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@@ -90,7 +90,7 @@
<h1>Example evaluation of FOCUS Laboratory Data L1 to L3</h1>
<h4 class="author">Johannes Ranke</h4>
- <h4 class="date">2019-09-19</h4>
+ <h4 class="date">2019-11-01</h4>
<div class="hidden name"><code>FOCUS_L.Rmd</code></div>
@@ -116,8 +116,8 @@
<a class="sourceLine" id="cb2-2" title="2"><span class="kw"><a href="https://rdrr.io/r/base/summary.html">summary</a></span>(m.L1.SFO)</a></code></pre></div>
<pre><code>## mkin version used for fitting: 0.9.49.6
## R version used for fitting: 3.6.1
-## Date of fit: Thu Sep 19 09:52:57 2019
-## Date of summary: Thu Sep 19 09:52:57 2019
+## Date of fit: Fri Nov 1 10:10:46 2019
+## Date of summary: Fri Nov 1 10:10:46 2019
##
## Equations:
## d_parent/dt = - k_parent_sink * parent
@@ -131,16 +131,14 @@
## Error model algorithm: OLS
##
## Starting values for parameters to be optimised:
-## value type
-## parent_0 89.850000 state
-## k_parent_sink 0.100000 deparm
-## sigma 2.779827 error
+## value type
+## parent_0 89.85 state
+## k_parent_sink 0.10 deparm
##
## Starting values for the transformed parameters actually optimised:
## value lower upper
## parent_0 89.850000 -Inf Inf
## log_k_parent_sink -2.302585 -Inf Inf
-## sigma 2.779827 0 Inf
##
## Fixed parameter values:
## None
@@ -214,12 +212,12 @@
<div class="sourceCode" id="cb9"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb9-1" title="1"><span class="kw"><a href="https://rdrr.io/r/base/summary.html">summary</a></span>(m.L1.FOMC, <span class="dt">data =</span> <span class="ot">FALSE</span>)</a></code></pre></div>
<pre><code>## Warning in sqrt(diag(covar)): NaNs wurden erzeugt</code></pre>
<pre><code>## Warning in sqrt(1/diag(V)): NaNs wurden erzeugt</code></pre>
-<pre><code>## Warning in cov2cor(ans$cov.unscaled): diag(.) had 0 or NA entries; non-
-## finite result is doubtful</code></pre>
+<pre><code>## Warning in cov2cor(ans$covar): diag(.) had 0 or NA entries; non-finite
+## result is doubtful</code></pre>
<pre><code>## mkin version used for fitting: 0.9.49.6
## R version used for fitting: 3.6.1
-## Date of fit: Thu Sep 19 09:52:59 2019
-## Date of summary: Thu Sep 19 09:52:59 2019
+## Date of fit: Fri Nov 1 10:10:48 2019
+## Date of summary: Fri Nov 1 10:10:48 2019
##
##
## Warning: Optimisation did not converge:
@@ -231,25 +229,23 @@
##
## Model predictions using solution type analytical
##
-## Fitted using 899 model solutions performed in 1.908 s
+## Fitted using 899 model solutions performed in 1.91 s
##
## Error model: Constant variance
##
## Error model algorithm: OLS
##
## Starting values for parameters to be optimised:
-## value type
-## parent_0 89.850000 state
-## alpha 1.000000 deparm
-## beta 10.000000 deparm
-## sigma 2.779871 error
+## value type
+## parent_0 89.85 state
+## alpha 1.00 deparm
+## beta 10.00 deparm
##
## Starting values for the transformed parameters actually optimised:
## value lower upper
## parent_0 89.850000 -Inf Inf
## log_alpha 0.000000 -Inf Inf
## log_beta 2.302585 -Inf Inf
-## sigma 2.779871 0 Inf
##
## Fixed parameter values:
## None
@@ -323,33 +319,31 @@
<div class="sourceCode" id="cb17"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb17-1" title="1"><span class="kw"><a href="https://rdrr.io/r/base/summary.html">summary</a></span>(m.L2.FOMC, <span class="dt">data =</span> <span class="ot">FALSE</span>)</a></code></pre></div>
<pre><code>## mkin version used for fitting: 0.9.49.6
