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authorJohannes Ranke <jranke@uni-bremen.de>2018-03-01 14:32:46 +0100
committerJohannes Ranke <jranke@uni-bremen.de>2018-03-01 14:32:46 +0100
commit6653ff2507f45eae909f491a9af3f1eb5358a600 (patch)
tree03a43f9cf86cc1d675eba1c6f9c5e31da9c2acdd /docs/reference/test_data_from_UBA_2014.html
parenta767013f407f7495492af6a1ceba4cf2b8aae839 (diff)
Static documentation rebuilt using current pkgdown::build_site()
Diffstat (limited to 'docs/reference/test_data_from_UBA_2014.html')
-rw-r--r--docs/reference/test_data_from_UBA_2014.html70
1 files changed, 24 insertions, 46 deletions
diff --git a/docs/reference/test_data_from_UBA_2014.html b/docs/reference/test_data_from_UBA_2014.html
index ed2ccd9c..c4292d9c 100644
--- a/docs/reference/test_data_from_UBA_2014.html
+++ b/docs/reference/test_data_from_UBA_2014.html
@@ -18,12 +18,20 @@
<!-- Font Awesome icons -->
<link href="https://maxcdn.bootstrapcdn.com/font-awesome/4.6.3/css/font-awesome.min.css" rel="stylesheet" integrity="sha384-T8Gy5hrqNKT+hzMclPo118YTQO6cYprQmhrYwIiQ/3axmI1hQomh7Ud2hPOy8SP1" crossorigin="anonymous">
+<!-- clipboard.js -->
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<!-- pkgdown -->
<link href="../pkgdown.css" rel="stylesheet">
<script src="../jquery.sticky-kit.min.js"></script>
<script src="../pkgdown.js"></script>
+
+
+<meta property="og:title" content="Three experimental datasets from two water sediment systems and one soil — test_data_from_UBA_2014" />
+<meta property="og:description" content="The datasets were used for the comparative validation of several kinetic evaluation
+ software packages (Ranke, 2014)." />
+<meta name="twitter:card" content="summary" />
<!-- mathjax -->
<script src='https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML'></script>
@@ -123,7 +131,7 @@
<h2 class="hasAnchor" id="examples"><a class="anchor" href="#examples"></a>Examples</h2>
- <pre class="examples"><div class='input'>
+ <pre class="examples"><div class='input'> </div><span class='co'># NOT RUN {</span>
<span class='co'># This is a level P-II evaluation of the dataset according to the FOCUS kinetics</span>
<span class='co'># guidance. Due to the strong correlation of the parameter estimates, the</span>
<span class='co'># covariance matrix is not returned. Note that level P-II evaluations are</span>
@@ -131,57 +139,27 @@
<span class='co'># large parameter correlations, among other reasons (e.g. the adequacy of the</span>
<span class='co'># model).</span>
<span class='no'>m_ws</span> <span class='kw'>&lt;-</span> <span class='fu'><a href='mkinmod.html'>mkinmod</a></span>(<span class='kw'>parent_w</span> <span class='kw'>=</span> <span class='fu'><a href='mkinsub.html'>mkinsub</a></span>(<span class='st'>"SFO"</span>, <span class='st'>"parent_s"</span>),
- <span class='kw'>parent_s</span> <span class='kw'>=</span> <span class='fu'><a href='mkinsub.html'>mkinsub</a></span>(<span class='st'>"SFO"</span>, <span class='st'>"parent_w"</span>))</div><div class='output co'>#&gt; <span class='message'>Successfully compiled differential equation model from auto-generated C code.</span></div><div class='input'> <span class='no'>f_river</span> <span class='kw'>&lt;-</span> <span class='fu'><a href='mkinfit.html'>mkinfit</a></span>(<span class='no'>m_ws</span>, <span class='no'>test_data_from_UBA_2014</span><span class='kw'>[[</span><span class='fl'>1</span>]]$<span class='no'>data</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)
- <span class='fu'><a href='plot.mkinfit.html'>plot_sep</a></span>(<span class='no'>f_river</span>)</div><img src='test_data_from_UBA_2014-4.png' alt='' width='540' height='400' /><div class='input'>
- <span class='fu'>summary</span>(<span class='no'>f_river</span>)$<span class='no'>bpar</span></div><div class='output co'>#&gt; Estimate se_notrans t value Pr(&gt;t) Lower
-#&gt; parent_w_0 9.598567e+01 2.33959810 4.102657e+01 9.568973e-19 NA
-#&gt; k_parent_w_sink 3.603743e-01 0.03497716 1.030313e+01 4.988281e-09 NA
-#&gt; k_parent_w_parent_s 6.031370e-02 0.01746026 3.454342e+00 1.514738e-03 NA
-#&gt; k_parent_s_sink 5.099834e-11 0.10381939 4.912217e-10 5.000000e-01 NA
-#&gt; k_parent_s_parent_w 7.419672e-02 0.11338174 6.543974e-01 2.608057e-01 NA
-#&gt; Upper
-#&gt; parent_w_0 NA
-#&gt; k_parent_w_sink NA
-#&gt; k_parent_w_parent_s NA
-#&gt; k_parent_s_sink NA
-#&gt; k_parent_s_parent_w NA</div><div class='input'> <span class='fu'><a href='mkinerrmin.html'>mkinerrmin</a></span>(<span class='no'>f_river</span>)</div><div class='output co'>#&gt; err.min n.optim df
-#&gt; All data 0.09246946 5 6
-#&gt; parent_w 0.06377096 3 3
-#&gt; parent_s 0.20882324 2 3</div><div class='input'>
+ <span class='kw'>parent_s</span> <span class='kw'>=</span> <span class='fu'><a href='mkinsub.html'>mkinsub</a></span>(<span class='st'>"SFO"</span>, <span class='st'>"parent_w"</span>))
