<!DOCTYPE html>
<html lang="en">
<head>
<meta charset="utf-8">
<title>mmkin. mkin 0.9.43</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 0.9.43</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>
Fit one or more kinetic models with one or more state variables to one or more datasets
</h1>
<div class="row">
<div class="span8">
<h2>Usage</h2>
<pre><div>mmkin(models, datasets, cores = round(detectCores()/2), cluster = NULL, ...)</div></pre>
<h2>Arguments</h2>
<dl>
<dt>models</dt>
<dd>
Either a character vector of shorthand names ("SFO", "FOMC", "DFOP",
"HS", "SFORB"), or an optionally named list of <code><a href='mkinmod.html'>mkinmod</a></code>
objects.
</dd>
<dt>datasets</dt>
<dd>
An optionally named list of datasets suitable as observed data for
<code><a href='mkinfit.html'>mkinfit</a></code>.
</dd>
<dt>cores</dt>
<dd>
The number of cores to be used for multicore processing. This is only
used when the <code>cluster</code> argument is <code>NULL</code>.
</dd>
<dt>cluster</dt>
<dd>
A cluster as returned by <code><a href='http://www.inside-r.org/r-doc/parallel/makeCluster'>makeCluster</a></code> to be used for parallel
execution.
</dd>
<dt>...</dt>
<dd>
Further arguments that will be passed to <code><a href='mkinfit.html'>mkinfit</a></code>.
</dd>
</dl>
<div class="Description">
<h2>Description</h2>
<p>This function calls <code><a href='mkinfit.html'>mkinfit</a></code> on all combinations of models and datasets
specified in its first two arguments.</p>
</div>
<div class="Value">
<h2>Value</h2>
<p><dl>
A matrix of <code><a href='mkinfit.html'>mkinfit</a></code> objects that can be indexed using the model
and dataset names as row and column indices.
</dl></p>
</div>
<h2 id="examples">Examples</h2>
<pre class="examples"><div class='input'>## Not run:
# m_synth_SFO_lin <- mkinmod(parent = mkinsub("SFO", "M1"),
# M1 = mkinsub("SFO", "M2"),
# M2 = mkinsub("SFO"), use_of_ff = "max")
#
# m_synth_FOMC_lin <- mkinmod(parent = mkinsub("FOMC", "M1"),
# M1 = mkinsub("SFO", "M2"),
# M2 = mkinsub("SFO"), use_of_ff = "max")
#
# models <- list(SFO_lin = m_synth_SFO_lin, FOMC_lin = m_synth_FOMC_lin)
# datasets <- lapply(synthetic_data_for_UBA_2014[1:3], function(x) x$data)
# names(datasets) <- paste("Dataset", 1:3)
#
# time_default <- system.time(fits.0 <- mmkin(models, datasets))
# time_1 <- system.time(fits.1 <- mmkin(models, datasets, cores = 1))
#
# time_default
# time_1
#
# endpoints(fits[["SFO_lin", 2]])
#
# # Plot.mkinfit handles rows or columns of mmkin result objects
# plot(fits.0[1, ])
# plot(fits.0[1, ], obs_var = c("M1", "M2"))
# plot(fits.0[, 1])
# # Use double brackets to extract a single mkinfit object, which will be plotted
# # by plot.mkinfit
# plot(fits.0[[1, 1]], sep_obs = TRUE, show_residuals = TRUE, show_errmin = TRUE)
# # Plotting with mmkin (single brackets, extracting an mmkin object) does not
# # allow to plot the observed variables separately
# plot(fits.0[1, 1])
# ## End(Not run)
</div></pre>
</div>
<div class="span4">
<!-- <ul>
<li>mmkin</li>
</ul>
<ul>
<li> optimize </li>
</ul> -->
<h2>See also</h2>
<code><a href='Extract.mmkin.html'>[.mmkin</a></code> for subsetting, <code><a href='plot.mmkin.html'>plot.mmkin</a></code> for plotting.
<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>. Styled with <a href="http://twitter.github.com/bootstrap">bootstrap</a>.</p>
</footer>
</div>
</body>
</html>
