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manuscript.html
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<!DOCTYPE html>
<html xmlns="http://www.w3.org/1999/xhtml" lang="en-US" xml:lang="en-US">
<head>
<meta charset="utf-8" />
<meta name="generator" content="pandoc" />
<meta name="viewport" content="width=device-width, initial-scale=1.0, user-scalable=yes" />
<meta name="author" content="John Doe" />
<meta name="author" content="Jane Roe" />
<meta name="dcterms.date" content="2021-05-15" />
<meta name="keywords" content="markdown, publishing, manubot" />
<title>Manuscript Title</title>
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color: #aaaaaa;
}
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{ }
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<meta name="dc.title" content="Manuscript Title" />
<meta name="citation_title" content="Manuscript Title" />
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<meta property="twitter:title" content="Manuscript Title" />
<meta name="dc.date" content="2021-05-15" />
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<meta name="citation_author" content="John Doe" />
<meta name="citation_author_institution" content="Department of Something, University of Whatever" />
<meta name="citation_author_orcid" content="XXXX-XXXX-XXXX-XXXX" />
<meta name="twitter:creator" content="@johndoe" />
<meta name="citation_author" content="Jane Roe" />
<meta name="citation_author_institution" content="Department of Something, University of Whatever" />
<meta name="citation_author_institution" content="Department of Whatever, University of Something" />
<meta name="citation_author_orcid" content="XXXX-XXXX-XXXX-XXXX" />
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<body>
<header id="title-block-header">
<h1 class="title">Manuscript Title</h1>
</header>
<p><small><em>
This manuscript
(<a href="https://manubot.github.io/rootstock/v/99776841cd694c1c612060114ecc0f3e5f686e5f/">permalink</a>)
was automatically generated
from <a href="https://github.com/manubot/rootstock/tree/99776841cd694c1c612060114ecc0f3e5f686e5f">manubot/rootstock@9977684</a>
on May 15, 2021.
</em></small></p>
<h2 id="authors">Authors</h2>
<ul>
<li><p><strong>John Doe</strong><br>
<img src="images/orcid.svg" class="inline_icon" alt="ORCID icon" />
<a href="https://orcid.org/XXXX-XXXX-XXXX-XXXX">XXXX-XXXX-XXXX-XXXX</a>
· <img src="images/github.svg" class="inline_icon" alt="GitHub icon" />
<a href="https://github.com/johndoe">johndoe</a>
· <img src="images/twitter.svg" class="inline_icon" alt="Twitter icon" />
<a href="https://twitter.com/johndoe">johndoe</a><br>
<small>
Department of Something, University of Whatever
· Funded by Grant XXXXXXXX
</small></p></li>
<li><p><strong>Jane Roe</strong><br>
<img src="images/orcid.svg" class="inline_icon" alt="ORCID icon" />
<a href="https://orcid.org/XXXX-XXXX-XXXX-XXXX">XXXX-XXXX-XXXX-XXXX</a>
· <img src="images/github.svg" class="inline_icon" alt="GitHub icon" />
<a href="https://github.com/janeroe">janeroe</a><br>
<small>
Department of Something, University of Whatever; Department of Whatever, University of Something
</small></p></li>
</ul>
<h2 class="page_break_before" id="abstract">Abstract</h2>
<p>This manuscript is a template (aka “rootstock”) for <a href="https://manubot.org/" title="Manubot">Manubot</a>, a tool for writing scholarly manuscripts.
Use this template as a starting point for your manuscript.</p>
<p>The rest of this document is a full list of formatting elements/features supported by Manubot.
