updates

[ci skip]

This build is based on
838c21c.

This commit was created by the following CI build and job:
https://github.com/plantbreeding/BrAPI-Manuscript2/commit/838c21cfb2bae42f8511dd75468c931bea0ed267/checks
https://github.com/plantbreeding/BrAPI-Manuscript2/actions/runs/8102754236

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/7bafa2d2c3a66e34f8cd7a087496339c08eb0f08/>.
+The permalink for this webpage version is <https://plantbreeding.github.io/BrAPI-Manuscript2/v/838c21cfb2bae42f8511dd75468c931bea0ed267/>.
 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
-[`7bafa2d2c3a66e34f8cd7a087496339c08eb0f08`](https://github.com/plantbreeding/BrAPI-Manuscript2/commit/7bafa2d2c3a66e34f8cd7a087496339c08eb0f08).
+[`838c21cfb2bae42f8511dd75468c931bea0ed267`](https://github.com/plantbreeding/BrAPI-Manuscript2/commit/838c21cfb2bae42f8511dd75468c931bea0ed267).

index.html

@@ -13,6 +13,10 @@
   <meta name="author" content="Cyril Pommier" />
   <meta name="author" content="Becky Smith" />
   <meta name="author" content="Chaney Courtney" />
+  <meta name="author" content="Zachary Miller" />
+  <meta name="author" content="Terry Casstevens" />
+  <meta name="author" content="Sook Jung" />
+  <meta name="author" content="Taein Lee" />
   <meta name="dcterms.date" content="2024-02-29" />
   <meta name="keywords" content="brapi, breeding, api, standards, community" />
   <title>BrAPI Success Stories</title>
@@ -61,8 +65,8 @@
   <meta name="dc.date" content="2024-02-29" />
   <meta name="citation_publication_date" content="2024-02-29" />
   <meta property="article:published_time" content="2024-02-29" />
-  <meta name="dc.modified" content="2024-02-29T21:09:23+00:00" />
-  <meta property="article:modified_time" content="2024-02-29T21:09:23+00:00" />
+  <meta name="dc.modified" content="2024-02-29T21:21:31+00:00" />
+  <meta property="article:modified_time" content="2024-02-29T21:21:31+00:00" />
   <meta name="dc.language" content="en-US" />
   <meta name="citation_language" content="en-US" />
   <meta name="dc.relation.ispartof" content="Manubot" />
@@ -95,15 +99,27 @@
   <meta name="citation_author_orcid" content="0000-0002-8968-3383" />
   <meta name="citation_author" content="Chaney Courtney" />
   <meta name="citation_author_institution" content="Clemson University" />
+  <meta name="citation_author" content="Zachary Miller" />
+  <meta name="citation_author_institution" content="Cornell University" />
+  <meta name="citation_author_orcid" content="0000-0002-5454-4527" />
+  <meta name="citation_author" content="Terry Casstevens" />
+  <meta name="citation_author_institution" content="Cornell University" />
+  <meta name="citation_author_orcid" content="0000-0001-7602-0487" />
+  <meta name="citation_author" content="Sook Jung" />
+  <meta name="citation_author_institution" content="Department of Horticulture, Washington State University" />
+  <meta name="citation_author_orcid" content="0000-0003-3968-2769" />
+  <meta name="citation_author" content="Taein Lee" />
+  <meta name="citation_author_institution" content="Department of Horticulture, Washington State University" />
+  <meta name="citation_author_orcid" content="0000-0002-2000-2586" />
   <link rel="canonical" href="https://plantbreeding.github.io/BrAPI-Manuscript2/" />
   <meta property="og:url" content="https://plantbreeding.github.io/BrAPI-Manuscript2/" />
   <meta property="twitter:url" content="https://plantbreeding.github.io/BrAPI-Manuscript2/" />
   <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/7bafa2d2c3a66e34f8cd7a087496339c08eb0f08/" />
-  <meta name="manubot_html_url_versioned" content="https://plantbreeding.github.io/BrAPI-Manuscript2/v/7bafa2d2c3a66e34f8cd7a087496339c08eb0f08/" />
-  <meta name="manubot_pdf_url_versioned" content="https://plantbreeding.github.io/BrAPI-Manuscript2/v/7bafa2d2c3a66e34f8cd7a087496339c08eb0f08/manuscript.pdf" />
+  <link rel="alternate" type="text/html" href="https://plantbreeding.github.io/BrAPI-Manuscript2/v/838c21cfb2bae42f8511dd75468c931bea0ed267/" />
+  <meta name="manubot_html_url_versioned" content="https://plantbreeding.github.io/BrAPI-Manuscript2/v/838c21cfb2bae42f8511dd75468c931bea0ed267/" />
+  <meta name="manubot_pdf_url_versioned" content="https://plantbreeding.github.io/BrAPI-Manuscript2/v/838c21cfb2bae42f8511dd75468c931bea0ed267/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" />
@@ -120,9 +136,9 @@ <h1 class="title">BrAPI Success Stories</h1>
 </header>
 <p><small><em>
 This manuscript
