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Diffstat (limited to 'docs/articles/FOCUS_D.html')
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diff --git a/docs/articles/FOCUS_D.html b/docs/articles/FOCUS_D.html index ae895cc3..482e48f2 100644 --- a/docs/articles/FOCUS_D.html +++ b/docs/articles/FOCUS_D.html @@ -88,7 +88,7 @@ <h1>Example evaluation of FOCUS Example Dataset D</h1> <h4 class="author">Johannes Ranke</h4> - <h4 class="date">2019-05-03</h4> + <h4 class="date">2019-05-07</h4> <div class="hidden name"><code>FOCUS_D.Rmd</code></div> @@ -163,13 +163,17 @@ <p><img src="FOCUS_D_files/figure-html/plot-1.png" width="768"></p> <p>Confidence intervals for the parameter estimates are obtained using the <code>mkinparplot</code> function.</p> <div class="sourceCode" id="cb10"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb10-1" title="1"><span class="kw"><a href="../reference/mkinparplot.html">mkinparplot</a></span>(fit)</a></code></pre></div> +<pre><code>## Warning in summary.mkinfit(object): Could not calculate correlation; no +## covariance matrix</code></pre> <p><img src="FOCUS_D_files/figure-html/plot_2-1.png" width="768"></p> <p>A comprehensive report of the results is obtained using the <code>summary</code> method for <code>mkinfit</code> objects.</p> -<div class="sourceCode" id="cb11"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb11-1" title="1"><span class="kw"><a href="https://www.rdocumentation.org/packages/base/topics/summary">summary</a></span>(fit)</a></code></pre></div> +<div class="sourceCode" id="cb12"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb12-1" title="1"><span class="kw"><a href="https://www.rdocumentation.org/packages/base/topics/summary">summary</a></span>(fit)</a></code></pre></div> +<pre><code>## Warning in summary.mkinfit(fit): Could not calculate correlation; no +## covariance matrix</code></pre> <pre><code>## mkin version used for fitting: 0.9.49.4 ## R version used for fitting: 3.6.0 -## Date of fit: Fri May 3 19:08:45 2019 -## Date of summary: Fri May 3 19:08:46 2019 +## Date of fit: Tue May 7 08:09:11 2019 +## Date of summary: Tue May 7 08:09:11 2019 ## ## Equations: ## d_parent/dt = - k_parent_sink * parent - k_parent_m1 * parent @@ -177,7 +181,7 @@ ## ## Model predictions using solution type deSolve ## -## Fitted using 389 model solutions performed in 0.983 s +## Fitted using 153 model solutions performed in 0.398 s ## ## Error model: ## Constant variance @@ -203,37 +207,25 @@ ## m1_0 0 state ## ## Optimised, transformed parameters with symmetric confidence intervals: -## Estimate Std. Error Lower Upper -## parent_0 99.600 1.57000 96.400 102.800 -## log_k_parent_sink -3.038 0.07626 -3.193 -2.883 -## log_k_parent_m1 -2.980 0.04033 -3.062 -2.898 -## log_k_m1_sink -5.248 0.13320 -5.518 -4.977 -## sigma 3.126 0.35850 2.396 3.855 +## Estimate Std. Error Lower Upper +## parent_0 99.600 NA NA NA +## log_k_parent_sink -3.038 NA NA NA +## log_k_parent_m1 -2.980 NA NA NA +## log_k_m1_sink -5.248 NA NA NA +## sigma 3.126 NA NA NA ## ## Parameter correlation: -## parent_0 log_k_parent_sink log_k_parent_m1 -## parent_0 1.000e+00 6.067e-01 -6.372e-02 -## log_k_parent_sink 6.067e-01 1.000e+00 -8.550e-02 -## log_k_parent_m1 -6.372e-02 -8.550e-02 1.000e+00 -## log_k_m1_sink -1.688e-01 -6.252e-01 4.731e-01 -## sigma 1.164e-09 -8.908e-10 1.652e-08 -## log_k_m1_sink sigma -## parent_0 -1.688e-01 1.164e-09 -## log_k_parent_sink -6.252e-01 -8.908e-10 -## log_k_parent_m1 4.731e-01 1.652e-08 -## log_k_m1_sink 1.000e+00 -1.340e-10 -## sigma -1.340e-10 1.000e+00 -## +## No covariance matrix ## Backtransformed parameters: ## Confidence intervals for internally transformed parameters are asymmetric. ## t-test (unrealistically) based on the assumption of normal distribution ## for estimators of untransformed parameters. -## Estimate t value Pr(>t) Lower Upper -## parent_0 99.600000 63.430 2.298e-36 96.400000 1.028e+02 -## k_parent_sink 0.047920 13.110 6.126e-15 0.041030 5.596e-02 -## k_parent_m1 0.050780 24.800 3.269e-23 0.046780 5.512e-02 -## k_m1_sink 0.005261 7.510 6.165e-09 0.004012 6.898e-03 -## sigma 3.126000 8.718 2.235e-10 2.396000 3.855e+00 +## Estimate t value Pr(>t) Lower Upper +## parent_0 99.600000 NA NA NA NA +## k_parent_sink 0.047920 NA NA NA NA +## k_parent_m1 0.050780 NA NA NA NA +## k_m1_sink 0.005261 NA NA NA NA +## sigma 3.126000 NA NA NA NA ## ## FOCUS Chi2 error levels in percent: ## err.min n.optim df |