Compare the input (<code>.md</code> files in the <code>/content</code> directory) to the output you see below.</p>
<h2 id="basic-formatting">Basic formatting</h2>
<p><strong>Bold</strong> <strong>text</strong></p>
<p><span class="semibold">Semi-bold text</span></p>
<p><span class="center">Centered text</span></p>
<p><span class="right">Right-aligned text</span></p>
<p><em>Italic</em> <em>text</em></p>
<p>Combined <em>italics and <strong>bold</strong></em></p>
<p><del>Strikethrough</del></p>
<ol type="1">
<li>Ordered list item</li>
<li>Ordered list item
<ol type="a">
<li>Sub-item</li>
<li>Sub-item
<ol type="i">
<li>Sub-sub-item</li>
</ol></li>
</ol></li>
<li>Ordered list item
<ol type="a">
<li>Sub-item</li>
</ol></li>
</ol>
<ul>
<li>List item</li>
<li>List item</li>
<li>List item</li>
</ul>
<p>subscript: H<sub>2</sub>O is a liquid</p>
<p>superscript: 2<sup>10</sup> is 1024.</p>
<p><a href="https://www.google.com/search?q=superscript+generator">unicode superscripts</a>⁰¹²³⁴⁵⁶⁷⁸⁹</p>
<p><a href="https://www.google.com/search?q=superscript+generator">unicode subscripts</a>₀₁₂₃₄₅₆₇₈₉</p>
<p>A long paragraph of text.
Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua.
Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat.
Duis aute irure dolor in reprehenderit in voluptate velit esse cillum dolore eu fugiat nulla pariatur.
Excepteur sint occaecat cupidatat non proident, sunt in culpa qui officia deserunt mollit anim id est laborum.</p>
<p>Putting each sentence on its own line has numerous benefits with regard to <a href="https://asciidoctor.org/docs/asciidoc-recommended-practices/#one-sentence-per-line">editing</a> and <a href="https://rhodesmill.org/brandon/2012/one-sentence-per-line/">version control</a>.</p>
<p>Line break without starting a new paragraph by putting<br />
two spaces at end of line.</p>
<h2 id="document-organization">Document organization</h2>
<p>Document section headings:</p>
<h1 id="heading-1">Heading 1</h1>
<h2 id="heading-2">Heading 2</h2>
<h3 id="heading-3">Heading 3</h3>
<h4 id="heading-4">Heading 4</h4>
<h5 id="heading-5">Heading 5</h5>
<h6 id="heading-6">Heading 6</h6>
<h3 class="center page_center" id="a-heading-centered-on-its-own-printed-page">A heading centered on its own printed page</h3>
<!-- an arbitrary comment. visible in input, but not visible in output. -->
<p>Horizontal rule:</p>
<hr />
<p><code>Heading 1</code>’s are recommended to be reserved for the title of the manuscript.</p>
<p><code>Heading 2</code>’s are recommended for broad sections such as <em>Abstract</em>, <em>Methods</em>, <em>Conclusion</em>, etc.</p>
<p><code>Heading 3</code>’s and <code>Heading 4</code>’s are recommended for sub-sections.</p>
<h2 id="links">Links</h2>
<p>Bare URL link: <a href="https://manubot.org" class="uri">https://manubot.org</a></p>
<p><a href="https://manubot.org">Long link with lots of words and stuff and junk and bleep and blah and stuff and other stuff and more stuff yeah</a></p>
<p><a href="https://manubot.org">Link with text</a></p>
<p><a href="https://manubot.org" title="Manubot Homepage">Link with hover text</a></p>
<p><a href="https://manubot.org">Link by reference</a></p>
<h2 id="citations">Citations</h2>
<p>Citation by DOI <span class="citation" data-cites="IhliSZDo">[<a href="#ref-IhliSZDo" role="doc-biblioref">1</a>]</span>.</p>
<p>Citation by PubMed Central ID <span class="citation" data-cites="mSMVRkoc">[<a href="#ref-mSMVRkoc" role="doc-biblioref">2</a>]</span>.</p>
<p>Citation by PubMed ID <span class="citation" data-cites="126Wi5Us4">[<a href="#ref-126Wi5Us4" role="doc-biblioref">3</a>]</span>.</p>
<p>Citation by Wikidata ID <span class="citation" data-cites="QhC8yJ7V">[<a href="#ref-QhC8yJ7V" role="doc-biblioref">4</a>]</span>.</p>
<p>Citation by ISBN <span class="citation" data-cites="zBPP9YKu">[<a href="#ref-zBPP9YKu" role="doc-biblioref">5</a>]</span>.</p>
<p>Citation by URL <span class="citation" data-cites="6acIRW4q">[<a href="#ref-6acIRW4q" role="doc-biblioref">6</a>]</span>.</p>
<p>Citation by alias <span class="citation" data-cites="PZMP42Ak">[<a href="#ref-PZMP42Ak" role="doc-biblioref">7</a>]</span>.</p>
<p>Multiple citations can be put inside the same set of brackets <span class="citation" data-cites="IhliSZDo PZMP42Ak zBPP9YKu">[<a href="#ref-IhliSZDo" role="doc-biblioref">1</a>,<a href="#ref-zBPP9YKu" role="doc-biblioref">5</a>,<a href="#ref-PZMP42Ak" role="doc-biblioref">7</a>]</span>.
