Merge pull request #44 from plantbreeding/rootstock-14-05-2024

[ci skip]

This build is based on
367c096.

This commit was created by the following CI build and job:
https://github.com/plantbreeding/BrAPI-Manuscript2/commit/367c09627ffb9e2851c68ce3cdb096678690de27/checks
https://github.com/plantbreeding/BrAPI-Manuscript2/actions/runs/9086340601

README.md

@@ -1,7 +1,7 @@
 # Output directory containing the formatted manuscript
 
 The [`gh-pages`](https://github.com/plantbreeding/BrAPI-Manuscript2/tree/gh-pages) branch hosts the contents of this directory at <https://plantbreeding.github.io/BrAPI-Manuscript2/>.
-The permalink for this webpage version is <https://plantbreeding.github.io/BrAPI-Manuscript2/v/8f5687fba41af05123ca129317c6825419506da1/>.
+The permalink for this webpage version is <https://plantbreeding.github.io/BrAPI-Manuscript2/v/367c09627ffb9e2851c68ce3cdb096678690de27/>.
 To redirect to the permalink for the latest manuscript version at anytime, use the link <https://plantbreeding.github.io/BrAPI-Manuscript2/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
-[`8f5687fba41af05123ca129317c6825419506da1`](https://github.com/plantbreeding/BrAPI-Manuscript2/commit/8f5687fba41af05123ca129317c6825419506da1).
+[`367c09627ffb9e2851c68ce3cdb096678690de27`](https://github.com/plantbreeding/BrAPI-Manuscript2/commit/367c09627ffb9e2851c68ce3cdb096678690de27).

