diff options
author | Johannes Ranke <jranke@uni-bremen.de> | 2018-06-06 02:11:57 +0200 |
---|---|---|
committer | Johannes Ranke <jranke@uni-bremen.de> | 2018-06-06 02:11:57 +0200 |
commit | 23528ad9b4f07434b3249f1e48ade1e0d07528bf (patch) | |
tree | c9814c4b8bdbdda823e0d38012bb08bbc324ea9e /docs/reference | |
parent | 16aadfc099f31741a127cf52f18253d44d88a86a (diff) |
Static documentation rebuilt by pkgdown::build_site()
Diffstat (limited to 'docs/reference')
-rw-r--r-- | docs/reference/IM1xIPC81.html | 28 | ||||
-rw-r--r-- | docs/reference/IM1xVibrio.html | 28 | ||||
-rw-r--r-- | docs/reference/XY.html | 28 | ||||
-rw-r--r-- | docs/reference/antifoul.html | 30 | ||||
-rw-r--r-- | docs/reference/checkcontrols.html | 30 | ||||
-rw-r--r-- | docs/reference/checkexperiment.html | 30 | ||||
-rw-r--r-- | docs/reference/checksubstance.html | 30 | ||||
-rw-r--r-- | docs/reference/drcfit.html | 34 | ||||
-rw-r--r-- | docs/reference/drdata.html | 97 | ||||
-rw-r--r-- | docs/reference/drfit-package-1.png | bin | 60443 -> 64002 bytes | |||
-rw-r--r-- | docs/reference/drfit-package.html | 34 | ||||
-rw-r--r-- | docs/reference/drfit.html | 34 | ||||
-rw-r--r-- | docs/reference/drplot-1.png | bin | 0 -> 28404 bytes | |||
-rw-r--r-- | docs/reference/drplot-2.png | bin | 0 -> 26761 bytes | |||
-rw-r--r-- | docs/reference/drplot.html | 34 | ||||
-rw-r--r-- | docs/reference/index.html | 224 | ||||
-rw-r--r-- | docs/reference/linlogitf.html | 30 | ||||
-rw-r--r-- | docs/reference/pyrithione.html | 28 |
18 files changed, 474 insertions, 245 deletions
diff --git a/docs/reference/IM1xIPC81.html b/docs/reference/IM1xIPC81.html index 2800440..d14afca 100644 --- a/docs/reference/IM1xIPC81.html +++ b/docs/reference/IM1xIPC81.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="Dose-Response data for 1-methyl-3-alkylimidazolium tetrafluoroborates in IPC-81 cells — IM1xIPC81" /> <meta property="og:description" content="This is the raw data documenting the influence of the alkyl @@ -40,6 +43,9 @@ This is a subset (only the BF4 anion) of the data shown in Figure 3 in Ranke et al. (2004)." /> <meta name="twitter:card" content="summary" /> + + + <!-- mathjax --> <script src='https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML'></script> @@ -62,8 +68,12 @@ <span class="icon-bar"></span> <span class="icon-bar"></span> </button> - <a class="navbar-brand" href="../index.html">drfit</a> + <span class="navbar-brand"> + <a class="navbar-link" href="../index.html">drfit</a> + <span class="label label-default" data-toggle="tooltip" data-placement="bottom" title="Released package">0.7.1</span> + </span> </div> + <div id="navbar" class="navbar-collapse collapse"> <ul class="nav navbar-nav"> <li> @@ -80,6 +90,7 @@ <ul class="nav navbar-nav navbar-right"> </ul> + </div><!--/.nav-collapse --> </div><!--/.container --> </div><!--/.navbar --> @@ -87,12 +98,15 @@ </header> - <div class="row"> +<div class="row"> <div class="col-md-9 contents"> <div class="page-header"> <h1>Dose-Response data for 1-methyl-3-alkylimidazolium tetrafluoroborates in IPC-81 cells</h1> + + <div class="hidden name"><code>IM1xIPC81.Rd</code></div> </div> + <div class="ref-description"> <p>This is the raw data documenting the influence of the alkyl chain length in 3 position on the toxicity to the @@ -105,6 +119,7 @@ This is a subset (only the BF4 anion) of the data shown in Figure 3 in Ranke et al. (2004).</p> + </div> <pre class="usage"><span class='fu'>data</span>(<span class='no'>IM1xIPC81</span>)</pre> @@ -214,5 +229,8 @@ </footer> </div> + + </body> </html> + diff --git a/docs/reference/IM1xVibrio.html b/docs/reference/IM1xVibrio.html index 22ab40e..594efe1 100644 --- a/docs/reference/IM1xVibrio.html +++ b/docs/reference/IM1xVibrio.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="Dose-Response data for 1-methyl-3-alkylimidazolium tetrafluoroborates in V. fischeri — IM1xVibrio" /> <meta property="og:description" content="This is the raw data documenting the influence of the alkyl chain length in 3 @@ -37,6 +40,9 @@ IM14 BF4 means 1-methyl-3-butylimidazolium tetrafluoroborate and IM1-10 BF4 means 1-methyl-3-decylimidazolium tetrafluoroborate." /> <meta name="twitter:card" content="summary" /> + + + <!-- mathjax --> <script src='https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML'></script> @@ -59,8 +65,12 @@ <span class="icon-bar"></span> <span class="icon-bar"></span> </button> - <a class="navbar-brand" href="../index.html">drfit</a> + <span class="navbar-brand"> + <a class="navbar-link" href="../index.html">drfit</a> + <span class="label label-default" data-toggle="tooltip" data-placement="bottom" title="Released package">0.7.1</span> + </span> </div> + <div id="navbar" class="navbar-collapse collapse"> <ul class="nav navbar-nav"> <li> @@ -77,6 +87,7 @@ <ul class="nav navbar-nav navbar-right"> </ul> + </div><!--/.nav-collapse --> </div><!--/.container --> </div><!--/.navbar --> @@ -84,12 +95,15 @@ </header> - <div class="row"> +<div class="row"> <div class="col-md-9 contents"> <div class="page-header"> <h1>Dose-Response data for 1-methyl-3-alkylimidazolium tetrafluoroborates in V. fischeri</h1> + + <div class="hidden name"><code>IM1xVibrio.Rd</code></div> </div> + <div class="ref-description"> <p>This is the raw data documenting the influence of the alkyl chain length in 3 position on the toxicity to the marine luminescent bacteria <em>V. @@ -99,6 +113,7 @@ IM14 BF4 means 1-methyl-3-butylimidazolium tetrafluoroborate and IM1-10 BF4 means 1-methyl-3-decylimidazolium tetrafluoroborate.