Manubot plugins provide easier, more convenient visualization of and navigation between citations <span class="citation" data-cites="YuJbg3zO 126Wi5Us4 mSMVRkoc PZMP42Ak">[<a href="#ref-mSMVRkoc" role="doc-biblioref">2</a>,<a href="#ref-126Wi5Us4" role="doc-biblioref">3</a>,<a href="#ref-PZMP42Ak" role="doc-biblioref">7</a>,<a href="#ref-YuJbg3zO" role="doc-biblioref">8</a>]</span>.</p>
<p>Citation tags (i.e. aliases) can be defined in their own paragraphs using Markdown’s reference link syntax:</p>
<h2 id="referencing-figures-tables-equations">Referencing figures, tables, equations</h2>
<p>Figure <a href="#fig:square-image">1</a></p>
<p>Figure <a href="#fig:wide-image">2</a></p>
<p>Figure <a href="#fig:tall-image">3</a></p>
<p>Figure <a href="#fig:vector-image">4</a></p>
<p>Table <a href="#tbl:bowling-scores">1</a></p>
<p>Equation <a href="#eq:regular-equation">1</a></p>
<p>Equation <a href="#eq:long-equation">2</a></p>
<h2 id="quotes-and-code">Quotes and code</h2>
<blockquote>
<p>Quoted text</p>
</blockquote>
<blockquote>
<p>Quoted block of text</p>
<p>Two roads diverged in a wood, and I—<br />
I took the one less traveled by,<br />
And that has made all the difference.</p>
</blockquote>
<p>Code <code>in the middle</code> of normal text, aka <code>inline code</code>.</p>
<p>Code block with Python syntax highlighting:</p>
<div class="sourceCode" id="cb1"><pre class="sourceCode python"><code class="sourceCode python"><span id="cb1-1"><a href="#cb1-1"></a><span class="im">from</span> manubot.cite.doi <span class="im">import</span> expand_short_doi</span>
<span id="cb1-2"><a href="#cb1-2"></a></span>
<span id="cb1-3"><a href="#cb1-3"></a><span class="kw">def</span> test_expand_short_doi():</span>
<span id="cb1-4"><a href="#cb1-4"></a> doi <span class="op">=</span> expand_short_doi(<span class="st">"10/c3bp"</span>)</span>
<span id="cb1-5"><a href="#cb1-5"></a> <span class="co"># a string too long to fit within page:</span></span>
<span id="cb1-6"><a href="#cb1-6"></a> <span class="cf">assert</span> doi <span class="op">==</span> <span class="st">"10.25313/2524-2695-2018-3-vliyanie-enhansera-copia-i-insulyatora-gypsy-na-sintez-ernk-modifikatsii-hromatina-i-svyazyvanie-insulyatornyh-belkov-vtransfetsirovannyh-geneticheskih-konstruktsiyah"</span></span></code></pre></div>
<p>Code block with no syntax highlighting:</p>
<pre><code>Exporting HTML manuscript
Exporting DOCX manuscript
Exporting PDF manuscript</code></pre>
<h2 id="figures">Figures</h2>
<div id="fig:square-image" class="fignos">
<figure>
<img src="https://github.com/manubot/resources/raw/15493970f8882fce22bef829619d3fb37a613ba5/test/square.png" alt="" /><figcaption><span>Figure 1:</span> <strong>A square image at actual size and with a bottom caption.</strong>
Loaded from the latest version of image on GitHub.</figcaption>
</figure>
</div>
<div id="fig:wide-image" class="fignos">
<figure>
<img src="https://github.com/manubot/resources/raw/15493970f8882fce22bef829619d3fb37a613ba5/test/wide.png" alt="" /><figcaption><span>Figure 2:</span> <strong>An image too wide to fit within page at full size.</strong>
Loaded from a specific (hashed) version of the image on GitHub.</figcaption>
</figure>
</div>
<div id="fig:tall-image" class="fignos">
<figure>
<img src="https://github.com/manubot/resources/raw/15493970f8882fce22bef829619d3fb37a613ba5/test/tall.png" style="height:3in" alt="" /><figcaption><span>Figure 3:</span> <strong>A tall image with a specified height.</strong>
Loaded from a specific (hashed) version of the image on GitHub.</figcaption>
</figure>
</div>
<div id="fig:vector-image" class="fignos">
<figure>
<img src="https://raw.githubusercontent.com/manubot/resources/main/test/vector.svg?sanitize=true" class="white" style="height:2.5in" alt="" /><figcaption><span>Figure 4:</span> <strong>A vector <code>.svg</code> image loaded from GitHub.</strong>
The parameter <code>sanitize=true</code> is necessary to properly load SVGs hosted via GitHub URLs.
