diff options
author | Johannes Ranke <jranke@uni-bremen.de> | 2022-03-31 19:21:03 +0200 |
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committer | Johannes Ranke <jranke@uni-bremen.de> | 2022-03-31 19:59:10 +0200 |
commit | 08465d77a6ca5a9656ac86047c6008f1e7f3e9c7 (patch) | |
tree | f27a775e146748881eb6526ed57298f4bdc40c2f /docs/reference | |
parent | f4fcef8228ebd5a1a73bc6edc47b5efa259c2e20 (diff) |
Fix URLs in README, convert to roxygenv0.2.3
- The roxygen conversion was done using Rd2roxygen
- Also edit _pkgdown.yml to group the reference
- Use markdown bullet lists for lod and loq docs
Diffstat (limited to 'docs/reference')
-rw-r--r-- | docs/reference/calplot-1.png | bin | 0 -> 71932 bytes | |||
-rw-r--r-- | docs/reference/calplot.html | 154 | ||||
-rw-r--r-- | docs/reference/din32645.html | 23 | ||||
-rw-r--r-- | docs/reference/index.html | 27 | ||||
-rw-r--r-- | docs/reference/inverse.predict.html | 103 | ||||
-rw-r--r-- | docs/reference/lod.html | 101 | ||||
-rw-r--r-- | docs/reference/loq.html | 99 | ||||
-rw-r--r-- | docs/reference/massart97ex1.html | 11 | ||||
-rw-r--r-- | docs/reference/massart97ex3.html | 19 | ||||
-rw-r--r-- | docs/reference/rl95_cadmium.html | 17 | ||||
-rw-r--r-- | docs/reference/rl95_toluene.html | 18 | ||||
-rw-r--r-- | docs/reference/utstats14.html | 21 |
12 files changed, 390 insertions, 203 deletions
diff --git a/docs/reference/calplot-1.png b/docs/reference/calplot-1.png Binary files differnew file mode 100644 index 0000000..c2deae8 --- /dev/null +++ b/docs/reference/calplot-1.png diff --git a/docs/reference/calplot.html b/docs/reference/calplot.html new file mode 100644 index 0000000..88321b1 --- /dev/null +++ b/docs/reference/calplot.html @@ -0,0 +1,154 @@ +<!DOCTYPE html> +<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1.0"><title>Plot calibration graphs from univariate linear models — calplot • chemCal</title><!-- jquery --><script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.4.1/jquery.min.js" integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo=" crossorigin="anonymous"></script><!-- Bootstrap --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/css/bootstrap.min.css" integrity="sha256-bZLfwXAP04zRMK2BjiO8iu9pf4FbLqX6zitd+tIvLhE=" crossorigin="anonymous"><script src="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/js/bootstrap.min.js" integrity="sha256-nuL8/2cJ5NDSSwnKD8VqreErSWHtnEP9E7AySL+1ev4=" crossorigin="anonymous"></script><!-- bootstrap-toc --><link rel="stylesheet" href="../bootstrap-toc.css"><script src="../bootstrap-toc.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- pkgdown --><link href="../pkgdown.css" rel="stylesheet"><script src="../pkgdown.js"></script><meta property="og:title" content="Plot calibration graphs from univariate linear models — calplot"><meta property="og:description" content="Produce graphics of calibration data, the fitted model as well as +confidence, and, for unweighted regression, prediction bands."><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]> +<script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script> +<script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script> +<![endif]--></head><body data-spy="scroll" data-target="#toc"> + + + <div class="container template-reference-topic"> + <header><div class="navbar navbar-default navbar-fixed-top" role="navigation"> + <div class="container"> + <div class="navbar-header"> + <button type="button" class="navbar-toggle collapsed" data-toggle="collapse" data-target="#navbar" aria-expanded="false"> + <span class="sr-only">Toggle navigation</span> + <span class="icon-bar"></span> + <span class="icon-bar"></span> + <span class="icon-bar"></span> + </button> + <span class="navbar-brand"> + <a class="navbar-link" href="../index.html">chemCal</a> + <span class="version label label-default" data-toggle="tooltip" data-placement="bottom" title="">0.2.3</span> + </span> + </div> + + <div id="navbar" class="navbar-collapse collapse"> + <ul class="nav navbar-nav"><li> + <a href="../articles/chemCal.html">Get started</a> +</li> +<li> + <a href="../reference/index.html">Reference</a> +</li> +<li> + <a href="../news/index.html">Changelog</a> +</li> + </ul><ul class="nav navbar-nav navbar-right"><li> + <a href="https://github.com/jranke/chemCal/" class="external-link"> + <span class="fab fa-github fa-lg"></span> + + </a> +</li> + </ul></div><!--/.nav-collapse --> + </div><!--/.container --> +</div><!--/.navbar --> + + + + </header><div class="row"> + <div class="col-md-9 contents"> + <div class="page-header"> + <h1>Plot calibration graphs from univariate linear models</h1> + <small class="dont-index">Source: <a href="https://github.com/jranke/chemCal/blob/HEAD/R/calplot.R" class="external-link"><code>R/calplot.R</code></a></small> + <div class="hidden name"><code>calplot.Rd</code></div> + </div> + + <div class="ref-description"> + <p>Produce graphics of calibration data, the fitted model as well as +confidence, and, for unweighted regression, prediction bands.</p> + </div> + + <div id="ref-usage"> + <div class="sourceCode"><pre class="sourceCode r"><code><span class="fu">calplot</span><span class="op">(</span> + <span class="va">object</span>, + xlim <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"auto"</span>, <span class="st">"auto"</span><span class="op">)</span>, + ylim <span class="op">=</span> <span class="fu"><a href="https://rdrr.io/r/base/c.html" class="external-link">c</a></span><span class="op">(</span><span class="st">"auto"</span>, <span class="st">"auto"</span><span class="op">)</span>, + xlab <span class="op">=</span> <span class="st">"Concentration"</span>, + ylab <span class="op">=</span> <span class="st">"Response"</span>, + legend_x <span class="op">=</span> <span class="st">"auto"</span>, + alpha <span class="op">=</span> <span class="fl">0.05</span>, + varfunc <span class="op">=</span> <span class="cn">NULL</span> +<span class="op">)</span></code></pre></div> + </div> + + <div id="arguments"> + <h2>Arguments</h2> + <dl><dt>object</dt> +<dd><p>A univariate model object of class <code><a href="https://rdrr.io/r/stats/lm.html" class="external-link">lm</a></code> or +<code><a href="https://rdrr.io/pkg/MASS/man/rlm.html" class="external-link">rlm</a></code> with model formula <code>y ~ x</code> or <code>y ~ x - +1</code>.</p></dd> +<dt>xlim</dt> +<dd><p>The limits of the plot on the x axis.</p></dd> +<dt>ylim</dt> +<dd><p>The limits of the plot on the y axis.</p></dd> +<dt>xlab</dt> +<dd><p>The label of the x axis.</p></dd> +<dt>ylab</dt> +<dd><p>The label of the y axis.</p></dd> +<dt>legend_x</dt> +<dd><p>An optional numeric value for adjusting the x coordinate of +the legend.</p></dd> +<dt>alpha</dt> +<dd><p>The error tolerance level for the confidence and prediction +bands. Note that this includes both tails of the Gaussian distribution, +unlike the alpha and beta parameters used in <code><a href="lod.html">lod</a></code> (see note +below).</p></dd> +<dt>varfunc</dt> +<dd><p>The variance function for generating the weights in the +model. Currently, this argument is ignored (see note below).</p></dd> +</dl></div> + <div id="value"> + <h2>Value</h2> + <p>A plot of the calibration data, of your fitted model as well as +lines showing the confidence limits. Prediction limits are only shown for +models from unweighted regression.</p> + </div> + <div id="note"> + <h2>Note</h2> + <p>Prediction bands for models from weighted linear regression require +weights for the data, for which responses should be predicted. Prediction +intervals using weights e.g. from a variance function are currently not +supported by the internally used function <code><a href="https://rdrr.io/r/stats/predict.lm.html" class="external-link">predict.lm</a></code>, +therefore, <code>calplot</code> does not draw prediction bands for such models.