+ <span class='no'>f_river</span> <span class='kw'>&lt;-</span> <span class='fu'><a href='mkinfit.html'>mkinfit</a></span>(<span class='no'>m_ws</span>, <span class='no'>test_data_from_UBA_2014</span><span class='kw'>[[</span><span class='fl'>1</span>]]$<span class='no'>data</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)
+ <span class='fu'><a href='plot.mkinfit.html'>plot_sep</a></span>(<span class='no'>f_river</span>)
+
+ <span class='fu'>summary</span>(<span class='no'>f_river</span>)$<span class='no'>bpar</span>
+ <span class='fu'><a href='mkinerrmin.html'>mkinerrmin</a></span>(<span class='no'>f_river</span>)
+
<span class='co'># This is the evaluation used for the validation of software packages</span>
<span class='co'># in the expertise from 2014</span>
<span class='no'>m_soil</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='fu'>c</span>(<span class='st'>"M1"</span>, <span class='st'>"M2"</span>)),
<span class='kw'>M1</span> <span class='kw'>=</span> <span class='fu'><a href='mkinsub.html'>mkinsub</a></span>(<span class='st'>"SFO"</span>, <span class='st'>"M3"</span>),
<span class='kw'>M2</span> <span class='kw'>=</span> <span class='fu'><a href='mkinsub.html'>mkinsub</a></span>(<span class='st'>"SFO"</span>, <span class='st'>"M3"</span>),
<span class='kw'>M3</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>)</div><div class='output co'>#&gt; <span class='message'>Successfully compiled differential equation model from auto-generated C code.</span></div><div class='input'>
+ <span class='kw'>use_of_ff</span> <span class='kw'>=</span> <span class='st'>"max"</span>)
+
<span class='no'>f_soil</span> <span class='kw'>&lt;-</span> <span class='fu'><a href='mkinfit.html'>mkinfit</a></span>(<span class='no'>m_soil</span>, <span class='no'>test_data_from_UBA_2014</span><span class='kw'>[[</span><span class='fl'>3</span>]]$<span class='no'>data</span>, <span class='kw'>quiet</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>)
- <span class='fu'><a href='plot.mkinfit.html'>plot_sep</a></span>(<span class='no'>f_soil</span>, <span class='kw'>lpos</span> <span class='kw'>=</span> <span class='fu'>c</span>(<span class='st'>"topright"</span>, <span class='st'>"topright"</span>, <span class='st'>"topright"</span>, <span class='st'>"bottomright"</span>))</div><img src='test_data_from_UBA_2014-12.png' alt='' width='540' height='400' /><div class='input'> <span class='fu'>summary</span>(<span class='no'>f_soil</span>)$<span class='no'>bpar</span></div><div class='output co'>#&gt; Estimate se_notrans t value Pr(&gt;t) Lower
-#&gt; parent_0 76.55425583 0.943443834 81.1434164 4.422340e-30 74.602593306
-#&gt; k_parent 0.12081956 0.004815515 25.0896457 1.639665e-18 0.111257526
-#&gt; k_M1 0.84258650 0.930121206 0.9058889 1.871937e-01 0.085876305
-#&gt; k_M2 0.04210878 0.013729902 3.0669396 2.729137e-03 0.021450631
-#&gt; k_M3 0.01122919 0.008044866 1.3958205 8.804914e-02 0.002550985
-#&gt; f_parent_to_M1 0.32240199 0.278620411 1.1571370 1.295466e-01 NA
-#&gt; f_parent_to_M2 0.16099854 0.030548889 5.2701930 1.196191e-05 NA
-#&gt; f_M1_to_M3 0.27921500 0.314732717 0.8871496 1.920907e-01 0.015016888
-#&gt; f_M2_to_M3 0.55641332 0.650247079 0.8556952 2.004966e-01 0.005360551
-#&gt; Upper
-#&gt; parent_0 78.50591836
-#&gt; k_parent 0.13120340
-#&gt; k_M1 8.26714671
-#&gt; k_M2 0.08266187
-#&gt; k_M3 0.04942980
-#&gt; f_parent_to_M1 NA
-#&gt; f_parent_to_M2 NA
-#&gt; f_M1_to_M3 0.90777217
-#&gt; f_M2_to_M3 0.99658634</div><div class='input'> <span class='fu'><a href='mkinerrmin.html'>mkinerrmin</a></span>(<span class='no'>f_soil</span>)</div><div class='output co'>#&gt; err.min n.optim df
-#&gt; All data 0.09649963 9 20
-#&gt; parent 0.04721283 2 6
-#&gt; M1 0.26551209 2 5
-#&gt; M2 0.20327575 2 5
-#&gt; M3 0.05196549 3 4</div><div class='input'>
-</div></pre>
+ <span class='fu'><a href='plot.mkinfit.html'>plot_sep</a></span>(<span class='no'>f_soil</span>, <span class='kw'>lpos</span> <span class='kw'>=</span> <span class='fu'>c</span>(<span class='st'>"topright"</span>, <span class='st'>"topright"</span>, <span class='st'>"topright"</span>, <span class='st'>"bottomright"</span>))
+ <span class='fu'>summary</span>(<span class='no'>f_soil</span>)$<span class='no'>bpar</span>
+ <span class='fu'><a href='mkinerrmin.html'>mkinerrmin</a></span>(<span class='no'>f_soil</span>)
+
+<span class='co'># }</span></pre>
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@@ -203,7 +181,7 @@
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- <p>Site built with <a href="http://hadley.github.io/pkgdown/">pkgdown</a>.</p>
+ <p>Site built with <a href="http://pkgdown.r-lib.org/">pkgdown</a>.</p>
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