PointSet

<p>A PointSet contains information about points located
  on <code>Outline</code>s. Each PointSet contains a list of
  matrices, each of which has columns labelled <code>X</code> and
  <code>Y</code> describing the cartesian coordinates (in the unscaled
  coordinate frame) of points on the Outline.</p>

Reconstructs retinae by morphing a flat surface with cuts
(a dissected flat-mount retina) onto a curvilinear surface (the
standard retinal shape). It can estimate the position of a point
on the intact adult retina to within 8 degrees of arc (3.6% of
nasotemporal axis). The coordinates in reconstructed retinae can
be transformed to visuotopic coordinates. For more details see
Sterratt, D. C., Lyngholm, D., Willshaw, D. J. and Thompson, I. D.
(2013) <doi:10.1371/journal.pcbi.1002921>.

David Sterratt

retistruct

Retinal Reconstruction Program

Daniel Lyngholm

Jan Okul

PointSet function

Author

<p><code>retistruct::FeatureSetCommon</code> -&gt; <code>retistruct::FeatureSet</code> -&gt; <code>PointSet</code></p>

Super classes


<div class="section" id="public-methods">
<h3>Public methods</h3><p></p><p><ul>
<li><p><a href="/link/PointSet%24new()?package=retistruct&version=0.8.0" data-mini-rdoc="retistruct::PointSet$new()"><code>PointSet$new()</code></a></p></li>
<li><p><a href="/link/PointSet%24reconstruct()?package=retistruct&version=0.8.0" data-mini-rdoc="retistruct::PointSet$reconstruct()"><code>PointSet$reconstruct()</code></a></p></li>
<li><p><a href="/link/PointSet%24clone()?package=retistruct&version=0.8.0" data-mini-rdoc="retistruct::PointSet$clone()"><code>PointSet$clone()</code></a></p></li>
</ul></p><p></p></div><p><details><summary>Inherited methods</summary>
<ul>
<li><span class="pkg-link" data-pkg="retistruct" data-topic="FeatureSetCommon" data-id="getCol"><a href="/link/retistruct%3A%3AFeatureSetCommon%24getCol()?package=retistruct&version=0.8.0" data-mini-rdoc="retistruct::retistruct::FeatureSetCommon$getCol()"><code>retistruct::FeatureSetCommon$getCol()</code></a></span></li>
<li><span class="pkg-link" data-pkg="retistruct" data-topic="FeatureSetCommon" data-id="getFeature"><a href="/link/retistruct%3A%3AFeatureSetCommon%24getFeature()?package=retistruct&version=0.8.0" data-mini-rdoc="retistruct::retistruct::FeatureSetCommon$getFeature()"><code>retistruct::FeatureSetCommon$getFeature()</code></a></span></li>
<li><span class="pkg-link" data-pkg="retistruct" data-topic="FeatureSetCommon" data-id="getFeatures"><a href="/link/retistruct%3A%3AFeatureSetCommon%24getFeatures()?package=retistruct&version=0.8.0" data-mini-rdoc="retistruct::retistruct::FeatureSetCommon$getFeatures()"><code>retistruct::FeatureSetCommon$getFeatures()</code></a></span></li>
<li><span class="pkg-link" data-pkg="retistruct" data-topic="FeatureSetCommon" data-id="getIDs"><a href="/link/retistruct%3A%3AFeatureSetCommon%24getIDs()?package=retistruct&version=0.8.0" data-mini-rdoc="retistruct::retistruct::FeatureSetCommon$getIDs()"><code>retistruct::FeatureSetCommon$getIDs()</code></a></span></li>
