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  77 <li class="toc-logo"><a href="./"><img src="assets/images/Breedbase_HighRes.png"></a></li>
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  79 <li class="chapter" data-level="" data-path="index.html"><a href="index.html"><i class="fa fa-check"></i>Introduction</a></li>
  80 <li class="chapter" data-level="1" data-path="basic-website-usage.html"><a href="basic-website-usage.html"><i class="fa fa-check"></i><b>1</b> Basic Website Usage</a>
  81 <ul>
  82 <li class="chapter" data-level="1.1" data-path="basic-website-usage.html"><a href="basic-website-usage.html#creating-a-user-account"><i class="fa fa-check"></i><b>1.1</b> Creating a User Account</a>
  83 <ul>
  84 <li class="chapter" data-level="1.1.1" data-path="basic-website-usage.html"><a href="basic-website-usage.html#verifying-first-that-you-do-not-already-have-an-account"><i class="fa fa-check"></i><b>1.1.1</b> Verifying first that you do not already have an account</a></li>
  85 <li class="chapter" data-level="1.1.2" data-path="basic-website-usage.html"><a href="basic-website-usage.html#creating-a-user-account-1"><i class="fa fa-check"></i><b>1.1.2</b> Creating a user account</a></li>
  86 </ul></li>
  87 <li class="chapter" data-level="1.2" data-path="basic-website-usage.html"><a href="basic-website-usage.html#managing-your-account"><i class="fa fa-check"></i><b>1.2</b> Managing your Account</a>
  88 <ul>
  89 <li class="chapter" data-level="1.2.1" data-path="basic-website-usage.html"><a href="basic-website-usage.html#login"><i class="fa fa-check"></i><b>1.2.1</b> Login</a></li>
  90 <li class="chapter" data-level="1.2.2" data-path="basic-website-usage.html"><a href="basic-website-usage.html#editing-account-settings"><i class="fa fa-check"></i><b>1.2.2</b> Editing Account Settings</a></li>
  91 <li class="chapter" data-level="1.2.3" data-path="basic-website-usage.html"><a href="basic-website-usage.html#changing-your-account-status-from-user-to-submitter"><i class="fa fa-check"></i><b>1.2.3</b> Changing Your Account Status: From “User” to “Submitter”</a></li>
  92 <li class="chapter" data-level="1.2.4" data-path="basic-website-usage.html"><a href="basic-website-usage.html#submitting-feedback-on-an-sgn-database"><i class="fa fa-check"></i><b>1.2.4</b> Submitting Feedback on an SGN Database</a></li>
  93 </ul></li>
  94 <li class="chapter" data-level="1.3" data-path="basic-website-usage.html"><a href="basic-website-usage.html#menu-layout"><i class="fa fa-check"></i><b>1.3</b> Menu Layout</a>
  95 <ul>
  96 <li class="chapter" data-level="1.3.1" data-path="basic-website-usage.html"><a href="basic-website-usage.html#menu-options"><i class="fa fa-check"></i><b>1.3.1</b> Menu Options</a></li>
  97 </ul></li>
  98 <li class="chapter" data-level="1.4" data-path="basic-website-usage.html"><a href="basic-website-usage.html#working-with-lists"><i class="fa fa-check"></i><b>1.4</b> Working with Lists</a>
  99 <ul>
 100 <li class="chapter" data-level="1.4.1" data-path="basic-website-usage.html"><a href="basic-website-usage.html#creating-lists"><i class="fa fa-check"></i><b>1.4.1</b> Creating lists</a></li>
 101 <li class="chapter" data-level="1.4.2" data-path="basic-website-usage.html"><a href="basic-website-usage.html#viewing-and-editing-lists"><i class="fa fa-check"></i><b>1.4.2</b> Viewing and editing lists</a></li>
 102 </ul></li>
 103 <li class="chapter" data-level="1.5" data-path="basic-website-usage.html"><a href="basic-website-usage.html#user-permissions"><i class="fa fa-check"></i><b>1.5</b> User Permissions</a></li>
 104 </ul></li>
 105 <li class="chapter" data-level="2" data-path="searching-the-database.html"><a href="searching-the-database.html"><i class="fa fa-check"></i><b>2</b> Searching the Database</a>
 106 <ul>
 107 <li class="chapter" data-level="2.1" data-path="searching-the-database.html"><a href="searching-the-database.html#search-wizard"><i class="fa fa-check"></i><b>2.1</b> The Search Wizard</a>
 108 <ul>
 109 <li class="chapter" data-level="2.1.1" data-path="searching-the-database.html"><a href="searching-the-database.html#how-the-search-wizard-works"><i class="fa fa-check"></i><b>2.1.1</b> How the Search Wizard Works</a></li>
