With formation fractions</span>
  <span class='no'>f_nlme_sfo_sfo_ff</span> <span class='kw'>&lt;-</span> <span class='fu'><a href='https://rdrr.io/pkg/nlme/man/nlme.html'>nlme</a></span>(<span class='no'>f_2</span>[<span class='st'>"SFO-SFO-ff"</span>, ])
  <span class='fu'><a href='https://rdrr.io/r/base/plot.html'>plot</a></span>(<span class='no'>f_nlme_sfo_sfo_ff</span>, <span class='fl'>3</span>:<span class='fl'>4</span>) <span class='co'># chi2 different due to different df attribution</span></div><div class='img'><img src='nlme.mmkin-3.png' alt='' width='700' height='433' /></div><div class='input'>
  <span class='co'># For more parameters, we need to increase pnlsMaxIter and the tolerance</span>
  <span class='co'># to get convergence</span>
  <span class='no'>f_nlme_fomc_sfo</span> <span class='kw'>&lt;-</span> <span class='fu'><a href='https://rdrr.io/pkg/nlme/man/nlme.html'>nlme</a></span>(<span class='no'>f_2</span>[<span class='st'>"FOMC-SFO"</span>, ],
    <span class='kw'>control</span> <span class='kw'>=</span> <span class='fu'><a href='https://rdrr.io/r/base/list.html'>list</a></span>(<span class='kw'>pnlsMaxIter</span> <span class='kw'>=</span> <span class='fl'>100</span>, <span class='kw'>tolerance</span> <span class='kw'>=</span> <span class='fl'>1e-4</span>), <span class='kw'>verbose</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)</div><div class='output co'>#&gt; 
#&gt; **Iteration 1
#&gt; LME step: Loglik: -394.1603, nlminb iterations: 3
#&gt; reStruct  parameters:
#&gt;        ds1        ds2        ds3        ds4        ds5 
#&gt; -0.2079793  0.8563830  1.7454105  1.0917354  1.2756825 
#&gt;  Beginning PNLS step: ..  completed fit_nlme() step.
#&gt; PNLS step: RSS =  643.8803 
#&gt;  fixed effects: 94.17379  -5.473193  -0.6970236  -0.2025091  2.103883  
#&gt;  iterations: 100 
#&gt; Convergence crit. (must all become &lt;= tolerance = 0.0001):
#&gt;     fixed  reStruct 
#&gt; 0.7960134 0.1447728 
#&gt; 
#&gt; **Iteration 2
#&gt; LME step: Loglik: -396.3824, nlminb iterations: 7
#&gt; reStruct  parameters:
#&gt;           ds1           ds2           ds3           ds4           ds5 
#&gt; -1.712404e-01 -2.432655e-05  1.842120e+00  1.073975e+00  1.322925e+00 
#&gt;  Beginning PNLS step: ..  completed fit_nlme() step.
#&gt; PNLS step: RSS =  643.8035 
#&gt;  fixed effects: 94.17385  -5.473487  -0.6970404  -0.2025137  2.103871  
#&gt;  iterations: 100 
#&gt; Convergence crit. (must all become &lt;= tolerance = 0.0001):
#&gt;        fixed     reStruct 
#&gt; 5.382757e-05 1.236667e-03 
#&gt; 
#&gt; **Iteration 3
#&gt; LME step: Loglik: -396.3825, nlminb iterations: 7
#&gt; reStruct  parameters:
#&gt;           ds1           ds2           ds3           ds4           ds5 
#&gt; -0.1712499044 -0.0001499831  1.8420971364  1.0739799123  1.3229167796 
#&gt;  Beginning PNLS step: ..  completed fit_nlme() step.
#&gt; PNLS step: RSS =  643.7948 
#&gt;  fixed effects: 94.17386  -5.473521  -0.6970422  -0.2025144  2.10387  
#&gt;  iterations: 100 
#&gt; Convergence crit. (must all become &lt;= tolerance = 0.0001):
#&gt;        fixed     reStruct 
#&gt; 6.072817e-06 1.400857e-04 
#&gt; 
#&gt; **Iteration 4
#&gt; LME step: Loglik: -396.3825, nlminb iterations: 7
#&gt; reStruct  parameters:
#&gt;           ds1           ds2           ds3           ds4           ds5 
#&gt; -0.1712529502 -0.0001641277  1.8420957542  1.0739797181  1.3229173076 
#&gt;  Beginning PNLS step: ..  completed fit_nlme() step.
#&gt; PNLS step: RSS =  643.7936 
#&gt;  fixed effects: 94.17386  -5.473526  -0.6970426  -0.2025146  2.103869  
#&gt;  iterations: 100 
#&gt; Convergence crit. (must all become &lt;= tolerance = 0.0001):
#&gt;        fixed     reStruct 
#&gt; 1.027451e-06 2.275704e-05 </div><div class='input'>  <span class='no'>f_nlme_dfop_sfo</span> <span class='kw'>&lt;-</span> <span class='fu'><a href='https://rdrr.io/pkg/nlme/man/nlme.html'>nlme</a></span>(<span class='no'>f_2</span>[<span class='st'>"DFOP-SFO"</span>, ],
    <span class='kw'>control</span> <span class='kw'>=</span> <span class='fu'><a href='https://rdrr.io/r/base/list.html'>list</a></span>(<span class='kw'>pnlsMaxIter</span> <span class='kw'>=</span> <span class='fl'>120</span>, <span class='kw'>tolerance</span> <span class='kw'>=</span> <span class='fl'>5e-4</span>), <span class='kw'>verbose</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)</div><div class='output co'>#&gt; 
#&gt; **Iteration 1
#&gt; LME step: Loglik: -404.9582, nlminb iterations: 1
#&gt; reStruct  parameters:
#&gt;        ds1        ds2        ds3        ds4        ds5        ds6 
#&gt; -0.4114355  0.9798697  1.6990037  0.7293315  0.3354323  1.7113046 
#&gt;  Beginning PNLS step: ..  completed fit_nlme() step.