</p> +<p>It is possible to compare the <code>calplot</code> prediction bands with +the <code><a href="lod.html">lod</a></code> values if the <code><a href="lod.html">lod()</a></code> alpha and beta parameters +are half the value of the <code>calplot()</code> alpha parameter.</p> + </div> + <div id="author"> + <h2>Author</h2> + <p>Johannes Ranke</p> + </div> + + <div id="ref-examples"> + <h2>Examples</h2> + <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"></span> +<span class="r-in"><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">massart97ex3</span><span class="op">)</span></span> +<span class="r-in"><span class="va">m</span> <span class="op"><-</span> <span class="fu"><a href="https://rdrr.io/r/stats/lm.html" class="external-link">lm</a></span><span class="op">(</span><span class="va">y</span> <span class="op">~</span> <span class="va">x</span>, data <span class="op">=</span> <span class="va">massart97ex3</span><span class="op">)</span></span> +<span class="r-in"><span class="fu">calplot</span><span class="op">(</span><span class="va">m</span><span class="op">)</span></span> +<span class="r-plt img"><img src="calplot-1.png" alt="" width="700" height="433"></span> +<span class="r-in"></span> +</code></pre></div> + </div> + </div> + <div class="col-md-3 hidden-xs hidden-sm" id="pkgdown-sidebar"> + <nav id="toc" data-toggle="toc" class="sticky-top"><h2 data-toc-skip>Contents</h2> + </nav></div> +</div> + + + <footer><div class="copyright"> + <p></p><p>Developed by Johannes Ranke.</p> +</div> + +<div class="pkgdown"> + <p></p><p>Site built with <a href="https://pkgdown.r-lib.org/" class="external-link">pkgdown</a> 2.0.2.</p> +</div> + + </footer></div> + + + + + + + </body></html> + diff --git a/docs/reference/din32645.html b/docs/reference/din32645.html index 1c02f36..ba6246a 100644 --- a/docs/reference/din32645.html +++ b/docs/reference/din32645.html @@ -47,7 +47,7 @@ <div class="col-md-9 contents"> <div class="page-header"> <h1>Calibration data from DIN 32645</h1> - + <small class="dont-index">Source: <a href="https://github.com/jranke/chemCal/blob/HEAD/R/chemCal-package.R" class="external-link"><code>R/chemCal-package.R</code></a></small> <div class="hidden name"><code>din32645.Rd</code></div> </div> @@ -55,9 +55,6 @@ <p>Sample dataset to test the package.</p> </div> - <div id="ref-usage"> - <div class="sourceCode"><pre class="sourceCode r"><code><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">din32645</span><span class="op">)</span></code></pre></div> - </div> <div id="format"> <h2>Format</h2> @@ -66,18 +63,19 @@ <div id="references"> <h2>References</h2> <p>DIN 32645 (equivalent to ISO 11843), Beuth Verlag, Berlin, 1994</p> -<p>Dintest. Plugin for MS Excel for evaluations of calibration data. Written - by Georg Schmitt, University of Heidelberg. Formerly available from - the Website of the University of Heidelberg.</p> -<p>Currie, L. A. (1997) Nomenclature in evaluation of analytical methods including - detection and quantification capabilities (IUPAC Recommendations 1995). - Analytica Chimica Acta 391, 105 - 126.</p> +<p>Dintest. Plugin for MS Excel for evaluations of calibration data. Written by +Georg Schmitt, University of Heidelberg. Formerly available from the Website +of the University of Heidelberg.</p> +<p>Currie, L. A. (1997) Nomenclature in evaluation of analytical methods +including detection and quantification capabilities (IUPAC Recommendations +1995). Analytica Chimica Acta 391, 105 - 126.</p> </div> <div id="ref-examples"> <h2>Examples</h2> - <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span class="va">m</span> <span class="op"><-</span> <span class="fu"><a href="https://rdrr.io/r/stats/lm.html" class="external-link">lm</a></span><span class="op">(</span><span class="va">y</span> <span class="op">~</span> <span class="va">x</span>, data <span class="op">=</span> <span class="va">din32645</span><span class="op">)</span></span> -<span class="r-in"><span class="fu"><a href="calplot.lm.html">calplot</a></span><span class="op">(</span><span class="va">m</span><span class="op">)</span></span> + <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"></span> +<span class="r-in"><span class="va">m</span> <span class="op"><-</span> <span class="fu"><a href="https://rdrr.io/r/stats/lm.html" class="external-link">lm</a></span><span class="op">(</span><span class="va">y</span> <span class="op">~</span> <span class="va">x</span>, data <span class="op">=</span> <span class="va">din32645</span><span class="op">)</span></span> +<span class="r-in"><span class="fu"><a href="calplot.html">calplot</a></span><span class="op">(</span><span class="va">m</span><span class="op">)</span></span> <span class="r-plt img"><img src="din32645-1.png" alt="" width="700" height="433"></span> <span class="r-in"></span> <span class="r-in"><span class="co">## Prediction of x with confidence interval</span></span> @@ -118,6 +116,7 @@ <span class="r-in"><span class="co"># LQ = 3.04 * LC (Currie 1999, p. 120)</span></span> <span class="r-in"><span class="fl">3.04</span> <span class="op">*</span> <span class="fu"><a href="lod.html">lod</a></span><span class="op">(</span><span class="va">m</span>, alpha <span class="op">=</span> <span class="fl">0.01</span>, beta <span class="op">=</span> <span class="fl">0.5</span><span class="op">)</span><span class="op">$</span><span class="va">x</span></span> <span class="r-out co"><span class="r-pr">#></span> [1] 0.2122306</span> +<span class="r-in"></span> </code></pre></div> </div> </div> diff --git a/docs/reference/index.html b/docs/reference/index.html index 3685007..9812256 100644 --- a/docs/reference/index.html +++ b/docs/reference/index.html @@ -50,22 +50,14 @@ </div> <table class="ref-index"><colgroup><col class="alias"><col class="title"></colgroup><tbody><tr><th colspan="2"> - <h2 id="all-functions">All functions <a href="#all-functions" class="anchor" aria-hidden="true"></a></h2> + <h2 id="main-functions">Main functions <a href="#main-functions" class="anchor" aria-hidden="true"></a></h2> <p class="section-desc"></p> </th> </tr></tbody><tbody><tr><td> - <p><code><a href="calplot.lm.html">calplot()</a></code> </p> + <p><code><a href="calplot.html">calplot()</a></code> </p> </td> <td><p>Plot calibration graphs from univariate linear models</p></td> </tr><tr><td> - <p><code><a href="din32645.html">din32645</a></code> </p> - </td> - <td><p>Calibration data from DIN 32645</p></td> - </tr><tr><td> - <p><code><a href="inverse.predict.html">inverse.predict()</a></code> </p> - </td> - <td><p>Predict x from y for a linear calibration</p></td> - </tr><tr><td> <p><code><a href="lod.html">lod()</a></code> </p> </td> <td><p>Estimate a limit of detection (LOD)</p></td> @@ -74,6 +66,18 @@ </td> <td><p>Estimate a limit of quantification (LOQ)</p></td> </tr><tr><td> + <p><code><a href="inverse.predict.html">inverse.predict()</a></code> </p> + </td> + <td><p>Predict x from y for a linear calibration</p></td> + </tr></tbody><tbody><tr><th colspan="2"> + <h2 id="datasets">Datasets <a href="#datasets" class="anchor" aria-hidden="true"></a></h2> + <p class="section-desc"></p> + </th> + </tr></tbody><tbody><tr><td> + <p><code><a href="din32645.html">din32645</a></code> </p> + </td> + <td><p>Calibration data from DIN 32645</p></td> + </tr><tr><td> <p><code><a href="massart97ex1.html">massart97ex1</a></code> </p> </td> <td><p>Calibration data from Massart et al. (1997), example 1</p></td> @@ -84,7 +88,8 @@ </tr><tr><td> <p><code><a href="rl95_cadmium.html">rl95_cadmium</a></code> </p> </td> - <td><p>Cadmium concentrations measured by AAS as reported by Rocke and Lorenzato (1995)</p></td> + <td><p>Cadmium concentrations measured by AAS as reported by Rocke and Lorenzato +(1995)</p></td> </tr><tr><td> <p><code><a href="rl95_toluene.html">rl95_toluene</a></code> </p> </td> diff --git a/docs/reference/inverse.predict.html b/docs/reference/inverse.predict.html index cb9fe98..6fe081e 100644 --- a/docs/reference/inverse.predict.html +++ b/docs/reference/inverse.predict.html @@ -1,14 +1,14 @@ <!DOCTYPE html> -<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1.0"><title>Predict x from y for a linear calibration — inverse.predict • chemCal</title><!