 110 <li class="chapter" data-level="2.1.2" data-path="searching-the-database.html"><a href="searching-the-database.html#how-to-use-retrieved-data"><i class="fa fa-check"></i><b>2.1.2</b> How to use retrieved data</a></li>
 111 <li class="chapter" data-level="2.1.3" data-path="searching-the-database.html"><a href="searching-the-database.html#updating-the-wizard"><i class="fa fa-check"></i><b>2.1.3</b> Updating the Wizard</a></li>
 112 </ul></li>
 113 <li class="chapter" data-level="2.2" data-path="searching-the-database.html"><a href="searching-the-database.html#accessions-and-plot-search"><i class="fa fa-check"></i><b>2.2</b> Accessions and Plot Search</a></li>
 114 <li class="chapter" data-level="2.3" data-path="searching-the-database.html"><a href="searching-the-database.html#trials-search"><i class="fa fa-check"></i><b>2.3</b> Trials Search</a></li>
 115 <li class="chapter" data-level="2.4" data-path="searching-the-database.html"><a href="searching-the-database.html#trait-search"><i class="fa fa-check"></i><b>2.4</b> Trait Search</a></li>
 116 <li class="chapter" data-level="2.5" data-path="searching-the-database.html"><a href="searching-the-database.html#ontology-browser"><i class="fa fa-check"></i><b>2.5</b> Ontology Browser</a></li>
 117 <li class="chapter" data-level="2.6" data-path="searching-the-database.html"><a href="searching-the-database.html#search-seedlots"><i class="fa fa-check"></i><b>2.6</b> Search Seedlots</a></li>
 118 </ul></li>
 119 <li class="chapter" data-level="3" data-path="managing-user-roles.html"><a href="managing-user-roles.html"><i class="fa fa-check"></i><b>3</b> Managing User Roles</a>
 120 <ul>
 121 <li class="chapter" data-level="3.1" data-path="managing-user-roles.html"><a href="managing-user-roles.html#what-are-user-roles"><i class="fa fa-check"></i><b>3.1</b> What are User Roles?</a></li>
 122 <li class="chapter" data-level="3.2" data-path="managing-user-roles.html"><a href="managing-user-roles.html#the-manage-user-roles-page"><i class="fa fa-check"></i><b>3.2</b> The Manage User Roles page</a></li>
 123 </ul></li>
 124 <li class="chapter" data-level="4" data-path="managing-breeding-programs.html"><a href="managing-breeding-programs.html"><i class="fa fa-check"></i><b>4</b> Managing Breeding Programs</a></li>
 125 <li class="chapter" data-level="5" data-path="managing-locations.html"><a href="managing-locations.html"><i class="fa fa-check"></i><b>5</b> Managing Locations</a></li>
 126 <li class="chapter" data-level="6" data-path="managing-accessions.html"><a href="managing-accessions.html"><i class="fa fa-check"></i><b>6</b> Managing Accessions</a>
 127 <ul>
 128 <li class="chapter" data-level="6.1" data-path="managing-accessions.html"><a href="managing-accessions.html#add-accessions-using-a-list"><i class="fa fa-check"></i><b>6.1</b> Add Accessions Using A List</a></li>
 129 <li class="chapter" data-level="6.2" data-path="managing-accessions.html"><a href="managing-accessions.html#uploading-accessions-and-accessions-info-from-a-file"><i class="fa fa-check"></i><b>6.2</b> Uploading Accessions and Accession’s Info From A File</a></li>
 130 <li class="chapter" data-level="6.3" data-path="managing-accessions.html"><a href="managing-accessions.html#email-alert-for-accession-upload"><i class="fa fa-check"></i><b>6.3</b> Email alert for accession upload</a></li>
 131 <li class="chapter" data-level="6.4" data-path="managing-accessions.html"><a href="managing-accessions.html#add-parentage-pedigree-information-to-accessions"><i class="fa fa-check"></i><b>6.4</b> Add Parentage (Pedigree) Information to Accessions</a></li>
 132 <li class="chapter" data-level="6.5" data-path="managing-accessions.html"><a href="managing-accessions.html#working-with-grafts"><i class="fa fa-check"></i><b>6.5</b> Working with grafts</a></li>
 133 <li class="chapter" data-level="6.6" data-path="managing-accessions.html"><a href="managing-accessions.html#bulk-renaming-of-accessions"><i class="fa fa-check"></i><b>6.6</b> Bulk renaming of accessions</a></li>
 134 </ul></li>
 135 <li class="chapter" data-level="7" data-path="managing-seed-lots.html"><a href="managing-seed-lots.html"><i class="fa fa-check"></i><b>7</b> Managing Seed Lots</a>
