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lukasmueller merged 8 commits into from
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Topic/manual update #5826

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16cc5c4
Updates to FieldBook Section of Manual
hkmanching Jul 29, 2025
53dd798
Merge branch 'master' into topic/manual_update
lukasmueller Aug 21, 2025
2f7c163
add mysterious required file that is referenced nowhere.
lukasmueller Aug 22, 2025
0e1055f
Merge branch 'master' into topic/manual_update
lukasmueller Sep 9, 2025
f3bc7f7
Merge branch 'master' into topic/manual_update
lukasmueller Dec 18, 2025
3bf7077
update bookdown docs
invalid-email-address Dec 18, 2025
ddb2d33
Fix missing bold character and make walkthrough text consistent
ryan-preble Dec 19, 2025
c28e0b0
update bookdown docs
invalid-email-address Dec 19, 2025
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43 changes: 28 additions & 15 deletions docs/404.html
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Expand Up @@ -23,7 +23,7 @@
<meta name="author" content="Breedbase team" />


<meta name="date" content="2025-10-23" />
<meta name="date" content="2025-12-19" />

<meta name="viewport" content="width=device-width, initial-scale=1" />
<meta name="apple-mobile-web-app-capable" content="yes" />
Expand Down Expand Up @@ -194,27 +194,40 @@
<li class="chapter" data-level="11.1" data-path="managing-genotyping-plates.html"><a href="managing-genotyping-plates.html#adding-a-new-genotyping-plate"><i class="fa fa-check"></i><b>11.1</b> Adding a New Genotyping Plate</a></li>
<li class="chapter" data-level="11.2" data-path="managing-genotyping-plates.html"><a href="managing-genotyping-plates.html#genotyping-plate-detail-page"><i class="fa fa-check"></i><b>11.2</b> Genotyping Plate Detail Page</a></li>
</ul></li>
<li class="chapter" data-level="12" data-path="using-fieldbook-app.html"><a href="using-fieldbook-app.html"><i class="fa fa-check"></i><b>12</b> Using Field Book App</a>
<li class="chapter" data-level="12" data-path="Using-Field-Book-with-BreedBase.html"><a href="Using-Field-Book-with-BreedBase.html"><i class="fa fa-check"></i><b>12</b> Using Field Book and BreedBase for Data Collection and Storage</a>
<ul>
<li class="chapter" data-level="12.1" data-path="using-fieldbook-app.html"><a href="using-fieldbook-app.html#a-typical-workflow"><i class="fa fa-check"></i><b>12.1</b> A typical workflow</a></li>
<li class="chapter" data-level="12.2" data-path="using-fieldbook-app.html"><a href="using-fieldbook-app.html#creating-layout-files"><i class="fa fa-check"></i><b>12.2</b> Creating Field Layout Files for the Field Book App</a>
<li class="chapter" data-level="12.1" data-path="Using-Field-Book-with-BreedBase.html"><a href="Using-Field-Book-with-BreedBase.html#introduction-1"><i class="fa fa-check"></i><b>12.1</b> Introduction</a></li>
<li class="chapter" data-level="12.2" data-path="Using-Field-Book-with-BreedBase.html"><a href="Using-Field-Book-with-BreedBase.html#installing-field-book"><i class="fa fa-check"></i><b>12.2</b> Installing Field Book</a>
<ul>
<li class="chapter" data-level="12.2.1" data-path="using-fieldbook-app.html"><a href="using-fieldbook-app.html#creating-field-layout-files-by-using-field-book-tools-page."><i class="fa fa-check"></i><b>12.2.1</b> Creating “Field Layout Files” by using “Field Book Tools” page.</a></li>
<li class="chapter" data-level="12.2.2" data-path="using-fieldbook-app.html"><a href="using-fieldbook-app.html#creating-field-layout-files-by-using-trial-detail-page."><i class="fa fa-check"></i><b>12.2.2</b> Creating “Field Layout Files” by using “Trial Detail” page.</a></li>