-- jquery --><script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.4.1/jquery.min.js" integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo=" crossorigin="anonymous"></script><!-- Bootstrap --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/css/bootstrap.min.css" integrity="sha256-bZLfwXAP04zRMK2BjiO8iu9pf4FbLqX6zitd+tIvLhE=" crossorigin="anonymous"><script src="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/js/bootstrap.min.js" integrity="sha256-nuL8/2cJ5NDSSwnKD8VqreErSWHtnEP9E7AySL+1ev4=" crossorigin="anonymous"></script><!-- bootstrap-toc --><link rel="stylesheet" href="../bootstrap-toc.css"><script src="../bootstrap-toc.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- pkgdown --><link href="../pkgdown.css" rel="stylesheet"><script src="../pkgdown.js"></script><meta property="og:title" content="Predict x from y for a linear calibration — inverse.predict"><meta property="og:description" content="This function predicts x values using a univariate linear model that has been - generated for the purpose of calibrating a measurement method. Prediction - intervals are given at the specified confidence level. - The calculation method was taken from Massart et al. (1997). In particular, - Equations 8.26 and 8.28 were combined in order to yield a general treatment - of inverse prediction for univariate linear models, taking into account - weights that have been used to create the linear model, and at the same - time providing the possibility to specify a precision in sample measurements - differing from the precision in standard samples used for the calibration. - This is elaborated in the package vignette."><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]> +<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1.0"><title>Predict x from y for a linear calibration — inverse.predict • chemCal</title><!-- jquery --><script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.4.1/jquery.min.js" integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo=" crossorigin="anonymous"></script><!-- Bootstrap --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/css/bootstrap.min.css" integrity="sha256-bZLfwXAP04zRMK2BjiO8iu9pf4FbLqX6zitd+tIvLhE=" crossorigin="anonymous"><script src="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/js/bootstrap.min.js" integrity="sha256-nuL8/2cJ5NDSSwnKD8VqreErSWHtnEP9E7AySL+1ev4=" crossorigin="anonymous"></script><!-- bootstrap-toc --><link rel="stylesheet" href="../bootstrap-toc.css"><script src="../bootstrap-toc.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- pkgdown --><link href="../pkgdown.css" rel="stylesheet"><script src="../pkgdown.js"></script><meta property="og:title" content="Predict x from y for a linear calibration — inverse.predict"><meta property="og:description" content="This function predicts x values using a univariate linear model that has +been generated for the purpose of calibrating a measurement method. +Prediction intervals are given at the specified confidence level. The +calculation method was taken from Massart et al. (1997). In particular, +Equations 8.26 and 8.28 were combined in order to yield a general treatment +of inverse prediction for univariate linear models, taking into account +weights that have been used to create the linear model, and at the same time +providing the possibility to specify a precision in sample measurements +differing from the precision in standard samples used for the calibration. +This is elaborated in the package vignette."><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]> <script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script> <script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script> <![endif]--></head><body data-spy="scroll" data-target="#toc"> @@ -56,73 +56,87 @@ <div class="col-md-9 contents"> <div class="page-header"> <h1>Predict x from y for a linear calibration</h1> - + <small class="dont-index">Source: <a href="https://github.com/jranke/chemCal/blob/HEAD/R/inverse.predict.lm.R" class="external-link"><code>R/inverse.predict.lm.R</code></a></small> <div class="hidden name"><code>inverse.predict.Rd</code></div> </div> <div class="ref-description"> - <p>This function predicts x values using a univariate linear model that has been - generated for the purpose of calibrating a measurement method. Prediction - intervals are given at the specified confidence level. - The calculation method was taken from Massart et al. (1997). In particular, - Equations 8.26 and 8.28 were combined in order to yield a general treatment - of inverse prediction for univariate linear models, taking into account - weights that have been used to create the linear model, and at the same - time providing the possibility to specify a precision in sample measurements - differing from the precision in standard samples used for the calibration. - This is elaborated in the package vignette.</p> + <p>This function predicts x values using a univariate linear model that has +been generated for the purpose of calibrating a measurement method. +Prediction intervals are given at the specified confidence level. The +calculation method was taken from Massart et al. (1997). In particular, +Equations 8.26 and 8.28 were combined in order to yield a general treatment +of inverse prediction for univariate linear models, taking into account +weights that have been used to create the linear model, and at the same time +providing the possibility to specify a precision in sample measurements +differing from the precision in standard samples used for the calibration. +This is elaborated in the package vignette.</p> </div> <div id="ref-usage"> - <div class="sourceCode"><pre class="sourceCode r"><code><span class="fu">inverse.predict</span><span class="op">(</span><span class="va">object</span>, <span class="va">newdata</span>, <span class="va">...</span>, - <span class="va">ws</span>, alpha<span class="op">=</span><span class="fl">0.05</span>, var.s <span class="op">=</span> <span class="st">"auto"</span><span class="op">)</span></code></pre></div> + <div class="sourceCode"><pre class="sourceCode r"><code><span class="fu">inverse.predict</span><span class="op">(</span> + <span class="va">object</span>, + <span class="va">newdata</span>, + <span class="va">...</span>, + ws <span class="op">=</span> <span class="st">"auto"</span>, + alpha <span class="op">=</span> <span class="fl">0.05</span>, + var.s <span class="op">=</span> <span class="st">"auto"</span> +<span class="op">)</span></code></pre></div> </div> <div id="arguments"> <h2>Arguments</h2> <dl><dt>object</dt> -<dd><p>A univariate model object of class <code><a href="https://rdrr.io/r/stats/lm.html" class="external-link">lm</a></code> or - <code><a href="https://rdrr.io/pkg/MASS/man/rlm.html" class="external-link">rlm</a></code> - with model formula <code>y ~ x</code> or <code>y ~ x - 1</code>.</p></dd> +<dd><p>A univariate model object of class <code><a href="https://rdrr.io/r/stats/lm.html" class="external-link">lm</a></code> or +<code><a href="https://rdrr.io/pkg/MASS/man/rlm.html" class="external-link">rlm</a></code> with model formula <code>y ~ x</code> or <code>y ~ x - +1</code>.</p></dd> <dt>newdata</dt> <dd><p>A vector of observed y values for one sample.</p></dd> <dt>...</dt> -<dd><p>Placeholder for further arguments that might be needed by - future implementations.</p></dd> +<dd><p>Placeholder for further arguments that might be needed by +future implementations.