</p> + </div> <pre class="usage"><span class='fu'>data</span>(<span class='no'>IM1xVibrio</span>)</pre> @@ -248,5 +263,8 @@ </footer> </div> + + </body> </html> + diff --git a/docs/reference/XY.html b/docs/reference/XY.html index 47ef324..2af3026 100644 --- a/docs/reference/XY.html +++ b/docs/reference/XY.html @@ -21,17 +21,23 @@ <!-- 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="Dose-Response data for two substances X and Y — XY" /> <meta property="og:description" content="This is just a sample Lemna growth rate data set for two substances arbitrarily named X and Y." /> <meta name="twitter:card" content="summary" /> + + + <!-- mathjax --> <script src='https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML'></script> @@ -54,8 +60,12 @@ <span class="icon-bar"></span> <span class="icon-bar"></span> </button> - <a class="navbar-brand" href="../index.html">drfit</a> + <span class="navbar-brand"> + <a class="navbar-link" href="../index.html">drfit</a> + <span class="label label-default" data-toggle="tooltip" data-placement="bottom" title="Released package">0.7.1</span> + </span> </div> + <div id="navbar" class="navbar-collapse collapse"> <ul class="nav navbar-nav"> <li> @@ -72,6 +82,7 @@ <ul class="nav navbar-nav navbar-right"> </ul> + </div><!--/.nav-collapse --> </div><!--/.container --> </div><!--/.navbar --> @@ -79,16 +90,20 @@ </header> - <div class="row"> +<div class="row"> <div class="col-md-9 contents"> <div class="page-header"> <h1>Dose-Response data for two substances X and Y</h1> + + <div class="hidden name"><code>XY.Rd</code></div> </div> + <div class="ref-description"> <p>This is just a sample Lemna growth rate data set for two substances arbitrarily named X and Y.</p> + </div> <pre class="usage"><span class='fu'>data</span>(<span class='no'>XY</span>)</pre> @@ -133,5 +148,8 @@ </footer> </div> + + </body> </html> + diff --git a/docs/reference/antifoul.html b/docs/reference/antifoul.html index 8dd00c9..d166ebd 100644 --- a/docs/reference/antifoul.html +++ b/docs/reference/antifoul.html @@ -21,19 +21,25 @@ <!-- 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="Dose-Response data for TBT and Zink Pyrithione in IPC-81 cells — antifoul" /> <meta property="og:description" content="This data set shows the response of the rat leukaemic cell line IPC-81 to dilution series of tributyltin chloride (TBT) and Zink Pyrithione as retrieved - from the "cytotox" database of the UFT Department of Bioorganic Chemistry on + from the "cytotox" database of the UFT Department of Bioorganic Chemistry on February 25, 2004" /> <meta name="twitter:card" content="summary" /> + + + <!-- mathjax --> <script src='https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML'></script> @@ -56,8 +62,12 @@ <span class="icon-bar"></span> <span class="icon-bar"></span> </button> - <a class="navbar-brand" href="../index.html">drfit</a> + <span class="navbar-brand"> + <a class="navbar-link" href="../index.html">drfit</a> + <span class="label label-default" data-toggle="tooltip" data-placement="bottom" title="Released package">0.7.1</span> + </span> </div> + <div id="navbar" class="navbar-collapse collapse"> <ul class="nav navbar-nav"> <li> @@ -74,6 +84,7 @@ <ul class="nav navbar-nav navbar-right"> </ul> + </div><!--/.nav-collapse --> </div><!--/.container --> </div><!--/.navbar --> @@ -81,18 +92,22 @@ </header> - <div class="row"> +<div class="row"> <div class="col-md-9 contents"> <div class="page-header"> <h1>Dose-Response data for TBT and Zink Pyrithione in IPC-81 cells</h1> + + <div class="hidden name"><code>antifoul.Rd</code></div> </div> + <div class="ref-description"> <p>This data set shows the response of the rat leukaemic cell line IPC-81 to dilution series of tributyltin chloride (TBT) and Zink Pyrithione as retrieved from the "cytotox" database of the UFT Department of Bioorganic Chemistry on February 25, 2004</p> + </div> <pre class="usage"><span class='fu'>data</span>(<span class='no'>antifoul</span>)</pre> @@ -199,5 +214,8 @@ </footer> </div> + + </body> </html> + diff --git a/docs/reference/checkcontrols.html b/docs/reference/checkcontrols.html index 2ab3e4d..d3e4314 100644 --- a/docs/reference/checkcontrols.html +++ b/docs/reference/checkcontrols.html @@ -21,17 +21,23 @@ <!-- 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="Check raw data from range of plates or experiments — checkcontrols" /> <meta property="og:description" content="Report control data from a specified range of microtiter plates or experiments from a specified database." /> <meta name="twitter:card" content="summary" /> + + + <!-- mathjax --> <script src='https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML'></script> @@ -54,8 +60,12 @@ <span class="icon-bar"></span> <span class="icon-bar"></span> </button> - <a class="navbar-brand" href="../index.html">drfit</a> + <span class="navbar-brand"> + <a class="navbar-link" href="../index.html">drfit</a> + <span class="label label-default" data-toggle="tooltip" data-placement="bottom" title="Released package">0.7.1</span> + </span> </div> + <div id="navbar" class="navbar-collapse collapse"> <ul class="nav navbar-nav"> <li> @@ -72,6 +82,7 @@ <ul class="nav navbar-nav navbar-right"> </ul> + </div><!--/.nav-collapse --> </div><!--/.container --> </div><!--/.navbar --> @@ -79,23 +90,27 @@ </header> - <div class="row"> +<div class="row"> <div class="col-md-9 contents"> <div class="page-header"> <h1>Check raw data from range of plates or experiments</h1> + + <div class="hidden name"><code>checkcontrols.Rd</code></div> </div> + <div class="ref-description"> <p>Report control data from a specified range of microtiter plates or experiments from a specified database.