diff options
Diffstat (limited to 'inst/web/index.html')
| -rw-r--r-- | inst/web/index.html | 26 |
1 files changed, 5 insertions, 21 deletions
diff --git a/inst/web/index.html b/inst/web/index.html index bb85e72f..17c5ba6e 100644 --- a/inst/web/index.html +++ b/inst/web/index.html @@ -66,15 +66,6 @@ if several compartments are involved.</p> <pre><code class="r">install.packages("mkin") </code></pre> -<p>If looking for the latest features, you can install directly from -<a href="http://github.com/jranke/mkin">github</a>, e.g. using the <code>devtools</code> package. -Using <code>quick = TRUE</code> skips docs, multiple-architecture builds, demos, and -vignettes, to make installation as fast and painless as possible.</p> - -<pre><code class="r">require(devtools) -install_github("jranke/mkin", quick = TRUE) -</code></pre> - <h2>Background</h2> <p>In the regulatory evaluation of chemical substances like plant protection @@ -108,7 +99,7 @@ reversible binding (SFORB) model, which will automatically create two latent state variables for the observed variable.</li> <li>As of version 0.9-39, fitting of several models to several datasets, optionally in parallel, is supported, see for example -<a href="http://kinfit.r-forge.r-project.org/mkin_static/plot.mmkin.html"><code>plot.mmkin</code></a> </li> +<a href="http://kinfit.r-forge.r-project.org/mkin_static/plot.mmkin.html"><code>plot.mmkin</code></a>.</li> <li>Model solution (forward modelling) in the function <a href="http://kinfit.r-forge.r-project.org/mkin_static/mkinpredict.html"><code>mkinpredict</code></a> is performed either using the analytical solution for the case of @@ -121,10 +112,6 @@ generated C code, see<br/> The autogeneration of C code was inspired by the <a href="https://github.com/karlines/ccSolve"><code>ccSolve</code></a> package. Thanks to Karline Soetaert for her work on that.</li> -<li>Model optimisation with -<a href="http://kinfit.r-forge.r-project.org/mkin_static/mkinfit.html"><code>mkinfit</code></a> -internally using the <code>modFit</code> function from the <code>FME</code> package, -but using the Port routine <code>nlminb</code> per default.</li> <li>By default, kinetic rate constants and kinetic formation fractions are transformed internally using <a href="http://kinfit.r-forge.r-project.org/mkin_static/transform_odeparms.html"><code>transform_odeparms</code></a> @@ -152,9 +139,7 @@ as in KinGUII and CAKE (see below). Simply add the argument componenent for each of the observed variables will be optimised in a second stage after the primary optimisation algorithm has converged.</li> <li>When a metabolite decline phase is not described well by SFO kinetics, -either IORE kinetics (often producing failures of the integration algorithm) -or SFORB kinetics (working nicely) can be used for the metabolite, adding one -respectively two parameters to the system.</li> +SFORB kinetics can be used for the metabolite.</li> </ul> <h2>GUI</h2> @@ -171,9 +156,8 @@ and one for the <a href="https://github.com/jranke/mkin/blob/master/NEWS.md">git <h2>Credits and historical remarks</h2> <p><code>mkin</code> would not be possible without the underlying software stack consisting -of R and the packages <a href="http://cran.r-project.org/package=deSolve">deSolve</a>, -<a href="http://cran.r-project.org/package=minpack.lm">minpack.lm</a> and -<a href="http://cran.r-project.org/package=FME">FME</a>, to say the least.</p> +of R and the packages <a href="http://cran.r-project.org/package=deSolve">deSolve</a> +and <a href="http://cran.r-project.org/package=FME">FME</a>, to say the least.</p> <p>It could not have been written without me being introduced to regulatory fate modelling of pesticides by Adrian Gurney during my time at Harlan Laboratories @@ -187,7 +171,7 @@ as detailed in their guidance document from 2006, slightly updated in 2011 and BayerCropScience, which is based on the MatLab runtime environment.</p> <p>The companion package -<a href="http://kinfit.r-forge.r-project.org/kinfit_static/index.html">kinfit</a> was +<a href="http://kinfit.r-forge.r-project.org/kinfit_static/index.html">kinfit</a> (now deprecated) was <a href="https://r-forge.r-project.org/scm/viewvc.php?view=rev&root=kinfit&revision=2">started in 2008</a> and <a href="http://cran.r-project.org/src/contrib/Archive/kinfit/">first published</a> on CRAN on 01 May 2010.</p> |