 136 <ul>
 137 <li class="chapter" data-level="7.1" data-path="managing-seed-lots.html"><a href="managing-seed-lots.html#add-new-seedlots"><i class="fa fa-check"></i><b>7.1</b> Add New Seedlot(s)</a></li>
 138 <li class="chapter" data-level="7.2" data-path="managing-seed-lots.html"><a href="managing-seed-lots.html#seedlot-transactions"><i class="fa fa-check"></i><b>7.2</b> Seedlot Transactions</a></li>
 139 <li class="chapter" data-level="7.3" data-path="managing-seed-lots.html"><a href="managing-seed-lots.html#seed-inventory"><i class="fa fa-check"></i><b>7.3</b> Seed Inventory</a></li>
 140 <li class="chapter" data-level="7.4" data-path="managing-seed-lots.html"><a href="managing-seed-lots.html#find-seedlots-for-a-list-of-accessions"><i class="fa fa-check"></i><b>7.4</b> Find Seedlots For a List of Accessions</a></li>
 141 <li class="chapter" data-level="7.5" data-path="managing-seed-lots.html"><a href="managing-seed-lots.html#create-a-seedlot-for-an-accession-or-cross"><i class="fa fa-check"></i><b>7.5</b> Create a seedlot for an Accession or Cross</a></li>
 142 <li class="chapter" data-level="7.6" data-path="managing-seed-lots.html"><a href="managing-seed-lots.html#add-quality-data-to-a-seedlot"><i class="fa fa-check"></i><b>7.6</b> Add quality data to a seedlot</a></li>
 143 <li class="chapter" data-level="7.7" data-path="managing-seed-lots.html"><a href="managing-seed-lots.html#seedlot-maintenance-events"><i class="fa fa-check"></i><b>7.7</b> Seedlot Maintenance Events</a>
 144 <ul>
 145 <li class="chapter" data-level="7.7.1" data-path="managing-seed-lots.html"><a href="managing-seed-lots.html#setup"><i class="fa fa-check"></i><b>7.7.1</b> Setup</a></li>
 146 <li class="chapter" data-level="7.7.2" data-path="managing-seed-lots.html"><a href="managing-seed-lots.html#adding-events"><i class="fa fa-check"></i><b>7.7.2</b> Adding Events</a></li>
 147 <li class="chapter" data-level="7.7.3" data-path="managing-seed-lots.html"><a href="managing-seed-lots.html#displaying-events"><i class="fa fa-check"></i><b>7.7.3</b> Displaying Events</a></li>
 148 <li class="chapter" data-level="7.7.4" data-path="managing-seed-lots.html"><a href="managing-seed-lots.html#downloading-events"><i class="fa fa-check"></i><b>7.7.4</b> Downloading Events</a></li>
 149 </ul></li>
 150 <li class="chapter" data-level="7.8" data-path="managing-seed-lots.html"><a href="managing-seed-lots.html#deleting-seedlots"><i class="fa fa-check"></i><b>7.8</b> Deleting Seedlots</a></li>
 151 </ul></li>
 152 <li class="chapter" data-level="8" data-path="managing-populations.html"><a href="managing-populations.html"><i class="fa fa-check"></i><b>8</b> Managing Populations</a></li>
 153 <li class="chapter" data-level="9" data-path="managing-crosses.html"><a href="managing-crosses.html"><i class="fa fa-check"></i><b>9</b> Managing Crosses</a>
 154 <ul>
 155 <li class="chapter" data-level="9.1" data-path="managing-crosses.html"><a href="managing-crosses.html#crossing-experiment"><i class="fa fa-check"></i><b>9.1</b> Crossing Experiment</a>
 156 <ul>
 157 <li class="chapter" data-level="9.1.1" data-path="managing-crosses.html"><a href="managing-crosses.html#add-new-crossing-experiment"><i class="fa fa-check"></i><b>9.1.1</b> Add New Crossing Experiment</a></li>
 158 </ul></li>
 159 <li class="chapter" data-level="9.2" data-path="managing-crosses.html"><a href="managing-crosses.html#cross"><i class="fa fa-check"></i><b>9.2</b> Cross</a>
 160 <ul>
 161 <li class="chapter" data-level="9.2.1" data-path="managing-crosses.html"><a href="managing-crosses.html#add-new-crosses"><i class="fa fa-check"></i><b>9.2.1</b> Add New Crosses</a></li>
 162 <li class="chapter" data-level="9.2.2" data-path="managing-crosses.html"><a href="managing-crosses.html#update-crosses-by-uploading"><i class="fa fa-check"></i><b>9.2.2</b> Update Crosses by Uploading</a></li>
 163 </ul></li>
 164 <li class="chapter" data-level="9.3" data-path="managing-crosses.html"><a href="managing-crosses.html#cross-wishlist"><i class="fa fa-check"></i><b>9.3</b> Cross Wishlist</a>
 165 <ul>