</p> + </div> <pre class="usage"><span class='fu'>checkcontrols</span>(<span class='kw'>last</span> <span class='kw'>=</span> <span class='fl'>10</span>, <span class='kw'>id</span> <span class='kw'>=</span> <span class='kw'>NULL</span>, <span class='kw'>db</span> <span class='kw'>=</span> <span class='st'>"cytotox"</span>, <span class='kw'>celltype</span> <span class='kw'>=</span> <span class='st'>"IPC-81"</span>, <span class='kw'>enzymetype</span> <span class='kw'>=</span> <span class='st'>"AChE"</span>, <span class='kw'>organism</span> <span class='kw'>=</span> <span class='st'>"Vibrio fischeri"</span>, <span class='kw'>endpoint</span> <span class='kw'>=</span> <span class='st'>"%"</span>, <span class='kw'>qcc</span> <span class='kw'>=</span> <span class='fu'>c</span>(<span class='st'>"R"</span>, <span class='st'>"xbar"</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> @@ -182,5 +197,8 @@ </footer> </div> + + </body> </html> + diff --git a/docs/reference/checkexperiment.html b/docs/reference/checkexperiment.html index 3ec5a09..0712cd4 100644 --- a/docs/reference/checkexperiment.html +++ b/docs/reference/checkexperiment.html @@ -21,17 +21,23 @@ <!-- 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="Check raw data from a specified experiment or microtiter plate — checkexperiment" /> <meta property="og:description" content="Report metadata from a specified experiment or microtiter plate from a specified database, box plot controls, and plot the dose-response data." /> <meta name="twitter:card" content="summary" /> + + + <!-- mathjax --> <script src='https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML'></script> @@ -54,8 +60,12 @@ <span class="icon-bar"></span> <span class="icon-bar"></span> </button> - <a class="navbar-brand" href="../index.html">drfit</a> + <span class="navbar-brand"> + <a class="navbar-link" href="../index.html">drfit</a> + <span class="label label-default" data-toggle="tooltip" data-placement="bottom" title="Released package">0.7.1</span> + </span> </div> + <div id="navbar" class="navbar-collapse collapse"> <ul class="nav navbar-nav"> <li> @@ -72,6 +82,7 @@ <ul class="nav navbar-nav navbar-right"> </ul> + </div><!--/.nav-collapse --> </div><!--/.container --> </div><!--/.navbar --> @@ -79,21 +90,25 @@ </header> - <div class="row"> +<div class="row"> <div class="col-md-9 contents"> <div class="page-header"> <h1>Check raw data from a specified experiment or microtiter plate</h1> + + <div class="hidden name"><code>checkexperiment.Rd</code></div> </div> + <div class="ref-description"> <p>Report metadata from a specified experiment or microtiter plate from a specified database, box plot controls, and plot the dose-response data.</p> + </div> <pre class="usage"><span class='fu'>checkplate</span>(<span class='no'>id</span>, <span class='kw'>db</span> <span class='kw'>=</span> <span class='st'>"cytotox"</span>) <span class='fu'>checkexperiment</span>(<span class='no'>id</span>, <span class='kw'>db</span> <span class='kw'>=</span> <span class='st'>"ecotox"</span>, <span class='kw'>endpoint</span> <span class='kw'>=</span> <span class='st'>"%"</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> @@ -155,5 +170,8 @@ </footer> </div> + + </body> </html> + diff --git a/docs/reference/checksubstance.html b/docs/reference/checksubstance.html index 184a757..3f07df2 100644 --- a/docs/reference/checksubstance.html +++ b/docs/reference/checksubstance.html @@ -21,17 +21,23 @@ <!-- 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="Check raw data for a specified substance — checksubstance" /> <meta property="og:description" content="Report metadata for a specified substance from a specified database, and plot the data." /> <meta name="twitter:card" content="summary" /> + + + <!-- mathjax --> <script src='https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML'></script> @@ -54,8 +60,12 @@ <span class="icon-bar"></span> <span class="icon-bar"></span> </button> - <a class="navbar-brand" href="../index.html">drfit</a> + <span class="navbar-brand"> + <a class="navbar-link" href="../index.html">drfit</a> + <span class="label label-default" data-toggle="tooltip" data-placement="bottom" title="Released package">0.7.1</span> + </span> </div> + <div id="navbar" class="navbar-collapse collapse"> <ul class="nav navbar-nav"> <li> @@ -72,6 +82,7 @@ <ul class="nav navbar-nav navbar-right"> </ul> + </div><!--/.nav-collapse --> </div><!--/.container --> </div><!--/.navbar --> @@ -79,23 +90,27 @@ </header> - <div class="row"> +<div class="row"> <div class="col-md-9 contents"> <div class="page-header"> <h1>Check raw data for a specified substance</h1> + + <div class="hidden name"><code>checksubstance.Rd</code></div> </div> + <div class="ref-description"> <p>Report metadata for a specified substance from a specified database, and plot the data.