</p></dd> <dt>ws</dt> <dd><p>The weight attributed to the sample. This argument is obligatory - if <code>object</code> has weights.</p></dd> +if <code>object</code> has weights.</p></dd> <dt>alpha</dt> -<dd><p>The error tolerance level for the confidence interval to be reported.</p></dd> +<dd><p>The error tolerance level for the confidence interval to be +reported.</p></dd> <dt>var.s</dt> -<dd><p>The estimated variance of the sample measurements. The default is to take - the residual standard error from the calibration and to adjust it - using <code>ws</code>, if applicable. This means that <code>var.s</code> - overrides <code>ws</code>.</p></dd> +<dd><p>The estimated variance of the sample measurements. The default +is to take the residual standard error from the calibration and to adjust it +using <code>ws</code>, if applicable. This means that <code>var.s</code> overrides +<code>ws</code>.</p></dd> </dl></div> <div id="value"> <h2>Value</h2> <p>A list containing the predicted x value, its standard error and a - confidence interval.</p> +confidence interval.</p> + </div> + <div id="details"> + <h2>Details</h2> + <p>This is an implementation of Equation (8.28) in the Handbook of Chemometrics +and Qualimetrics, Part A, Massart et al (1997), page 200, validated with +Example 8 on the same page, extended as specified in the package vignette</p> </div> <div id="note"> <h2>Note</h2> - <p>The function was validated with examples 7 and 8 from Massart et al. (1997). - Note that the behaviour of inverse.predict changed with chemCal version - 0.2.1. Confidence intervals for x values obtained from calibrations with - replicate measurements did not take the variation about the means into account. - Please refer to the vignette for details.</p> + <p>The function was validated with examples 7 and 8 from Massart et al. +(1997). Note that the behaviour of inverse.predict changed with chemCal +version 0.2.1. Confidence intervals for x values obtained from calibrations +with replicate measurements did not take the variation about the means into +account. Please refer to the vignette for details.</p> </div> <div id="references"> <h2>References</h2> - <p>Massart, L.M, Vandenginste, B.G.M., Buydens, L.M.C., De Jong, S., Lewi, P.J., - Smeyers-Verbeke, J. (1997) Handbook of Chemometrics and Qualimetrics: Part A, - p. 200</p> + <p>Massart, L.M, Vandenginste, B.G.M., Buydens, L.M.C., De Jong, +S., Lewi, P.J., Smeyers-Verbeke, J. (1997) Handbook of Chemometrics and +Qualimetrics: Part A, p. 200</p> </div> <div id="ref-examples"> <h2>Examples</h2> - <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span class="co"># This is example 7 from Chapter 8 in Massart et al. (1997)</span></span> + <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"></span> +<span class="r-in"><span class="co"># This is example 7 from Chapter 8 in Massart et al. (1997)</span></span> <span class="r-in"><span class="va">m</span> <span class="op"><-</span> <span class="fu"><a href="https://rdrr.io/r/stats/lm.html" class="external-link">lm</a></span><span class="op">(</span><span class="va">y</span> <span class="op">~</span> <span class="va">x</span>, data <span class="op">=</span> <span class="va">massart97ex1</span><span class="op">)</span></span> <span class="r-in"><span class="fu">inverse.predict</span><span class="op">(</span><span class="va">m</span>, <span class="fl">15</span><span class="op">)</span> <span class="co"># 6.1 +- 4.9</span></span> <span class="r-out co"><span class="r-pr">#></span> $Prediction</span> @@ -204,6 +218,7 @@ <span class="r-out co"><span class="r-pr">#></span> [1] 36.20523 51.91526</span> <span class="r-out co"><span class="r-pr">#></span> </span> <span class="r-in"></span> +<span class="r-in"></span> </code></pre></div> </div> </div> diff --git a/docs/reference/lod.html b/docs/reference/lod.html index a2d66ce..1fbae76 100644 --- a/docs/reference/lod.html +++ b/docs/reference/lod.html @@ -1,12 +1,12 @@ <!DOCTYPE html> <!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1.0"><title>Estimate a limit of detection (LOD) — lod • chemCal</title><!-- jquery --><script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.4.1/jquery.min.js" integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo=" crossorigin="anonymous"></script><!-- Bootstrap --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/css/bootstrap.min.css" integrity="sha256-bZLfwXAP04zRMK2BjiO8iu9pf4FbLqX6zitd+tIvLhE=" crossorigin="anonymous"><script src="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/js/bootstrap.min.js" integrity="sha256-nuL8/2cJ5NDSSwnKD8VqreErSWHtnEP9E7AySL+1ev4=" crossorigin="anonymous"></script><!-- bootstrap-toc --><link rel="stylesheet" href="../bootstrap-toc.css"><script src="../bootstrap-toc.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- pkgdown --><link href="../pkgdown.css" rel="stylesheet"><script src="../pkgdown.js"></script><meta property="og:title" content="Estimate a limit of detection (LOD) — lod"><meta property="og:description" content="The decision limit (German: Nachweisgrenze) is defined as the signal or - analyte concentration that is significantly different from the blank signal - with a first order error alpha (one-sided significance test). - The detection limit, or more precise, the minimum detectable value - (German: Erfassungsgrenze), is then defined as the signal or analyte - concentration where the probability that the signal is not detected although - the analyte is present (type II or false negative error), is beta (also a - one-sided significance test)."><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]> +analyte concentration that is significantly different from the blank signal +with a first order error alpha (one-sided significance test). The detection +limit, or more precise, the minimum detectable value (German: +Erfassungsgrenze), is then defined as the signal or analyte concentration +where the probability that the signal is not detected although the analyte +is present (type II or false negative error), is beta (also a one-sided +significance test)."><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]> <script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script> <script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script> <![endif]--></head><body data-spy="scroll" data-target="#toc"> @@ -54,76 +54,81 @@ <div class="col-md-9 contents"> <div class="page-header"> <h1>Estimate a limit of detection (LOD)</h1> - + <small class="dont-index">Source: <a href="https://github.com/jranke/chemCal/blob/HEAD/R/lod.R" class="external-link"><code>R/lod.R</code></a></small> <div class="hidden name"><code>lod.Rd</code></div> </div> <div class="ref-description"> <p>The decision limit (German: Nachweisgrenze) is defined as the signal or - analyte concentration that is significantly different from the blank signal - with a first order error alpha (one-sided significance test). - The detection limit, or more precise, the minimum detectable value - (German: Erfassungsgrenze), is then defined as the signal or analyte - concentration where the probability that the signal is not detected although - the analyte is present (type II or false negative error), is beta (also a - one-sided significance test).</p> +analyte concentration that is significantly different from the blank signal +with a first order error alpha (one-sided significance test). The detection +limit, or more precise, the minimum detectable value (German: +Erfassungsgrenze), is then defined as the signal or analyte concentration +where the probability that the signal is not detected although the analyte +is present (type II or false negative error), is beta (also a one-sided +significance test).</p> </div> <div id="ref-usage"> - <div class="sourceCode"><pre class="sourceCode r"><code><span class="fu">lod</span><span class="op">(</span><span class="va">object</span>, <span class="va">...