#&gt; PNLS step: RSS =  630.3644 
#&gt;  fixed effects: 93.82269  -5.455991  -0.6788957  -1.862196  -4.199671  0.05532828  
#&gt;  iterations: 120 
#&gt; Convergence crit. (must all become &lt;= tolerance = 0.0005):
#&gt;     fixed  reStruct 
#&gt; 0.7885368 0.5822683 
#&gt; 
#&gt; **Iteration 2
#&gt; LME step: Loglik: -407.7755, nlminb iterations: 11
#&gt; reStruct  parameters:
#&gt;          ds1          ds2          ds3          ds4          ds5          ds6 
#&gt; -0.371224133  0.003056179  1.789939402  0.724671158  0.301602977  1.754200729 
#&gt;  Beginning PNLS step: ..  completed fit_nlme() step.
#&gt; PNLS step: RSS =  630.3633 
#&gt;  fixed effects: 93.82269  -5.455992  -0.6788958  -1.862196  -4.199671  0.05532831  
#&gt;  iterations: 120 
#&gt; Convergence crit. (must all become &lt;= tolerance = 0.0005):
#&gt;        fixed     reStruct 
#&gt; 4.789774e-07 2.200661e-05 </div><div class='input'>  <span class='fu'><a href='https://rdrr.io/r/base/plot.html'>plot</a></span>(<span class='no'>f_2</span>[<span class='st'>"FOMC-SFO"</span>, <span class='fl'>3</span>:<span class='fl'>4</span>])</div><div class='img'><img src='nlme.mmkin-4.png' alt='' width='700' height='433' /></div><div class='input'>  <span class='fu'><a href='https://rdrr.io/r/base/plot.html'>plot</a></span>(<span class='no'>f_nlme_fomc_sfo</span>, <span class='fl'>3</span>:<span class='fl'>4</span>)</div><div class='img'><img src='nlme.mmkin-5.png' alt='' width='700' height='433' /></div><div class='input'>
  <span class='fu'><a href='https://rdrr.io/r/base/plot.html'>plot</a></span>(<span class='no'>f_2</span>[<span class='st'>"DFOP-SFO"</span>, <span class='fl'>3</span>:<span class='fl'>4</span>])</div><div class='img'><img src='nlme.mmkin-6.png' alt='' width='700' height='433' /></div><div class='input'>  <span class='fu'><a href='https://rdrr.io/r/base/plot.html'>plot</a></span>(<span class='no'>f_nlme_dfop_sfo</span>, <span class='fl'>3</span>:<span class='fl'>4</span>)</div><div class='img'><img src='nlme.mmkin-7.png' alt='' width='700' height='433' /></div><div class='input'>
  <span class='fu'><a href='https://rdrr.io/r/stats/anova.html'>anova</a></span>(<span class='no'>f_nlme_dfop_sfo</span>, <span class='no'>f_nlme_fomc_sfo</span>, <span class='no'>f_nlme_sfo_sfo</span>)</div><div class='output co'>#&gt;                 Model df       AIC       BIC    logLik   Test   L.Ratio p-value
#&gt; f_nlme_dfop_sfo     1 13  843.8547  884.6201 -408.9273                         
#&gt; f_nlme_fomc_sfo     2 11  818.5149  853.0087 -398.2575 1 vs 2  21.33975  &lt;.0001
#&gt; f_nlme_sfo_sfo      3  9 1085.1821 1113.4043 -533.5910 2 vs 3 270.66716  &lt;.0001</div><div class='input'>  <span class='fu'><a href='https://rdrr.io/r/stats/anova.html'>anova</a></span>(<span class='no'>f_nlme_dfop_sfo</span>, <span class='no'>f_nlme_sfo_sfo</span>) <span class='co'># if we ignore FOMC</span></div><div class='output co'>#&gt;                 Model df       AIC       BIC    logLik   Test  L.Ratio p-value
#&gt; f_nlme_dfop_sfo     1 13  843.8547  884.6201 -408.9273                        
#&gt; f_nlme_sfo_sfo      2  9 1085.1821 1113.4043 -533.5910 1 vs 2 249.3274  &lt;.0001</div><div class='input'>
  <span class='fu'><a href='endpoints.html'>endpoints</a></span>(<span class='no'>f_nlme_sfo_sfo</span>)</div><div class='output co'>#&gt; $ff
#&gt; parent_sink   parent_A1     A1_sink 
#&gt;   0.5912432   0.4087568   1.0000000 
#&gt; 
#&gt; $distimes
#&gt;            DT50     DT90
#&gt; parent 19.13518  63.5657
#&gt; A1     66.02155 219.3189
#&gt; </div><div class='input'>  <span class='fu'><a href='endpoints.html'>endpoints</a></span>(<span class='no'>f_nlme_dfop_sfo</span>)</div><div class='output co'>#&gt; $ff
#&gt;   parent_A1 parent_sink 
#&gt;   0.2768574   0.7231426 
#&gt; 
#&gt; $distimes
#&gt;             DT50     DT90  DT50_k1  DT50_k2
#&gt; parent  11.07091 104.6320 4.462384 46.20825
#&gt; A1     162.30536 539.1667       NA       NA
#&gt; </div><div class='input'># }
</div></pre>
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