diff options
| author | Johannes Ranke <jranke@uni-bremen.de> | 2017-05-16 15:43:50 +0200 |
|---|---|---|
| committer | Johannes Ranke <jranke@uni-bremen.de> | 2017-05-16 15:43:50 +0200 |
| commit | 36036b5901223591e7e21e8b73d8cd1fb034f4cb (patch) | |
| tree | ed8e764778aa2e94b785263d18d7d8e3dfe4e785 /docs/reference/index.html | |
| parent | d042f8f06b313e8595087587455daac73d84f17b (diff) | |
Finish the Step 1 calculator including tests
Some cleaning up. PELMO facilities do not currently work at my end,
as I have no working wine installation on this computer
Diffstat (limited to 'docs/reference/index.html')
| -rw-r--r-- | docs/reference/index.html | 266 |
1 files changed, 163 insertions, 103 deletions
diff --git a/docs/reference/index.html b/docs/reference/index.html index 33713b6..a6ae657 100644 --- a/docs/reference/index.html +++ b/docs/reference/index.html @@ -25,12 +25,14 @@ <script src="../pkgdown.js"></script> <!-- mathjax --> -<script src='https://cdn.mathjax.org/mathjax/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML'></script> +<script src='https://mathjax.rstudio.com/latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML'></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> @@ -66,113 +68,171 @@ <div class="row"> <div class="col-md-9"> <div class="page-header"> - <h1>Function reference</h1> - <h4>version 0.4-2</h4> + <h1> + Reference + <small>version 0.4-3</small> + </h1> </div> <div class="contents"> - <h2 id="section-general-utility-functions" class="hasAnchor"><a href="#section-general-utility-functions" class="anchor"></a>General utility functions</h2> - <p class="section-desc"><p>Functions that are independent of specific fate modelling areas</p></p> - - - <p><a href="geomean.html">Calculate the geometric mean</a></p> - <ul> - <li><code><a href="geomean.html">geomean</a></code></li> - </ul> - - <p><a href="one_box.html">Create a time series of decline data</a></p> - <ul> - <li><code><a href="one_box.html">one_box</a></code></li><li><code><a href="one_box.html">one_box.numeric</a></code></li><li><code><a href="one_box.html">one_box.character</a></code></li><li><code><a href="one_box.html">one_box.mkinfit</a></code></li> - </ul> - - <p><a href="plot.one_box.html">Plot time series of decline data</a></p> - <ul> - <li><code><a href="plot.one_box.html">plot.one_box</a></code></li> - </ul> - - <p><a href="sawtooth.html">Create decline time series for multiple applications</a></p> - <ul> - <li><code><a href="sawtooth.html">sawtooth</a></code></li> - </ul> - - <p><a href="twa.html">Calculate a time weighted average concentration</a></p> - <ul> - <li><code><a href="twa.html">twa</a></code></li><li><code><a href="twa.html">twa.one_box</a></code></li> - </ul> - - <p><a href="max_twa.html">The maximum time weighted average concentration for a moving window</a></p> - <ul> - <li><code><a href="max_twa.html">max_twa</a></code></li> - </ul> - <h2 id="section-predicted-environmental-concentrations-in-soil" class="hasAnchor"><a href="#section-predicted-environmental-concentrations-in-soil" class="anchor"></a>Predicted environmental concentrations in soil</h2> - <p class="section-desc"></p> + <table class="ref-index"> - - <p><a href="PEC_soil.html">Calculate predicted environmental concentrations in soil</a></p> - <ul> - <li><code><a href="PEC_soil.html">PEC_soil</a></code></li> - </ul> - - <p><a href="soil_scenario_data_EFSA_2015.html">Properties of the predefined scenarios from the EFSA guidance from 2015</a></p> - <ul> - <li><code><a href="soil_scenario_data_EFSA_2015.html">soil_scenario_data_EFSA_2015</a></code></li> - </ul> - <h2 id="section-predicted-environmental-concentrations-in-groundwater" class="hasAnchor"><a href="#section-predicted-environmental-concentrations-in-groundwater" class="anchor"></a>Predicted environmental concentrations in groundwater</h2> - <p class="section-desc"></p> + <colgroup> + <col