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JaroSant authored Sep 6, 2024
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background: url('20240602_155712.jpg') no-repeat center center fixed;
background-size: cover; /* Stretches the image to cover the entire background */
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82 changes: 58 additions & 24 deletions index.html
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<h2>Jaromir Sant</h2>
<!DOCTYPE html>
<html lang="en">

<p>Hello! I'm Posdoctoral Research Associate at the University of Oxford working within <a href="https://palamaralab.github.io/">Pier Francesco Palamara&#39;s group</a>. I am primarily interested in stochastic processes arising within the field of mathematical population genetics, and how fields such as probability theory, statistical computation and Bayesian analysis can be combined to provide powerful inferential methods and techniques to answer pertinent questions within genetics. Previously I was a Research Fellow at the University of Warwick, where I also completed my PhD in December 2021 under the supervision of Paul Jenkins, Jere Koskela and Dario Span&ograve;. I previously studied at Cambridge (Part III) and the University of Malta (BSc).</p>
<head>
<meta charset="UTF-8">
<meta name="viewport" content="width=device-width, initial-scale=1.0">
<title>Jaromir Sant</title>
<link rel="stylesheet" href="style.css">
<link rel="stylesheet" , href="index.css">
</head>

<p>Email: [email protected]</p>
<body>
<header>
<h1>Jaromir Sant</h1>
</header>
<div class="container">
<nav>
<a href="index.html">Home</a>
<a href="publications.html">Publications</a>
<a href="software.html">Software</a>
</nav>
<main>
<div class="content">
<section id="hello">
<h2>Hello!</h2>
<p>I'm a posdoct at the Dipartimento di Scienze Economico-Sociali e Matematico-Statistiche (<a
href="https://www.esomas.unito.it/do/home.pl">ESOMAS</a>)
at the Università di Torino, working with <a href="https://www.matteoruggiero.it/">Prof. Matteo
Ruggiero</a>. I am also affiliated to the <a href="https://www.carloalberto.org/"> Collegio
Carlo Alberto</a>
as part of the "de Castro" Statistics Initiative. </p>
<p>My main research interests revolve around stochastic processes arising within the field of
mathematical population genetics, and how techniques from probability theory, statistical
computation and Bayesian analysis can be combined to provide powerful inferential methods to
answer pertinent questions within genetics. </p>

<hr />
<h3>Publications</h3>
</section>

<p>P. A. Jenkins, J. Koskela, J. Sant, D. Span&ograve;, I. Valenti&#263; (2023). Excursion theory for the Wright&ndash;Fisher diffusion.<br />
[<a href="https://arxiv.org/abs/2309.16271">arxiv</a>]</p>
<section id="about">
<h2>About Me</h2>
<p>Previously, I was a Posdoctoral Research Associate at the University of Oxford working within <a
href="https://palamaralab.github.io/">Pier Francesco Palamara&#39;s group</a>. Prior to that
I was a
Research Fellow at the University of Warwick, where I also completed my PhD in December 2021
under the supervision of Paul Jenkins, Jere Koskela and Dario Span&ograve;. I previously studied
at Cambridge (Part III) and the University of Malta (BSc).

<p>A. Ignatieva, M. Favero*, J. Koskela*, J. Sant*, S. R. Myers (2023). The distribution of branch duration and detection of inversions in ancestral recombination graphs.<br />
[<a href="https://www.biorxiv.org/content/10.1101/2023.07.11.548567v1">bioarxiv</a>]</p>
<p>In the summer of 2022 I was one of the organisers of the&nbsp;<em>Stochastic modelling in the
life sciences</em>&nbsp;Junior Trimester Programme held at the Hausdorff Research Institute
for Mathematics (University of Bonn).</p>

<p>J. Sant, P. A. Jenkins, J. Koskela, D. Span&ograve; (2023). EWF: simulating exact paths of the Wright&ndash;Fisher diffusion.&nbsp;<em>Bioinformatics, </em>39(1):&nbsp;btad017<br />
[<a href="https://doi.org/10.1093/bioinformatics/btad017">Abstract &amp; pdf</a>][<a href="https://arxiv.org/abs/2301.05459">arxiv</a>][<a href="https://github.com/JaroSant/EWF">Github</a>]</p>
</section>

<p>J. Sant, P. A. Jenkins, J. Koskela, D. Span&ograve; (2022).&nbsp;Convergence of likelihood ratios and estimators for selection in nonneutral Wright&ndash;Fisher diffusions.&nbsp;<em>Scandinavian Journal of Statistics,</em> 49 (4): 1728-1760.<br />
[<a href="https://doi.org/10.1111/sjos.12572">Abstract &amp; pdf</a>][<a href="https://arxiv.org/abs/2001.03527">arxiv</a>]</p>
<section id="contact">
<h2>Contact</h2>
<p>I can be reached via email on the following address: <a
href="mailto:[email protected]">[email protected]</a></p>
</div>
<div class="photo-container">
<img src="photo.jpg" alt="Jaromir Sant">
</div>
</main>
</div>
</body>