White background specified to serve as a backdrop for transparent sections of the image.</figcaption>
</figure>
</div>
<h2 id="tables">Tables</h2>
<div id="tbl:bowling-scores" class="tablenos">
<table>
<caption><span>Table 1:</span> A table with a top caption and specified relative column widths.
</caption>
<thead>
<tr class="header">
<th style="text-align: left;"><em>Bowling Scores</em></th>
<th style="text-align: center;">Jane</th>
<th style="text-align: center;">John</th>
<th style="text-align: center;">Alice</th>
<th style="text-align: center;">Bob</th>
</tr>
</thead>
<tbody>
<tr class="odd">
<td style="text-align: left;">Game 1</td>
<td style="text-align: center;">150</td>
<td style="text-align: center;">187</td>
<td style="text-align: center;">210</td>
<td style="text-align: center;">105</td>
</tr>
<tr class="even">
<td style="text-align: left;">Game 2</td>
<td style="text-align: center;">98</td>
<td style="text-align: center;">202</td>
<td style="text-align: center;">197</td>
<td style="text-align: center;">102</td>
</tr>
<tr class="odd">
<td style="text-align: left;">Game 3</td>
<td style="text-align: center;">123</td>
<td style="text-align: center;">180</td>
<td style="text-align: center;">238</td>
<td style="text-align: center;">134</td>
</tr>
</tbody>
</table>
</div>
<div id="tbl:constant-digits" class="tablenos">
<table>
<caption><span>Table 2:</span> A table too wide to fit within page.
</caption>
<colgroup>
<col style="width: 5%" />
<col style="width: 20%" />
<col style="width: 19%" />
<col style="width: 19%" />
<col style="width: 34%" />
</colgroup>
<thead>
<tr class="header">
<th style="text-align: left;"></th>
<th style="text-align: left;">Digits 1-33</th>
<th style="text-align: left;">Digits 34-66</th>
<th style="text-align: left;">Digits 67-99</th>
<th style="text-align: left;">Ref.</th>
</tr>
</thead>
<tbody>
<tr class="odd">
<td style="text-align: left;">pi</td>
<td style="text-align: left;">3.14159265358979323846264338327950</td>
<td style="text-align: left;">288419716939937510582097494459230</td>
<td style="text-align: left;">781640628620899862803482534211706</td>
<td style="text-align: left;"><a href="https://www.piday.org/million/"><code>piday.org</code></a></td>
</tr>
<tr class="even">
<td style="text-align: left;">e</td>
<td style="text-align: left;">2.71828182845904523536028747135266</td>
<td style="text-align: left;">249775724709369995957496696762772</td>
<td style="text-align: left;">407663035354759457138217852516642</td>
<td style="text-align: left;"><a href="https://apod.nasa.gov/htmltest/gifcity/e.2mil"><code>nasa.gov</code></a></td>
</tr>
</tbody>
</table>
</div>
<div id="tbl:9f990b5a-3ea9-4d29-aede-21af05465a7b" class="tablenos">
<table>
<caption><span>Table 3:</span> A table with merged cells using the <code>attributes</code> plugin.