## R version used for fitting: 3.6.1
-## Date of fit: Thu Sep 19 09:53:00 2019
-## Date of summary: Thu Sep 19 09:53:00 2019
+## Date of fit: Fri Nov 1 10:10:49 2019
+## Date of summary: Fri Nov 1 10:10:49 2019
##
## Equations:
## d_parent/dt = - (alpha/beta) * 1/((time/beta) + 1) * parent
##
## Model predictions using solution type analytical
##
-## Fitted using 239 model solutions performed in 0.49 s
+## Fitted using 239 model solutions performed in 0.489 s
##
## Error model: Constant variance
##
## Error model algorithm: OLS
##
## Starting values for parameters to be optimised:
-## value type
-## parent_0 93.950000 state
-## alpha 1.000000 deparm
-## beta 10.000000 deparm
-## sigma 2.275722 error
+## value type
+## parent_0 93.95 state
+## alpha 1.00 deparm
+## beta 10.00 deparm
##
## Starting values for the transformed parameters actually optimised:
## value lower upper
## parent_0 93.950000 -Inf Inf
## log_alpha 0.000000 -Inf Inf
## log_beta 2.302585 -Inf Inf
-## sigma 2.275722 0 Inf
##
## Fixed parameter values:
## None
@@ -399,8 +393,8 @@
<div class="sourceCode" id="cb20"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb20-1" title="1"><span class="kw"><a href="https://rdrr.io/r/base/summary.html">summary</a></span>(m.L2.DFOP, <span class="dt">data =</span> <span class="ot">FALSE</span>)</a></code></pre></div>
<pre><code>## mkin version used for fitting: 0.9.49.6
## R version used for fitting: 3.6.1
-## Date of fit: Thu Sep 19 09:53:02 2019
-## Date of summary: Thu Sep 19 09:53:02 2019
+## Date of fit: Fri Nov 1 10:10:51 2019
+## Date of summary: Fri Nov 1 10:10:51 2019
##
## Equations:
## d_parent/dt = - ((k1 * g * exp(-k1 * time) + k2 * (1 - g) *
@@ -409,19 +403,18 @@
##
## Model predictions using solution type analytical
##
-## Fitted using 572 model solutions performed in 1.204 s
+## Fitted using 572 model solutions performed in 1.218 s
##
## Error model: Constant variance
##
## Error model algorithm: OLS
##
## Starting values for parameters to be optimised:
-## value type
-## parent_0 93.950000 state
-## k1 0.100000 deparm
-## k2 0.010000 deparm
-## g 0.500000 deparm
-## sigma 1.413899 error
+## value type
+## parent_0 93.95 state
+## k1 0.10 deparm
+## k2 0.01 deparm
+## g 0.50 deparm
##
## Starting values for the transformed parameters actually optimised:
## value lower upper
@@ -429,7 +422,6 @@
## log_k1 -2.302585 -Inf Inf
## log_k2 -4.605170 -Inf Inf
## g_ilr 0.000000 -Inf Inf
-## sigma 1.413899 0 Inf
##
## Fixed parameter values:
## None
@@ -499,8 +491,8 @@
<div class="sourceCode" id="cb24"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb24-1" title="1"><span class="kw"><a href="https://rdrr.io/r/base/summary.html">summary</a></span>(mm.L3[[<span class="st">"DFOP"</span>, <span class="dv">1</span>]])</a></code></pre></div>
<pre><code>## mkin version used for fitting: 0.9.49.6
## R version used for fitting: 3.6.1
-## Date of fit: Thu Sep 19 09:53:04 2019
-## Date of summary: Thu Sep 19 09:53:04 2019
+## Date of fit: Fri Nov 1 10:10:53 2019
+## Date of summary: Fri Nov 1 10:10:53 2019
##
## Equations:
## d_parent/dt = - ((k1 * g * exp(-k1 * time) + k2 * (1 - g) *
@@ -509,19 +501,18 @@
##
## Model predictions using solution type analytical
##
-## Fitted using 373 model solutions performed in 0.799 s
+## Fitted using 373 model solutions performed in 0.784 s
##
## Error model: Constant variance
##
## Error model algorithm: OLS
##
## Starting values for parameters to be optimised:
-## value type