index.html

@@ -100,8 +100,8 @@
   <meta name="dc.date" content="2024-05-14" />
   <meta name="citation_publication_date" content="2024-05-14" />
   <meta property="article:published_time" content="2024-05-14" />
-  <meta name="dc.modified" content="2024-05-14T20:11:58+00:00" />
-  <meta property="article:modified_time" content="2024-05-14T20:11:58+00:00" />
+  <meta name="dc.modified" content="2024-05-14T21:20:06+00:00" />
+  <meta property="article:modified_time" content="2024-05-14T21:20:06+00:00" />
   <meta name="dc.language" content="en-US" />
   <meta name="citation_language" content="en-US" />
   <meta name="dc.relation.ispartof" content="Manubot" />
@@ -254,9 +254,9 @@
   <meta name="citation_fulltext_html_url" content="https://plantbreeding.github.io/BrAPI-Manuscript2/" />
   <meta name="citation_pdf_url" content="https://plantbreeding.github.io/BrAPI-Manuscript2/manuscript.pdf" />
   <link rel="alternate" type="application/pdf" href="https://plantbreeding.github.io/BrAPI-Manuscript2/manuscript.pdf" />
-  <link rel="alternate" type="text/html" href="https://plantbreeding.github.io/BrAPI-Manuscript2/v/8f5687fba41af05123ca129317c6825419506da1/" />
-  <meta name="manubot_html_url_versioned" content="https://plantbreeding.github.io/BrAPI-Manuscript2/v/8f5687fba41af05123ca129317c6825419506da1/" />
-  <meta name="manubot_pdf_url_versioned" content="https://plantbreeding.github.io/BrAPI-Manuscript2/v/8f5687fba41af05123ca129317c6825419506da1/manuscript.pdf" />
+  <link rel="alternate" type="text/html" href="https://plantbreeding.github.io/BrAPI-Manuscript2/v/367c09627ffb9e2851c68ce3cdb096678690de27/" />
+  <meta name="manubot_html_url_versioned" content="https://plantbreeding.github.io/BrAPI-Manuscript2/v/367c09627ffb9e2851c68ce3cdb096678690de27/" />
+  <meta name="manubot_pdf_url_versioned" content="https://plantbreeding.github.io/BrAPI-Manuscript2/v/367c09627ffb9e2851c68ce3cdb096678690de27/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" />
@@ -273,9 +273,9 @@ <h1 class="title">BrAPI Success Stories</h1>
 </header>
 <p><small><em>
 This manuscript
-(<a href="https://plantbreeding.github.io/BrAPI-Manuscript2/v/8f5687fba41af05123ca129317c6825419506da1/">permalink</a>)
+(<a href="https://plantbreeding.github.io/BrAPI-Manuscript2/v/367c09627ffb9e2851c68ce3cdb096678690de27/">permalink</a>)
 was automatically generated
-from <a href="https://github.com/plantbreeding/BrAPI-Manuscript2/tree/8f5687fba41af05123ca129317c6825419506da1">plantbreeding/BrAPI-Manuscript2@8f5687f</a>
+from <a href="https://github.com/plantbreeding/BrAPI-Manuscript2/tree/367c09627ffb9e2851c68ce3cdb096678690de27">plantbreeding/BrAPI-Manuscript2@367c096</a>
 on May 14, 2024.
 </em></small></p>
 <h2 id="authors">Authors</h2>
@@ -975,7 +975,7 @@ <h2 class="page_break_before" id="references">References</h2>
 <div class="csl-left-margin">22. </div><div class="csl-right-inline"><strong>Helium: visualization of large scale plant pedigrees</strong> <div class="csl-block">Paul D Shaw, Martin Graham, Jessie Kennedy, Iain Milne, David F Marshall</div> <em>BMC Bioinformatics</em> (2014-08-01) <a href="https://doi.org/f6gfzs">https://doi.org/f6gfzs</a> <div class="csl-block">DOI: <a href="https://doi.org/10.1186/1471-2105-15-259">10.1186/1471-2105-15-259</a> · PMID: <a href="https://www.ncbi.nlm.nih.gov/pubmed/25085009">25085009</a> · PMCID: <a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4133633">PMC4133633</a></div></div>
 </div>
 <div id="ref-1CKLIIaug" class="csl-entry" role="doc-biblioentry">
-<div class="csl-left-margin">23. </div><div class="csl-right-inline"><strong>G&lt;scp&gt;enotypechecker&lt;/scp&gt;: an interactive tool for checking the inheritance consistency of genotyped pedigrees</strong> <div class="csl-block">T Paterson, A Law</div> <em>Animal Genetics</em> (2011-03-24) <a href="https://doi.org/d5mhc2">https://doi.org/d5mhc2</a> <div class="csl-block">DOI: <a href="https://doi.org/10.1111/j.1365-2052.2011.02183.x">10.1111/j.1365-2052.2011.02183.x</a></div></div>
