<!DOCTYPE html> <html lang="en"> <head> <meta charset="utf-8"> <title>summary.mkinfit. mkin 0.9.42</title> <meta name="viewport" content="width=device-width, initial-scale=1.0"> <meta name="author" content=" Johannes Ranke "> <link href="css/bootstrap.css" rel="stylesheet"> <link href="css/bootstrap-responsive.css" rel="stylesheet"> <link href="css/highlight.css" rel="stylesheet"> <link href="css/staticdocs.css" rel="stylesheet"> <!--[if lt IE 9]> <script src="http://html5shim.googlecode.com/svn/trunk/html5.js"></script> <![endif]--> <script type="text/x-mathjax-config"> MathJax.Hub.Config({ tex2jax: { inlineMath: [ ['$','$'], ["\\(","\\)"] ], processEscapes: true } }); </script> <script type="text/javascript" src="http://cdn.mathjax.org/mathjax/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML"> </script> </head> <body> <div class="navbar"> <div class="navbar-inner"> <div class="container"> <a class="brand" href="#">mkin 0.9.42</a> <div class="nav"> <ul class="nav"> <li><a href="index.html"><i class="icon-home icon-white"></i> Index</a></li> </ul> </div> </div> </div> </div> <div class="container"> <header> </header> <h1> Summary method for class "mkinfit" </h1> <div class="row"> <div class="span8"> <h2>Usage</h2> <pre><div>"summary"(object, data = TRUE, distimes = TRUE, alpha = 0.05, ...) "print"(x, digits = max(3, getOption("digits") - 3), ...)</div></pre> <h2>Arguments</h2> <dl> <dt>object</dt> <dd> an object of class <code><a href='mkinfit.html'>mkinfit</a></code>. </dd> <dt>x</dt> <dd> an object of class <code>summary.mkinfit</code>. </dd> <dt>data</dt> <dd> logical, indicating whether the data should be included in the summary. </dd> <dt>distimes</dt> <dd> logical, indicating whether DT50 and DT90 values should be included. </dd> <dt>alpha</dt> <dd> error level for confidence interval estimation from t distribution </dd> <dt>digits</dt> <dd> Number of digits to use for printing </dd> <dt>...</dt> <dd> optional arguments passed to methods like <code>print</code>. </dd> </dl> <div class="Description"> <h2>Description</h2> <p>Lists model equations, the summary as returned by <code><a href='http://www.inside-r.org/packages/cran/FME/docs/modFit'>summary.modFit</a></code>, the chi2 error levels calculated according to FOCUS guidance (2006) as far as defined therein, and optionally the data, consisting of observed, predicted and residual values.</p> </div> <div class="Value"> <h2>Value</h2> <p><dl> The summary function returns a list derived from <code><a href='http://www.inside-r.org/packages/cran/FME/docs/modFit'>summary.modFit</a></code>, with components, among others <dt>version, Rversion</dt><dd>The mkin and R versions used</dd></p> <p><dt>date.fit, date.summary</dt><dd>The dates where the fit and the summary were produced</dd></p> <p><dt>use_of_ff</dt><dd>Was maximum or minimum use made of formation fractions</dd></p> <p><dt>residuals, residualVariance, sigma, modVariance, df</dt><dd>As in summary.modFit</dd></p> <p><dt>cov.unscaled, cov.scaled, info, niter, stopmess, par</dt><dd>As in summary.modFit</dd></p> <p><dt>bpar</dt><dd>Optimised and backtransformed parameters</dd></p> <p><dt>diffs </dt><dd>The differential equations used in the model</dd></p> <p><dt>data </dt><dd>The data (see Description above).</dd></p> <p><dt>start </dt><dd>The starting values and bounds, if applicable, for optimised parameters.</dd></p> <p><dt>fixed </dt><dd>The values of fixed parameters.</dd></p> <p><dt>errmin </dt><dd>The chi2 error levels for each observed variable.</dd></p> <p><dt>bparms.ode </dt><dd>All backtransformed ODE parameters, for use as starting parameters for related models.</dd></p> <p><dt>ff </dt><dd>The estimated formation fractions derived from the fitted model.</dd></p> <p><dt>distimes </dt><dd>The DT50 and DT90 values for each observed variable.</dd></p> <p><dt>SFORB</dt><dd>If applicable, eigenvalues of SFORB components of the model.</dd></p> <p>The print method is called for its side effect, i.e. printing the summary. </dl></p> </div> <div class="References"> <h2>References</h2> <p>FOCUS (2006) “Guidance Document on Estimating Persistence and Degradation Kinetics from Environmental Fate Studies on Pesticides in EU Registration” Report of the FOCUS Work Group on Degradation Kinetics, EC Document Reference Sanco/10058/2005 version 2.0, 434 pp, <a href = 'http://focus.jrc.ec.europa.eu/dk'>http://focus.jrc.ec.europa.eu/dk</a></p> </div> <h2 id="examples">Examples</h2> <pre class="examples"><div class='input'> summary(mkinfit(mkinmod(parent = list(type = "SFO")), FOCUS_2006_A, quiet = TRUE)) </div> <div class='output'>mkin version: 0.9.42 R version: 3.2.4 Date of fit: Thu Mar 24 08:29:11 2016 Date of summary: Thu Mar 24 08:29:11 2016 Equations: d_parent = - k_parent_sink * parent Model predictions using solution type analytical Fitted with method Port using 35 model solutions performed in 0.096 s Weighting: none Starting values for parameters to be optimised: value type parent_0 101.24 state k_parent_sink 0.10 deparm Starting values for the transformed parameters actually optimised: value lower upper parent_0 101.240000 -Inf Inf log_k_parent_sink -2.302585 -Inf Inf Fixed parameter values: None Optimised, transformed parameters with symmetric confidence intervals: Estimate Std. Error Lower Upper parent_0 109.200 4.3910 98.410 119.900 log_k_parent_sink -3.291 0.1152 -3.573 -3.009 Parameter correlation: parent_0 log_k_parent_sink parent_0 1.000 0.575 log_k_parent_sink 0.575 1.000 Residual standard error: 6.08 on 6 degrees of freedom 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_0 109.20000 24.860 1.394e-07 98.41000 119.90000 k_parent_sink 0.03722 8.679 6.457e-05 0.02807 0.04934 Chi2 error levels in percent: err.min n.optim df All data 8.385 2 6 parent 8.385 2 6 Resulting formation fractions: ff parent_sink 1 Estimated disappearance times: DT50 DT90 parent 18.62 61.87 Data: time variable observed predicted residual 0 parent 101.24 109.153 -7.9132 3 parent 99.27 97.622 1.6484 7 parent 90.11 84.119 5.9913 14 parent 72.19 64.826 7.3641 30 parent 29.71 35.738 -6.0283 62 parent 5.98 10.862 -4.8818 90 parent 1.54 3.831 -2.2911 118 parent 0.39 1.351 -0.9613 </div></pre> </div> <div class="span4"> <!-- <ul> <li>summary.mkinfit</li><li>print.summary.mkinfit</li> </ul> <ul> <li> utilities </li> </ul> --> <h2>Author</h2> Johannes Ranke </div> </div> <footer> <p class="pull-right"><a href="#">Back to top</a></p> <p>Built by <a href="https://github.com/hadley/staticdocs">staticdocs</a>. 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