</span>, alpha <span class="op">=</span> <span class="fl">0.05</span>, beta <span class="op">=</span> <span class="fl">0.05</span>, method <span class="op">=</span> <span class="st">"default"</span>, tol <span class="op">=</span> <span class="st">"default"</span><span class="op">)</span></code></pre></div> + <div class="sourceCode"><pre class="sourceCode r"><code><span class="fu">lod</span><span class="op">(</span> + <span class="va">object</span>, + <span class="va">...</span>, + alpha <span class="op">=</span> <span class="fl">0.05</span>, + beta <span class="op">=</span> <span class="fl">0.05</span>, + method <span class="op">=</span> <span class="st">"default"</span>, + tol <span class="op">=</span> <span class="st">"default"</span> +<span class="op">)</span></code></pre></div> </div> <div id="arguments"> <h2>Arguments</h2> <dl><dt>object</dt> -<dd><p>A univariate model object of class <code><a href="https://rdrr.io/r/stats/lm.html" class="external-link">lm</a></code> or - <code><a href="https://rdrr.io/pkg/MASS/man/rlm.html" class="external-link">rlm</a></code> - with model formula <code>y ~ x</code> or <code>y ~ x - 1</code>, - optionally from a weighted regression.</p></dd> +<dd><p>A univariate model object of class <code><a href="https://rdrr.io/r/stats/lm.html" class="external-link">lm</a></code> or +<code><a href="https://rdrr.io/pkg/MASS/man/rlm.html" class="external-link">rlm</a></code> with model formula <code>y ~ x</code> or <code>y ~ x - +1</code>, optionally from a weighted regression.</p></dd> <dt>...</dt> -<dd><p>Placeholder for further arguments that might be needed by - future implementations.</p></dd> +<dd><p>Placeholder for further arguments that might be needed by +future implementations.</p></dd> <dt>alpha</dt> <dd><p>The error tolerance for the decision limit (critical value).</p></dd> <dt>beta</dt> <dd><p>The error tolerance beta for the detection limit.</p></dd> <dt>method</dt> -<dd><p>The “default” method uses a prediction interval at the LOD - for the estimation of the LOD, which obviously requires - iteration. This is described for example in Massart, p. 432 ff. - The “din” method uses the prediction interval at - x = 0 as an approximation.</p></dd> +<dd><p>The “default” method uses a prediction interval at the +LOD for the estimation of the LOD, which obviously requires iteration. This +is described for example in Massart, p. 432 ff. The “din” method +uses the prediction interval at x = 0 as an approximation.</p></dd> <dt>tol</dt> <dd><p>When the “default” method is used, the default tolerance - for the LOD on the x scale is the value of the smallest non-zero standard - divided by 1000. Can be set to a numeric value to override this.</p></dd> +for the LOD on the x scale is the value of the smallest non-zero standard +divided by 1000. Can be set to a numeric value to override this.</p></dd> </dl></div> <div id="value"> <h2>Value</h2> - <p>A list containig the corresponding x and y values of the estimated limit of - detection of a model used for calibration.</p> + <p>A list containig the corresponding x and y values of the estimated +limit of detection of a model used for calibration.</p> </div> <div id="note"> <h2>Note</h2> - <p>- The default values for alpha and beta are the ones recommended by IUPAC. - - The estimation of the LOD in terms of the analyte amount/concentration - xD from the LOD in the signal domain SD is done by simply inverting the - calibration function (i.e. assuming a known calibration function). - - The calculation of a LOD from weighted calibration models requires - a weights argument for the internally used <code><a href="https://rdrr.io/r/stats/predict.lm.html" class="external-link">predict.lm</a></code> - function, which is currently not supported in R.</p> + <p>* The default values for alpha and beta are the ones recommended by IUPAC. +* The estimation of the LOD in terms of the analyte amount/concentration xD +from the LOD in the signal domain SD is done by simply inverting the +calibration function (i.e. assuming a known calibration function). +* The calculation of a LOD from weighted calibration models requires a +weights argument for the internally used <code><a href="https://rdrr.io/r/stats/predict.lm.html" class="external-link">predict.lm</a></code> +function, which is currently not supported in R.</p> </div> <div id="references"> <h2>References</h2> - <p>Massart, L.M, Vandenginste, B.G.M., Buydens, L.M.C., De Jong, S., Lewi, P.J., - Smeyers-Verbeke, J. (1997) Handbook of Chemometrics and Qualimetrics: Part A, - Chapter 13.7.8</p> + <p>Massart, L.M, Vandenginste, B.G.M., Buydens, L.M.C., De Jong, +S., Lewi, P.J., Smeyers-Verbeke, J. (1997) Handbook of Chemometrics and +Qualimetrics: Part A, Chapter 13.7.8</p> <p>J. Inczedy, T. Lengyel, and A.M. Ure (2002) International Union of Pure and - Applied Chemistry Compendium of Analytical Nomenclature: Definitive Rules. - Web edition.</p> -<p>Currie, L. A. (1997) Nomenclature in evaluation of analytical methods including - detection and quantification capabilities (IUPAC Recommendations 1995). - Analytica Chimica Acta 391, 105 - 126.</p> +Applied Chemistry Compendium of Analytical Nomenclature: Definitive Rules. +Web edition.</p> +<p>Currie, L. A. (1997) Nomenclature in evaluation of analytical methods +including detection and quantification capabilities (IUPAC Recommendations +1995). Analytica Chimica Acta 391, 105 - 126.</p> </div> <div id="see-also"> <h2>See also</h2> @@ -132,7 +137,8 @@ <div id="ref-examples"> <h2>Examples</h2> - <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span class="va">m</span> <span class="op"><-</span> <span class="fu"><a href="https://rdrr.io/r/stats/lm.html" class="external-link">lm</a></span><span class="op">(</span><span class="va">y</span> <span class="op">~</span> <span class="va">x</span>, data <span class="op">=</span> <span class="va">din32645</span><span class="op">)</span></span> + <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"></span> +<span class="r-in"><span class="va">m</span> <span class="op"><-</span> <span class="fu"><a href="https://rdrr.io/r/stats/lm.html" class="external-link">lm</a></span><span class="op">(</span><span class="va">y</span> <span class="op">~</span> <span class="va">x</span>, data <span class="op">=</span> <span class="va">din32645</span><span class="op">)</span></span> <span class="r-in"><span class="fu">lod</span><span class="op">(</span><span class="va">m</span><span class="op">)</span> </span> <span class="r-out co"><span class="r-pr">#></span> $x</span> <span class="r-out co"><span class="r-pr">#></span> [1] 0.08655484</span> @@ -150,6 +156,7 @@ <span class="r-out co"><span class="r-pr">#></span> $y</span> <span class="r-out co"><span class="r-pr">#></span> [1] 3155.393</span> <span class="r-out co"><span class="r-pr">#></span> </span> +<span class="r-in"></span> </code></pre></div> </div> </div> diff --git a/docs/reference/loq.html b/docs/reference/loq.html index 0960251..86c8f43 100644 --- a/docs/reference/loq.html +++ b/docs/reference/loq.html @@ -1,11 +1,10 @@ <!DOCTYPE html> -<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1.0"><title>Estimate a limit of quantification (LOQ) — loq • chemCal</title><!-- jquery --><script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.4.1/jquery.min.js" integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo=" crossorigin="anonymous"></script><!-- Bootstrap --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/css/bootstrap.min.css" integrity="sha256-bZLfwXAP04zRMK2BjiO8iu9pf4FbLqX6zitd+tIvLhE=" crossorigin="anonymous"><script src="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/js/bootstrap.min.js" integrity="sha256-nuL8/2cJ5NDSSwnKD8VqreErSWHtnEP9E7AySL+1ev4=" crossorigin="anonymous"></script><!