<li><span class="pkg-link" data-pkg="retistruct" data-topic="FeatureSetCommon" data-id="getIndex"><a href="/link/retistruct%3A%3AFeatureSetCommon%24getIndex()?package=retistruct&version=0.8.0" data-mini-rdoc="retistruct::retistruct::FeatureSetCommon$getIndex()"><code>retistruct::FeatureSetCommon$getIndex()</code></a></span></li>
<li><span class="pkg-link" data-pkg="retistruct" data-topic="FeatureSetCommon" data-id="setID"><a href="/link/retistruct%3A%3AFeatureSetCommon%24setID()?package=retistruct&version=0.8.0" data-mini-rdoc="retistruct::retistruct::FeatureSetCommon$setID()"><code>retistruct::FeatureSetCommon$setID()</code></a></span></li>
</ul>
</details></p><p><hr>
<a id="method-PointSet-new"></a></p><div class="section" id="method-new-">
<h3>Method <code>new()</code></h3>
<p>Constructor</p><div class="section" id="usage">
<h4>Usage</h4>
<p><div class="r"></div></p><pre><code>PointSet$new(data = NULL, cols = NULL)</code></pre><p></p></div><p></p>
</div><p></p><p><div class="section" id="arguments">
<h4>Arguments</h4>
<p><div class="arguments"></div></p><dl>
<dt><code>data</code></dt>
<dd><p>List of matrices describing data. Each matrix
should have columns named <code>X</code> and <code>Y</code></p></dd></dl></div></p><p>
<dt><code>cols</code></dt>
<dd><p>Named vector of colours for each data set. The name is
used as the ID (label) for the data set. The colours should be names
present in the output of the <code><a href="/link/colors?package=retistruct&version=0.8.0" data-mini-rdoc="retistruct::colors">colors</a></code> function</p></dd></p><p>
</p><p></p>
<p></p><p></p><p><hr>
<a id="method-PointSet-reconstruct"></a></p><div class="section" id="method-reconstruct-">
<h3>Method <code>reconstruct()</code></h3>
<p>Map the PointSet to a <code>ReconstructedOutline</code></p><div class="section" id="usage">
<h4>Usage</h4>
<p><div class="r"></div></p><pre><code>PointSet$reconstruct(ro)</code></pre><p></p></div><p></p>
</div><p></p><p><div class="section" id="arguments">
<h4>Arguments</h4>
<p><div class="arguments"></div></p><dl>
<dt><code>ro</code></dt>
<dd><p>The <code>ReconstructedOutline</code></p></dd></dl></div></p><p>
</p><p></p>
<p></p><p></p><p><hr>
<a id="method-PointSet-clone"></a></p><div class="section" id="method-clone-">
<h3>Method <code>clone()</code></h3>
<p>The objects of this class are cloneable with this method.</p><div class="section" id="usage">
<h4>Usage</h4>
<p><div class="r"></div></p><pre><code>PointSet$clone(deep = FALSE)</code></pre><p></p></div><p></p>
</div><p></p><p><div class="section" id="arguments">
<h4>Arguments</h4>
<p><div class="arguments"></div></p><dl>
<dt><code>deep</code></dt>
<dd><p>Whether to make a deep clone.</p></dd></dl></div></p><p>
</p><p></p>
<p></p><p>
</p>