</p> + </div> <pre class="usage"><span class='fu'>checksubstance</span>(<span class='no'>substance</span>, <span class='kw'>db</span> <span class='kw'>=</span> <span class='st'>"cytotox"</span>, <span class='kw'>experimentator</span> <span class='kw'>=</span> <span class='st'>"%"</span>, <span class='kw'>celltype</span> <span class='kw'>=</span> <span class='st'>"%"</span>, <span class='kw'>enzymetype</span> <span class='kw'>=</span> <span class='st'>"%"</span>, <span class='kw'>organism</span> <span class='kw'>=</span> <span class='st'>"%"</span>, <span class='kw'>endpoint</span> <span class='kw'>=</span> <span class='st'>"%"</span>, <span class='kw'>whereClause</span> <span class='kw'>=</span> <span class='st'>"1"</span>, <span class='kw'>ok</span> <span class='kw'>=</span> <span class='st'>"%"</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> @@ -189,5 +204,8 @@ </footer> </div> + + </body> </html> + diff --git a/docs/reference/drcfit.html b/docs/reference/drcfit.html index b208f4b..d08b4b0 100644 --- a/docs/reference/drcfit.html +++ b/docs/reference/drcfit.html @@ -21,17 +21,23 @@ <!-- 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="Fit dose-response models using the drc package — drcfit" /> <meta property="og:description" content="Fit dose-response relationships to dose-response data and calculate biometric results for (eco)toxicity evaluation using the drc package" /> <meta name="twitter:card" content="summary" /> + + + <!-- mathjax --> <script src='https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML'></script> @@ -54,8 +60,12 @@ <span class="icon-bar"></span> <span class="icon-bar"></span> </button> - <a class="navbar-brand" href="../index.html">drfit</a> + <span class="navbar-brand"> + <a class="navbar-link" href="../index.html">drfit</a> + <span class="label label-default" data-toggle="tooltip" data-placement="bottom" title="Released package">0.7.1</span> + </span> </div> + <div id="navbar" class="navbar-collapse collapse"> <ul class="nav navbar-nav"> <li> @@ -72,6 +82,7 @@ <ul class="nav navbar-nav navbar-right"> </ul> + </div><!--/.nav-collapse --> </div><!--/.container --> </div><!--/.navbar --> @@ -79,22 +90,26 @@ </header> - <div class="row"> +<div class="row"> <div class="col-md-9 contents"> <div class="page-header"> <h1>Fit dose-response models using the drc package</h1> + + <div class="hidden name"><code>drcfit.Rd</code></div> </div> + <div class="ref-description"> <p>Fit dose-response relationships to dose-response data and calculate biometric results for (eco)toxicity evaluation using the drc package</p> + </div> <pre class="usage"><span class='fu'>drcfit</span>(<span class='no'>data</span>, <span class='kw'>chooseone</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>, <span class='kw'>probit</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>, <span class='kw'>logit</span> <span class='kw'>=</span> <span class='fl'>FALSE</span>, <span class='kw'>weibull</span> <span class='kw'>=</span> <span class='fl'>FALSE</span>, <span class='kw'>linlogit</span> <span class='kw'>=</span> <span class='fl'>FALSE</span>, <span class='kw'>level</span> <span class='kw'>=</span> <span class='fl'>0.95</span>, <span class='kw'>showED50</span> <span class='kw'>=</span> <span class='fl'>FALSE</span>, <span class='kw'>EDx</span> <span class='kw'>=</span> <span class='kw'>NULL</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> @@ -215,9 +230,9 @@ <h2 class="hasAnchor" id="see-also"><a class="anchor" href="#see-also"></a>See also</h2> - <p>Further examples are given in help pages to the datasets + <div class='dont-index'><p>Further examples are given in help pages to the datasets <code>antifoul</code>, <code>IM1xIPC81</code> and - <code>IM1xVibrio</code>.</p> + <code>IM1xVibrio</code>.</p></div> <h2 class="hasAnchor" id="examples"><a class="anchor" href="#examples"></a>Examples</h2> @@ -270,5 +285,8 @@ </footer> </div> + + </body> </html> + diff --git a/docs/reference/drdata.html b/docs/reference/drdata.html index 6387e76..fc962be 100644 --- a/docs/reference/drdata.html +++ b/docs/reference/drdata.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="Get dose-response data via RODBC — drdata" /> <meta property="og:description" content="Get dose-response data from an adequate ODBC data source" /> <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">drfit</a> + <span class="navbar-brand"> + <a class="navbar-link" href="../index.html">drfit</a> + <span class="label label-default" data-toggle="tooltip" data-placement="bottom" title="Released package">0.7.1</span> + </span> </div> + <div id="navbar" class="navbar-collapse collapse"> <ul class="nav navbar-nav"> <li> @@ -71,6 +81,7 @@ <ul class="nav navbar-nav navbar-right"> </ul> + </div><!--/.nav-collapse --> </div><!--/.container --> </div><!--/.navbar --> @@ -78,21 +89,25 @@ </header> - <div class="row"> +<div class="row"> <div class="col-md-9 contents"> <div class="page-header"> <h1>Get dose-response data via RODBC</h1> + + <div class="hidden name"><code>drdata.Rd</code></div> </div> + <div class="ref-description"> <p>Get dose-response data from an adequate ODBC data source</p> + </div> <pre class="usage"><span class='fu'>drdata</span>(<span class='no'>substances</span>, <span class='kw'>experimentator</span> <span class='kw'>=</span> <span class='st'>"%"</span>, <span class='kw'>db</span> <span class='kw'>=</span> <span class='st'>"cytotox"</span>, <span class='kw'>celltype</span> <span class='kw'>=</span> <span class='st'>"IPC-81"</span>, <span class='kw'>enzymetype</span><span class='kw'>=</span><span class='st'>"AChE"</span>, <span class='kw'>organism</span><span class='kw'>=</span><span class='st'>"Vibrio fischeri"</span>, <span class='kw'>endpoint</span><span class='kw'>=</span><span class='st'>"Luminescence"</span>, <span class='kw'>whereClause</span> <span class='kw'>=</span> <span class='st'>"1"</span>, <span class='kw'>ok</span> <span class='kw'>=</span> <span class='st'>"'ok','no fit'"</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> @@ -165,55 +180,24 @@ myODBC. Then, under Unix, you can use iodbc or unixodbc for setting up the respective data source with data source name (DSN) "cytotox". For my setting using unixodbc, I am using the file <code class="file">/etc/odbcinst.ini</code> - containing:</p><table><tr><td> - [MySQL] </td> -<td> </td> -<td> </td> -</tr><tr><td> - Description </td> -<td> = </td> -<td> MySQL driver for ODBC </td> -</tr><tr><td> - Driver </td> -<td> = </td> -<td> /usr/local/lib/libmyodbc.so </td> -</tr><tr><td> - Setup </td> -<td> = </td> -<td> /usr/lib/odbc/libodbcmyS.so </td> -</tr></table><p>and the file <code class="file">/etc/odbc.ini</code> containing:</p><table><tr><td> - [cytotox] </td> -<td> </td> -<td> </td> -</tr><tr><td> - Description </td> -<td> = </td> -<td> Cytotoxicity database of the department of bioorganic chemistry, UFT Bremen </td> -</tr><tr><td> - Driver </td> -<td> = </td> -<td> MySQL </td> -</tr><tr><td> - Trace </td> -<td> = </td> -<td> Yes </td> -</tr><tr><td> - TraceFile </td> -<td> = </td> -<td> /tmp/odbc.log </td> -</tr><tr><td> - Database </td> -<td> = </td> -<td> cytotox </td> -</tr><tr><td> - Server </td> -<td> = </td> -<td> eckehaat </td> -</tr><tr><td> - Port </td> -<td> = </td> -<td> 3306 </td> -</tr></table> + containing:</p><table class='table'> +<tr><td>[MySQL]</td><td></td><td></td></tr> +<tr><td>Description</td><td>=</td><td>MySQL driver for ODBC</td></tr> +<tr><td>Driver</td><td>=</td><td>/usr/local/lib/libmyodbc.so</td></tr> +<tr><td>Setup</td><td>=</td><td>/usr/lib/odbc/libodbcmyS.so</td></tr> +<tr><td></td><td>[MySQL]</td><td></td></tr> +</table> +<p>and the file <code class="file">/etc/odbc.ini</code> containing:</p><table class='table'> +<tr><td>[cytotox]</td><td></td><td></td></tr> +<tr><td>Description</td><td>=</td><td>Cytotoxicity database of the department of bioorganic chemistry, UFT Bremen</td></tr> +<tr><td>Driver</td><td>=</td><td>MySQL</td></tr> +<tr><td>Trace</td><td>=</td><td>Yes</td></tr> +<tr><td>TraceFile</td><td>=</td><td>/tmp/odbc.log</td></tr> +<tr><td>Database</td><td>=</td><td>cytotox</td></tr> +<tr><td>Server</td><td>=</td><td>eckehaat</td></tr> +<tr><td>Port</td><td>=</td><td>3306</td></tr> +<tr><td></td><td>[cytotox]</td><td></td></tr> +</table> <h2 class="hasAnchor" id="examples"><a class="anchor" href="#examples"></a>Examples</h2> @@ -256,5 +240,8 @@ </footer> </div> + + </body> </html> + diff --git a/docs/reference/drfit-package-1.png b/docs/reference/drfit-package-1.png Binary files differindex 64d831f..62e80fb 100644 --- a/docs/reference/drfit-package-1.png +++ b/docs/reference/drfit-package-1.png diff --git a/docs/reference/drfit-package.html b/docs/reference/drfit-package.html index 1ce4fed..d2aa326 100644 --- a/docs/reference/drfit-package.html +++ b/docs/reference/drfit-package.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="Dose-response data evaluation — drfit-package" /> <meta property="og:description" content="See ../DESCRIPTION" /> <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">drfit</a> + <span class="navbar-brand"> + <a class="navbar-link" href="../index.html">drfit</a> + <span class="label label-default" data-toggle="tooltip" data-placement="bottom" title="Released package">0.7.1</span> + </span> </div> + <div id="navbar" class="navbar-collapse collapse"> <ul class="nav navbar-nav"> <li> @@ -71,6 +81,7 @@ <ul class="nav navbar-nav navbar-right"> </ul> + </div><!--/.nav-collapse --> </div><!--/.container --> </div><!--/.navbar --> @@ -78,15 +89,19 @@ </header> - <div class="row"> +<div class="row"> <div class="col-md-9 contents"> <div class="page-header"> <h1>Dose-response data evaluation</h1> + + <div class="hidden name"><code>drfit-package.Rd</code></div> </div> + <div class="ref-description"> <p>See <a href='../DESCRIPTION'>../DESCRIPTION</a></p> + </div> <h2 class="hasAnchor" id="details"><a class="anchor" href="#details"></a>Details</h2> @@ -102,9 +117,9 @@ of R for chemists.</p> <h2 class="hasAnchor" id="see-also"><a class="anchor" href="#see-also"></a>See also</h2> - <p>On CRAN, there is another, more statistically sophisticated package with + <div class='dont-index'><p>On CRAN, there is another, more statistically sophisticated package with similar functionality called <code>drc</code>. I think the advantage of my package -is its user-friendliness.</p> +is its user-friendliness.</p></div> <h2 class="hasAnchor" id="examples"><a class="anchor" href="#examples"></a>Examples</h2> @@ -116,7 +131,7 @@ is its user-friendliness.</p> #> 2 Zn Pyrithion 27 81 -2.1 2.0 probit -0.40 -0.51 -0.292 microM 0.23 -0.40 #> b #> 1 0.68 -#> 2 0.42</div><div class='input'><span class='fu'>drplot</span>(<span class='no'>r</span>,<span class='no'>antifoul</span>,<span class='kw'>overlay</span><span class='kw'>=</span><span class='fl'>TRUE</span>,<span class='kw'>bw</span><span class='kw'>=</span><span class='fl'>FALSE</span>)</div><div class='img'><img src='drfit-package-1.png' alt='' width='700' height='432.632880098887' /></div></pre> +#> 2 0.42</div><div class='input'><span class='fu'>drplot</span>(<span class='no'>r</span>,<span class='no'>antifoul</span>,<span class='kw'>overlay</span><span class='kw'>=</span><span class='fl'>TRUE</span>,<span class='kw'>bw</span><span class='kw'>=</span><span class='fl'>FALSE</span>)</div><div class='img'><img src='drfit-package-1.png' alt='' width='700' height='433' /></div></pre> </div> <div class="col-md-3 hidden-xs hidden-sm" id="sidebar"> <h2>Contents</h2> @@ -150,5 +165,8 @@ Author and Maintainer: Johannes Ranke <jranke@uni-bremen.de> </footer> </div> + + </body> </html> + diff --git a/docs/reference/drfit.html b/docs/reference/drfit.html index 4430a5b..4aa7935 100644 --- a/docs/reference/drfit.html +++ b/docs/reference/drfit.html @@ -21,17 +21,23 @@ <!