</caption>
<thead>
<tr class="header">
<th style="text-align: center;"></th>
<th style="text-align: center;"><strong>Colors</strong> <!-- $colspan="2" --></th>
<th style="text-align: center;"></th>
</tr>
</thead>
<tbody>
<tr class="odd">
<td style="text-align: center;"><strong>Size</strong></td>
<td style="text-align: center;"><strong>Text Color</strong></td>
<td style="text-align: center;"><strong>Background Color</strong></td>
</tr>
<tr class="even">
<td style="text-align: center;">big</td>
<td style="text-align: center;">blue</td>
<td style="text-align: center;">orange</td>
</tr>
<tr class="odd">
<td style="text-align: center;">small</td>
<td style="text-align: center;">black</td>
<td style="text-align: center;">white</td>
</tr>
</tbody>
</table>
</div>
<h2 id="equations">Equations</h2>
<p>A LaTeX equation:</p>
<p><span id="eq:regular-equation" class="eqnos"><span class="math display">\[\int_0^\infty e^{-x^2} dx=\frac{\sqrt{\pi}}{2}\]</span><span class="eqnos-number">(1)</span></span> </p>
<p>An equation too long to fit within page:</p>
<p><span id="eq:long-equation" class="eqnos"><span class="math display">\[x = a + b + c + d + e + f + g + h + i + j + k + l + m + n + o + p + q + r + s + t + u + v + w + x + y + z + 1 + 2 + 3 + 4 + 5 + 6 + 7 + 8 + 9\]</span><span class="eqnos-number">(2)</span></span> </p>
<h2 id="special">Special</h2>
<p><i class="fas fa-exclamation-triangle"></i> <span class="semibold">WARNING</span> <em>The following features are only supported and intended for <code>.html</code> and <code>.pdf</code> exports.</em>
<em>Journals are not likely to support them, and they may not display correctly when converted to other formats such as <code>.docx</code>.</em></p>
<p><a href="https://manubot.org" class="button" title="Manubot Homepage">Link styled as a button</a></p>
<p>Adding arbitrary HTML attributes to an element using Pandoc’s attribute syntax:</p>
<div id="some_id_1" class="some_class" style="background: #ad1457; color: white; margin-left: 40px;" title="a paragraph of text" data-color="white" disabled="true">
<p>Manubot Manubot Manubot Manubot Manubot.
Manubot Manubot Manubot Manubot.
Manubot Manubot Manubot.
Manubot Manubot.
Manubot.</p>
</div>
<p>Adding arbitrary HTML attributes to an element with the Manubot <code>attributes</code> plugin (more flexible than Pandoc’s method in terms of which elements you can add attributes to):</p>
<p>Manubot Manubot Manubot Manubot Manubot.
Manubot Manubot Manubot Manubot.
Manubot Manubot Manubot.
Manubot Manubot.
Manubot.
<!-- $id="element_id" class="some_class" $style="color: #ad1457; margin-left: 40px;" $disabled="true" $title="a paragraph of text" $data-color="red" --></p>
<p>Available background colors for text, images, code, banners, etc:</p>
<p><code class="white">white</code>
<code class="lightgrey">lightgrey</code>
<code class="grey">grey</code>
<code class="darkgrey">darkgrey</code>
<code class="black">black</code>
<code class="lightred">lightred</code>
<code class="lightyellow">lightyellow</code>
<code class="lightgreen">lightgreen</code>
<code class="lightblue">lightblue</code>
<code class="lightpurple">lightpurple</code>
<code class="red">red</code>
<code class="orange">orange</code>
<code class="yellow">yellow</code>
<code class="green">green</code>
<code class="blue">blue</code>
<code class="purple">purple</code></p>
<p>Using the <a href="https://fontawesome.com/">Font Awesome</a> icon set:</p>
<!-- include the Font Awesome library, per: https://fontawesome.com/start -->
<p><link rel="stylesheet" href="https://use.fontawesome.com/releases/v5.7.2/css/all.css"></p>
<p><i class="fas fa-check"></i> <i class="fas fa-question"></i> <i class="fas fa-star"></i> <i class="fas fa-bell"></i> <i class="fas fa-times-circle"></i> <i class="fas fa-ellipsis-h"></i></p>