Methods

Subclass of FeatureSet to represent points — PointSet


<div class='section' id='public-methods'>
<h3>Public methods</h3>

<ul>
<li><p><a href='#method-PointSet-new'><code>PointSet$new()</code></a></p></li>
<li><p><a href='#method-PointSet-reconstruct'><code>PointSet$reconstruct()</code></a></p></li>
<li><p><a href='#method-PointSet-clone'><code>PointSet$clone()</code></a></p></li>
</ul>

</div><p><details><summary>Inherited methods</summary>
<ul>
<li><span class="pkg-link" data-pkg="retistruct" data-topic="FeatureSetCommon" data-id="getCol"><a href='../../retistruct/html/FeatureSetCommon.html#method-FeatureSetCommon-getCol'><code>retistruct::FeatureSetCommon$getCol()</code></a></span></li>
<li><span class="pkg-link" data-pkg="retistruct" data-topic="FeatureSetCommon" data-id="getFeature"><a href='../../retistruct/html/FeatureSetCommon.html#method-FeatureSetCommon-getFeature'><code>retistruct::FeatureSetCommon$getFeature()</code></a></span></li>
<li><span class="pkg-link" data-pkg="retistruct" data-topic="FeatureSetCommon" data-id="getFeatures"><a href='../../retistruct/html/FeatureSetCommon.html#method-FeatureSetCommon-getFeatures'><code>retistruct::FeatureSetCommon$getFeatures()</code></a></span></li>
<li><span class="pkg-link" data-pkg="retistruct" data-topic="FeatureSetCommon" data-id="getIDs"><a href='../../retistruct/html/FeatureSetCommon.html#method-FeatureSetCommon-getIDs'><code>retistruct::FeatureSetCommon$getIDs()</code></a></span></li>
<li><span class="pkg-link" data-pkg="retistruct" data-topic="FeatureSetCommon" data-id="getIndex"><a href='../../retistruct/html/FeatureSetCommon.html#method-FeatureSetCommon-getIndex'><code>retistruct::FeatureSetCommon$getIndex()</code></a></span></li>
<li><span class="pkg-link" data-pkg="retistruct" data-topic="FeatureSetCommon" data-id="setID"><a href='../../retistruct/html/FeatureSetCommon.html#method-FeatureSetCommon-setID'><code>retistruct::FeatureSetCommon$setID()</code></a></span></li>
</ul>
</details>

<hr>
<a id="method-PointSet-new"></a></p><div class='section' id='method-new-'>
<h3>Method <code>new()</code></h3>
<p>Constructor</p><div class='section' id='usage'>
<h4>Usage</h4>
<p><div class="r"></p><pre><code>PointSet$new(data = NULL, cols = NULL)</code></pre><p></div></p>
</div>

<div class='section' id='arguments'>
<h4>Arguments</h4>
<p><div class="arguments"></p><dl>
<dt><code>data</code></dt>
<dd><p>List of matrices describing data. Each matrix
should have columns named <code>X</code> and <code>Y</code></p></dd>


<dt><code>cols</code></dt>
<dd><p>Named vector of colours for each data set. The name is
used as the ID (label) for the data set. The colours should be names
present in the output of the <code><a href='https://rdrr.io/r/grDevices/colors.html'>colors</a></code> function</p></dd>


</dl><p></div></p>
</div>

</div><p><hr>
<a id="method-PointSet-reconstruct"></a></p><div class='section' id='method-reconstruct-'>
<h3>Method <code>reconstruct()</code></h3>
<p>Map the PointSet to a <code>ReconstructedOutline</code></p><div class='section' id='usage'>
<h4>Usage</h4>
<p><div class="r"></p><pre><code>PointSet$reconstruct(ro)</code></pre><p></div></p>
</div>

<div class='section' id='arguments'>
<h4>Arguments</h4>
<p><div class="arguments"></p><dl>
<dt><code>ro</code></dt>
<dd><p>The <code>ReconstructedOutline</code></p></dd>


</dl><p></div></p>
</div>

</div><p><hr>
<a id="method-PointSet-clone"></a></p><div class='section' id='method-clone-'>
<h3>Method <code>clone()</code></h3>
<p>The objects of this class are cloneable with this method.</p><div class='section' id='usage'>
<h4>Usage</h4>
<p><div class="r"></p><pre><code>PointSet$clone(deep = FALSE)</code></pre><p></div></p>
</div>

<div class='section' id='arguments'>
<h4>Arguments</h4>
<p><div class="arguments"></p><dl>
<dt><code>deep</code></dt>
<dd><p>Whether to make a deep clone.</p></dd>


</dl><p></div></p>
</div>

</div>


PointSet: Subclass of `FeatureSet` to represent points

Description

Arguments

Author

Super classes

Methods

Public methods

Method `new()`

Usage

Arguments

Method `reconstruct()`

Usage

Arguments

Method `clone()`

Usage

Arguments

Description

Arguments

Author

Super classes

Methods

Public methods

Method new()

Usage

Arguments

Method reconstruct()

Usage

Arguments

Method clone()

Usage

Arguments

Method `new()`

Method `reconstruct()`

Method `clone()`