-- 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="Fit dose-response models — drfit" /> <meta property="og:description" content="Fit dose-response relationships to dose-response data and calculate biometric results for (eco)toxicity evaluation" /> <meta name="twitter:card" content="summary" /> + + + <!-- mathjax --> <script src='https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML'></script> @@ -54,8 +60,12 @@ <span class="icon-bar"></span> <span class="icon-bar"></span> </button> - <a class="navbar-brand" href="../index.html">drfit</a> + <span class="navbar-brand"> + <a class="navbar-link" href="../index.html">drfit</a> + <span class="label label-default" data-toggle="tooltip" data-placement="bottom" title="Released package">0.7.1</span> + </span> </div> + <div id="navbar" class="navbar-collapse collapse"> <ul class="nav navbar-nav"> <li> @@ -72,6 +82,7 @@ <ul class="nav navbar-nav navbar-right"> </ul> + </div><!--/.nav-collapse --> </div><!--/.container --> </div><!--/.navbar --> @@ -79,16 +90,20 @@ </header> - <div class="row"> +<div class="row"> <div class="col-md-9 contents"> <div class="page-header"> <h1>Fit dose-response models</h1> + + <div class="hidden name"><code>drfit.Rd</code></div> </div> + <div class="ref-description"> <p>Fit dose-response relationships to dose-response data and calculate biometric results for (eco)toxicity evaluation</p> + </div> <pre class="usage"><span class='fu'>drfit</span>(<span class='no'>data</span>, <span class='kw'>startlogED50</span> <span class='kw'>=</span> <span class='fl'>NA</span>, <span class='kw'>chooseone</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>, <span class='kw'>probit</span> <span class='kw'>=</span> <span class='fl'>TRUE</span>, <span class='kw'>logit</span> <span class='kw'>=</span> <span class='fl'>FALSE</span>, <span class='kw'>weibull</span> <span class='kw'>=</span> <span class='fl'>FALSE</span>, <span class='kw'>linlogit</span> <span class='kw'>=</span> <span class='fl'>FALSE</span>, <span class='kw'>level</span> <span class='kw'>=</span> <span class='fl'>0.95</span>, <span class='kw'>linlogitWrong</span> <span class='kw'>=</span> <span class='fl'>NA</span>, @@ -96,7 +111,7 @@ <span class='kw'>showED50</span> <span class='kw'>=</span> <span class='fl'>FALSE</span>, <span class='kw'>EDx</span> <span class='kw'>=</span> <span class='kw'>NULL</span>, <span class='kw'>EDx.tolerance</span> <span class='kw'>=</span> <span class='fl'>1e-4</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> @@ -255,12 +270,12 @@ <h2 class="hasAnchor" id="see-also"><a class="anchor" href="#see-also"></a>See also</h2> - <p>Further examples are given in help pages to the datasets + <div class='dont-index'><p>Further examples are given in help pages to the datasets <code>antifoul</code>, <code>IM1xIPC81</code> and <code>IM1xVibrio</code>. Since version 0.6.1 of this package, there is a drop-in replacement function <code>drcfit</code> which internally uses the drc package and also gives - confidence intervals for EDx values via this package.</p> + confidence intervals for EDx values via this package.</p></div> <h2 class="hasAnchor" id="examples"><a class="anchor" href="#examples"></a>Examples</h2> @@ -309,5 +324,8 @@ </footer> </div> + + </body> </html> + diff --git a/docs/reference/drplot-1.png b/docs/reference/drplot-1.png Binary files differnew file mode 100644 index 0000000..bcddcd1 --- /dev/null +++ b/docs/reference/drplot-1.png diff --git a/docs/reference/drplot-2.png b/docs/reference/drplot-2.png Binary files differnew file mode 100644 index 0000000..75a75af --- /dev/null +++ b/docs/reference/drplot-2.png diff --git a/docs/reference/drplot.html b/docs/reference/drplot.html index b64d4e5..e5cbb22 100644 --- a/docs/reference/drplot.html +++ b/docs/reference/drplot.html @@ -21,17 +21,23 @@ <!-- 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="Plot dose-response models — drplot" /> <meta property="og:description" content="Produce graphics of dose-response data and dose-response relationships either combined or separately, for one or more substances." /> <meta name="twitter:card" content="summary" /> + + + <!-- mathjax --> <script src='https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML'></script> @@ -54,8 +60,12 @@ <span class="icon-bar"></span> <span class="icon-bar"></span> </button> - <a class="navbar-brand" href="../index.html">drfit</a> + <span class="navbar-brand"> + <a class="navbar-link" href="../index.html">drfit</a> + <span class="label label-default" data-toggle="tooltip" data-placement="bottom" title="Released package">0.7.1</span> + </span> </div> + <div id="navbar" class="navbar-collapse collapse"> <ul class="nav navbar-nav"> <li> @@ -72,6 +82,7 @@ <ul class="nav navbar-nav navbar-right"> </ul> + </div><!--/.nav-collapse --> </div><!--/.container --> </div><!--/.navbar --> @@ -79,22 +90,26 @@ </header> - <div class="row"> +<div class="row"> <div class="col-md-9 contents"> <div class="page-header"> <h1>Plot dose-response models</h1> + + <div class="hidden name"><code>drplot.Rd</code></div> </div> + <div class="ref-description"> <p>Produce graphics of dose-response data and dose-response relationships either combined or separately, for one or more substances.