 166 <li class="chapter" data-level="9.3.1" data-path="managing-crosses.html"><a href="managing-crosses.html#create-a-cross-wishlist"><i class="fa fa-check"></i><b>9.3.1</b> Create a Cross Wishlist</a></li>
 167 </ul></li>
 168 <li class="chapter" data-level="9.4" data-path="managing-crosses.html"><a href="managing-crosses.html#crossing-experiment-detail-page"><i class="fa fa-check"></i><b>9.4</b> Crossing Experiment Detail Page</a></li>
 169 <li class="chapter" data-level="9.5" data-path="managing-crosses.html"><a href="managing-crosses.html#cross-detail-page"><i class="fa fa-check"></i><b>9.5</b> Cross Detail Page</a></li>
 170 </ul></li>
 171 <li class="chapter" data-level="10" data-path="managing-field-trials.html"><a href="managing-field-trials.html"><i class="fa fa-check"></i><b>10</b> Managing Field Trials</a>
 172 <ul>
 173 <li class="chapter" data-level="10.1" data-path="managing-field-trials.html"><a href="managing-field-trials.html#trial-detail-page"><i class="fa fa-check"></i><b>10.1</b> Trial Detail Page</a></li>
 174 <li class="chapter" data-level="10.2" data-path="managing-field-trials.html"><a href="managing-field-trials.html#adding-trials"><i class="fa fa-check"></i><b>10.2</b> Adding Trials</a>
 175 <ul>
 176 <li class="chapter" data-level="10.2.1" data-path="managing-field-trials.html"><a href="managing-field-trials.html#prerequisites"><i class="fa fa-check"></i><b>10.2.1</b> Prerequisites</a></li>
 177 <li class="chapter" data-level="10.2.2" data-path="managing-field-trials.html"><a href="managing-field-trials.html#adding-a-trial-by-using-add-trial-form"><i class="fa fa-check"></i><b>10.2.2</b> Adding a trial by using “Add Trial” form</a></li>
 178 <li class="chapter" data-level="10.2.3" data-path="managing-field-trials.html"><a href="managing-field-trials.html#adding-a-trial-from-an-uploaded-file"><i class="fa fa-check"></i><b>10.2.3</b> Adding a trial from an uploaded file</a></li>
 179 <li class="chapter" data-level="10.2.4" data-path="managing-field-trials.html"><a href="managing-field-trials.html#multi-location-trials"><i class="fa fa-check"></i><b>10.2.4</b> Multi-location trials</a></li>
 180 <li class="chapter" data-level="10.2.5" data-path="managing-field-trials.html"><a href="managing-field-trials.html#email-alert-for-multiple-trial-design-upload"><i class="fa fa-check"></i><b>10.2.5</b> Email alert for multiple trial design upload</a></li>
 181 <li class="chapter" data-level="10.2.6" data-path="managing-field-trials.html"><a href="managing-field-trials.html#viewing-plot-layout-and-trait-heatmap"><i class="fa fa-check"></i><b>10.2.6</b> Viewing Plot Layout and Trait HeatMap</a></li>
 182 <li class="chapter" data-level="10.2.7" data-path="managing-field-trials.html"><a href="managing-field-trials.html#adding-additional-information-in-the-trial-detail-page"><i class="fa fa-check"></i><b>10.2.7</b> Adding additional information in the “Trial Detail” page</a></li>
 183 <li class="chapter" data-level="10.2.8" data-path="managing-field-trials.html"><a href="managing-field-trials.html#downloading-the-trial-layout-from-the-trial-detail-page"><i class="fa fa-check"></i><b>10.2.8</b> Downloading the Trial Layout from the “Trial Detail” page</a></li>
 184 <li class="chapter" data-level="10.2.9" data-path="managing-field-trials.html"><a href="managing-field-trials.html#adding-plant-entries-to-your-trial"><i class="fa fa-check"></i><b>10.2.9</b> Adding Plant Entries To Your Trial</a></li>
 185 <li class="chapter" data-level="10.2.10" data-path="managing-field-trials.html"><a href="managing-field-trials.html#adding-tissue-sample-entries-to-your-trial"><i class="fa fa-check"></i><b>10.2.10</b> Adding Tissue Sample Entries To Your Trial</a></li>
 186 <li class="chapter" data-level="10.2.11" data-path="managing-field-trials.html"><a href="managing-field-trials.html#uploading-gps-coordinates-for-plots"><i class="fa fa-check"></i><b>10.2.11</b> Uploading GPS Coordinates For Plots</a></li>
 187 <li class="chapter" data-level="10.2.12" data-path="managing-field-trials.html"><a href="managing-field-trials.html#uploading-additional-files-to-trial"><i class="fa fa-check"></i><b>10.2.12</b> Uploading Additional Files To Trial</a></li>
