diff options
Diffstat (limited to 'docs/reference')
| -rw-r--r-- | docs/reference/FOCUS_2006.html | 30 | ||||
| -rw-r--r-- | docs/reference/FOCUS_2006_Z.html | 30 | ||||
| -rw-r--r-- | docs/reference/UBA_model_gallery.html | 30 | ||||
| -rw-r--r-- | docs/reference/gmkin.html | 32 | ||||
| -rw-r--r-- | docs/reference/gmkinws.html | 30 | ||||
| -rw-r--r-- | docs/reference/index.html | 130 |
6 files changed, 191 insertions, 91 deletions
diff --git a/docs/reference/FOCUS_2006.html b/docs/reference/FOCUS_2006.html index ca9b5ce..93153ad 100644 --- a/docs/reference/FOCUS_2006.html +++ b/docs/reference/FOCUS_2006.html @@ -21,18 +21,24 @@ <!-- clipboard.js --> <script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/1.7.1/clipboard.min.js" integrity="sha384-cV+rhyOuRHc9Ub/91rihWcGmMmCXDeksTtCihMupQHSsi8GIIRDG0ThDc3HGQFJ3" crossorigin="anonymous"></script> +<!-- sticky kit --> +<script src="https://cdnjs.cloudflare.com/ajax/libs/sticky-kit/1.1.3/sticky-kit.min.js" integrity="sha256-c4Rlo1ZozqTPE2RLuvbusY3+SU1pQaJC0TjuhygMipw=" crossorigin="anonymous"></script> + <!-- 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="Example gmkin workspace for Datasets C and D from the FOCUS Kinetics report — FOCUS_2006" /> <meta property="og:description" content="An gmkinws object with data taken from FOCUS (2006), Appendix 3. This is the the workspace that is loaded into gmkin by default." /> <meta name="twitter:card" content="summary" /> + + + <!-- mathjax --> <script src='https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML'></script> @@ -55,8 +61,12 @@ <span class="icon-bar"></span> <span class="icon-bar"></span> </button> - <a class="navbar-brand" href="../index.html">gmkin</a> + <span class="navbar-brand"> + <a class="navbar-link" href="../index.html">gmkin</a> + <span class="label label-default" data-toggle="tooltip" data-placement="bottom" title="Released package">0.6.8</span> + </span> </div> + <div id="navbar" class="navbar-collapse collapse"> <ul class="nav navbar-nav"> <li> @@ -81,13 +91,14 @@ </ul> </li> <li> - <a href="../news/index.html">News</a> + <a href="../news/index.html">Changelog</a> </li> </ul> <ul class="nav navbar-nav navbar-right"> </ul> + </div><!--/.nav-collapse --> </div><!--/.container --> </div><!--/.navbar --> @@ -95,17 +106,21 @@ </header> - <div class="row"> +<div class="row"> <div class="col-md-9 contents"> <div class="page-header"> <h1>Example gmkin workspace for Datasets C and D from the FOCUS Kinetics report</h1> + + <div class="hidden name"><code>FOCUS_2006.Rd</code></div> </div> + <div class="ref-description"> <p>An <code><a href='gmkinws.html'>gmkinws</a></code> object with data taken from FOCUS (2006), Appendix 3. This is the the workspace that is loaded into <code><a href='gmkin.html'>gmkin</a></code> by default.</p> + </div> <pre class="usage"><span class='no'>FOCUS_2006</span></pre> @@ -157,5 +172,8 @@ </footer> </div> + + </body> </html> + diff --git a/docs/reference/FOCUS_2006_Z.html b/docs/reference/FOCUS_2006_Z.html index 4eff2a7..ee01417 100644 --- a/docs/reference/FOCUS_2006_Z.html +++ b/docs/reference/FOCUS_2006_Z.html @@ -21,16 +21,22 @@ <!-- clipboard.js --> <script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/1.7.1/clipboard.min.js" integrity="sha384-cV+rhyOuRHc9Ub/91rihWcGmMmCXDeksTtCihMupQHSsi8GIIRDG0ThDc3HGQFJ3" crossorigin="anonymous"></script> +<!