</p> + </div> <pre class="usage"><span class='fu'>drplot</span>(<span class='no'>drresults</span>, <span class='no'>data</span>, <span class='no'>dtype</span>, <span class='no'>alpha</span>, <span class='no'>ctype</span>, <span class='no'>path</span>, <span class='no'>fileprefix</span>, <span class='no'>overlay</span>, <span class='no'>xlim</span>, <span class='no'>ylim</span>, <span class='no'>xlab</span>, <span class='no'>ylab</span>, <span class='no'>axes</span>, <span class='no'>frame.plot</span>, <span class='no'>postscript</span>, <span class='no'>pdf</span>, <span class='no'>png</span>, <span class='no'>bw</span>, <span class='no'>pointsize</span>, <span class='no'>colors</span>, <span class='no'>ltys</span>, <span class='no'>pchs</span>, <span class='no'>devoff</span>, <span class='no'>lpos</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> @@ -243,9 +258,7 @@ <pre class="examples"><div class='input'><span class='fu'>data</span>(<span class='no'>antifoul</span>) <span class='no'>r</span> <span class='kw'><-</span> <span class='fu'>drfit</span>(<span class='no'>antifoul</span>)</div><div class='output co'>#> <span class='message'></span> #> <span class='message'>TBT: Fitting data...</span></div><div class='output co'>#> <span class='message'>Waiting for profiling to be done...</span></div><div class='output co'>#> <span class='message'></span> -#> <span class='message'>Zn Pyrithion: Fitting data...</span></div><div class='output co'>#> <span class='message'>Waiting for profiling to be done...</span></div><span class='co'># NOT RUN {</span> -<span class='fu'>drplot</span>(<span class='no'>r</span>,<span class='no'>antifoul</span>) -<span class='co'># }</span></pre> +#> <span class='message'>Zn Pyrithion: Fitting data...</span></div><div class='output co'>#> <span class='message'>Waiting for profiling to be done...</span></div><div class='input'><span class='fu'>drplot</span>(<span class='no'>r</span>,<span class='no'>antifoul</span>)</div><div class='img'><img src='drplot-1.png' alt='' width='700' height='433' /></div><div class='img'><img src='drplot-2.png' alt='' width='700' height='433' /></div></pre> </div> <div class="col-md-3 hidden-xs hidden-sm" id="sidebar"> <h2>Contents</h2> @@ -280,5 +293,8 @@ </footer> </div> + + </body> </html> + diff --git a/docs/reference/index.html b/docs/reference/index.html index e3ecd24..2b1f884 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">drfit</a> + <span class="navbar-brand"> + <a class="navbar-link" href="../index.html">drfit</a> + <span class="label label-default" data-toggle="tooltip" data-placement="bottom" title="Released package">0.7.1</span> + </span> </div> + <div id="navbar" class="navbar-collapse collapse"> <ul class="nav navbar-nav"> <li> @@ -68,6 +78,7 @@ <ul class="nav navbar-nav navbar-right"> </ul> + </div><!--/.nav-collapse --> </div><!--/.container --> </div><!--/.navbar --> @@ -75,112 +86,108 @@ </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 0.7.1</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="antifoul.html">data</a></code> </p> - </td> - <td><p>Dose-Response data for TBT and Zink Pyrithione in IPC-81 cells</p></td> - </tr><tr> - <!-- --> - <td> - <p><code><a href="checkcontrols.html">checkcontrols</a></code> </p> - </td> - <td><p>Check raw data from range of plates or experiments</p></td> - </tr><tr> - <!-- --> - <td> - <p><code><a href="checkexperiment.html">checkplate</a></code> <code><a href="checkexperiment.html">checkexperiment</a></code> </p> - </td> - <td><p>Check raw data from a specified experiment or microtiter plate</p></td> - </tr><tr> - <!-- --> - <td> - <p><code><a href="drcfit.html">drcfit</a></code> </p> - </td> - <td><p>Fit dose-response models using the drc package</p></td> - </tr><tr> - <!-- --> - <td> - <p><code><a href="drdata.html">drdata</a></code> </p> - </td> - <td><p>Get dose-response data via RODBC</p></td> - </tr><tr> - <!-- --> - <td> - <p><code><a href="drfit-package.html">drfit-package</a></code> </p> - </td> - <td><p>Dose-response data evaluation</p></td> - </tr><tr> - <!-- --> - <td> - <p><code><a href="drfit.html">drfit</a></code> </p> - </td> - <td><p>Fit dose-response models</p></td> - </tr><tr> - <!-- --> - <td> - <p><code><a href="drplot.html">drplot</a></code> </p> - </td> - <td><p>Plot dose-response models</p></td> - </tr><tr> - <!-- --> - <td> - <p><code><a href="IM1xIPC81.html">data</a></code> </p> - </td> - <td><p>Dose-Response data for 1-methyl-3-alkylimidazolium tetrafluoroborates in IPC-81 cells</p></td> - </tr><tr> - <!-- --> - <td> - <p><code><a href="IM1xVibrio.html">data</a></code> </p> - </td> - <td><p>Dose-Response data for 1-methyl-3-alkylimidazolium tetrafluoroborates in V. fischeri</p></td> - </tr><tr> - <!-- --> - <td> - <p><code><a href="linlogitf.html">linlogitf</a></code> </p> - </td> - <td><p>Linear-logistic function</p></td> - </tr><tr> - <!-- --> - <td> - <p><code><a href="pyrithione.html">data</a></code> </p> - </td> - <td><p>Cytotoxicity data for different pyrithionates and related species</p></td> - </tr><tr> - <!