class="alias" /> + <col class="title" /> + </colgroup> - - <p><a href="PELMO_runs.html">Set up runs for FOCUS PELMO</a></p> - <ul> - <li><code><a href="PELMO_runs.html">PELMO_runs</a></code></li><li><code><a href="PELMO_runs.html">run_PELMO</a></code></li><li><code><a href="PELMO_runs.html">evaluate_PELMO</a></code></li> - </ul> - <h2 id="section-predicted-environmental-concentrations-in-surface-water" class="hasAnchor"><a href="#section-predicted-environmental-concentrations-in-surface-water" class="anchor"></a>Predicted environmental concentrations in surface water</h2> - <p class="section-desc"></p> - - - <p><a href="PEC_sw_drift.html">Calculate predicted environmental concentrations in surface water due to drift</a></p> - <ul> - <li><code><a href="PEC_sw_drift.html">PEC_sw_drift</a></code></li> - </ul> - - <p><a href="drift_data_JKI.html">Deposition from spray drift expressed as percent of the applied dose as -</a></p> - <ul> - <li><code><a href="drift_data_JKI.html">drift_data_JKI</a></code></li> - </ul> - - <p><a href="PEC_sw_drainage_UK.html">Calculate initial predicted environmental concentrations in surface water due to drainage using the UK method</a></p> - <ul> - <li><code><a href="PEC_sw_drainage_UK.html">PEC_sw_drainage_UK</a></code></li> - </ul> - - <p><a href="TOXSWA_cwa.html">R6 class for holding TOXSWA cwa concentration data and associated statistics</a></p> - <ul> - <li><code><a href="TOXSWA_cwa.html">TOXSWA_cwa</a></code></li> - </ul> - - <p><a href="read.TOXSWA_cwa.html">Read TOXSWA surface water concentrations</a></p> - <ul> - <li><code><a href="read.TOXSWA_cwa.html">read.TOXSWA_cwa</a></code></li> - </ul> - - <p><a href="plot.TOXSWA_cwa.html">Plot TOXSWA surface water concentrations</a></p> - <ul> - <li><code><a href="plot.TOXSWA_cwa.html">plot.TOXSWA_cwa</a></code></li> - </ul> - <h2 id="section-classifications-and-indicators" class="hasAnchor"><a href="#section-classifications-and-indicators" class="anchor"></a>Classifications and indicators</h2> - <p class="section-desc"><p>Evaluating environmental fate properties</p></p> - - - <p><a href="SSLRC_mobility_classification.html">Determine the SSLRC mobility classification for a chemical substance from its Koc</a></p> - <ul> - <li><code><a href="SSLRC_mobility_classification.html">SSLRC_mobility_classification</a></code></li> - </ul> - - <p><a href="GUS.html">Groundwater ubiquity score based on Gustafson (1989)</a></p> - <ul> - <li><code><a href="GUS.html">GUS</a></code></li><li><code><a href="GUS.html">GUS.numeric</a></code></li><li><code><a href="GUS.html">GUS.chent</a></code></li><li><code><a href="GUS.html">print.GUS_result</a></code></li> - </ul> - + <tbody> + <tr> + <th colspan="2"> + <h2 id="section-general-utility-functions" class="hasAnchor"><a href="#section-general-utility-functions" class="anchor"></a>General utility functions</h2> + <p class="section-desc"><p>Functions that are independent of specific fate modelling areas</p></p> + </th> + </tr> + <tr> + <!-- --> + <td> + <p><code><a href="geomean.html">geomean</a></code> </p> + </td> + <td><p>Calculate the geometric mean</p></td> + </tr><tr> + <!-- --> + <td> + <p><code><a href="one_box.html">one_box</a></code> </p> + </td> + <td><p>Create a time series of decline data</p></td> + </tr><tr> + <!-- --> + <td> + <p><code><a href="plot.one_box.html">plot</a></code> </p> + </td> + <td><p>Plot time series of decline data</p></td> + </tr><tr> + <!-- --> + <td> + <p><code><a href="sawtooth.html">sawtooth</a></code> </p> + </td> + <td><p>Create decline time series for multiple applications</p></td> + </tr><tr> + <!-- --> + <td> + <p><code><a href="twa.html">twa</a></code> </p> + </td> + <td><p>Calculate a time weighted average concentration</p></td> + </tr><tr> + <!