From 7f77d132360b5e383a87f5bf5e8af4200592b70d Mon Sep 17 00:00:00 2001
From: Anthony Gitter <agitter@users.noreply.github.com>
Date: Mon, 1 Feb 2021 14:16:49 +0000
Subject: [PATCH] Merge pull request #318 from fmaguire/master [ci skip]

This build is based on
https://github.com/Benjamin-Lee/deep-rules/commit/fd48a89d93178ae26082b16c31efea52e15e0cf1.

This commit was created by the following CI build and job:
https://github.com/Benjamin-Lee/deep-rules/commit/fd48a89d93178ae26082b16c31efea52e15e0cf1/checks
https://github.com/Benjamin-Lee/deep-rules/runs/527908466
---
 manuscript.html     |  25 ++++++++++++------------
 manuscript.md       |  23 +++++++++++-----------
 manuscript.pdf      | Bin 983218 -> 983327 bytes
 references.json     |  46 ++++++++++++++++++++++----------------------
 spelling-errors.txt |   4 ++--
 variables.json      |  22 ++++++++++++---------
 6 files changed, 63 insertions(+), 57 deletions(-)

diff --git a/manuscript.html b/manuscript.html
index 19da38cd..05cb4bba 100644
--- a/manuscript.html
+++ b/manuscript.html
@@ -24,7 +24,7 @@
   <meta name="author" content="Alexandra J. Lee" />
   <meta name="author" content="Beth Signal" />
   <meta name="author" content="Juan Jose Carmona" />
-  <meta name="dcterms.date" content="2021-01-28" />
+  <meta name="dcterms.date" content="2021-02-01" />
   <meta name="keywords" content="quick tips, machine learning, deep learning, artificial intelligence" />
   <title>Ten Quick Tips for Deep Learning in Biology</title>
   <style>
@@ -47,8 +47,8 @@
   <meta name="citation_title" content="Ten Quick Tips for Deep Learning in Biology" />
   <meta property="og:title" content="Ten Quick Tips for Deep Learning in Biology" />
   <meta property="twitter:title" content="Ten Quick Tips for Deep Learning in Biology" />
-  <meta name="dc.date" content="2021-01-28" />
-  <meta name="citation_publication_date" content="2021-01-28" />
+  <meta name="dc.date" content="2021-02-01" />
+  <meta name="citation_publication_date" content="2021-02-01" />
   <meta name="dc.language" content="en-US" />
   <meta name="citation_language" content="en-US" />
   <meta name="dc.relation.ispartof" content="Manubot" />
@@ -135,13 +135,13 @@
   <meta name="citation_fulltext_html_url" content="https://Benjamin-Lee.github.io/deep-rules/" />
   <meta name="citation_pdf_url" content="https://Benjamin-Lee.github.io/deep-rules/manuscript.pdf" />
   <link rel="alternate" type="application/pdf" href="https://Benjamin-Lee.github.io/deep-rules/manuscript.pdf" />
-  <link rel="alternate" type="text/html" href="https://Benjamin-Lee.github.io/deep-rules/v/4d338ed6591c956d3195054eb881ed8f11b69a21/" />
-  <meta name="manubot_html_url_versioned" content="https://Benjamin-Lee.github.io/deep-rules/v/4d338ed6591c956d3195054eb881ed8f11b69a21/" />
-  <meta name="manubot_pdf_url_versioned" content="https://Benjamin-Lee.github.io/deep-rules/v/4d338ed6591c956d3195054eb881ed8f11b69a21/manuscript.pdf" />
+  <link rel="alternate" type="text/html" href="https://Benjamin-Lee.github.io/deep-rules/v/fd48a89d93178ae26082b16c31efea52e15e0cf1/" />
+  <meta name="manubot_html_url_versioned" content="https://Benjamin-Lee.github.io/deep-rules/v/fd48a89d93178ae26082b16c31efea52e15e0cf1/" />
+  <meta name="manubot_pdf_url_versioned" content="https://Benjamin-Lee.github.io/deep-rules/v/fd48a89d93178ae26082b16c31efea52e15e0cf1/manuscript.pdf" />
   <meta property="og:type" content="article" />
