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packages.html
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<!DOCTYPE html>
<html lang="en">
<link rel="stylesheet" href="https://github.com/SydneyBioX/packageHeader/hexagons.css?raw=true">
<body>
<p>Our scdney suite of packages includes functionality which is useful for <a href="https://sydneybiox.github.io/Spatial"> analysing spatial omics data</a>. These packages include functionalty for cell segmentation, marker quantification and normalisation, cell type annotation, various types of spatial inference, and patient classification.</p>
<ul id="hexGrid">
<li class="hex">
<div class="hexIn">
<a class="hexLink" href="https://sydneybiox.github.io/MoleculeExperiment/">
<img src="https://github.com/SydneyBioX/SydneyBioXStickers/blob/main/MoleculeExperiment/MoleculeExperiment.png?raw=true" alt="" />
<h1>MoleculeExperiment</h1>
<p>Data S4 class</p>
</a>
</div>
</li>
<li class="hex">
<div class="hexIn">
<a class="hexLink" href="https://sydneybiox.github.io/simpleSeg/">
<img src="https://github.com/SydneyBioX/SydneyBioXStickers/blob/main/simpleSeg/SimpleSeg_Hex_standard.png?raw=true" alt="" />
<h1>simpleSeg</h1>
<p>Cell segmentation</p>
</a>
</div>
</li>
<li class="hex">
<div class="hexIn">
<a class="hexLink" href="https://sydneybiox.github.io/scMerge/">
<img src="https://github.com/SydneyBioX/SydneyBioXStickers/blob/main/scMerge/scMerge.png?raw=true" alt="" />
<h1>scMerge</h1>
<p>Normalisation</p>
</a>
</div>
</li>
<li class="hex">
<div class="hexIn">
<a class="hexLink" href="http://www.bioconductor.org/packages/release/bioc/html/FuseSOM.html">
<img src="https://github.com/SydneyBioX/SydneyBioXStickers/blob/main/FuseSOM/fuseSOM_ai_standard.png?raw=true" alt="" />
<h1>FuseSOM</h1>
<p>Cell type clustering</p>
</a>
</div>
</li>
<li class="hex">
<div class="hexIn">
<a class="hexLink" href="http://www.bioconductor.org/packages/release/bioc/html/treekoR.html">
<img src="https://github.com/SydneyBioX/SydneyBioXStickers/blob/main/treekoR/treekoR.png?raw=true" alt="" />
<h1>treekoR</h1>
<p>Cell type hierarchy</p>
</a>
</div>
</li>
<li class="hex">
<div class="hexIn">
<a class="hexLink" href="http://www.bioconductor.org/packages/release/bioc/html/scFeatures.html">
<img src="https://github.com/SydneyBioX/SydneyBioXStickers/blob/main/scFeatures/sticker_version2.png?raw=true" alt="" />
<h1>scFeatures</h1>
<p>Extract spatial features from data.</p>
</a>
</div>
</li>
<li class="hex">
<div class="hexIn">
<a class="hexLink" href="https://bioconductor.org/packages/release/bioc/html/scHOT.html">
<img src="https://github.com/SydneyBioX/SydneyBioXStickers/blob/main/scHOT/scHOT_hex.png?raw=true" alt="" />
<h1>scHOT</h1>
<p>Higher order associations</p>
</a>
</div>
</li>
<li class="hex">
<div class="hexIn">
<a class="hexLink" href="https://ellispatrick.github.io/spicyR/">
<img src="https://github.com/SydneyBioX/SydneyBioXStickers/blob/main/spicyR/spicyR_standard.png?raw=true" alt="" />
<h1>spicyR</h1>
<p>Spatial inference</p>
</a>
</div>
</li>
<li class="hex">
<div class="hexIn">
<a class="hexLink" href="https://sydneybiox.github.io/Statial/">
<img src="https://github.com/SydneyBioX/SydneyBioXStickers/blob/main/Statial/statial.png?raw=true" alt="" />
<h1>Statial</h1>
<p>Spatial changes in cell state</p>
</a>
</div>
</li>
<li class="hex">
<div class="hexIn">
<a class="hexLink" href="https://ellispatrick.github.io/lisaClust/">
<img src="https://github.com/SydneyBioX/SydneyBioXStickers/blob/main/lisaClust/lisaClust_sticker_ai_standard.png?raw=true" alt="" />
<h1>lisaClust</h1>
<p>Microenvironment identification</p>
</a>
</div>
</li>
<li class="hex">
<div class="hexIn">
<a class="hexLink" href="https://sydneybiox.github.io/ClassifyR/">
<img src="https://github.com/SydneyBioX/SydneyBioXStickers/blob/main/ClassifyR/classifyR.png?raw=true" alt="" />
<h1>ClassifyR</h1>
<p>Classification of samples</p>
</a>
</div>
</li>
</ul>
</body>
</html>