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authorJohannes Ranke <jranke@uni-bremen.de>2016-09-27 23:00:48 +0200
committerJohannes Ranke <jranke@uni-bremen.de>2016-09-27 23:00:48 +0200
commit12a31f4c130c551f82232d9ef7dfb608bd52c53f (patch)
tree2525ab1ea4102a6edddbd0c2f03f4a851bf2f9c5 /pkg/inst/web/endpoint.html
parent0d958ab6f84b569b5437f231c56004890c4ae23b (diff)
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-<!DOCTYPE html>
-<html lang="en">
- <head>
- <meta charset="utf-8">
-<title>endpoint. pfm 0.3-7</title>
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- <div class="navbar">
- <div class="navbar-inner">
- <div class="container">
- <a class="brand" href="#">pfm 0.3-7</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>Retrieve endpoint information from the chyaml field of a chent object</h1>
-
-<div class="row">
- <div class="span8">
- <h2>Usage</h2>
- <pre><div>endpoint(chent, medium&nbsp;=&nbsp;"soil", type&nbsp;=&nbsp;c("degradation", "sorption"), lab_field&nbsp;=&nbsp;c(NA, "laboratory", "field"), redox&nbsp;=&nbsp;c(NA, "aerobic", "anaerobic"), value&nbsp;=&nbsp;c("DT50ref", "Kfoc", "N"), aggregator&nbsp;=&nbsp;geomean, raw&nbsp;=&nbsp;FALSE, signif&nbsp;=&nbsp;3)</div>
-<div>soil_DT50(chent, aggregator&nbsp;=&nbsp;geomean, signif&nbsp;=&nbsp;3, lab_field&nbsp;=&nbsp;"laboratory", value&nbsp;=&nbsp;"DT50ref", redox&nbsp;=&nbsp;"aerobic", raw&nbsp;=&nbsp;FALSE)</div>
-<div>soil_Kfoc(chent, aggregator&nbsp;=&nbsp;geomean, signif&nbsp;=&nbsp;3, value&nbsp;=&nbsp;"Kfoc", raw&nbsp;=&nbsp;FALSE)</div>
-<div>soil_N(chent, aggregator&nbsp;=&nbsp;mean, signif&nbsp;=&nbsp;3, raw&nbsp;=&nbsp;FALSE)</div>
-<div>soil_sorption(chent, values&nbsp;=&nbsp;c("Kfoc", "N"), aggregators&nbsp;=&nbsp;c(Kfoc = geomean, Koc&nbsp;=&nbsp;geomean, N&nbsp;=&nbsp;mean), signif&nbsp;=&nbsp;c(Kfoc&nbsp;=&nbsp;3, N&nbsp;=&nbsp;3), raw&nbsp;=&nbsp;FALSE)</div></pre>
-
- <h2>Arguments</h2>
- <dl>
- <dt>chent</dt>
- <dd>The <code><a href='http://www.inside-r.org/packages/cran/chents/docs/chent'>chent</a></code> object to get the information from</dd>
- <dt>medium</dt>
- <dd>The medium for which information is sought</dd>
- <dt>type</dt>
- <dd>The information type</dd>
- <dt>lab_field</dt>
- <dd>If not NA, do we want laboratory or field endpoints</dd>
- <dt>redox</dt>
- <dd>If not NA, are we looking for aerobic or anaerobic data</dd>
- <dt>value</dt>
- <dd>The name of the value we want. The list given in the
-usage section is not exclusive</dd>
- <dt>aggregator</dt>
- <dd>The aggregator function. Can be mean,
-<code><a href='geomean.html'>geomean</a></code>, or identity, for example.</dd>
- <dt>raw</dt>
- <dd>Should the number(s) be returned as stored in the chent
-object (could be a character value) to retain original information
-about precision?</dd>
- <dt>signif</dt>
- <dd>How many significant digits do we want</dd>
- <dt>values</dt>
- <dd>The values to be returned</dd>
- <dt>aggregators</dt>
- <dd>A named vector of aggregator functions to be used</dd>
- </dl>
-
- <div class="Value">
- <h2>Value</h2>
-
- <p><dl>
-The result from applying the aggregator function to
- the values converted to a numeric vector, rounded to the
- given number of significant digits, or, if raw = TRUE,
- the values as a character value, retaining any implicit
- information on precision that may be present.
-</dl></p>
-
- </div>
-
- <div class="Description">
- <h2>Description</h2>
-
- <p>R6 class objects of class <code><a href='http://www.inside-r.org/packages/cran/chents/docs/chent'>chent</a></code> represent chemical entities
-and can hold a list of information loaded from a chemical yaml file in their
-chyaml field. Such information is extracted and optionally aggregated by
-this function.</p>
-
- </div>
-
- <div class="Details">
- <h2>Details</h2>
-
- <p>The functions <code>soil_*</code> are functions to extract soil specific endpoints.
-For the Freundlich exponent, the capital letter <code>N</code> is used in order to
-facilitate dealing with such data in R. In pesticide fate modelling, this
-exponent is often called 1/n.</p>
-
- </div>
- </div>
- <div class="span4">
- <!-- <ul>
- <li>endpoint</li><li>soil_DT50</li><li>soil_Kfoc</li><li>soil_N</li><li>soil_sorption</li>
- </ul>
- <ul>
-
- </ul> -->
-
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