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module-trajectory.html
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module-trajectory.html
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<!DOCTYPE html>
<html lang="en">
<head>
<meta charset="utf-8">
<title>JSDoc: Module: trajectory</title>
<script src="scripts/prettify/prettify.js"> </script>
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<body>
<div id="main">
<h1 class="page-title">Module: trajectory</h1>
<section>
<header>
</header>
<article>
<div class="container-overview">
</div>
<h3 class="subsection-title">Methods</h3>
<h4 class="name" id="~distanceBetweenPoints"><span class="type-signature">(inner) </span>distanceBetweenPoints<span class="signature">(x_1, y_1, z_1, x_2, y_2, z_2)</span><span class="type-signature"> → {float}</span></h4>
<div class="description">
<p>Function to compute the distance between two three dimensional points.</p>
<p>This code is based on the function found in:
<a href="http://snipplr.com/view.php?codeview&id=47207">http://snipplr.com/view.php?codeview&id=47207</a></p>
</div>
<h5>Parameters:</h5>
<table class="params">
<thead>
<tr>
<th>Name</th>
<th>Type</th>
<th class="last">Description</th>
</tr>
</thead>
<tbody>
<tr>
<td class="name"><code>x_1</code></td>
<td class="type">
<span class="param-type">float</span>
</td>
<td class="description last"><p>Initial value of a position in the first dimension</p></td>
</tr>
<tr>
<td class="name"><code>y_1</code></td>
<td class="type">
<span class="param-type">float</span>
</td>
<td class="description last"><p>Initial value of a position in the second dimension</p></td>
</tr>
<tr>
<td class="name"><code>z_1</code></td>
<td class="type">
<span class="param-type">float</span>
</td>
<td class="description last"><p>Initial value of a position in the third dimension</p></td>
</tr>
<tr>
<td class="name"><code>x_2</code></td>
<td class="type">
<span class="param-type">float</span>
</td>
<td class="description last"><p>Final value of a position in the first dimension</p></td>
</tr>
<tr>
<td class="name"><code>y_2</code></td>
<td class="type">
<span class="param-type">float</span>
</td>
<td class="description last"><p>Final value of a position in the second dimension</p></td>
</tr>
<tr>
<td class="name"><code>z_2</code></td>
<td class="type">
<span class="param-type">float</span>
</td>
<td class="description last"><p>Final value of a position in the third dimension</p></td>
</tr>
</tbody>
</table>
<dl class="details">
<dt class="tag-source">Source:</dt>
<dd class="tag-source"><ul class="dummy"><li>
<a href="trajectory.js.html">trajectory.js</a>, <a href="trajectory.js.html#line271">line 271</a>
</li></ul></dd>
</dl>
<h5>Returns:</h5>
<div class="param-desc">
<p>Value of the distance between the two points</p>
</div>
<dl>
<dt>
Type
</dt>
<dd>
<span class="param-type">float</span>
</dd>
</dl>
<h4 class="name" id="~getMinimumDelta"><span class="type-signature">(inner) </span>getMinimumDelta<span class="signature">(sampleData)</span><span class="type-signature"> → {float}</span></h4>
<div class="description">
<p>Function to calculate the minimum delta from an array of wrangled data by
getSampleNamesAndDataForSortedTrajectories.</p>
<p>This function will not take into account as a minimum delta zero values
i.e. the differential between two samples that lie at the same position in
the gradient.</p>
</div>
<h5>Parameters:</h5>
<table class="params">
<thead>
<tr>
<th>Name</th>
<th>Type</th>
<th class="last">Description</th>
</tr>
</thead>
<tbody>
<tr>
<td class="name"><code>sampleData</code></td>
<td class="type">
<span class="param-type">Array.<Object></span>
</td>
<td class="description last"><p>An Array as computed from mapping file data
and coordinates by getSampleNamesAndDataForSortedTrajectories.</p></td>
</tr>
</tbody>
</table>
<dl class="details">
<dt class="tag-source">Source:</dt>
<dd class="tag-source"><ul class="dummy"><li>
<a href="trajectory.js.html">trajectory.js</a>, <a href="trajectory.js.html#line420">line 420</a>
</li></ul></dd>
</dl>
<h5>Throws:</h5>
<dl>
<dt>
<div class="param-desc">
<p>Input data is undefined.</p>
</div>
</dt>
<dd></dd>
<dt>
<dl>
<dt>
Type
</dt>
<dd>
<span class="param-type">Error</span>
</dd>
</dl>
</dt>
<dd></dd>
</dl>
<h5>Returns:</h5>
<div class="param-desc">
<p>The minimum difference between two samples across the
defined gradient.</p>
</div>
<dl>
<dt>
Type
</dt>
<dd>
<span class="param-type">float</span>
</dd>
</dl>
<h4 class="name" id="~getSampleNamesAndDataForSortedTrajectories"><span class="type-signature">(inner) </span>getSampleNamesAndDataForSortedTrajectories<span class="signature">(mappingFileHeaders, mappingFileData, coordinatesData, trajectoryCategory, gradientCategory)</span><span class="type-signature"> → {Array.<Object>}</span></h4>