-(<a href="https://plantbreeding.github.io/BrAPI-Manuscript2/v/7bafa2d2c3a66e34f8cd7a087496339c08eb0f08/">permalink</a>)
+(<a href="https://plantbreeding.github.io/BrAPI-Manuscript2/v/838c21cfb2bae42f8511dd75468c931bea0ed267/">permalink</a>)
 was automatically generated
-from <a href="https://github.com/plantbreeding/BrAPI-Manuscript2/tree/7bafa2d2c3a66e34f8cd7a087496339c08eb0f08">plantbreeding/BrAPI-Manuscript2@7bafa2d</a>
+from <a href="https://github.com/plantbreeding/BrAPI-Manuscript2/tree/838c21cfb2bae42f8511dd75468c931bea0ed267">plantbreeding/BrAPI-Manuscript2@838c21c</a>
 on February 29, 2024.
 </em></small></p>
 <h2 id="authors">Authors</h2>
@@ -215,6 +231,44 @@ <h2 id="authors">Authors</h2>
 <small>
 Clemson University
 </small></p></li>
+<li><p><strong>Zachary Miller</strong>
+<br>
+<img src="images/orcid.svg" class="inline_icon" width="16" height="16" alt="ORCID icon" />
+<a href="https://orcid.org/0000-0002-5454-4527">0000-0002-5454-4527</a>
+· <img src="images/github.svg" class="inline_icon" width="16" height="16" alt="GitHub icon" />
+<a href="https://github.com/zrm22">zrm22</a>
+<br>
+<small>
+Cornell University
+</small></p></li>
+<li><p><strong>Terry Casstevens</strong>
+<br>
+<img src="images/orcid.svg" class="inline_icon" width="16" height="16" alt="ORCID icon" />
+<a href="https://orcid.org/0000-0001-7602-0487">0000-0001-7602-0487</a>
+· <img src="images/github.svg" class="inline_icon" width="16" height="16" alt="GitHub icon" />
+<a href="https://github.com/tcasstevens">tcasstevens</a>
+<br>
+<small>
+Cornell University
+</small></p></li>
+<li><p><strong>Sook Jung</strong>
+<br>
+<img src="images/orcid.svg" class="inline_icon" width="16" height="16" alt="ORCID icon" />
+<a href="https://orcid.org/0000-0003-3968-2769">0000-0003-3968-2769</a>
+<br>
+<small>
+Department of Horticulture, Washington State University
+</small></p></li>
+<li><p><strong>Taein Lee</strong>
+<br>
+<img src="images/orcid.svg" class="inline_icon" width="16" height="16" alt="ORCID icon" />
+<a href="https://orcid.org/0000-0002-2000-2586">0000-0002-2000-2586</a>
+· <img src="images/github.svg" class="inline_icon" width="16" height="16" alt="GitHub icon" />
+<a href="https://github.com/leetaei">leetaei</a>
+<br>
+<small>
+Department of Horticulture, Washington State University
+</small></p></li>
 </ul>
 <div id="correspondence">
 <p>✉ — Correspondence possible via <a href="https://github.com/plantbreeding/BrAPI-Manuscript2/issues">GitHub Issues</a>
@@ -326,8 +380,7 @@ <h4 id="breedbase">Breedbase</h4>
 <!-- Peter S: Stub paragraph to stimulate the writing process. Please edit, rewrite, or delete as needed. -->
 <p>Since the inception of BrAPI in 2014, the Breedbase group has been a heavy contributor to the BrAPI community.</p>
 <h4 id="bims">BIMS</h4>
-<!-- Peter S: Stub paragraph to stimulate the writing process. Please edit, rewrite, or delete as needed. -->
-<p>BIMS is relatively new to the BrAPI community, with their primary focus being a link to the Field Book mobile data collection app.</p>
+<p>BIMS (Breeding Information Management System) [https://doi.org/10.1093/database/baab054] is a free, secure, and online breeding management system which allows breeders to store, manage, archive, and analyze their private breeding program data. BIMS enables individual breeders to have complete control of their own breeding data along with access to tools such as data import/export, data analysis and data archiving for their germplasm, phenotype, genotype, and image data. BIMS is currently implemented in five community databases, the Genome Database for Rosaceae [https://doi.org/10.1093/nar/gky1000], CottonGEN [https://doi.org/10.3390/plants10122805], the Citrus Genome Database, the Pulse Crop Database, and the Genome Database for Vaccinium, as well as a crop-independent website, <a href="https://breedwithbims.org" class="uri">https://breedwithbims.org</a>. BIMS in these five community databases enables individual breeders to import publicly available data so that they can utilize public data in their breeding program. BIMS utilizes the Android App Field Book, enabling seamless data transfer between BIMS and the Field Book App through either files or BrAPI. Data transfer through BrAPI between BIMS and other resources such as BreedBase, GIGWA, and Breeder Genomics Hub is also on the way.</p>
 <h4 id="germinate">Germinate</h4>
 <!-- Peter S: Stub paragraph to stimulate the writing process. Please edit, rewrite, or delete as needed. -->
 <p>Germinate is a combination breeding database and germplasm management database.</p>