-- bootstrap-toc --><link rel="stylesheet" href="../bootstrap-toc.css"><script src="../bootstrap-toc.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- pkgdown --><link href="../pkgdown.css" rel="stylesheet"><script src="../pkgdown.js"></script><meta property="og:title" content="Estimate a limit of quantification (LOQ) — loq"><meta property="og:description" content="The limit of quantification is the x value, where the relative error - of the quantification given the calibration model reaches a prespecified - value 1/k. Thus, it is the solution of the equation - $$L = k c(L)$$ - where c(L) is half of the length of the confidence interval at the limit L - (DIN 32645, equivalent to ISO 11843). c(L) is internally estimated by - inverse.predict, and L is obtained by iteration."><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]> +<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1.0"><title>Estimate a limit of quantification (LOQ) — loq • chemCal</title><!-- jquery --><script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.4.1/jquery.min.js" integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo=" crossorigin="anonymous"></script><!-- Bootstrap --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/css/bootstrap.min.css" integrity="sha256-bZLfwXAP04zRMK2BjiO8iu9pf4FbLqX6zitd+tIvLhE=" crossorigin="anonymous"><script src="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/js/bootstrap.min.js" integrity="sha256-nuL8/2cJ5NDSSwnKD8VqreErSWHtnEP9E7AySL+1ev4=" crossorigin="anonymous"></script><!-- bootstrap-toc --><link rel="stylesheet" href="../bootstrap-toc.css"><script src="../bootstrap-toc.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- pkgdown --><link href="../pkgdown.css" rel="stylesheet"><script src="../pkgdown.js"></script><meta property="og:title" content="Estimate a limit of quantification (LOQ) — loq"><meta property="og:description" content="The limit of quantification is the x value, where the relative error of the +quantification given the calibration model reaches a prespecified value 1/k. +Thus, it is the solution of the equation $$L = k c(L)$$ +where c(L) is half of the length of the confidence interval at the limit L +(DIN 32645, equivalent to ISO 11843). c(L) is internally estimated by +inverse.predict, and L is obtained by iteration."><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]> <script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script> <script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script> <![endif]--></head><body data-spy="scroll" data-target="#toc"> @@ -53,69 +52,75 @@ <div class="col-md-9 contents"> <div class="page-header"> <h1>Estimate a limit of quantification (LOQ)</h1> - + <small class="dont-index">Source: <a href="https://github.com/jranke/chemCal/blob/HEAD/R/loq.R" class="external-link"><code>R/loq.R</code></a></small> <div class="hidden name"><code>loq.Rd</code></div> </div> <div class="ref-description"> - <p>The limit of quantification is the x value, where the relative error - of the quantification given the calibration model reaches a prespecified - value 1/k. Thus, it is the solution of the equation - $$L = k c(L)$$ - where c(L) is half of the length of the confidence interval at the limit L - (DIN 32645, equivalent to ISO 11843). c(L) is internally estimated by - <code><a href="inverse.predict.html">inverse.predict</a></code>, and L is obtained by iteration.</p> + <p>The limit of quantification is the x value, where the relative error of the +quantification given the calibration model reaches a prespecified value 1/k. +Thus, it is the solution of the equation $$L = k c(L)$$ +where c(L) is half of the length of the confidence interval at the limit L +(DIN 32645, equivalent to ISO 11843). c(L) is internally estimated by +<code><a href="inverse.predict.html">inverse.predict</a></code>, and L is obtained by iteration.</p> </div> <div id="ref-usage"> - <div class="sourceCode"><pre class="sourceCode r"><code><span class="fu">loq</span><span class="op">(</span><span class="va">object</span>, <span class="va">...</span>, alpha <span class="op">=</span> <span class="fl">0.05</span>, k <span class="op">=</span> <span class="fl">3</span>, n <span class="op">=</span> <span class="fl">1</span>, w.loq <span class="op">=</span> <span class="st">"auto"</span>, - var.loq <span class="op">=</span> <span class="st">"auto"</span>, tol <span class="op">=</span> <span class="st">"default"</span><span class="op">)</span></code></pre></div> + <div class="sourceCode"><pre class="sourceCode r"><code><span class="fu">loq</span><span class="op">(</span> + <span class="va">object</span>, + <span class="va">...</span>, + alpha <span class="op">=</span> <span class="fl">0.05</span>, + k <span class="op">=</span> <span class="fl">3</span>, + n <span class="op">=</span> <span class="fl">1</span>, + w.loq <span class="op">=</span> <span class="st">"auto"</span>, + var.loq <span class="op">=</span> <span class="st">"auto"</span>, + tol <span class="op">=</span> <span class="st">"default"</span> +<span class="op">)</span></code></pre></div> </div> <div id="arguments"> <h2>Arguments</h2> <dl><dt>object</dt> -<dd><p>A univariate model object of class <code><a href="https://rdrr.io/r/stats/lm.html" class="external-link">lm</a></code> or - <code><a href="https://rdrr.io/pkg/MASS/man/rlm.html" class="external-link">rlm</a></code> - with model formula <code>y ~ x</code> or <code>y ~ x - 1</code>, - optionally from a weighted regression. If weights are specified - in the model, either <code>w.loq</code> or <code>var.loq</code> have to - be specified.</p></dd> -<dt>alpha</dt> -<dd><p>The error tolerance for the prediction of x values in the calculation.</p></dd> +<dd><p>A univariate model object of class <code><a href="https://rdrr.io/r/stats/lm.html" class="external-link">lm</a></code> or +<code><a href="https://rdrr.io/pkg/MASS/man/rlm.html" class="external-link">rlm</a></code> with model formula <code>y ~ x</code> or <code>y ~ x - +1</code>, optionally from a weighted regression. If weights are specified in the +model, either <code>w.loq</code> or <code>var.loq</code> have to be specified.</p></dd> <dt>...</dt> -<dd><p>Placeholder for further arguments that might be needed by - future implementations.</p></dd> +<dd><p>Placeholder for further arguments that might be needed by +future implementations.</p></dd> +<dt>alpha</dt> +<dd><p>The error tolerance for the prediction of x values in the +calculation.</p></dd> <dt>k</dt> -<dd><p>The inverse of the maximum relative error tolerated at the - desired LOQ.</p></dd> +<dd><p>The inverse of the maximum relative error tolerated at the desired +LOQ.</p></dd> <dt>n</dt> <dd><p>The number of replicate measurements for which the LOQ should be - specified.</p></dd> +specified.</p></dd> <dt>w.loq</dt> -<dd><p>The weight that should be attributed to the LOQ. Defaults - to one for unweighted regression, and to the mean of the weights - for weighted regression. See <code><a href="massart97ex3.html">massart97ex3</a></code> for - an example how to take advantage of knowledge about the - variance function.</p></dd> +<dd><p>The weight that should be attributed to the LOQ. Defaults to +one for unweighted regression, and to the mean of the weights for weighted +regression. See <code><a href="massart97ex3.html">massart97ex3</a></code> for an example how to take +advantage of knowledge about the variance function.</p></dd> <dt>var.loq</dt> -<dd><p>The approximate variance at the LOQ. The default value is - calculated from the model.</p></dd> +<dd><p>The approximate variance at the LOQ. The default value is +calculated from the model.</p></dd> <dt>tol</dt> -<dd><p>The default tolerance for the LOQ on the x scale is the value of the - smallest non-zero standard divided by 1000. Can be set to a - numeric value to override this.