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Diffstat (limited to 'docs/articles')
| -rw-r--r-- | docs/articles/FOCUS_D.html | 14 | ||||
| -rw-r--r-- | docs/articles/FOCUS_L.html | 40 | ||||
| -rw-r--r-- | docs/articles/web_only/compiled_models.html | 10 |
3 files changed, 32 insertions, 32 deletions
diff --git a/docs/articles/FOCUS_D.html b/docs/articles/FOCUS_D.html index deab980c..9acab53a 100644 --- a/docs/articles/FOCUS_D.html +++ b/docs/articles/FOCUS_D.html @@ -94,8 +94,8 @@ -<p>This is just a very simple vignette showing how to fit a degradation model for a parent compound with one transformation product using <code>mkin</code>. After loading the library we look a the data. We have observed concentrations in the column named <code>value</code> at the times specified in column <code>time</code> for the two observed variables named <code>parent</code> and <code>m1</code>.</p> -<div class="sourceCode" id="cb1"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb1-1" data-line-number="1"><span class="kw"><a href="https://www.rdocumentation.org/packages/base/topics/library">library</a></span>(<span class="st">"mkin"</span>, <span class="dt">quietly =</span> <span class="ot">TRUE</span>)</a> +<p>This is just a very simple vignette showing how to fit a degradation model for a parent compound with one transformation product using <code>mkin</code>. After loading the library we look at the data. We have observed concentrations in the column named <code>value</code> at the times specified in column <code>time</code> for the two observed variables named <code>parent</code> and <code>m1</code>.</p> +<div class="sourceCode" id="cb1"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb1-1" data-line-number="1"><span class="kw"><a href="https://www.rdocumentation.org/packages/base/topics/library">library</a></span>(mkin, <span class="dt">quietly =</span> <span class="ot">TRUE</span>)</a> <a class="sourceLine" id="cb1-2" data-line-number="2"><span class="kw"><a href="https://www.rdocumentation.org/packages/base/topics/print">print</a></span>(FOCUS_<span class="dv">2006</span>_D)</a></code></pre></div> <pre><code>## name time value ## 1 parent 0 99.46 @@ -161,10 +161,10 @@ <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="cb10"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb10-1" data-line-number="1"><span class="kw"><a href="https://www.rdocumentation.org/packages/base/topics/summary">summary</a></span>(fit)</a></code></pre></div> -<pre><code>## mkin version used for fitting: 0.9.47.6 -## R version used for fitting: 3.5.1 -## Date of fit: Fri Nov 23 19:58:46 2018 -## Date of summary: Fri Nov 23 19:58:47 2018 +<pre><code>## mkin version used for fitting: 0.9.47.5 +## R version used for fitting: 3.5.2 +## Date of fit: Thu Jan 31 16:52:37 2019 +## Date of summary: Thu Jan 31 16:52:38 2019 ## ## Equations: ## d_parent/dt = - k_parent_sink * parent - k_parent_m1 * parent @@ -172,7 +172,7 @@ ## ## Model predictions using solution type deSolve ## -## Fitted with method Port using 153 model solutions performed in 0.736 s +## Fitted with method Port using 153 model solutions performed in 0.695 s ## ## Weighting: none ## diff --git a/docs/articles/FOCUS_L.html b/docs/articles/FOCUS_L.html index b53ab0d0..e3ca9aff 100644 --- a/docs/articles/FOCUS_L.html +++ b/docs/articles/FOCUS_L.html @@ -111,8 +111,8 @@ <a class="sourceLine" id="cb2-2" data-line-number="2"><span class="kw"><a href="https://www.rdocumentation.org/packages/base/topics/summary">summary</a></span>(m.L1.SFO)</a></code></pre></div> <pre><code>## mkin version used for fitting: 0.9.47.5 ## R version used for fitting: 3.5.2 -## Date of fit: Thu Jan 31 15:43:40 2019 -## Date of summary: Thu Jan 31 15:43:40 2019 +## Date of fit: Thu Jan 31 16:52:39 2019 +## Date of summary: Thu Jan 31 16:52:39 2019 ## ## Equations: ## d_parent/dt = - k_parent_sink * parent @@ -202,15 +202,15 @@ <div class="sourceCode" id="cb7"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb7-1" data-line-number="1"><span class="kw"><a href="https://www.rdocumentation.org/packages/base/topics/summary">summary</a></span>(m.L1.FOMC, <span class="dt">data =</span> <span class="ot">FALSE</span>)</a></code></pre></div> <pre><code>## mkin version used for fitting: 0.9.47.5 ## R version used for fitting: 3.5.2 -## Date of fit: Thu Jan 31 15:43:42 2019 -## Date of summary: Thu Jan 31 15:43:42 2019 +## Date of fit: Thu Jan 31 16:52:41 2019 +## Date of summary: Thu Jan 31 16:52:41 2019 ## ## Equations: ## d_parent/dt = - (alpha/beta) * 1/((time/beta) + 1) * parent ## ## Model predictions using solution type analytical ## -## Fitted with method Port using 611 model solutions performed in 1.502 s +## Fitted with method Port using 611 model solutions performed in 1.49 s ## ## Weighting: none ## @@ -297,15 +297,15 @@ <div class="sourceCode" id="cb12"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb12-1" data-line-number="1"><span class="kw"><a href="https://www.rdocumentation.org/packages/base/topics/summary">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: 0.9.47.5 ## R version used