-- --> + <td> + <p><code><a href="max_twa.html">max_twa</a></code> </p> + </td> + <td><p>The maximum time weighted average concentration for a moving window</p></td> + </tr> + </tbody><tbody> + <tr> + <th colspan="2"> + <h2 id="section-predicted-environmental-concentrations-in-soil" class="hasAnchor"><a href="#section-predicted-environmental-concentrations-in-soil" class="anchor"></a>Predicted environmental concentrations in soil</h2> + <p class="section-desc"></p> + </th> + </tr> + <tr> + <!-- --> + <td> + <p><code><a href="PEC_soil.html">PEC_soil</a></code> </p> + </td> + <td><p>Calculate predicted environmental concentrations in soil</p></td> + </tr><tr> + <!-- --> + <td> + <p><code><a href="soil_scenario_data_EFSA_2015.html">soil_scenario_data_EFSA_2015</a></code> </p> + </td> + <td><p>Properties of the predefined scenarios from the EFSA guidance from 2015</p></td> + </tr> + </tbody><tbody> + <tr> + <th colspan="2"> + <h2 id="section-predicted-environmental-concentrations-in-groundwater" class="hasAnchor"><a href="#section-predicted-environmental-concentrations-in-groundwater" class="anchor"></a>Predicted environmental concentrations in groundwater</h2> + <p class="section-desc"></p> + </th> + </tr> + <tr> + <!-- --> + <td> + <p><code><a href="PELMO_runs.html">PELMO_runs</a></code> <code><a href="PELMO_runs.html">run_PELMO</a></code> <code><a href="PELMO_runs.html">evaluate_PELMO</a></code> </p> + </td> + <td><p>Set up runs for FOCUS PELMO</p></td> + </tr> + </tbody><tbody> + <tr> + <th colspan="2"> + <h2 id="section-predicted-environmental-concentrations-in-surface-water" class="hasAnchor"><a href="#section-predicted-environmental-concentrations-in-surface-water" class="anchor"></a>Predicted environmental concentrations in surface water</h2> + <p class="section-desc"></p> + </th> + </tr> + <tr> + <!-- --> + <td> + <p><code><a href="PEC_sw_drift.html">PEC_sw_drift</a></code> </p> + </td> + <td><p>Calculate predicted environmental concentrations in surface water due to drift</p></td> + </tr><tr> + <!-- --> + <td> + <p><code><a href="drift_data_JKI.html">drift_data_JKI</a></code> </p> + </td> + <td><p>Deposition from spray drift expressed as percent of the applied dose as +published by the JKI</p></td> + </tr><tr> + <!-- --> + <td> + <p><code><a href="PEC_sw_drainage_UK.html">PEC_sw_drainage_UK</a></code> </p> + </td> + <td><p>Calculate initial predicted environmental concentrations in surface water due to drainage using the UK method</p></td> + </tr><tr> + <!-- --> + <td> + <p><code><a href="PEC_sw_focus.html">PEC_sw_focus</a></code> </p> + </td> + <td><p>Calculate FOCUS Step 1 PEC surface water</p></td> + </tr><tr> + <!-- --> + <td> + <p><code><a href="TOXSWA_cwa.html">TOXSWA_cwa</a></code> </p> + </td> + <td><p>R6 class for holding TOXSWA cwa concentration data and associated statistics</p></td> + </tr><tr> + <!-- --> + <td> + <p><code><a href="read.TOXSWA_cwa.html">read.TOXSWA_cwa</a></code> </p> + </td> + <td><p>Read TOXSWA surface water concentrations</p></td> + </tr><tr> + <!-- --> + <td> + <p><code><a href="plot.TOXSWA_cwa.html">plot</a></code> </p> + </td> + <td><p>Plot TOXSWA surface water concentrations</p></td> + </tr> + </tbody><tbody> + <tr> + <th colspan="2"> + <h2 id="section-classifications-and-indicators" class="hasAnchor"><a href="#section-classifications-and-indicators" class="anchor"></a>Classifications and indicators</h2> + <p class="section-desc"><p>Evaluating environmental fate properties</p></p> + </th> + </tr> + <tr> + <!-- --> + <td> + <p><code><a href="SSLRC_mobility_classification.html">SSLRC_mobility_classification</a></code> </p> + </td> + <td><p>Determine the SSLRC mobility classification for a chemical substance from its Koc</p></td> + </tr><tr> + <!-- --> + <td> + <p><code><a href="GUS.html">GUS</a></code> <code><a href="GUS.html">print</a></code> </p> + </td> + <td><p>Groundwater ubiquity score based on Gustafson (1989)</p></td> + </tr> + </tbody> + </table> </div> </div> |