</p></dd> +<dd><p>The default tolerance for the LOQ on the x scale is the value of +the smallest non-zero standard divided by 1000. Can be set to a numeric +value to override this.</p></dd> </dl></div> <div id="value"> <h2>Value</h2> - <p>The estimated limit of quantification for a model used for calibration.</p> + <p>The estimated limit of quantification for a model used for +calibration.</p> </div> <div id="note"> <h2>Note</h2> - <p>- IUPAC recommends to base the LOQ on the standard deviation of the signal - where x = 0. - - The calculation of a LOQ based on weighted regression is non-standard - and therefore not tested. Feedback is welcome.</p> + <p>* IUPAC recommends to base the LOQ on the standard deviation of the +signal where x = 0. +* The calculation of a LOQ based on weighted regression is non-standard and +therefore not tested. Feedback is welcome.</p> </div> <div id="see-also"> <h2>See also</h2> @@ -124,7 +129,8 @@ <div id="ref-examples"> <h2>Examples</h2> - <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span class="va">m</span> <span class="op"><-</span> <span class="fu"><a href="https://rdrr.io/r/stats/lm.html" class="external-link">lm</a></span><span class="op">(</span><span class="va">y</span> <span class="op">~</span> <span class="va">x</span>, data <span class="op">=</span> <span class="va">massart97ex1</span><span class="op">)</span></span> + <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"></span> +<span class="r-in"><span class="va">m</span> <span class="op"><-</span> <span class="fu"><a href="https://rdrr.io/r/stats/lm.html" class="external-link">lm</a></span><span class="op">(</span><span class="va">y</span> <span class="op">~</span> <span class="va">x</span>, data <span class="op">=</span> <span class="va">massart97ex1</span><span class="op">)</span></span> <span class="r-in"><span class="fu">loq</span><span class="op">(</span><span class="va">m</span><span class="op">)</span></span> <span class="r-out co"><span class="r-pr">#></span> $x</span> <span class="r-out co"><span class="r-pr">#></span> [1] 13.97764</span> @@ -141,6 +147,7 @@ <span class="r-out co"><span class="r-pr">#></span> $y</span> <span class="r-out co"><span class="r-pr">#></span> [1] 22.68539</span> <span class="r-out co"><span class="r-pr">#></span> </span> +<span class="r-in"></span> </code></pre></div> </div> </div> diff --git a/docs/reference/massart97ex1.html b/docs/reference/massart97ex1.html index e5dd85a..a02dfe0 100644 --- a/docs/reference/massart97ex1.html +++ b/docs/reference/massart97ex1.html @@ -47,7 +47,7 @@ <div class="col-md-9 contents"> <div class="page-header"> <h1>Calibration data from Massart et al. (1997), example 1</h1> - + <small class="dont-index">Source: <a href="https://github.com/jranke/chemCal/blob/HEAD/R/chemCal-package.R" class="external-link"><code>R/chemCal-package.R</code></a></small> <div class="hidden name"><code>massart97ex1.Rd</code></div> </div> @@ -55,9 +55,6 @@ <p>Sample dataset from p. 175 to test the package.</p> </div> - <div id="ref-usage"> - <div class="sourceCode"><pre class="sourceCode r"><code><span class="fu"><a href="https://rdrr.io/r/utils/data.html" class="external-link">data</a></span><span class="op">(</span><span class="va">massart97ex1</span><span class="op">)</span></code></pre></div> - </div> <div id="format"> <h2>Format</h2> @@ -65,9 +62,9 @@ </div> <div id="source"> <h2>Source</h2> - <p>Massart, L.M, Vandenginste, B.G.M., Buydens, L.M.C., De Jong, S., Lewi, P.J., - Smeyers-Verbeke, J. (1997) Handbook of Chemometrics and Qualimetrics: Part A, - Chapter 8.</p> + <p>Massart, L.M, Vandenginste, B.G.M., Buydens, L.M.C., De Jong, S., +Lewi, P.J., Smeyers-Verbeke, J. (1997) Handbook of Chemometrics and +Qualimetrics: Part A, Chapter 8.</p> </div> </div> diff --git a/docs/reference/massart97ex3.html b/docs/reference/massart97ex3.html index 4196882..5cbdbd6 100644 --- a/docs/reference/massart97ex3.html +++ b/docs/reference/massart97ex3.html @@ -47,7 +47,7 @@ <div class="col-md-9 contents"> <div class="page-header"> <h1>Calibration data from Massart et al. (1997), example 3</h1> - + <small class="dont-index">Source: <a href="https://github.com/jranke/chemCal/blob/HEAD/R/chemCal-package.R" class="external-link"><code>R/chemCal-package.R</code></a></small> <div class="hidden name"><code>massart97ex3.Rd</code></div> </div> @@ -55,25 +55,23 @@ <p>Sample dataset from p. 188 to test the package.</p> </div> - <div id="ref-usage"> - <div class="sourceCode"><pre class="sourceCode r"><code><span class="va">massart97ex3</span></code></pre></div> - </div> <div id="format"> <h2>Format</h2> - <p>A dataframe containing 6 levels of x values with 5 - observations of y for each level.</p> + <p>A dataframe containing 6 levels of x values with 5 observations of y +for each level.</p> </div> <div id="source"> <h2>Source</h2> - <p>Massart, L.M, Vandenginste, B.G.M., Buydens, L.M.C., De Jong, S., Lewi, P.J., - Smeyers-Verbeke, J. (1997) Handbook of Chemometrics and Qualimetrics: Part A, - Chapter 8.</p> + <p>Massart, L.M, Vandenginste, B.G.M., Buydens, L.M.C., De Jong, S., +Lewi, P.J., Smeyers-Verbeke, J. (1997) Handbook of Chemometrics and +Qualimetrics: Part A, Chapter 8.</p> </div> <div id="ref-examples"> <h2>Examples</h2> - <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"><span class="co"># For reproducing the results for replicate standard measurements in example 8,</span></span> + <div class="sourceCode"><pre class="sourceCode r"><code><span class="r-in"></span> +<span class="r-in"><span class="co"># For reproducing the results for replicate standard measurements in example 8,</span></span> <span class="r-in"><span class="co"># we need to do the calibration on the means when using chemCal > 0.2</span></span> <span class="r-in"><span class="va">weights</span> <span class="op"><-</span> <span class="fu"><a href="https://rdrr.io/r/base/with.html" class="external-link">with</a></span><span class="op">(</span><span class="va">massart97ex3</span>, <span class="op">{</span></span> <span class="r-in"> <span class="va">yx</span> <span class="op"><-</span> <span class="fu"><a href="https://rdrr.io/r/base/split.html" class="external-link">split</a></span><span class="op">(</span><span class="va">y</span>, <span class="va">x</span><span class="op">)</span></span> @@ -149,6 +147,7 @@ <span class="r-in"><span class="co"># The weight for the loq should therefore be derived at x = 7.3 instead</span></span> <span class="r-in"><span class="co"># of 15, but the graphical procedure of Massart (p. 201) to derive the </span></span> <span class="r-in"><span class="co"># variances on which the weights are based is quite inaccurate anyway. </span></span> +<span class="r-in"></span> </code></pre></div> </div> </div> diff --git a/docs/reference/rl95_cadmium.html b/docs/reference/rl95_cadmium.html index da9294d..4ddb8e4 100644 --- a/docs/reference/rl95_cadmium.html +++ b/docs/reference/rl95_cadmium.html @@ -1,5 +1,7 @@ <!DOCTYPE html> -<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1.0"><title>Cadmium concentrations measured by AAS as reported by Rocke and Lorenzato (1995) — rl95_cadmium • chemCal</title><!-- jquery --><script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.4.1/jquery.min.js" integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo=" crossorigin="anonymous"></script><!-- Bootstrap --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/css/bootstrap.min.css" integrity="sha256-bZLfwXAP04zRMK2BjiO8iu9pf4FbLqX6zitd+tIvLhE=" crossorigin="anonymous"><script src="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/js/bootstrap.min.js" integrity="sha256-nuL8/2cJ5NDSSwnKD8VqreErSWHtnEP9E7AySL+1ev4=" crossorigin="anonymous"></script><!-- bootstrap-toc --><link rel="stylesheet" href="../bootstrap-toc.css"><script src="../bootstrap-toc.