-## parent_0 97.800000 state
-## k1 0.100000 deparm
-## k2 0.010000 deparm
-## g 0.500000 deparm
-## sigma 1.017292 error
+## value type
+## parent_0 97.80 state
+## k1 0.10 deparm
+## k2 0.01 deparm
+## g 0.50 deparm
##
## Starting values for the transformed parameters actually optimised:
## value lower upper
@@ -529,7 +520,6 @@
## log_k1 -2.302585 -Inf Inf
## log_k2 -4.605170 -Inf Inf
## g_ilr 0.000000 -Inf Inf
-## sigma 1.017292 0 Inf
##
## Fixed parameter values:
## None
@@ -605,31 +595,29 @@
<div class="sourceCode" id="cb29"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb29-1" title="1"><span class="kw"><a href="https://rdrr.io/r/base/summary.html">summary</a></span>(mm.L4[[<span class="st">"SFO"</span>, <span class="dv">1</span>]], <span class="dt">data =</span> <span class="ot">FALSE</span>)</a></code></pre></div>
<pre><code>## mkin version used for fitting: 0.9.49.6
## R version used for fitting: 3.6.1
-## Date of fit: Thu Sep 19 09:53:04 2019
-## Date of summary: Thu Sep 19 09:53:05 2019
+## Date of fit: Fri Nov 1 10:10:53 2019
+## Date of summary: Fri Nov 1 10:10:54 2019
##
## Equations:
## d_parent/dt = - k_parent_sink * parent
##
## Model predictions using solution type analytical
##
-## Fitted using 142 model solutions performed in 0.287 s
+## Fitted using 142 model solutions performed in 0.292 s
##
## Error model: Constant variance
##
## Error model algorithm: OLS
##
## Starting values for parameters to be optimised:
-## value type
-## parent_0 96.60000 state
-## k_parent_sink 0.10000 deparm
-## sigma 3.16181 error
+## value type
+## parent_0 96.6 state
+## k_parent_sink 0.1 deparm
##
## Starting values for the transformed parameters actually optimised:
## value lower upper
## parent_0 96.600000 -Inf Inf
## log_k_parent_sink -2.302585 -Inf Inf
-## sigma 3.161810 0 Inf
##
## Fixed parameter values:
## None
@@ -670,33 +658,31 @@
<div class="sourceCode" id="cb31"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb31-1" title="1"><span class="kw"><a href="https://rdrr.io/r/base/summary.html">summary</a></span>(mm.L4[[<span class="st">"FOMC"</span>, <span class="dv">1</span>]], <span class="dt">data =</span> <span class="ot">FALSE</span>)</a></code></pre></div>
<pre><code>## mkin version used for fitting: 0.9.49.6
## R version used for fitting: 3.6.1
-## Date of fit: Thu Sep 19 09:53:05 2019
-## Date of summary: Thu Sep 19 09:53:05 2019
+## Date of fit: Fri Nov 1 10:10:54 2019
+## Date of summary: Fri Nov 1 10:10:54 2019
##
## Equations:
## d_parent/dt = - (alpha/beta) * 1/((time/beta) + 1) * parent
##
## Model predictions using solution type analytical
##
-## Fitted using 224 model solutions performed in 0.48 s
+## Fitted using 224 model solutions performed in 0.455 s
##
## Error model: Constant variance
##
## Error model algorithm: OLS
##
## Starting values for parameters to be optimised:
-## value type
-## parent_0 96.600000 state
-## alpha 1.000000 deparm
-## beta 10.000000 deparm
-## sigma 1.830055 error
+## value type
+## parent_0 96.6 state
+## alpha 1.0 deparm
+## beta 10.0 deparm
##
## Starting values for the transformed parameters actually optimised:
## value lower upper
## parent_0 96.600000 -Inf Inf
## log_alpha 0.000000 -Inf Inf
## log_beta 2.302585 -Inf Inf
-## sigma 1.830055 0 Inf
##
## Fixed parameter values:
## None
@@ -746,6 +732,7 @@
</div>
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+
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