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<!DOCTYPE HTML>
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<title>omnideconv</title>
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<h1><a href="index.html">omnideconv</a></h1>
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<h2>omnideconv</h2>
<p>Enabling the deconvolution of any cell type, tissue, and organism</p>
</div>
</section>
<!-- Wrapper -->
<section id="wrapper">
<!-- One -->
<section id="one" class="wrapper spotlight style1">
<div class="inner">
<a class="image"><img src="images/omnideconv_icon.jpg" alt="" /></a>
<div class="content">
<h2 class="major">Welcome to omnideconv!</h2>
<p>omnideconv is an ecosystem of user-friendly tools and resources
for cell-type deconvolution.</p>
<p>The omnideconv ecosystem has been developed in a joint effort
of the <a href="https://computationalbiomedicinegroup.github.io/">Group of Computational Biomedicine</a>
(<a href="https://www.uibk.ac.at/">University of Innsbruck</a>, Austria)
and the <a href="https://www.mls.ls.tum.de/daisybio/startseite/">Group of Data Science in Systems Biology</a>
(<a href="https://www.ls.tum.de/ls/startseite/">TUM School of Life Sciences</a>, Germany).</p>
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</div>
</section>
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<section id="two" class="wrapper alt style2">
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<h2 class="major">Deconvolution of transcriptomics data</h2>
<p>Explore our collection of tools and resources for cell-type deconvolution of bulk RNA-seq and spatial transcriptomics data</p>
<section class="features">
<article>
<a href="https://github.com/omnideconv/immunedeconv/" class="image"><img src="images/immunedeconv.png" alt="" /></a>
<a href="https://github.com/omnideconv/immunedeconv/" class="special">Deconvolution of human and mouse transcriptomics</a>
</article>
<article>
<a href="https://github.com/omnideconv/omnideconv" class="image"><img src="images/omnideconv.png" alt="" /></a>
<a href="https://github.com/omnideconv/omnideconv" class="special">scRNA-seq-informed deconvolution of bulk RNA-seq</a>
</article>
<article>
<a href="https://github.com/omnideconv/spacedeconv/" class="image"><img src="images/spacedeconv.png" alt="" /></a>
<a href="https://github.com/omnideconv/spacedeconv/" class="special">Deconvolution of spatial transcriptomics data</a>
</article>
</section>
</div>
</section>
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<h2 class="major">Deconvolution assessment and benchmarking</h2>
<p>Explore our collection of tools and resources for the exploration of deconvolution results and systematic method benchmarking</p>
<section class="features">
<article>
<a href="https://github.com/omnideconv/SimBu" class="image"><img src="images/simbu.png" alt="" /></a>
<a href="https://github.com/omnideconv/SimBu" class="special">Simulator of pseudo-bulk RNA-seq data for deconvoluton benchmarking</a>
</article>
<article>
<a href="https://figshare.com/projects/deconvData/197794" class="image"><img src="images/deconvdata.png" alt="" /></a>
<a href="https://figshare.com/projects/deconvData/197794" class="special">Collection of validation RNA-seq datasets with matched ground-truth data</a>
</article>
<article>
<a href="https://exbio.wzw.tum.de/deconvexplorer/" class="image"><img src="images/deconvexplorer.png" alt="" /></a>
<a href="https://exbio.wzw.tum.de/deconvexplorer/" class="special">Interactive app for the exploration of deconvolution signatures and results</a>
</article>
<article>
<a href="https://github.com/omnideconv/deconvbench" class="image"><img src="images/deconvbench.png" alt="" /></a>
<a href="https://github.com/omnideconv/deconvbench" class="special">Comprehensive pipeline for the benchmarking of transcriptome-deconvolution methods</a>
</article>
</section>
</div>
</section>
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<h2 class="major">Deconvolution of epigenomics data</h2>
<p>Computational tools for the deconvolution of methylation data</p>
<section class="features">
<article>
<a href="#" class="image"><img src="images/methyldeconv.png" alt="" /></a>
<a href="#" class="special">Deconvolution of DNA methylation data</a>
</article>
</section>
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</section>
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<h2 class="major">Contact</h2>
<ul class="contact">
<li class="icon solid fa-home">
<b>Francesca Finotello</b><br/>
<a href="https://computationalbiomedicinegroup.github.io/">Group of Computational Biomedicine</a><br/>
University of Innsbruck<br/>
Innrain 15, 6020 Innsbruck, Austria<br/>
<a href="mailto:francesca.finotello@uibk.ac.at">Get in touch!</a>
</li>
<li class="icon solid fa-home">
<b>Markus List</b><br/>
<a href="https://www.mls.ls.tum.de/daisybio/startseite/">Group of Data Science in Systems Biology</a><br/>
TUM School of Life Sciences<br/>
Maximus-von-Imhof-Forum 3, 85354 Freising, Germany<br/>
<a href="mailto:markus.list@tum.de">Get in touch!</a>
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<li class="icon brands fa-github"><a href="https://github.com/omnideconv/">Follow us on GitHub!</a></li>
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<li>Francesca Finotello & Markus List. All rights reserved.</li>
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