<li class="chapter" data-level="12.2.1" data-path="Using-Field-Book-with-BreedBase.html"><a href="Using-Field-Book-with-BreedBase.html#option-1-downloading-from-the-google-play-store"><i class="fa fa-check"></i><b>12.2.1</b> Option 1: Downloading from the Google Play Store</a></li>
<li class="chapter" data-level="12.2.2" data-path="Using-Field-Book-with-BreedBase.html"><a href="Using-Field-Book-with-BreedBase.html#option-2-manual-installation-from-github"><i class="fa fa-check"></i><b>12.2.2</b> Option 2: Manual Installation from Github</a></li>
<li class="chapter" data-level="12.2.3" data-path="Using-Field-Book-with-BreedBase.html"><a href="Using-Field-Book-with-BreedBase.html#keeping-field-book-updated"><i class="fa fa-check"></i><b>12.2.3</b> Keeping Field Book Updated</a></li>
</ul></li>
<li class="chapter" data-level="12.3" data-path="using-fieldbook-app.html"><a href="using-fieldbook-app.html#creating-trait-files"><i class="fa fa-check"></i><b>12.3</b> Creating Trait Files for the Field Book App</a>
<li class="chapter" data-level="12.3" data-path="Using-Field-Book-with-BreedBase.html"><a href="Using-Field-Book-with-BreedBase.html#preparing-field-layout-files-in-breedbase"><i class="fa fa-check"></i><b>12.3</b> Preparing Field Layout Files in BreedBase</a></li>
<li class="chapter" data-level="12.4" data-path="Using-Field-Book-with-BreedBase.html"><a href="Using-Field-Book-with-BreedBase.html#importing-field-layout-files-into-field-book"><i class="fa fa-check"></i><b>12.4</b> Importing Field Layout Files into Field Book</a>
<ul>
<li class="chapter" data-level="12.3.1" data-path="using-fieldbook-app.html"><a href="using-fieldbook-app.html#creating-a-trait-list"><i class="fa fa-check"></i><b>12.3.1</b> Creating a Trait List</a></li>
<li class="chapter" data-level="12.3.2" data-path="using-fieldbook-app.html"><a href="using-fieldbook-app.html#creating-a-trait-file"><i class="fa fa-check"></i><b>12.3.2</b> Creating a Trait File</a></li>
<li class="chapter" data-level="12.4.1" data-path="Using-Field-Book-with-BreedBase.html"><a href="Using-Field-Book-with-BreedBase.html#option-1-import-from-cloud-storage"><i class="fa fa-check"></i><b>12.4.1</b> Option 1: Import from Cloud Storage</a></li>
<li class="chapter" data-level="12.4.2" data-path="Using-Field-Book-with-BreedBase.html"><a href="Using-Field-Book-with-BreedBase.html#option-2-import-from-local-storage-device"><i class="fa fa-check"></i><b>12.4.2</b> Option 2: Import from Local Storage Device</a></li>
</ul></li>
<li class="chapter" data-level="12.4" data-path="using-fieldbook-app.html"><a href="using-fieldbook-app.html#transferring-files-from-your-computer-to-android-tablet"><i class="fa fa-check"></i><b>12.4</b> Transferring Files from Your Computer to Android Tablet</a>
<li class="chapter" data-level="12.5" data-path="Using-Field-Book-with-BreedBase.html"><a href="Using-Field-Book-with-BreedBase.html#adding-traits-to-field-book-using-breedbase"><i class="fa fa-check"></i><b>12.5</b> Adding Traits to Field Book Using BreedBase</a>
<ul>
<li class="chapter" data-level="12.4.1" data-path="using-fieldbook-app.html"><a href="using-fieldbook-app.html#files-on-your-computer"><i class="fa fa-check"></i><b>12.4.1</b> Files on your computer</a></li>
<li class="chapter" data-level="12.4.2" data-path="using-fieldbook-app.html"><a href="using-fieldbook-app.html#files-on-your-android-tablet"><i class="fa fa-check"></i><b>12.4.2</b> Files on your Android tablet</a></li>
<li class="chapter" data-level="12.5.1" data-path="Using-Field-Book-with-BreedBase.html"><a href="Using-Field-Book-with-BreedBase.html#creating-trait-files-in-breedbase"><i class="fa fa-check"></i><b>12.5.1</b> Creating Trait Files in BreedBase</a></li>
<li class="chapter" data-level="12.5.2" data-path="Using-Field-Book-with-BreedBase.html"><a href="Using-Field-Book-with-BreedBase.html#importing-trait-files-to-field-book"><i class="fa fa-check"></i><b>12.5.2</b> Importing Trait Files to Field Book</a></li>