<div class="description">
<p>Helper data wrangling function, takes as inputs a mapping file and the
coordinates to synthesize the information into an array. Mainly used by
the AnimationDirector object.</p>
</div>
<h5>Parameters:</h5>
<table class="params">
<thead>
<tr>
<th>Name</th>
<th>Type</th>
<th class="last">Description</th>
</tr>
</thead>
<tbody>
<tr>
<td class="name"><code>mappingFileHeaders</code></td>
<td class="type">
<span class="param-type">Array.<string></span>
</td>
<td class="description last"><p>The metadata mapping file headers.</p></td>
</tr>
<tr>
<td class="name"><code>mappingFileData</code></td>
<td class="type">
<span class="param-type">Array.<Array></span>
</td>
<td class="description last"><p>An Array where the indices are sample
identifiers and each of the contained elements is an Array of strings where
the first element corresponds to the first data for the first column in the
mapping file (<code>mappingFileHeaders</code>).</p></td>
</tr>
<tr>
<td class="name"><code>coordinatesData</code></td>
<td class="type">
<span class="param-type">Array.<Object></span>
</td>
<td class="description last"><p>An Array of Objects where the indices are
the sample identifiers and each of the objects has the following
properties: x, y, z, name, color, P1, P2, P3, ... PN where N is the number
of dimensions in this dataset.</p></td>
</tr>
<tr>
<td class="name"><code>trajectoryCategory</code></td>
<td class="type">
<span class="param-type">string</span>
</td>
<td class="description last"><p>a string with the name of the mapping
file header where the data that groups the samples is contained, this will
usually be BODY_SITE, HOST_SUBJECT_ID, etc..</p></td>
</tr>
<tr>
<td class="name"><code>gradientCategory</code></td>
<td class="type">
<span class="param-type">string</span>
</td>
<td class="description last"><p>a string with the name of the mapping file
header where the data that spreads the samples over a gradient is
contained, usually time or days_since_epoch. Note that this should be an
all numeric category.</p></td>
</tr>
</tbody>
</table>
<dl class="details">
<dt class="tag-source">Source:</dt>
<dd class="tag-source"><ul class="dummy"><li>
<a href="trajectory.js.html">trajectory.js</a>, <a href="trajectory.js.html#line302">line 302</a>
</li></ul></dd>
</dl>
<h5>Throws:</h5>
<dl>
<dt>
<div class="param-desc">
<p>Any of the following:</p>
<ul>
<li>gradientIndex === -1</li>
<li>trajectoryIndex === -1</li>
</ul>
</div>
</dt>
<dd></dd>
<dt>
<dl>
<dt>
Type
</dt>
<dd>
<span class="param-type">Error</span>
</dd>
</dl>
</dt>
<dd></dd>
</dl>
<h5>Returns:</h5>
<div class="param-desc">
<p>An Array with the contained data indexed by the sample
identifiers.</p>
</div>
<dl>
<dt>
Type
</dt>
<dd>
<span class="param-type">Array.<Object></span>
</dd>
</dl>
<h4 class="name" id="~linearInterpolation"><span class="type-signature">(inner) </span>linearInterpolation<span class="signature">(x_1, y_1, z_1, x_2, y_2, z_2, steps)</span><span class="type-signature"> → {Array.<Object>}</span></h4>
<div class="description">
<p>Function to interpolate a certain number of steps between two three
dimensional points.</p>
<p>This code is based on the function found in:
http://snipplr.com/view.php?codeview&id=47206</p>
</div>
<h5>Parameters:</h5>
<table class="params">
<thead>
<tr>
<th>Name</th>
<th>Type</th>
<th class="last">Description</th>
</tr>
</thead>
<tbody>
<tr>
<td class="name"><code>x_1</code></td>
<td class="type">
<span class="param-type">float</span>
</td>
<td class="description last"><p>Initial value of a position in the first dimension</p></td>
</tr>
<tr>
<td class="name"><code>y_1</code></td>
<td class="type">
<span class="param-type">float</span>
</td>
<td class="description last"><p>Initial value of a position in the second dimension</p></td>
</tr>
<tr>
<td class="name"><code>z_1</code></td>
<td class="type">
<span class="param-type">float</span>
</td>
<td class="description last"><p>Initial value of a position in the third dimension</p></td>
</tr>
<tr>
<td class="name"><code>x_2</code></td>
<td class="type">
<span class="param-type">float</span>
</td>
<td class="description last"><p>Final value of a position in the first dimension</p></td>
</tr>
<tr>
<td class="name"><code>y_2</code></td>
<td class="type">
<span class="param-type">float</span>
</td>
<td class="description last"><p>Final value of a position in the second dimension</p></td>
</tr>
<tr>
<td class="name"><code>z_2</code></td>
<td class="type">