for fitting: 3.5.2 -## Date of fit: Thu Jan 31 15:43:42 2019 -## Date of summary: Thu Jan 31 15:43:42 2019 +## Date of fit: Thu Jan 31 16:52:42 2019 +## Date of summary: Thu Jan 31 16:52:42 2019 ## ## Equations: ## d_parent/dt = - (alpha/beta) * 1/((time/beta) + 1) * parent ## ## Model predictions using solution type analytical ## -## Fitted with method Port using 81 model solutions performed in 0.195 s +## Fitted with method Port using 81 model solutions performed in 0.198 s ## ## Weighting: none ## @@ -368,8 +368,8 @@ <div class="sourceCode" id="cb15"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb15-1" data-line-number="1"><span class="kw"><a href="https://www.rdocumentation.org/packages/base/topics/summary">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: 0.9.47.5 ## R version used for fitting: 3.5.2 -## Date of fit: Thu Jan 31 15:43:43 2019 -## Date of summary: Thu Jan 31 15:43:43 2019 +## Date of fit: Thu Jan 31 16:52:43 2019 +## Date of summary: Thu Jan 31 16:52:43 2019 ## ## Equations: ## d_parent/dt = - ((k1 * g * exp(-k1 * time) + k2 * (1 - g) * @@ -378,7 +378,7 @@ ## ## Model predictions using solution type analytical ## -## Fitted with method Port using 336 model solutions performed in 0.836 s +## Fitted with method Port using 336 model solutions performed in 0.839 s ## ## Weighting: none ## @@ -460,8 +460,8 @@ <div class="sourceCode" id="cb21"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb21-1" data-line-number="1"><span class="kw"><a href="https://www.rdocumentation.org/packages/base/topics/summary">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: 0.9.47.5 ## R version used for fitting: 3.5.2 -## Date of fit: Thu Jan 31 15:43:44 2019 -## Date of summary: Thu Jan 31 15:43:45 2019 +## Date of fit: Thu Jan 31 16:52:44 2019 +## Date of summary: Thu Jan 31 16:52:44 2019 ## ## Equations: ## d_parent/dt = - ((k1 * g * exp(-k1 * time) + k2 * (1 - g) * @@ -470,7 +470,7 @@ ## ## Model predictions using solution type analytical ## -## Fitted with method Port using 137 model solutions performed in 0.34 s +## Fitted with method Port using 137 model solutions performed in 0.341 s ## ## Weighting: none ## @@ -561,15 +561,15 @@ <div class="sourceCode" id="cb26"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb26-1" data-line-number="1"><span class="kw"><a href="https://www.rdocumentation.org/packages/base/topics/summary">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: 0.9.47.5 ## R version used for fitting: 3.5.2 -## Date of fit: Thu Jan 31 15:43:45 2019 -## Date of summary: Thu Jan 31 15:43:45 2019 +## Date of fit: Thu Jan 31 16:52:44 2019 +## Date of summary: Thu Jan 31 16:52:45 2019 ## ## Equations: ## d_parent/dt = - k_parent_sink * parent ## ## Model predictions using solution type analytical ## -## Fitted with method Port using 46 model solutions performed in 0.109 s +## Fitted with method Port using 46 model solutions performed in 0.11 s ## ## Weighting: none ## @@ -621,15 +621,15 @@ <div class="sourceCode" id="cb28"><pre class="sourceCode r"><code class="sourceCode r"><a class="sourceLine" id="cb28-1" data-line-number="1"><span class="kw"><a href="https://www.rdocumentation.org/packages/base/topics/summary">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: 0.9.47.5 ## R version used for fitting: 3.5.2 -## Date of fit: Thu Jan 31 15:43:45 2019 -## Date of summary: Thu Jan 31 15:43:45 2019 +## Date of fit: Thu Jan 31 16:52:45 2019 +## Date of summary: Thu Jan 31 16:52:45 2019 ## ## Equations: ## d_parent/dt = - (alpha/beta) * 1/((time/beta) + 1) * parent ## ## Model predictions using solution type analytical ## -## Fitted with method Port using 66 model solutions performed in 0.163 s +## Fitted with method Port using 66 model solutions performed in 0.162 s ## ## Weighting: none ## diff --git a/docs/articles/web_only/compiled_models.html b/docs/articles/web_only/compiled_models.html index d7d76b49..08bb9b44 100644 --- a/docs/articles/web_only/compiled_models.html +++ b/docs/articles/web_only/compiled_models.html @@ -126,9 +126,9 @@ <a class="sourceLine" id="cb5-16" data-line-number="16">}</a></code></pre></div> <pre><code>## Lade nötiges Paket: rbenchmark</code></pre> <pre><code>## test replications elapsed relative user.self sys.self -## 3 deSolve, compiled 3 2.331 1.000 2.330 0 -## 1 deSolve, not compiled 3 17.369 7.451 17.360 0 -## 2 Eigenvalue based 3 2.878 1.235 2.876 0 +## 3 deSolve, compiled 3 2.353 1.000 2.352 0 +## 1 deSolve, not compiled 3 17.619 7.488 17.609 0 +## 2 Eigenvalue based 3 2.899 1.232 2.898 0 ## user.child sys.child ## 3 0 0 ## 1 0 0 @@ -157,8 +157,8 @@ <a class="sourceLine" id="cb8-16" data-line-number="16">}</a></code></pre></div> <pre><code>## Successfully compiled differential equation model from auto-generated C code.</code></pre> <pre><code>## test replications elapsed relative user.self sys.self -## 2 deSolve, compiled 3 4.120 1.000 4.116 0 -## 1 deSolve, not compiled 3 37.011 8.983 36.993 0 +## 2 deSolve, compiled 3 4.180 1.000 4.177 0 +## 1 deSolve, not compiled 3 37.331 8.931 37.312 0 ## user.child sys.child ## 2 0 0 ## 1 0 0</code></pre> |