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michaeldeistler committed Aug 22, 2024
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<h1 id="credits">Credits<a class="headerlink" href="#credits" title="Permanent link">&para;</a></h1>
<p><code>Jaxley</code> is a collaborative project between the groups of Jakob Macke (Uni Tübingen), Pedro Gonçalves (KU Leuven / NERF), and Philipp Berens (Uni Tübingen).</p>
<h2 id="license">License<a class="headerlink" href="#license" title="Permanent link">&para;</a></h2>
<p><code>Jaxley</code> is licensed under the <a href="https://github.com/jaxleyverse/jaxley/blob/main/LICENSE">Apache License</a> and</p>
<p><code>Jaxley</code> is licensed under the <a href="https://github.com/jaxleyverse/jaxley/blob/main/LICENSE">Apache License Version 2.0 (Apache-2.0)</a> and</p>
<blockquote>
<p>Copyright (C) 2024 Michael Deistler, Jakob H. Macke, Pedro J. Goncalves, Philipp Berens.</p>
</blockquote>
<h2 id="important-dependencies-and-prior-art">Important dependencies and prior art<a class="headerlink" href="#important-dependencies-and-prior-art" title="Permanent link">&para;</a></h2>
<ul>
<li>We greatly benefited from previous toolboxes for simulating multicompartment neurons, in particular <a href="https://github.com/neuronsimulator/nrn">NEURON</a></li>
<li>We greatly benefited from previous toolboxes for simulating multicompartment neurons, in particular <a href="https://github.com/neuronsimulator/nrn">NEURON</a>.</li>
</ul>
<h2 id="funding">Funding<a class="headerlink" href="#funding" title="Permanent link">&para;</a></h2>
<p>This work was supported by the German Research Foundation (DFG) through Germany&rsquo;s Excellence Strategy (EXC 2064 – Project number 390727645) and the CRC 1233 &ldquo;Robust Vision&rdquo;, the German Federal Ministry of Education and Research (Tübingen AI Center, FKZ: 01IS18039A), the &lsquo;Certification and Foundations of Safe Machine Learning Systems in Healthcare&rsquo; project funded by the Carl Zeiss Foundation, and the European Union (ERC, &ldquo;DeepCoMechTome&rdquo;, ref. 101089288, &ldquo;NextMechMod&rdquo;, ref. 101039115).</p>



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</code></pre></div></p>
<h2 id="feedback-and-contributions">Feedback and Contributions<a class="headerlink" href="#feedback-and-contributions" title="Permanent link">&para;</a></h2>
<p>We welcome any feedback on how <code>Jaxley</code> is working for your neuron models and are happy to receive bug reports, pull requests and other feedback (see <a href="https://github.com/jaxleyverse/jaxley/blob/main/CONTRIBUTING.md">contribute</a>). We wish to maintain a positive community, please read our <a href="https://github.com/jaxleyverse/jaxley/blob/main/CODE_OF_CONDUCT.md">Code of Conduct</a>.</p>
<h2 id="acknowledgements">Acknowledgements<a class="headerlink" href="#acknowledgements" title="Permanent link">&para;</a></h2>
<p>We greatly benefited from previous toolboxes for simulating multicompartment neurons, in particular <a href="https://github.com/neuronsimulator/nrn">NEURON</a>.</p>
<h2 id="license">License<a class="headerlink" href="#license" title="Permanent link">&para;</a></h2>
<p><a href="https://github.com/jaxleyverse/jaxley/blob/main/LICENSE">Apache License</a></p>
<p><a href="https://github.com/jaxleyverse/jaxley/blob/main/LICENSE">Apache License Version 2.0 (Apache-2.0)</a></p>
<h3 id="citation">Citation<a class="headerlink" href="#citation" title="Permanent link">&para;</a></h3>
<p>If you use <code>Jaxley</code>, consider citing the <a href="https://www.biorxiv.org/content/10.1101/2024.08.21.608979">corresponding paper</a>:</p>
<div class="highlight"><pre><span></span><code>@article {deistler2024differentiable,
author = {Deistler, Michael and Kadhim, Kyra L. and Pals, Matthijs and Beck, Jonas and Huang, Ziwei and Gloeckler, Manuel and Lappalainen, Janne K. and Schr{\&quot;o}der, Cornelius and Berens, Philipp and Gon{\c c}alves, Pedro J. and Macke, Jakob H.},
title = {Differentiable simulation enables large-scale training of detailed biophysical models of neural dynamics},
year = {2024},
publisher = {Cold Spring Harbor Laboratory},
journal = {bioRxiv}
<div class="highlight"><pre><span></span><code>@article{deistler2024differentiable,
doi = {10.1101/2024.08.21.608979},
year = {2024},
publisher = {Cold Spring Harbor Laboratory},
author = {Deistler, Michael and Kadhim, Kyra L. and Pals, Matthijs and Beck, Jonas and Huang, Ziwei and Gloeckler, Manuel and Lappalainen, Janne K. and Schr{\&quot;o}der, Cornelius and Berens, Philipp and Gon{\c c}alves, Pedro J. and Macke, Jakob H.},
title = {Differentiable simulation enables large-scale training of detailed biophysical models of neural dynamics},
journal = {bioRxiv}
}
</code></pre></div>

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