</ul></li>
<li class="chapter" data-level="12.6" data-path="Using-Field-Book-with-BreedBase.html"><a href="Using-Field-Book-with-BreedBase.html#collecting-and-exporting-phenotype-data"><i class="fa fa-check"></i><b>12.6</b> Collecting and Exporting Phenotype Data</a>
<ul>
<li class="chapter" data-level="12.6.1" data-path="Using-Field-Book-with-BreedBase.html"><a href="Using-Field-Book-with-BreedBase.html#collecting-phenotype-data-in-field-book"><i class="fa fa-check"></i><b>12.6.1</b> Collecting Phenotype Data in Field Book</a></li>
<li class="chapter" data-level="12.6.2" data-path="Using-Field-Book-with-BreedBase.html"><a href="Using-Field-Book-with-BreedBase.html#exporting-phenotype-data-from-field-book-and-importing-to-breedbase"><i class="fa fa-check"></i><b>12.6.2</b> Exporting Phenotype Data from Field Book and Importing to BreedBase</a></li>
</ul></li>
<li class="chapter" data-level="12.7" data-path="Using-Field-Book-with-BreedBase.html"><a href="Using-Field-Book-with-BreedBase.html#using-brapi-for-data-transfer-between-field-book-and-breedbase"><i class="fa fa-check"></i><b>12.7</b> Using BrAPI for Data Transfer Between Field Book and BreedBase</a>
<ul>
<li class="chapter" data-level="12.7.1" data-path="Using-Field-Book-with-BreedBase.html"><a href="Using-Field-Book-with-BreedBase.html#connecting-field-book-to-a-brapi-server"><i class="fa fa-check"></i><b>12.7.1</b> Connecting Field Book to a BrAPI Server</a></li>
<li class="chapter" data-level="12.7.2" data-path="Using-Field-Book-with-BreedBase.html"><a href="Using-Field-Book-with-BreedBase.html#importing-trials-and-traits-from-breedbase"><i class="fa fa-check"></i><b>12.7.2</b> Importing Trials and Traits from BreedBase</a></li>
<li class="chapter" data-level="12.7.3" data-path="Using-Field-Book-with-BreedBase.html"><a href="Using-Field-Book-with-BreedBase.html#collecting-data"><i class="fa fa-check"></i><b>12.7.3</b> Collecting Data</a></li>
<li class="chapter" data-level="12.7.4" data-path="Using-Field-Book-with-BreedBase.html"><a href="Using-Field-Book-with-BreedBase.html#exporting-phenotype-data-to-breedbase-via-brapi"><i class="fa fa-check"></i><b>12.7.4</b> Exporting Phenotype Data to BreedBase via BrAPI</a></li>
<li class="chapter" data-level="12.7.5" data-path="Using-Field-Book-with-BreedBase.html"><a href="Using-Field-Book-with-BreedBase.html#verifying-data-in-breedbase"><i class="fa fa-check"></i><b>12.7.5</b> Verifying Data in BreedBase</a></li>
<li class="chapter" data-level="12.7.6" data-path="Using-Field-Book-with-BreedBase.html"><a href="Using-Field-Book-with-BreedBase.html#troubleshooting"><i class="fa fa-check"></i><b>12.7.6</b> Troubleshooting</a></li>
</ul></li>
<li class="chapter" data-level="12.5" data-path="using-fieldbook-app.html"><a href="using-fieldbook-app.html#setting-up-field-book-app-for-data-collection"><i class="fa fa-check"></i><b>12.5</b> Setting up “Field Book App” for data collection</a></li>
<li class="chapter" data-level="12.6" data-path="using-fieldbook-app.html"><a href="using-fieldbook-app.html#exporting-files-from-field-book-app"><i class="fa fa-check"></i><b>12.6</b> Exporting Files from Field Book App</a></li>
<li class="chapter" data-level="12.7" data-path="using-fieldbook-app.html"><a href="using-fieldbook-app.html#uploading-pheno-files"><i class="fa fa-check"></i><b>12.7</b> Uploading Phenotype Files to an SGN database</a></li>
</ul></li>
<li class="chapter" data-level="13" data-path="managing-phenotypic-data.html"><a href="managing-phenotypic-data.html"><i class="fa fa-check"></i><b>13</b> Managing Phenotypic Data</a>
<ul>
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