-- sticky kit --> +<script src="https://cdnjs.cloudflare.com/ajax/libs/sticky-kit/1.1.3/sticky-kit.min.js" integrity="sha256-c4Rlo1ZozqTPE2RLuvbusY3+SU1pQaJC0TjuhygMipw=" crossorigin="anonymous"></script> + <!-- 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="Example gmkin workspace for Dataset Z from the FOCUS Kinetics report — FOCUS_2006_Z" /> <meta property="og:description" content="Data taken from FOCUS (2006), Appendix 7, p. 350." /> <meta name="twitter:card" content="summary" /> + + + <!-- mathjax --> <script src='https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML'></script> @@ -53,8 +59,12 @@ <span class="icon-bar"></span> <span class="icon-bar"></span> </button> - <a class="navbar-brand" href="../index.html">gmkin</a> + <span class="navbar-brand"> + <a class="navbar-link" href="../index.html">gmkin</a> + <span class="label label-default" data-toggle="tooltip" data-placement="bottom" title="Released package">0.6.8</span> + </span> </div> + <div id="navbar" class="navbar-collapse collapse"> <ul class="nav navbar-nav"> <li> @@ -79,13 +89,14 @@ </ul> </li> <li> - <a href="../news/index.html">News</a> + <a href="../news/index.html">Changelog</a> </li> </ul> <ul class="nav navbar-nav navbar-right"> </ul> + </div><!--/.nav-collapse --> </div><!--/.container --> </div><!--/.navbar --> @@ -93,15 +104,19 @@ </header> - <div class="row"> +<div class="row"> <div class="col-md-9 contents"> <div class="page-header"> <h1>Example gmkin workspace for Dataset Z from the FOCUS Kinetics report</h1> + + <div class="hidden name"><code>FOCUS_2006_Z.Rd</code></div> </div> + <div class="ref-description"> <p>Data taken from FOCUS (2006), Appendix 7, p. 350.</p> + </div> <pre class="usage"><span class='no'>FOCUS_2006_Z</span></pre> @@ -152,5 +167,8 @@ </footer> </div> + + </body> </html> + diff --git a/docs/reference/UBA_model_gallery.html b/docs/reference/UBA_model_gallery.html index 4157743..00f84ae 100644 --- a/docs/reference/UBA_model_gallery.html +++ b/docs/reference/UBA_model_gallery.html @@ -21,12 +21,15 @@ <!-- clipboard.js --> <script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/1.7.1/clipboard.min.js" integrity="sha384-cV+rhyOuRHc9Ub/91rihWcGmMmCXDeksTtCihMupQHSsi8GIIRDG0ThDc3HGQFJ3" crossorigin="anonymous"></script> +<!-- sticky kit --> +<script src="https://cdnjs.cloudflare.com/ajax/libs/sticky-kit/1.1.3/sticky-kit.min.js" integrity="sha256-c4Rlo1ZozqTPE2RLuvbusY3+SU1pQaJC0TjuhygMipw=" crossorigin="anonymous"></script> + <!-- 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="A collection of some standard kinetic models — UBA_model_gallery" /> <meta property="og:description" content="The UBA model gallery contains predefined kinetic models for some common use @@ -36,6 +39,9 @@ defined by Michael Klein (2010) for DegKinManager, with the exception of the kinetic sorption model." /> <meta name="twitter:card" content="summary" /> + + + <!-- mathjax --> <script src='https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML'></script> @@ -58,8 +64,12 @@ <span class="icon-bar"></span> <span class="icon-bar"></span> </button> - <a class="navbar-brand" href="../index.html">gmkin</a> + <span class="navbar-brand"> + <a class="navbar-link" href="../index.html">gmkin</a> + <span class="label label-default" data-toggle="tooltip" data-placement="bottom" title="Released package">0.6.8</span> + </span> </div> + <div id="navbar" class="navbar-collapse collapse"> <ul class="nav navbar-nav"> <li> @@ -84,13 +94,14 @@ </ul> </li> <li> - <a href="../news/index.html">News</a> + <a href="../news/index.html">Changelog</a> </li> </ul> <ul class="nav navbar-nav navbar-right"> </ul> + </div><!