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authorJohannes Ranke <jranke@uni-bremen.de>2015-12-22 19:32:54 +0100
committerJohannes Ranke <jranke@uni-bremen.de>2015-12-22 19:32:54 +0100
commit3a579d87820ccbec514f1be5eb090e874fd87eec (patch)
treefdc726d4938dc98fc741a38435372da22dc9e956 /pkg/inst/web/TOXSWA_cwa.html
parent9851a97ec915ddbfc8357f1a7e2cabae56c89f7d (diff)
EFSA 2015 tier 1 PEC soil, clean up, add static docs
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+<!DOCTYPE html>
+<html lang="en">
+ <head>
+ <meta charset="utf-8">
+<title>TOXSWA_cwa. pfm 0.3-1</title>
+<meta name="viewport" content="width=device-width, initial-scale=1.0">
+<meta name="author" content="">
+
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+ src="http://cdn.mathjax.org/mathjax/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML">
+</script>
+ </head>
+
+ <body>
+ <div class="navbar">
+ <div class="navbar-inner">
+ <div class="container">
+ <a class="brand" href="#">pfm 0.3-1</a>
+ <div class="nav">
+ <ul class="nav">
+ <li><a href="index.html"><i class="icon-home icon-white"></i> Index</a></li>
+ </ul>
+ </div>
+ </div>
+ </div>
+</div>
+
+ <div class="container">
+ <header>
+
+ </header>
+
+ <h1>R6 class for holding TOXSWA cwa concentration data and associated statistics</h1>
+
+<div class="row">
+ <div class="span8">
+ <h2>Usage</h2>
+ <pre><div>TOXSWA_cwa</div></pre>
+
+ <div class="Format">
+ <h2>Format</h2>
+
+ <p>An <code><a href='http://www.inside-r.org/packages/cran/R6/docs/R6Class'>R6Class</a></code> generator object.</p>
+
+ </div>
+
+ <div class="Description">
+ <h2>Description</h2>
+
+ <p>An R6 class for holding TOXSWA cwa concentration data and some associated statistics.
+Usually, an instance of this class will be generated by <code><a href='read.TOXSWA_cwa.html'>read.TOXSWA_cwa</a></code>.</p>
+
+ </div>
+
+ <div class="Fields">
+ <h2>Fields</h2>
+
+ <p></p>
+
+ <p><dl>
+<dt><code>filename</code></dt><dd>Length one character vector.</dd></p>
+
+ <p><dt><code>basedir</code></dt><dd>Length one character vector.</dd></p>
+
+ <p><dt><code>segment</code></dt><dd>Length one integer, specifying for which segment the cwa data were read.</dd></p>
+
+ <p><dt><code>cwas</code></dt><dd>Dataframe holding the concentrations.</dd></p>
+
+ <p><dt><code>events</code></dt><dd>List of dataframes holding the event statistics for each threshold.</dd></p>
+
+ <p><dt><code>windows</code></dt><dd>Matrix of maximum time weighted average concentrations (TWAC_max)
+and areas under the curve in µg/day * h (AUC_max_h) or µg/day * d (AUC_max_d)
+for the requested moving window sizes in days.</dd></p>
+
+ <p></dl></p>
+
+ </div>
+
+ <div class="Methods">
+ <h2>Methods</h2>
+
+ <p></p>
+
+ <p><dl>
+ <dt><code>get_events(threshold, total = FALSE)</code></dt><dd>
+ Populate a datataframe with event information for the specified threshold value
+ in µg/L. If <code>total = TRUE</code>, the total concentration including the amount
+ adsorbed to suspended matter will be used. The resulting dataframe is stored in the
+ <code>events</code> field of the object.
+ </dd></p>
+
+ <p><dt><code>moving_windows(windows, total = FALSE)</code></dt><dd>
+ Add to the <code>windows</code> field described above.
+ Again, if <code>total = TRUE</code>, the total concentration including the amount
+ adsorbed to suspended matter will be used.
+ </dd></p>
+
+ <p></dl></p>
+
+ <p></p>
+
+ </div>
+
+ <h2 id="examples">Examples</h2>
+ <pre class="examples"><div class='input'>H_sw_R1_stream &lt;- read.TOXSWA_cwa(&quot;00003s_pa.cwa&quot;,
+ basedir = &quot;SwashProjects/project_H_sw/TOXSWA&quot;,
+ zipfile = system.file(&quot;testdata/SwashProjects.zip&quot;,
+ package = &quot;pfm&quot;))
+H_sw_R1_stream$get_events(c(2, 10))
+H_sw_R1_stream$moving_windows(c(7, 21))
+print(H_sw_R1_stream)
+</div>
+<div class='output'>&lt;TOXSWA_cwa&gt; data from file 00003s_pa.cwa segment 20
+ datetime t t_firstjan t_rel_to_max cwa_mug_per_L
+20 1978-10-01 00:00:00 0.000 273.0000 -55.333 0
+40 1978-10-01 01:00:00 0.042 273.0417 -55.291 0
+60 1978-10-01 02:00:00 0.083 273.0833 -55.250 0
+80 1978-10-01 03:00:00 0.125 273.1250 -55.208 0
+100 1978-10-01 04:00:00 0.167 273.1667 -55.166 0
+120 1978-10-01 05:00:00 0.208 273.2083 -55.125 0
+ cwa_tot_mug_per_L
+20 0
+40 0
+60 0
+80 0
+100 0
+120 0
+Moving window analysis
+ window max_TWAC max_AUC_h max_AUC_d
+1 7 days 2.3926551 401.9660 16.74859
+2 21 days 0.8369248 421.8101 17.57542
+Event statistics for threshold 2
+ t_start cwa_max duration pre_interval AUC_h AUC_d
+1 44.375 4.167238 0.208 44.375 17.77202 0.740501
+2 55.042 40.584010 0.583 10.459 398.21189 16.592162
+Event statistics for threshold 10
+ t_start cwa_max duration pre_interval AUC_h AUC_d
+1 55.083 40.58401 0.459 55.083 379.433 15.80971
+</div></pre>
+ </div>
+ <div class="span4">
+ <!-- <ul>
+ <li>TOXSWA_cwa</li>
+ </ul>
+ <ul>
+ <li>data</li>
+ </ul> -->
+
+
+ </div>
+</div>
+
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