-- --> - <td> - <p><code><a href="XY.html">data</a></code> </p> - </td> - <td><p>Dose-Response data for two substances X and Y</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="IM1xIPC81.html">IM1xIPC81</a></code> </p> + </td> + <td><p>Dose-Response data for 1-methyl-3-alkylimidazolium tetrafluoroborates in IPC-81 cells</p></td> + </tr><tr> + + <td> + <p><code><a href="IM1xVibrio.html">IM1xVibrio</a></code> </p> + </td> + <td><p>Dose-Response data for 1-methyl-3-alkylimidazolium tetrafluoroborates in V. fischeri</p></td> + </tr><tr> + + <td> + <p><code><a href="XY.html">XY</a></code> </p> + </td> + <td><p>Dose-Response data for two substances X and Y</p></td> + </tr><tr> + + <td> + <p><code><a href="antifoul.html">antifoul</a></code> </p> + </td> + <td><p>Dose-Response data for TBT and Zink Pyrithione in IPC-81 cells</p></td> + </tr><tr> + + <td> + <p><code><a href="checkcontrols.html">checkcontrols()</a></code> </p> + </td> + <td><p>Check raw data from range of plates or experiments</p></td> + </tr><tr> + + <td> + <p><code><a href="checkexperiment.html">checkplate()</a></code> <code><a href="checkexperiment.html">checkexperiment()</a></code> </p> + </td> + <td><p>Check raw data from a specified experiment or microtiter plate</p></td> + </tr><tr> + + <td> + <p><code><a href="drcfit.html">drcfit()</a></code> </p> + </td> + <td><p>Fit dose-response models using the drc package</p></td> + </tr><tr> + + <td> + <p><code><a href="drdata.html">drdata()</a></code> </p> + </td> + <td><p>Get dose-response data via RODBC</p></td> + </tr><tr> + + <td> + <p><code><a href="drfit-package.html">drfit-package</a></code> </p> + </td> + <td><p>Dose-response data evaluation</p></td> + </tr><tr> + + <td> + <p><code><a href="drfit.html">drfit()</a></code> </p> + </td> + <td><p>Fit dose-response models</p></td> + </tr><tr> + + <td> + <p><code><a href="drplot.html">drplot()</a></code> </p> + </td> + <td><p>Plot dose-response models</p></td> + </tr><tr> + + <td> + <p><code><a href="linlogitf.html">linlogitf()</a></code> </p> + </td> + <td><p>Linear-logistic function</p></td> + </tr><tr> + + <td> + <p><code><a href="pyrithione.html">pyrithione</a></code> </p> + </td> + <td><p>Cytotoxicity data for different pyrithionates and related species</p></td> + </tr> + </tbody> + </table> </div> <div class="col-md-3 hidden-xs hidden-sm" id="sidebar"> @@ -203,5 +210,8 @@ </footer> </div> + + </body> </html> + diff --git a/docs/reference/linlogitf.html b/docs/reference/linlogitf.html index deed92a..1dddf50 100644 --- a/docs/reference/linlogitf.html +++ b/docs/reference/linlogitf.html @@ -21,17 +21,23 @@ <!-- 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="Linear-logistic function — linlogitf" /> <meta property="og:description" content="Helper function describing a special type of dose-response curves, showing a stimulus at subtoxic doses." /> <meta name="twitter:card" content="summary" /> + + + <!-- mathjax --> <script src='https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML'></script> @@ -54,8 +60,12 @@ <span class="icon-bar"></span> <span class="icon-bar"></span> </button> - <a class="navbar-brand" href="../index.html">drfit</a> + <span class="navbar-brand"> + <a class="navbar-link" href="../index.html">drfit</a> + <span class="label label-default" data-toggle="tooltip" data-placement="bottom" title="Released package">0.7.1</span> + </span> </div> + <div id="navbar" class="navbar-collapse collapse"> <ul class="nav navbar-nav"> <li> @@ -72,6 +82,7 @@ <ul class="nav navbar-nav navbar-right"> </ul> + </div><!--/.nav-collapse --> </div><!--/.container --> </div><!--/.navbar --> @@ -79,20 +90,24 @@ </header> - <div class="row"> +<div class="row"> <div class="col-md-9 contents"> <div class="page-header"> <h1>Linear-logistic function</h1> + + <div class="hidden name"><code>linlogitf.Rd</code></div> </div> + <div class="ref-description"> <p>Helper function describing a special type of dose-response curves, showing a stimulus at subtoxic doses.</p> + </div> <pre class="usage"><span class='fu'>linlogitf</span>(<span class='no'>x</span>,<span class='no'>k</span>,<span class='no'>f</span>,<span class='no'>mu</span>,<span class='no'>b</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> @@ -159,5 +174,8 @@ </footer> </div> + + </body> </html> + diff --git a/docs/reference/pyrithione.html b/docs/reference/pyrithione.html index d7b6ced..1488ecb 100644 --- a/docs/reference/pyrithione.html +++ b/docs/reference/pyrithione.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="Cytotoxicity data for different pyrithionates and related species — pyrithione" /> <meta property="og:description" content="This data shows the cytotoxicity of pyrithione salts as well as the free pyrithione, its oxidation product and some other related compounds to the IPC-81 cell line." /> <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">drfit</a> + <span class="navbar-brand"> + <a class="navbar-link" href="../index.html">drfit</a> + <span class="label label-default" data-toggle="tooltip" data-placement="bottom" title="Released package">0.7.1</span> + </span> </div> + <div id="navbar" class="navbar-collapse collapse"> <ul class="nav navbar-nav"> <li> @@ -73,6 +83,7 @@ <ul class="nav navbar-nav navbar-right"> </ul> + </div><!--/.nav-collapse --> </div><!--/.container --> </div><!--/.navbar --> @@ -80,17 +91,21 @@ </header> - <div class="row"> +<div class="row"> <div class="col-md-9 contents"> <div class="page-header"> <h1>Cytotoxicity data for different pyrithionates and related species</h1> + + <div class="hidden name"><code>pyrithione.Rd</code></div> </div> + <div class="ref-description"> <p>This data shows the cytotoxicity of pyrithione salts as well as the free pyrithione, its oxidation product and some other related compounds to the IPC-81 cell line.</p> + </div> <pre class="usage"><span class='fu'>data</span>(<span class='no'>pyrithione</span>)</pre> @@ -138,5 +153,8 @@ </footer> </div> + + </body> </html> + |