--/.nav-collapse --> </div><!--/.container --> </div><!--/.navbar --> @@ -98,12 +109,15 @@ </header> - <div class="row"> +<div class="row"> <div class="col-md-9 contents"> <div class="page-header"> <h1>A collection of some standard kinetic models</h1> + + <div class="hidden name"><code>UBA_model_gallery.Rd</code></div> </div> + <div class="ref-description"> <p>The UBA model gallery contains predefined kinetic models for some common use cases, with metabolites named as in the commonly used PELMO degradation @@ -112,6 +126,7 @@ defined by Michael Klein (2010) for DegKinManager, with the exception of the kinetic sorption model.</p> + </div> <pre class="usage"><span class='fu'>data</span>(<span class='st'>"UBA_model_gallery"</span>)</pre> @@ -158,5 +173,8 @@ </footer> </div> + + </body> </html> + diff --git a/docs/reference/gmkin.html b/docs/reference/gmkin.html index 75548cb..70c2d07 100644 --- a/docs/reference/gmkin.html +++ b/docs/reference/gmkin.html @@ -21,18 +21,24 @@ <!-- clipboard.js --> <script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/1.7.1/clipboard.min.js" integrity="sha384-cV+rhyOuRHc9Ub/91rihWcGmMmCXDeksTtCihMupQHSsi8GIIRDG0ThDc3HGQFJ3" crossorigin="anonymous"></script> +<!-- sticky kit --> +<script src="https://cdnjs.cloudflare.com/ajax/libs/sticky-kit/1.1.3/sticky-kit.min.js" integrity="sha256-c4Rlo1ZozqTPE2RLuvbusY3+SU1pQaJC0TjuhygMipw=" crossorigin="anonymous"></script> + <!-- 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="Start a graphical user interface (GUI) based on the <code>gWidgetsWWW2</code> toolkit. — gmkin" /> <meta property="og:description" content="This function starts a browser based GUI. Please visit the github page of gWidgetsWWW2 for an explanation how this toolkit works." /> <meta name="twitter:card" content="summary" /> + + + <!-- mathjax --> <script src='https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML'></script> @@ -55,8 +61,12 @@ <span class="icon-bar"></span> <span class="icon-bar"></span> </button> - <a class="navbar-brand" href="../index.html">gmkin</a> + <span class="navbar-brand"> + <a class="navbar-link" href="../index.html">gmkin</a> + <span class="label label-default" data-toggle="tooltip" data-placement="bottom" title="Released package">0.6.8</span> + </span> </div> + <div id="navbar" class="navbar-collapse collapse"> <ul class="nav navbar-nav"> <li> @@ -81,13 +91,14 @@ </ul> </li> <li> - <a href="../news/index.html">News</a> + <a href="../news/index.html">Changelog</a> </li> </ul> <ul class="nav navbar-nav navbar-right"> </ul> + </div><!--/.nav-collapse --> </div><!--/.container --> </div><!--/.navbar --> @@ -95,21 +106,25 @@ </header> - <div class="row"> +<div class="row"> <div class="col-md-9 contents"> <div class="page-header"> <h1>Start a graphical user interface (GUI) based on the <code>gWidgetsWWW2</code> toolkit.</h1> + + <div class="hidden name"><code>gmkin.Rd</code></div> </div> + <div class="ref-description"> <p>This function starts a browser based GUI. Please visit the <a href='http://github.com/jverzani/gWidgetsWWW2'>github page of gWidgetsWWW2</a> for an explanation how this toolkit works.