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- pkgdown --><link href="../pkgdown.css" rel="stylesheet"><script src="../pkgdown.js"></script><meta property="og:title" content="Cadmium concentrations measured by AAS as reported by Rocke and Lorenzato (1995) — rl95_cadmium"><meta property="og:description" content="Dataset reproduced from Table 1 in Rocke and Lorenzato (1995)."><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]> +<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; 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Technometrics 37(2), 176-184.</p> + <p>Rocke, David M. und Lorenzato, Stefan (1995) A two-component model +for measurement error in analytical chemistry. Technometrics 37(2), 176-184.</p> </div> </div> diff --git a/docs/reference/rl95_toluene.html b/docs/reference/rl95_toluene.html index fb071e1..4c8c7d2 100644 --- a/docs/reference/rl95_toluene.html +++ b/docs/reference/rl95_toluene.html @@ -1,7 +1,7 @@ <!DOCTYPE html> <!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1.0"><title>Toluene amounts measured by GC/MS as reported by Rocke and Lorenzato (1995) — rl95_toluene • chemCal</title><!-- jquery --><script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.4.1/jquery.min.js" integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo=" crossorigin="anonymous"></script><!-- Bootstrap --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/css/bootstrap.min.css" integrity="sha256-bZLfwXAP04zRMK2BjiO8iu9pf4FbLqX6zitd+tIvLhE=" crossorigin="anonymous"><script src="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/js/bootstrap.min.js" integrity="sha256-nuL8/2cJ5NDSSwnKD8VqreErSWHtnEP9E7AySL+1ev4=" crossorigin="anonymous"></script><!-- bootstrap-toc --><link rel="stylesheet" href="../bootstrap-toc.css"><script src="../bootstrap-toc.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- pkgdown --><link href="../pkgdown.css" rel="stylesheet"><script src="../pkgdown.js"></script><meta property="og:title" content="Toluene amounts measured by GC/MS as reported by Rocke and Lorenzato (1995) — rl95_toluene"><meta property="og:description" content="Dataset reproduced from Table 4 in Rocke and Lorenzato (1995). The toluene - amount in the calibration samples is given in picograms per 100 µL. - Presumably this is the volume that was injected into the instrument."><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]> +amount in the calibration samples is given in picograms per 100 µL. +Presumably this is the volume that was injected into the instrument."><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]> <script src="https://oss.maxcdn.com/html5shiv/3.7.3/html5shiv.min.js"></script> <script src="https://oss.maxcdn.com/respond/1.4.2/respond.min.js"></script> <![endif]--></head><body data-spy="scroll" data-target="#toc"> @@ -49,26 +49,26 @@ <div class="col-md-9 contents"> <div class="page-header"> <h1>Toluene amounts measured by GC/MS as reported by Rocke and Lorenzato (1995)</h1> - + <small class="dont-index">Source: <a href="https://github.com/jranke/chemCal/blob/HEAD/R/chemCal-package.R" class="external-link"><code>R/chemCal-package.R</code></a></small> <div class="hidden name"><code>rl95_toluene.Rd</code></div> </div> <div class="ref-description"> <p>Dataset reproduced from Table 4 in Rocke and Lorenzato (1995). The toluene - amount in the calibration samples is given in picograms per 100 µL. - Presumably this is the volume that was injected into the instrument.</p> +amount in the calibration samples is given in picograms per 100 µL. +Presumably this is the volume that was injected into the instrument.</p> </div> <div id="format"> <h2>Format</h2> - <p>A dataframe containing four replicate observations for each - of the six calibration standards.</p> + <p>A dataframe containing four replicate observations for each of the +six calibration standards.</p> </div> <div id="source"> <h2>Source</h2> - <p>Rocke, David M. und Lorenzato, Stefan (1995) A two-component model for - measurement error in analytical chemistry. Technometrics 37(2), 176-184.</p> + <p>Rocke, David M. und Lorenzato, Stefan (1995) A two-component model +for measurement error in analytical chemistry. Technometrics 37(2), 176-184.</p> </div> </div> diff --git a/docs/reference/utstats14.html b/docs/reference/utstats14.html index 78d2604..1ffc224 100644 --- a/docs/reference/utstats14.html +++ b/docs/reference/utstats14.html @@ -1,6 +1,6 @@ <!DOCTYPE html> -<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; charset=UTF-8"><meta charset="utf-8"><meta http-equiv="X-UA-Compatible" content="IE=edge"><meta name="viewport" content="width=device-width, initial-scale=1.0"><title>Example data for calibration with replicates from University of Toronto — utstats14 • chemCal</title><!-- jquery --><script src="https://cdnjs.cloudflare.com/ajax/libs/jquery/3.4.1/jquery.min.js" integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo=" crossorigin="anonymous"></script><!-- Bootstrap --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/css/bootstrap.min.css" integrity="sha256-bZLfwXAP04zRMK2BjiO8iu9pf4FbLqX6zitd+tIvLhE=" crossorigin="anonymous"><script src="https://cdnjs.cloudflare.com/ajax/libs/twitter-bootstrap/3.4.1/js/bootstrap.min.js" integrity="sha256-nuL8/2cJ5NDSSwnKD8VqreErSWHtnEP9E7AySL+1ev4=" crossorigin="anonymous"></script><!-- bootstrap-toc --><link rel="stylesheet" href="../bootstrap-toc.css"><script src="../bootstrap-toc.js"></script><!-- Font Awesome icons --><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/all.min.css" integrity="sha256-mmgLkCYLUQbXn0B1SRqzHar6dCnv9oZFPEC1g1cwlkk=" crossorigin="anonymous"><link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.12.1/css/v4-shims.min.css" integrity="sha256-wZjR52fzng1pJHwx4aV2AO3yyTOXrcDW7jBpJtTwVxw=" crossorigin="anonymous"><!-- clipboard.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/clipboard.js/2.0.6/clipboard.min.js" integrity="sha256-inc5kl9MA1hkeYUt+EC3BhlIgyp/2jDIyBLS6k3UxPI=" crossorigin="anonymous"></script><!-- headroom.js --><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/headroom.min.js" integrity="sha256-AsUX4SJE1+yuDu5+mAVzJbuYNPHj/WroHuZ8Ir/CkE0=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/headroom/0.11.0/jQuery.headroom.min.js" integrity="sha256-ZX/yNShbjqsohH1k95liqY9Gd8uOiE1S4vZc+9KQ1K4=" crossorigin="anonymous"></script><!-- pkgdown --><link href="../pkgdown.css" rel="stylesheet"><script src="../pkgdown.js"></script><meta property="og:title" content="Example data for calibration with replicates from University of Toronto — utstats14"><meta property="og:description" content="Dataset read into R from - https://sites.chem.utoronto.ca/chemistry/coursenotes/analsci/stats/files/example14.xls."><!-- mathjax --><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/MathJax.js" integrity="sha256-nvJJv9wWKEm88qvoQl9ekL2J+k/RWIsaSScxxlsrv8k=" crossorigin="anonymous"></script><script src="https://cdnjs.cloudflare.com/ajax/libs/mathjax/2.7.5/config/TeX-AMS-MML_HTMLorMML.js" integrity="sha256-84DKXVJXs0/F8OTMzX4UR909+jtl4G7SPypPavF+GfA=" crossorigin="anonymous"></script><!--[if lt IE 9]> +<!-- Generated by pkgdown: do not edit by hand --><html lang="en"><head><meta http-equiv="Content-Type" content="text/html; 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Tutorial website - maintained by the Departments of Chemistry, University of Toronto. - <a href="https://sites.chem.utoronto.ca/chemistry/coursenotes/analsci/stats/index.html" class="external-link">https://sites.chem.utoronto.ca/chemistry/coursenotes/analsci/stats/index.html</a></p> + <p>David Stone and Jon Ellis (2011) Statistics in Analytical Chemistry. +Tutorial website maintained by the Departments of Chemistry, University of +Toronto. +<a href="https://sites.chem.utoronto.ca/chemistry/coursenotes/analsci/stats/index.html" class="external-link">https://sites.chem.utoronto.ca/chemistry/coursenotes/analsci/stats/index.html</a></p> </div> </div> |