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<h1>Reference</h1>
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<table class="ref-index">
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<col class="alias" />
<col class="title" />
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<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(<i><one_box></i>)</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><tr>
<td>
<p><code><a href="pfm_degradation.html">pfm_degradation()</a></code> </p>
</td>
<td><p>Calculate a time course of relative concentrations based on an mkinmod model</p></td>
</tr><tr>
<td>
<p><code><a href="SFO_actual_twa.html">SFO_actual_twa()</a></code> </p>
</td>
<td><p>Actual and maximum moving window time average concentrations for SFO kinetics</p></td>
</tr><tr>
<td>
<p><code><a href="FOMC_actual_twa.html">FOMC_actual_twa()</a></code> </p>
</td>
<td><p>Actual and maximum moving window time average concentrations for FOMC kinetics</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><tr>
<td>
<p><code><a href="soil_scenario_data_EFSA_2017.html">soil_scenario_data_EFSA_2017</a></code> </p>
</td>
<td><p>Properties of the predefined scenarios from the EFSA guidance from 2017</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="FOCUS_GW_scenarios_2012.html">FOCUS_GW_scenarios_2012</a></code> </p>
</td>
<td><p>A very small subset of the FOCUS Groundwater scenario definitions</p></td>
</tr><tr>
<td>
<p><code><a href="create_run_list.html">create_run_list()</a></code> </p>
</td>
<td><p>Create a list of runs that we can traverse</p></td>
</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><tr>
<td>
<p><code><a href="PELMO_path.html">PELMO_path()</a></code> </p>
</td>
<td><p>Create a path of run directories as the PELMO GUI does</p></td>
</tr><tr>
<td>
<p><code><a href="FOCUS_PELMO_crop_sze_names.html">FOCUS_PELMO_crop_sze_names</a></code> </p>
</td>
<td><p>FOCUS PELMO crop acronyms used for naming sceneario files</p></td>
</tr><tr>
<td>
<p><code><a href="FOCUS_PELMO_crops.html">FOCUS_PELMO_crops</a></code> </p>
</td>
<td><p>FOCUS PELMO crop names</p></td>
</tr><tr>
<td>
<p><code><a href="FOCUS_PELMO_location_codes.html">FOCUS_PELMO_location_codes</a></code> </p>
</td>
<td><p>Location codes in FOCUS PELMO</p></td>
</tr><tr>
<td>
<p><code><a href="focus_80th.html">focus_80th()</a></code> </p>
</td>
<td><p>Calculate the 80th percentile according to FOCUS guidance</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_sed.html">PEC_sw_sed()</a></code> </p>
</td>
<td><p>Calculate predicted environmental concentrations in sediment from surface
water concentrations</p></td>
</tr><tr>
<td>
<p><code><a href="chent_focus_sw.html">chent_focus_sw()</a></code> </p>
</td>
<td><p>Create a chemical compound object for FOCUS Step 1 calculations</p></td>
</tr><tr>
<td>
<p><code><a href="PEC_sw_focus.html">PEC_sw_focus()</a></code> </p>
</td>
<td><p>Calculate PEC surface water at FOCUS Step 1</p></td>
</tr><tr>
<td>
<p><code><a href="FOCUS_Step_12_scenarios.html">FOCUS_Step_12_scenarios</a></code> </p>
</td>
<td><p>Step 1/2 scenario data as distributed with the FOCUS Step 1/2 calculator</p></td>
</tr><tr>
<td>
<p><code><a href="perc_runoff_exposit.html">perc_runoff_exposit</a></code> </p>
</td>
<td><p>Runoff loss percentages as used in Exposit 3</p></td>
</tr><tr>
<td>
<p><code><a href="perc_runoff_reduction_exposit.html">perc_runoff_reduction_exposit</a></code> </p>
</td>
<td><p>Runoff reduction percentages as used in Exposit</p></td>
</tr><tr>
<td>
<p><code><a href="PEC_sw_exposit_runoff.html">PEC_sw_exposit_runoff()</a></code> </p>
</td>
<td><p>Calculate PEC surface water due to runoff and erosion as in Exposit 3</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 water 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(<i><TOXSWA_cwa></i>)</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(<i><GUS_result></i>)</a></code> </p>
</td>
<td><p>Groundwater ubiquity score based on Gustafson (1989)</p></td>
</tr>
</tbody>
</table>
</div>
<div class="col-md-3 hidden-xs hidden-sm" id="sidebar">
<h2>Contents</h2>
<ul class="nav nav-pills nav-stacked">
<li><a href="#section-general-utility-functions">General utility functions</a></li>
<li><a href="#section-predicted-environmental-concentrations-in-soil">Predicted environmental concentrations in soil</a></li>
<li><a href="#section-predicted-environmental-concentrations-in-groundwater">Predicted environmental concentrations in groundwater</a></li>
<li><a href="#section-predicted-environmental-concentrations-in-surface-water">Predicted environmental concentrations in surface water</a></li>
<li><a href="#section-classifications-and-indicators">Classifications and indicators</a></li>
</ul>
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