Merge pull request #102 from AlexsLemonade/jaclyn-taroni/add-admin

[ci skip]

This build is based on
397aa4e.

This commit was created by the following CI build and job:
https://github.com/AlexsLemonade/ScPCA-manuscript/commit/397aa4e910534d767c484d41cf912135d82b9c80/checks
https://github.com/AlexsLemonade/ScPCA-manuscript/actions/runs/8423028863

README.md

@@ -1,7 +1,7 @@
 # Output directory containing the formatted manuscript
 
 The [`gh-pages`](https://github.com/AlexsLemonade/ScPCA-manuscript/tree/gh-pages) branch hosts the contents of this directory at <https://AlexsLemonade.github.io/ScPCA-manuscript/>.
-The permalink for this webpage version is <https://AlexsLemonade.github.io/ScPCA-manuscript/v/ebbeac5b02f000f5f0c505e4588f2fbd458d4d02/>.
+The permalink for this webpage version is <https://AlexsLemonade.github.io/ScPCA-manuscript/v/397aa4e910534d767c484d41cf912135d82b9c80/>.
 To redirect to the permalink for the latest manuscript version at anytime, use the link <https://AlexsLemonade.github.io/ScPCA-manuscript/v/freeze/>.
 
 ## Files
@@ -35,4 +35,4 @@ Verifying timestamps with the `ots verify` command requires running a local bitc
 ## Source
 
 The manuscripts in this directory were built from
-[`ebbeac5b02f000f5f0c505e4588f2fbd458d4d02`](https://github.com/AlexsLemonade/ScPCA-manuscript/commit/ebbeac5b02f000f5f0c505e4588f2fbd458d4d02).
+[`397aa4e910534d767c484d41cf912135d82b9c80`](https://github.com/AlexsLemonade/ScPCA-manuscript/commit/397aa4e910534d767c484d41cf912135d82b9c80).