   <meta property="twitter:card" content="summary_large_image" />
-  <meta property="og:image" content="https://github.com/Benjamin-Lee/deep-rules/raw/4d338ed6591c956d3195054eb881ed8f11b69a21/content/images/thumbnail_tips_overview.png" />
-  <meta property="twitter:image" content="https://github.com/Benjamin-Lee/deep-rules/raw/4d338ed6591c956d3195054eb881ed8f11b69a21/content/images/thumbnail_tips_overview.png" />
+  <meta property="og:image" content="https://github.com/Benjamin-Lee/deep-rules/raw/fd48a89d93178ae26082b16c31efea52e15e0cf1/content/images/thumbnail_tips_overview.png" />
+  <meta property="twitter:image" content="https://github.com/Benjamin-Lee/deep-rules/raw/fd48a89d93178ae26082b16c31efea52e15e0cf1/content/images/thumbnail_tips_overview.png" />
   <link rel="icon" type="image/png" sizes="192x192" href="https://manubot.org/favicon-192x192.png" />
   <link rel="mask-icon" href="https://manubot.org/safari-pinned-tab.svg" color="#ad1457" />
   <meta name="theme-color" content="#ad1457" />
@@ -153,10 +153,10 @@ <h1 class="title">Ten Quick Tips for Deep Learning in Biology</h1>
 </header>
 <p><small><em>
 This manuscript
-(<a href="https://Benjamin-Lee.github.io/deep-rules/v/4d338ed6591c956d3195054eb881ed8f11b69a21/">permalink</a>)
+(<a href="https://Benjamin-Lee.github.io/deep-rules/v/fd48a89d93178ae26082b16c31efea52e15e0cf1/">permalink</a>)
 was automatically generated
-from <a href="https://github.com/Benjamin-Lee/deep-rules/tree/4d338ed6591c956d3195054eb881ed8f11b69a21">Benjamin-Lee/deep-rules@4d338ed</a>
-on January 28, 2021.
+from <a href="https://github.com/Benjamin-Lee/deep-rules/tree/fd48a89d93178ae26082b16c31efea52e15e0cf1">Benjamin-Lee/deep-rules@fd48a89</a>
+on February 1, 2021.
 </em></small></p>
 <h2 id="authors">Authors</h2>
 <p>Please note the current author order is chronological and does not reflect the final order.</p>
@@ -226,6 +226,7 @@ <h2 id="authors">Authors</h2>
 <a href="https://github.com/fmaguire">fmaguire</a><br>
 <small>
 Faculty of Computer Science, Dalhousie University
+· Funded by Donald Hill Family Fellowship
 </small></p></li>
 <li><p><strong>Benjamin J. Lengerich</strong><br>
 <img src="images/orcid.svg" class="inline_icon" alt="ORCID icon" />
@@ -786,7 +787,7 @@ <h2 class="page_break_before" id="references">References</h2>
 <div id="ref-ndSzNxZQ">
 <p>29. <strong>apple/turicreate</strong> <br />
 Apple<br />
-(2021-01-28) <a href="https://github.com/apple/turicreate">https://github.com/apple/turicreate</a></p>
+(2021-02-01) <a href="https://github.com/apple/turicreate">https://github.com/apple/turicreate</a></p>
 </div>
 <div id="ref-ra8TSEHY">
 <p>30. <strong>Auto-Keras: An Efficient Neural Architecture Search System</strong> <br />
diff --git a/manuscript.md b/manuscript.md
index 156f7aa8..556e7121 100644
--- a/manuscript.md
+++ b/manuscript.md
@@ -22,7 +22,7 @@ author-meta:
 - Juan Jose Carmona
 bibliography:
 - content/manual-references.json
-date-meta: '2021-01-28'
+date-meta: '2021-02-01'
 header-includes: '<!--
 
   Manubot generated metadata rendered from header-includes-template.html.
@@ -41,9 +41,9 @@ header-includes: '<!--
 
   <meta property="twitter:title" content="Ten Quick Tips for Deep Learning in Biology" />
 
-  <meta name="dc.date" content="2021-01-28" />
+  <meta name="dc.date" content="2021-02-01" />
 
-  <meta name="citation_publication_date" content="2021-01-28" />
+  <meta name="citation_publication_date" content="2021-02-01" />
 