<hr />
<h3>Software</h3>

<p>I am also keen on developing and making available reproducible and portable software:</p>

<p><a href="https://github.com/JaroSant/EWF">EWF</a> - exact diffusion and diffusion bridge simulation for the Wright--Fisher diffusion</p>

<hr />
<p>In the summer of 2022 I was one of the organisers of the&nbsp;<em>Stochastic modelling in the life sciences</em>&nbsp;Junior Trimester Programme held at the Hausdorff Research Institute for Mathematics (University of Bonn).</p>

<p>I am a Research Associate at Corpus Christi College, Oxford, and a member of the Senior Common Room.</p>
</html>
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body {
background: url('20230623_152114.jpg') no-repeat center center fixed;
background-size: cover; /* Stretches the image to cover the entire background */
}
39 changes: 39 additions & 0 deletions publications.html
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<!DOCTYPE html>
<html lang="en">
<head>
<meta charset="UTF-8">
<meta name="viewport" content="width=device-width, initial-scale=1.0">
<title>Publications - Jaromir Sant</title>
<link rel="stylesheet" href="style.css">
<link rel="stylesheet" href="publications.css">
</head>
<body>
<header>
<h1>Jaromir Sant</h1>
</header>
<div class="container">
<nav>
<a href="index.html">Home</a>
<a href="publications.html">Publications</a>
<a href="software.html">Software</a>
</nav>
<main>
<section id="publications">
<h2>Publications</h2>
<ul>
<p>P. A. Jenkins, J. Koskela, J. Sant, D. Span&ograve;, I. Valenti&#263; (2023). Excursion theory for the Wright&ndash;Fisher diffusion. [<a href="https://arxiv.org/abs/2309.16271">arxiv</a>]</p>

<p>A. Ignatieva, M. Favero*, J. Koskela*, J. Sant*, S. R. Myers (2023). The length of haplotype blocks and signals of structural variation in reconstructed genealogies. [<a href="https://www.biorxiv.org/content/10.1101/2023.07.11.548567v2">bioarxiv</a>]</p>

<p>J. Sant, P. A. Jenkins, J. Koskela, D. Span&ograve; (2023). EWF: simulating exact paths of the Wright&ndash;Fisher diffusion.&nbsp;<em>Bioinformatics, </em>39(1):&nbsp;btad017
[<a href="https://doi.org/10.1093/bioinformatics/btad017">Abstract &amp; pdf</a>][<a href="https://arxiv.org/abs/2301.05459">arxiv</a>][<a href="https://github.com/JaroSant/EWF">Github</a>]</p>

<p>J. Sant, P. A. Jenkins, J. Koskela, D. Span&ograve; (2022).&nbsp;Convergence of likelihood ratios and estimators for selection in nonneutral Wright&ndash;Fisher diffusions.&nbsp;<em>Scandinavian Journal of Statistics,</em> 49 (4): 1728-1760. [<a href="https://doi.org/10.1111/sjos.12572">Abstract &amp; pdf</a>][<a href="https://arxiv.org/abs/2001.03527">arxiv</a>]</p>

</ul>
</section>
</main>
</div>
</body>
</html>

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body {
background: url('20230603_114709.jpg') no-repeat center center fixed;
background-size: cover; /* Stretches the image to cover the entire background */
}
39 changes: 39 additions & 0 deletions software.html
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<!DOCTYPE html>
<html lang="en">

<head>
<meta charset="UTF-8">
<meta name="viewport" content="width=device-width, initial-scale=1.0">
<title>Software - Jaromir Sant</title>
<link rel="stylesheet" href="style.css">
<link rel="stylesheet" href="software.css">
</head>

<body>
<header>
<h1>Jaromir Sant</h1>
</header>
<div class="container">
<nav>
<a href="index.html">Home</a>
<a href="publications.html">Publications</a>
<a href="software.html">Software</a>
</nav>
<main>
<section id="software">
<h2>Software</h2>
<p>I am also keen on developing and making available reproducible and portable software.</p>
<ul>
<li><a href="https://github.com/jarosant/EWF">EWF</a> - exact diffusion and diffusion bridge
simulation for the Wright–Fisher diffusion</li>

</ul>
<p>I have also been involved in the development of the <a
href="https://palamaralab.github.io/software/argneedle/">ARG-Needle</a> codebase, extending the
framework to allow for ancient DNA.</p>
</section>
</main>
</div>
</body>

</html>
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