index.html

@@ -65,8 +65,8 @@
   <meta name="dc.date" content="2024-03-25" />
   <meta name="citation_publication_date" content="2024-03-25" />
   <meta property="article:published_time" content="2024-03-25" />
-  <meta name="dc.modified" content="2024-03-25T14:07:08+00:00" />
-  <meta property="article:modified_time" content="2024-03-25T14:07:08+00:00" />
+  <meta name="dc.modified" content="2024-03-25T15:56:18+00:00" />
+  <meta property="article:modified_time" content="2024-03-25T15:56:18+00:00" />
   <meta name="dc.language" content="en-US" />
   <meta name="citation_language" content="en-US" />
   <meta name="dc.relation.ispartof" content="Manubot" />
@@ -120,9 +120,9 @@
   <meta name="citation_fulltext_html_url" content="https://AlexsLemonade.github.io/ScPCA-manuscript/" />
   <meta name="citation_pdf_url" content="https://AlexsLemonade.github.io/ScPCA-manuscript/manuscript.pdf" />
   <link rel="alternate" type="application/pdf" href="https://AlexsLemonade.github.io/ScPCA-manuscript/manuscript.pdf" />
-  <link rel="alternate" type="text/html" href="https://AlexsLemonade.github.io/ScPCA-manuscript/v/ebbeac5b02f000f5f0c505e4588f2fbd458d4d02/" />
-  <meta name="manubot_html_url_versioned" content="https://AlexsLemonade.github.io/ScPCA-manuscript/v/ebbeac5b02f000f5f0c505e4588f2fbd458d4d02/" />
-  <meta name="manubot_pdf_url_versioned" content="https://AlexsLemonade.github.io/ScPCA-manuscript/v/ebbeac5b02f000f5f0c505e4588f2fbd458d4d02/manuscript.pdf" />
+  <link rel="alternate" type="text/html" href="https://AlexsLemonade.github.io/ScPCA-manuscript/v/397aa4e910534d767c484d41cf912135d82b9c80/" />
+  <meta name="manubot_html_url_versioned" content="https://AlexsLemonade.github.io/ScPCA-manuscript/v/397aa4e910534d767c484d41cf912135d82b9c80/" />
+  <meta name="manubot_pdf_url_versioned" content="https://AlexsLemonade.github.io/ScPCA-manuscript/v/397aa4e910534d767c484d41cf912135d82b9c80/manuscript.pdf" />
   <meta property="og:type" content="article" />
   <meta property="twitter:card" content="summary_large_image" />
   <link rel="icon" type="image/png" sizes="192x192" href="https://manubot.org/favicon-192x192.png" />
@@ -139,9 +139,9 @@ <h1 class="title">The Single-cell Pediatric Cancer Atlas: Data portal and open-s
 </header>
 <p><small><em>
 This manuscript
-(<a href="https://AlexsLemonade.github.io/ScPCA-manuscript/v/ebbeac5b02f000f5f0c505e4588f2fbd458d4d02/">permalink</a>)
+(<a href="https://AlexsLemonade.github.io/ScPCA-manuscript/v/397aa4e910534d767c484d41cf912135d82b9c80/">permalink</a>)
 was automatically generated
-from <a href="https://github.com/AlexsLemonade/ScPCA-manuscript/tree/ebbeac5b02f000f5f0c505e4588f2fbd458d4d02">AlexsLemonade/ScPCA-manuscript@ebbeac5</a>
+from <a href="https://github.com/AlexsLemonade/ScPCA-manuscript/tree/397aa4e910534d767c484d41cf912135d82b9c80">AlexsLemonade/ScPCA-manuscript@397aa4e</a>
 on March 25, 2024.
 </em></small></p>
 <h2 id="authors">Authors</h2>
@@ -721,6 +721,78 @@ <h2 id="discussion">Discussion</h2>
 Using Nextflow as the framework for <code>scpca-nf</code> means the workflow is both modular and portable.
 This makes it easy to add support for more modalities in the future, such as single-cell ATAC-seq, and allows others to run the workflow on their samples in their computing environment, maintaining the security of protected raw data.
 Processed output from running <code>scpca-nf</code> on samples from pediatric tumors, cell lines, or other model organisms is eligible for submission to the ScPCA Portal, enabling us to continue increasing the number of available samples freely available to all researchers.</p>
+<h2 id="acknowledgments">Acknowledgments</h2>
+<p>We thank the data generators and submitters of the Single-cell Pediatric Cancer Atlas.</p>
+<p>This work was funded through the Alex’s Lemonade Stand Foundation Childhood Cancer Data Lab and Childhood Cancer Data Lab Postdoctoral Fellowship (SMF).</p>
+<h2 id="author-contributions">Author Contributions</h2>
+<table>
+<colgroup>
+<col style="width: 50%" />
+<col style="width: 50%" />
+</colgroup>
+<thead>
+<tr class="header">
+<th>Author</th>
+<th>Contributions</th>
+</tr>
+</thead>
+<tbody>
+<tr class="odd">
+<td>Allegra G. Hawkins</td>
+<td>Methodology, Software, Investigation, Validation, Formal analysis, Data curation, Writing - Original Draft, Writing - Review &amp; Editing, Visualization</td>
+</tr>
+<tr class="even">
+<td>Joshua A. Shapiro</td>
+<td>Methodology, Software, Investigation, Validation, Formal analysis, Resources, Data curation, Writing - Original Draft, Writing - Review &amp; Editing, Visualization</td>
+</tr>
+<tr class="odd">
+<td>Stephanie J. Spielman</td>
+<td>Methodology, Software, Investigation, Validation, Formal analysis, Data curation, Writing - Original Draft, Writing - Review &amp; Editing, Visualization</td>
+</tr>
+<tr class="even">
+<td>David S. Mejia</td>
+<td>Methodology, Software, Validation, Data curation, Writing - Review &amp; Editing, Resources</td>
+</tr>
+<tr class="odd">
+<td>Deepashree Venkatesh Prasad</td>
+<td>Methodology, Software, Validation, Visualization, Writing - Review &amp; Editing</td>
+</tr>
+<tr class="even">
+<td>Nozomi Ichihara</td>
+<td>Methodology, Software, Writing - Review &amp; Editing</td>
+</tr>
+<tr class="odd">
+<td>Arkadii Yakovets</td>
+<td>Methodology, Software, Validation, Data curation, Resources, Writing - Review &amp; Editing</td>
+</tr>
+<tr class="even">
+<td>Kurt G. Wheeler</td>
+<td>Methodology, Software, Validation, Data curation, Resources, Writing - Review &amp; Editing</td>
+</tr>
+<tr class="odd">
+<td>Chante J. Bethell</td>
+<td>Software, Validation, Writing - Review &amp; Editing</td>
+</tr>
+<tr class="even">
+<td>Steven M. Foltz</td>
+<td>Writing - Review &amp; Editing</td>
+</tr>
+<tr class="odd">
+<td>Jennifer O’Malley</td>
+<td>Data curation, Supervision, Writing - Review &amp; Editing</td>
+</tr>
+<tr class="even">
+<td>Casey S. Greene</td>
+<td>Conceptualization, Project administration, Supervision, Writing - Review &amp; Editing</td>
+</tr>
+<tr class="odd">
+<td>Jaclyn N. Taroni</td>
+<td>Conceptualization, Methodology, Investigation, Validation, Data curation, Writing - Original Draft, Writing - Review &amp; Editing, Visualization, Supervision, Project administration</td>
+</tr>
+</tbody>
+</table>
+<h2 id="declarations-of-interest">Declarations of Interest</h2>
+<p>AGH, JAS, SJS, DSM, DVP, NI, AY, KGW, CJB, JO, and JNT are or were employees of Alex’s Lemonade Stand Foundation, a sponsor of this research.</p>
 <h2 class="page_break_before" id="figure-titles-and-legends">Figure Titles and Legends</h2>
 <!-- Figure 1 -->
 <div id="fig:fig1" class="fignos">