<p><span class="banner lightgrey"><i class="fas fa-scroll fa-lg"></i> <strong>Light Grey Banner</strong><br>
useful for <em>general information</em> - <a href="https://manubot.org/">manubot.org</a></span></p>
<p><span class="banner lightblue"><i class="fas fa-info-circle fa-lg"></i> <strong>Blue Banner</strong><br>
useful for <em>important information</em> - <a href="https://manubot.org/">manubot.org</a></span></p>
<p><span class="banner lightred"><i class="fas fa-ban fa-lg"></i> <strong>Light Red Banner</strong><br>
useful for <em>warnings</em> - <a href="https://manubot.org/">manubot.org</a></span></p>
<h2 class="page_break_before" id="references">References</h2>
<!-- Explicitly insert bibliography here -->
<div id="refs" class="references hanging-indent" role="doc-bibliography">
<div id="ref-IhliSZDo">
<p>1. <strong>Sci-Hub provides access to nearly all scholarly literature</strong> <br />
Daniel S Himmelstein, Ariel Rodriguez Romero, Jacob G Levernier, Thomas Anthony Munro, Stephen Reid McLaughlin, Bastian Greshake Tzovaras, Casey S Greene<br />
<em>eLife</em> (2018-03-01) <a href="https://doi.org/ckcj">https://doi.org/ckcj</a> <br />
DOI: <a href="https://doi.org/10.7554/elife.32822">10.7554/elife.32822</a> · PMID: <a href="https://www.ncbi.nlm.nih.gov/pubmed/29424689">29424689</a> · PMCID: <a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5832410">PMC5832410</a></p>
</div>
<div id="ref-mSMVRkoc">
<p>2. <strong>Reproducibility of computational workflows is automated using continuous analysis</strong> <br />
Brett K Beaulieu-Jones, Casey S Greene<br />
<em>Nature biotechnology</em> (2017-04) <a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6103790/">https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6103790/</a> <br />
DOI: <a href="https://doi.org/10.1038/nbt.3780">10.1038/nbt.3780</a> · PMID: <a href="https://www.ncbi.nlm.nih.gov/pubmed/28288103">28288103</a> · PMCID: <a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6103790">PMC6103790</a></p>
</div>
<div id="ref-126Wi5Us4">
<p>3. <strong>Bitcoin for the biological literature.</strong> <br />
Douglas Heaven<br />
<em>Nature</em> (2019-02) <a href="https://www.ncbi.nlm.nih.gov/pubmed/30718888">https://www.ncbi.nlm.nih.gov/pubmed/30718888</a> <br />
DOI: <a href="https://doi.org/10.1038/d41586-019-00447-9">10.1038/d41586-019-00447-9</a> · PMID: <a href="https://www.ncbi.nlm.nih.gov/pubmed/30718888">30718888</a></p>
</div>
<div id="ref-QhC8yJ7V">
<p>4. <strong>Plan S: Accelerating the transition to full and immediate Open Access to scientific publications</strong> <br />
cOAlition S<br />
(2018-09-04) <a href="https://www.wikidata.org/wiki/Q56458321">https://www.wikidata.org/wiki/Q56458321</a></p>
</div>
<div id="ref-zBPP9YKu">
<p>5. <strong>Open access</strong> <br />
Peter Suber<br />
<em>MIT Press</em> (2012) <br />
ISBN: <a href="https://worldcat.org/isbn/9780262517638">9780262517638</a></p>
</div>
<div id="ref-6acIRW4q">
<p>6. <strong>Open collaborative writing with Manubot</strong> <br />
Daniel S. Himmelstein, Vincent Rubinetti, David R. Slochower, Dongbo Hu, Venkat S. Malladi, Casey S. Greene, Anthony Gitter<br />
<em>Manubot</em> (2020-05-25) <a href="https://greenelab.github.io/meta-review/">https://greenelab.github.io/meta-review/</a></p>
</div>
<div id="ref-PZMP42Ak">
<p>7. <strong>Opportunities and obstacles for deep learning in biology and medicine</strong> <br />
Travers Ching, Daniel S. Himmelstein, Brett K. Beaulieu-Jones, Alexandr A. Kalinin, Brian T. Do, Gregory P. Way, Enrico Ferrero, Paul-Michael Agapow, Michael Zietz, Michael M. Hoffman, … Casey S. Greene<br />
<em>Journal of The Royal Society Interface</em> (2018-04-04) <a href="https://doi.org/gddkhn">https://doi.org/gddkhn</a> <br />
