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updated dependency list under README
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GuyTeichman committed Oct 31, 2023
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Expand Up @@ -196,6 +196,7 @@ <h1>Dependencies<a class="headerlink" href="#dependencies" title="Permalink to t
<li><p><a class="reference external" href="https://github.com/google/brotli">Brotli</a></p></li>
<li><p><a class="reference external" href="https://networkx.org">networkx</a></p></li>
<li><p><a class="reference external" href="https://github.com/WestHealth/pyvis">pyvis</a></p></li>
<li><p><a class="reference external" href="https://github.com/jd/tenacity">tenacity</a></p></li>
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</section>
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Expand Down Expand Up @@ -268,6 +269,36 @@ <h2>How do I cite <em>RNAlysis</em>?<a class="headerlink" href="#how-do-i-cite-r
<span class="n">https</span><span class="p">:</span><span class="o">//</span><span class="n">doi</span><span class="o">.</span><span class="n">org</span><span class="o">/</span><span class="mf">10.48550</span><span class="o">/</span><span class="n">arXiv</span><span class="mf">.1507.07905</span>
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<p>If you use the <em>Ensembl</em> database in your research, please cite:</p>
<div class="highlight-default notranslate"><div class="highlight"><pre><span></span>Martin FJ, Amode MR, Aneja A, Austine-Orimoloye O, Azov AG, Barnes I, et al.
Ensembl 2023. Nucleic Acids Res [Internet]. 2023 Jan 6;51(D1):D933–41.
doi.org/10.1093/nar/gkac958
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<p>If you use the <em>PANTHER</em> database in your research, please cite:</p>
<div class="highlight-default notranslate"><div class="highlight"><pre><span></span>Thomas PD, Ebert D, Muruganujan A, Mushayahama T, Albou L-P, Mi H.
PANTHER: Making genome-scale phylogenetics accessible to all. Protein Sci [Internet]. 2022 Jan 1;31(1):8–22.
doi.org/10.1002/pro.4218
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<p>If you use the <em>OrthoInspector</em> database in your research, please cite:</p>
<div class="highlight-default notranslate"><div class="highlight"><pre><span></span>Nevers Y, Kress A, Defosset A, Ripp R, Linard B, Thompson JD, et al.
OrthoInspector 3.0: open portal for comparative genomics. Nucleic Acids Res [Internet]. 2019 Jan 8;47(D1):D411–8.
doi.org/10.1093/nar/gky1068
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<p>If you use the <em>PhylomeDB</em> database in your research, please cite:</p>
<div class="highlight-default notranslate"><div class="highlight"><pre><span></span>Fuentes D, Molina M, Chorostecki U, Capella-Gutiérrez S, Marcet-Houben M, Gabaldón T.
PhylomeDB V5: an expanding repository for genome-wide catalogues of annotated gene phylogenies. Nucleic Acids Res [Internet]. 2022 Jan 7;50(D1):D1062–8.
doi.org/10.1093/nar/gkab966
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<p>If you use the <em>UniProt</em> gene ID mapping service in your research, please cite:</p>
<div class="highlight-default notranslate"><div class="highlight"><pre><span></span>The UniProt Consortium.
UniProt: the Universal Protein Knowledgebase in 2023. Nucleic Acids Res [Internet]. 2023 Jan 6;51(D1):D523–31.
doi.org/10.1093/nar/gkac1052
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</section>
<section id="development-lead">
<h2>Development Lead<a class="headerlink" href="#development-lead" title="Permalink to this heading"></a></h2>
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