</p> + </div> <pre class="usage"><span class='fu'>gmkin</span>(<span class='no'>script_name</span>, <span class='kw'>show.log</span> <span class='kw'>=</span> <span class='fl'>FALSE</span>)</pre> - <h2 class="hasAnchor" id="arguments"><a class="anchor" href="#arguments"></a> Arguments</h2> + <h2 class="hasAnchor" id="arguments"><a class="anchor" href="#arguments"></a>Arguments</h2> <table class="ref-arguments"> <colgroup><col class="name" /><col class="desc" /></colgroup> <tr> @@ -176,5 +191,8 @@ </footer> </div> + + </body> </html> + diff --git a/docs/reference/gmkinws.html b/docs/reference/gmkinws.html index 2c1f509..e0fee8b 100644 --- a/docs/reference/gmkinws.html +++ b/docs/reference/gmkinws.html @@ -21,16 +21,22 @@ <!-- clipboard.js --> <script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/1.7.1/clipboard.min.js" integrity="sha384-cV+rhyOuRHc9Ub/91rihWcGmMmCXDeksTtCihMupQHSsi8GIIRDG0ThDc3HGQFJ3" crossorigin="anonymous"></script> +<!-- sticky kit --> +<script src="https://cdnjs.cloudflare.com/ajax/libs/sticky-kit/1.1.3/sticky-kit.min.js" integrity="sha256-c4Rlo1ZozqTPE2RLuvbusY3+SU1pQaJC0TjuhygMipw=" crossorigin="anonymous"></script> + <!-- 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="A workspace class for gmkin — gmkinws" /> <meta property="og:description" content="Datasets, models and fits are stored in lists." /> <meta name="twitter:card" content="summary" /> + + + <!-- mathjax --> <script src='https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML'></script> @@ -53,8 +59,12 @@ <span class="icon-bar"></span> <span class="icon-bar"></span> </button> - <a class="navbar-brand" href="../index.html">gmkin</a> + <span class="navbar-brand"> + <a class="navbar-link" href="../index.html">gmkin</a> + <span class="label label-default" data-toggle="tooltip" data-placement="bottom" title="Released package">0.6.8</span> + </span> </div> + <div id="navbar" class="navbar-collapse collapse"> <ul class="nav navbar-nav"> <li> @@ -79,13 +89,14 @@ </ul> </li> <li> - <a href="../news/index.html">News</a> + <a href="../news/index.html">Changelog</a> </li> </ul> <ul class="nav navbar-nav navbar-right"> </ul> + </div><!--/.nav-collapse --> </div><!--/.container --> </div><!--/.navbar --> @@ -93,15 +104,19 @@ </header> - <div class="row"> +<div class="row"> <div class="col-md-9 contents"> <div class="page-header"> <h1>A workspace class for gmkin</h1> + + <div class="hidden name"><code>gmkinws.Rd</code></div> </div> + <div class="ref-description"> <p>Datasets, models and fits are stored in lists.</p> + </div> <pre class="usage"><span class='no'>gmkinws</span></pre> @@ -146,5 +161,8 @@ by the names used in the models contained in field m</p></dd> </footer> </div> + + </body> </html> + diff --git a/docs/reference/index.html b/docs/reference/index.html index 3fd068b..1b9bd74 100644 --- a/docs/reference/index.html +++ b/docs/reference/index.html @@ -21,13 +21,19 @@ <!-- clipboard.js --> <script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/1.7.1/clipboard.min.js" integrity="sha384-cV+rhyOuRHc9Ub/91rihWcGmMmCXDeksTtCihMupQHSsi8GIIRDG0ThDc3HGQFJ3" crossorigin="anonymous"></script> +<!-- sticky kit --> +<script src="https://cdnjs.cloudflare.com/ajax/libs/sticky-kit/1.1.3/sticky-kit.min.js" integrity="sha256-c4Rlo1ZozqTPE2RLuvbusY3+SU1pQaJC0TjuhygMipw=" crossorigin="anonymous"></script> + <!-- 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="Function reference" /> + + + <!