   <meta name="dc.language" content="en-US" />
 
@@ -217,19 +217,19 @@ header-includes: '<!--
 
   <link rel="alternate" type="application/pdf" href="https://Benjamin-Lee.github.io/deep-rules/manuscript.pdf" />
 
-  <link rel="alternate" type="text/html" href="https://Benjamin-Lee.github.io/deep-rules/v/4d338ed6591c956d3195054eb881ed8f11b69a21/" />
+  <link rel="alternate" type="text/html" href="https://Benjamin-Lee.github.io/deep-rules/v/fd48a89d93178ae26082b16c31efea52e15e0cf1/" />
 
-  <meta name="manubot_html_url_versioned" content="https://Benjamin-Lee.github.io/deep-rules/v/4d338ed6591c956d3195054eb881ed8f11b69a21/" />
+  <meta name="manubot_html_url_versioned" content="https://Benjamin-Lee.github.io/deep-rules/v/fd48a89d93178ae26082b16c31efea52e15e0cf1/" />
 
-  <meta name="manubot_pdf_url_versioned" content="https://Benjamin-Lee.github.io/deep-rules/v/4d338ed6591c956d3195054eb881ed8f11b69a21/manuscript.pdf" />
+  <meta name="manubot_pdf_url_versioned" content="https://Benjamin-Lee.github.io/deep-rules/v/fd48a89d93178ae26082b16c31efea52e15e0cf1/manuscript.pdf" />
 
   <meta property="og:type" content="article" />
 
   <meta property="twitter:card" content="summary_large_image" />
 
-  <meta property="og:image" content="https://github.com/Benjamin-Lee/deep-rules/raw/4d338ed6591c956d3195054eb881ed8f11b69a21/content/images/thumbnail_tips_overview.png" />
+  <meta property="og:image" content="https://github.com/Benjamin-Lee/deep-rules/raw/fd48a89d93178ae26082b16c31efea52e15e0cf1/content/images/thumbnail_tips_overview.png" />
 
-  <meta property="twitter:image" content="https://github.com/Benjamin-Lee/deep-rules/raw/4d338ed6591c956d3195054eb881ed8f11b69a21/content/images/thumbnail_tips_overview.png" />
+  <meta property="twitter:image" content="https://github.com/Benjamin-Lee/deep-rules/raw/fd48a89d93178ae26082b16c31efea52e15e0cf1/content/images/thumbnail_tips_overview.png" />
 
   <link rel="icon" type="image/png" sizes="192x192" href="https://manubot.org/favicon-192x192.png" />
 
@@ -258,10 +258,10 @@ title: Ten Quick Tips for Deep Learning in Biology
 
 <small><em>
 This manuscript
-([permalink](https://Benjamin-Lee.github.io/deep-rules/v/4d338ed6591c956d3195054eb881ed8f11b69a21/))
+([permalink](https://Benjamin-Lee.github.io/deep-rules/v/fd48a89d93178ae26082b16c31efea52e15e0cf1/))
 was automatically generated
-from [Benjamin-Lee/deep-rules@4d338ed](https://github.com/Benjamin-Lee/deep-rules/tree/4d338ed6591c956d3195054eb881ed8f11b69a21)
-on January 28, 2021.
+from [Benjamin-Lee/deep-rules@fd48a89](https://github.com/Benjamin-Lee/deep-rules/tree/fd48a89d93178ae26082b16c31efea52e15e0cf1)
+on February 1, 2021.
 </em></small>
 
 ## Authors
@@ -341,6 +341,7 @@ Please note the current author order is chronological and does not reflect the f
     [fmaguire](https://github.com/fmaguire)<br>
   <small>
      Faculty of Computer Science, Dalhousie University
+     · Funded by Donald Hill Family Fellowship
   </small>
 
 + **Benjamin J. Lengerich**<br>
diff --git a/manuscript.pdf b/manuscript.pdf
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diff --git a/spelling-errors.txt b/spelling-errors.txt
index e6f7a306..7ff99c01 100644
--- a/spelling-errors.txt
+++ b/spelling-errors.txt
@@ -103,7 +103,7 @@ parallelized
 perceptrons
 pharmacovigilance
 phenotypes
-pre
+Pre
 pretraining
 pseudorandom
 pstew
@@ -126,7 +126,7 @@ TODO
 toolset
 TPOT
 transformative
-Translational
+translational
 triaged
 Triche
 Tschira
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