+<div class="csl-left-margin">23. </div><div class="csl-right-inline"><strong>G&lt;scp&gt;enotypechecker&lt;/scp&gt;: an interactive tool for checking the inheritance consistency of genotyped pedigrees</strong> <div class="csl-block">T Paterson, A Law</div> <em>Animal Genetics</em> (2011-03-24) <a href="https://doi.org/d5mhc2">https://doi.org/d5mhc2</a> <div class="csl-block">DOI: <a href="https://doi.org/10.1111/j.1365-2052.2011.02183.x">10.1111/j.1365-2052.2011.02183.x</a> · PMID: <a href="https://www.ncbi.nlm.nih.gov/pubmed/21906109">21906109</a></div></div>
 </div>
 <div id="ref-1HmEHgW8h" class="csl-entry" role="doc-biblioentry">
 <div class="csl-left-margin">24. </div><div class="csl-right-inline"><strong>Unlocking the genetic diversity and population structure of the newly introduced two-row spring European HerItage Barley collecTion (ExHIBiT)</strong> <div class="csl-block">Villő Bernád, Nadia Al-Tamimi, Patrick Langan, Gary Gillespie, Timothy Dempsey, Joey Henchy, Mary Harty, Luke Ramsay, Kelly Houston, Malcolm Macaulay, … Sónia Negrão</div> <em>Frontiers in Plant Science</em> (2024-03-20) <a href="https://doi.org/gtstdn">https://doi.org/gtstdn</a> <div class="csl-block">DOI: <a href="https://doi.org/10.3389/fpls.2024.1268847">10.3389/fpls.2024.1268847</a> · PMID: <a href="https://www.ncbi.nlm.nih.gov/pubmed/38571708">38571708</a> · PMCID: <a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10987740">PMC10987740</a></div></div>
@@ -987,7 +987,7 @@ <h2 class="page_break_before" id="references">References</h2>
 <div class="csl-left-margin">26. </div><div class="csl-right-inline"><strong>Applying FAIR Principles to Plant Phenotypic Data Management in GnpIS</strong> <div class="csl-block">C Pommier, C Michotey, G Cornut, P Roumet, E Duchêne, R Flores, A Lebreton, M Alaux, S Durand, E Kimmel, … AF Adam-Blondon</div> <em>Plant Phenomics</em> (2019-01) <a href="https://doi.org/gtq836">https://doi.org/gtq836</a> <div class="csl-block">DOI: <a href="https://doi.org/10.34133/2019/1671403">10.34133/2019/1671403</a> · PMID: <a href="https://www.ncbi.nlm.nih.gov/pubmed/33313522">33313522</a> · PMCID: <a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7718628">PMC7718628</a></div></div>
 </div>
 <div id="ref-15XwZ2Vb0" class="csl-entry" role="doc-biblioentry">
-<div class="csl-left-margin">27. </div><div class="csl-right-inline"><strong>Mining Plant Genomic and Genetic Data Using the GnpIS Information System</strong> <div class="csl-block">A-F Adam-Blondon, M Alaux, S Durand, T Letellier, G Merceron, N Mohellibi, C Pommier, D Steinbach, F Alfama, J Amselem, … H Quesneville</div> <em>Methods in Molecular Biology</em> (2016-12-17) <a href="https://doi.org/gtq835">https://doi.org/gtq835</a> <div class="csl-block">DOI: <a href="https://doi.org/10.1007/978-1-4939-6658-5_5">10.1007/978-1-4939-6658-5_5</a></div></div>
+<div class="csl-left-margin">27. </div><div class="csl-right-inline"><strong>Mining Plant Genomic and Genetic Data Using the GnpIS Information System</strong> <div class="csl-block">A-F Adam-Blondon, M Alaux, S Durand, T Letellier, G Merceron, N Mohellibi, C Pommier, D Steinbach, F Alfama, J Amselem, … H Quesneville</div> <em>Methods in Molecular Biology</em> (2016-12-17) <a href="https://doi.org/gtq835">https://doi.org/gtq835</a> <div class="csl-block">DOI: <a href="https://doi.org/10.1007/978-1-4939-6658-5_5">10.1007/978-1-4939-6658-5_5</a> · PMID: <a href="https://www.ncbi.nlm.nih.gov/pubmed/27987166">27987166</a></div></div>
 </div>
 <div id="ref-al3Hd9Ml" class="csl-entry" role="doc-biblioentry">
 <div class="csl-left-margin">28. </div><div class="csl-right-inline"><strong>Breedbase: a digital ecosystem for modern plant breeding</strong> <div class="csl-block">Nicolas Morales, Alex C Ogbonna, Bryan J Ellerbrock, Guillaume J Bauchet, Titima Tantikanjana, Isaak Y Tecle, Adrian F Powell, David Lyon, Naama Menda, Christiano C Simoes, … Lukas A Mueller</div> <em>G3 Genes|Genomes|Genetics</em> (2022-04-06) <a href="https://doi.org/gpzmnf">https://doi.org/gpzmnf</a> <div class="csl-block">DOI: <a href="https://doi.org/10.1093/g3journal/jkac078">10.1093/g3journal/jkac078</a> · PMID: <a href="https://www.ncbi.nlm.nih.gov/pubmed/35385099">35385099</a> · PMCID: <a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9258556">PMC9258556</a></div></div>