DOI: <a href="https://doi.org/10.1098/rsif.2017.0387">10.1098/rsif.2017.0387</a> · PMID: <a href="https://www.ncbi.nlm.nih.gov/pubmed/29618526">29618526</a> · PMCID: <a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5938574">PMC5938574</a></p>
</div>
<div id="ref-YuJbg3zO">
<p>8. <strong>Open collaborative writing with Manubot</strong> <br />
Daniel S. Himmelstein, Vincent Rubinetti, David R. Slochower, Dongbo Hu, Venkat S. Malladi, Casey S. Greene, Anthony Gitter<br />
<em>PLOS Computational Biology</em> (2019-06-24) <a href="https://doi.org/c7np">https://doi.org/c7np</a> <br />
DOI: <a href="https://doi.org/10.1371/journal.pcbi.1007128">10.1371/journal.pcbi.1007128</a> · PMID: <a href="https://www.ncbi.nlm.nih.gov/pubmed/31233491">31233491</a> · PMCID: <a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6611653">PMC6611653</a></p>
</div>
</div>
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padding: 0;
border-left: 4px solid #bdbdbd;
padding-left: 16px;
break-inside: avoid;
}
/* -------------------------------------------------- */
/* banners */
/* -------------------------------------------------- */
/* info banners */
.banner {
box-sizing: border-box;
display: block;
position: relative;
width: 100%;
margin-top: 20px;
margin-bottom: 20px;
padding: 20px;
text-align: center;
}
/* paragraph in banner */
.banner > p {
margin: 0;
}
/* -------------------------------------------------- */
/* highlight colors */
/* -------------------------------------------------- */
.white {
background: #ffffff;
}
.lightgrey {
background: #eeeeee;
}
.grey {
background: #757575;
}
.darkgrey {
background: #424242;
}
.black {
background: #000000;
}
.lightred {
background: #ffcdd2;
}
.lightyellow {
background: #ffecb3;
}
.lightgreen {
background: #dcedc8;
}
.lightblue {
background: #e3f2fd;
}
.lightpurple {
background: #f3e5f5;
}
.red {
background: #f44336;
}
.orange {
background: #ff9800;
}
.yellow {
background: #ffeb3b;
}
.green {
background: #4caf50;
}
.blue {
background: #2196f3;
}
.purple {
background: #9c27b0;
}
.white,
.lightgrey,
.lightred,
.lightyellow,
.lightgreen,
.lightblue,
.lightpurple,
.orange,
.yellow,
.white a,
.lightgrey a,
.lightred a,
.lightyellow a,
.lightgreen a,
.lightblue a,
.lightpurple a,
.orange a,
.yellow a {
color: #000000;
}
.grey,
.darkgrey,
.black,
.red,
.green,
.blue,
.purple,
.grey a,
.darkgrey a,
.black a,
.red a,
.green a,
.blue a,
.purple a {
color: #ffffff;
}
/* -------------------------------------------------- */
/* buttons */
/* -------------------------------------------------- */
/* class for styling links like buttons */
.button {
display: inline-flex;
justify-content: center;
align-items: center;
margin: 5px;
padding: 10px 20px;
font-size: 0.75em;
font-weight: 600;
text-transform: uppercase;
text-decoration: none;
letter-spacing: 1px;
background: none;
color: #2196f3;
border: solid 1px #bdbdbd;
border-radius: 5px;
}
/* buttons when hovered */
.button:hover:not([disabled]),
.icon_button:hover:not([disabled]) {
cursor: pointer;
background: #f5f5f5;
}
/* buttons when disabled */
.button[disabled],
.icon_button[disabled] {
opacity: 0.35;
pointer-events: none;
}
/* class for styling buttons containg only single icon */
.icon_button {
display: inline-flex;
justify-content: center;
align-items: center;
text-decoration: none;
margin: 0;
padding: 0;
background: none;
border-radius: 5px;
border: none;
width: 20px;
height: 20px;
min-width: 20px;
min-height: 20px;
}
/* icon button inner svg image */
.icon_button > svg {
height: 16px;
}
/* -------------------------------------------------- */
/* icons */
/* -------------------------------------------------- */
/* class for styling icons inline with text */
.inline_icon {
height: 1em;
position: relative;