-- mathjax --> <script src='https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML'></script> @@ -50,8 +56,12 @@ <span class="icon-bar"></span> <span class="icon-bar"></span> </button> - <a class="navbar-brand" href="../index.html">gmkin</a> + <span class="navbar-brand"> + <a class="navbar-link" href="../index.html">gmkin</a> + <span class="label label-default" data-toggle="tooltip" data-placement="bottom" title="Released package">0.6.8</span> + </span> </div> + <div id="navbar" class="navbar-collapse collapse"> <ul class="nav navbar-nav"> <li> @@ -76,13 +86,14 @@ </ul> </li> <li> - <a href="../news/index.html">News</a> + <a href="../news/index.html">Changelog</a> </li> </ul> <ul class="nav navbar-nav navbar-right"> </ul> + </div><!--/.nav-collapse --> </div><!--/.container --> </div><!--/.navbar --> @@ -90,64 +101,60 @@ </header> - <div class="row"> - <div class="col-md-9"> +<div class="row"> + <div class="contents col-md-9"> <div class="page-header"> - <h1> - Reference - <small>version 0.6.8</small> - </h1> + <h1>Reference</h1> </div> - <div class="contents"> - <table class="ref-index"> - - <colgroup> - <col class="alias" /> - <col class="title" /> - </colgroup> - - <tbody> - <tr> - <th colspan="2"> - <h2 id="section-all-functions" class="hasAnchor"><a href="#section-all-functions" class="anchor"></a>All functions</h2> - <p class="section-desc"></p> - </th> - </tr> - <tr> - <!-- --> - <td> - <p><code><a href="FOCUS_2006_Z.html">FOCUS_2006_Z</a></code> </p> - </td> - <td><p>Example gmkin workspace for Dataset Z from the FOCUS Kinetics report</p></td> - </tr><tr> - <!-- --> - <td> - <p><code><a href="FOCUS_2006.html">FOCUS_2006</a></code> </p> - </td> - <td><p>Example gmkin workspace for Datasets C and D from the FOCUS Kinetics report</p></td> - </tr><tr> - <!-- --> - <td> - <p><code><a href="gmkin.html">gmkin</a></code> </p> - </td> - <td><p>Start a graphical user interface (GUI) based on the <code>gWidgetsWWW2</code> toolkit.</p></td> - </tr><tr> - <!-- --> - <td> - <p><code><a href="gmkinws.html">gmkinws</a></code> </p> - </td> - <td><p>A workspace class for gmkin</p></td> - </tr><tr> - <!-- --> - <td> - <p><code><a href="UBA_model_gallery.html">data</a></code> </p> - </td> - <td><p>A collection of some standard kinetic models</p></td> - </tr> - </tbody> - </table> - </div> + <table class="ref-index"> + + <colgroup> + + <col class="alias" /> + <col class="title" /> + </colgroup> + + <tbody> + <tr> + <th colspan="2"> + <h2 id="section-all-functions" class="hasAnchor"><a href="#section-all-functions" class="anchor"></a>All functions</h2> + <p class="section-desc"></p> + </th> + </tr> + <tr> + + <td> + <p><code><a href="FOCUS_2006.html">FOCUS_2006</a></code> </p> + </td> + <td><p>Example gmkin workspace for Datasets C and D from the FOCUS Kinetics report</p></td> + </tr><tr> + + <td> + <p><code><a href="FOCUS_2006_Z.html">FOCUS_2006_Z</a></code> </p> + </td> + <td><p>Example gmkin workspace for Dataset Z from the FOCUS Kinetics report</p></td> + </tr><tr> + + <td> + <p><code><a href="UBA_model_gallery.html">UBA_model_gallery</a></code> </p> + </td> + <td><p>A collection of some standard kinetic models</p></td> + </tr><tr> + + <td> + <p><code><a href="gmkin.html">gmkin()</a></code> </p> + </td> + <td><p>Start a graphical user interface (GUI) based on the <code>gWidgetsWWW2</code> toolkit.</p></td> + </tr><tr> + + <td> + <p><code><a href="gmkinws.html">gmkinws</a></code> </p> + </td> + <td><p>A workspace class for gmkin</p></td> + </tr> + </tbody> + </table> </div> <div class="col-md-3 hidden-xs hidden-sm" id="sidebar"> @@ -170,5 +177,8 @@ </footer> </div> + + </body> </html> + |