 188 <li class="chapter" data-level="10.2.13" data-path="managing-field-trials.html"><a href="managing-field-trials.html#deleting-trial-data"><i class="fa fa-check"></i><b>10.2.13</b> Deleting Trial Data</a></li>
 189 </ul></li>
 190 </ul></li>
 191 <li class="chapter" data-level="11" data-path="managing-genotyping-plates.html"><a href="managing-genotyping-plates.html"><i class="fa fa-check"></i><b>11</b> Managing Genotyping Plates</a>
 192 <ul>
 193 <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>
 194 <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>
 195 </ul></li>
 196 <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>
 197 <ul>
 198 <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>
 199 <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>
 200 <ul>
 201 <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>
 202 <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>
 203 </ul></li>
 204 <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>
 205 <ul>
 206 <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>
 207 <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>
 208 </ul></li>
 209 <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>
 210 <ul>
 211 <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>
 212 <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>
 213 </ul></li>
 214 <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>
 215 <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>
 216 <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>
 217 </ul></li>
 218 <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>
 219 <ul>
 220 <li class="chapter" data-level="13.1" data-path="managing-phenotypic-data.html"><a href="managing-phenotypic-data.html#uploading-fieldbook-phenotypes"><i class="fa fa-check"></i><b>13.1</b> Uploading Fieldbook Phenotypes</a>
 221 <ul>
 222 <li class="chapter" data-level="13.1.1" data-path="managing-phenotypic-data.html"><a href="managing-phenotypic-data.html#export-field-book-database-file"><i class="fa fa-check"></i><b>13.1.1</b> Export Field Book Database File</a></li>
 223 <li class="chapter" data-level="13.1.2" data-path="managing-phenotypic-data.html"><a href="managing-phenotypic-data.html#upload-field-book-database-file"><i class="fa fa-check"></i><b>13.1.2</b> Upload Field Book Database File</a></li>
 224 </ul></li>
 225 <li class="chapter" data-level="13.2" data-path="managing-phenotypic-data.html"><a href="managing-phenotypic-data.html#uploading-spreadsheet-phenotypes"><i class="fa fa-check"></i><b>13.2</b> Uploading Spreadsheet Phenotypes</a>
 226 <ul>
 227 <li class="chapter" data-level="13.2.1" data-path="managing-phenotypic-data.html"><a href="managing-phenotypic-data.html#generating-spreadsheet-file"><i class="fa fa-check"></i><b>13.2.1</b> Generating Spreadsheet File</a></li>
 228 <li class="chapter" data-level="13.2.2" data-path="managing-phenotypic-data.html"><a href="managing-phenotypic-data.html#uploading-spreadsheet-file"><i class="fa fa-check"></i><b>13.2.2</b> Uploading Spreadsheet File</a></li>
 229 </ul></li>
 230 </ul></li>
 231 <li class="chapter" data-level="14" data-path="managing-barcodes.html"><a href="managing-barcodes.html"><i class="fa fa-check"></i><b>14</b> Managing Barcodes</a></li>
 232 <li class="chapter" data-level="15" data-path="using-the-label-designer.html"><a href="using-the-label-designer.html"><i class="fa fa-check"></i><b>15</b> Using the Label Designer</a>
 233 <ul>
 234 <li class="chapter" data-level="15.0.1" data-path="using-the-label-designer.html"><a href="using-the-label-designer.html#first-select-a-datasource"><i class="fa fa-check"></i><b>15.0.1</b> First Select a Datasource</a></li>
 235 <li class="chapter" data-level="15.0.2" data-path="using-the-label-designer.html"><a href="using-the-label-designer.html#set-page-and-label-size"><i class="fa fa-check"></i><b>15.0.2</b> Set Page and Label Size</a></li>
 236 <li class="chapter" data-level="15.0.3" data-path="using-the-label-designer.html"><a href="using-the-label-designer.html#design-your-label"><i class="fa fa-check"></i><b>15.0.3</b> Design Your Label</a></li>
 237 <li class="chapter" data-level="15.0.4" data-path="using-the-label-designer.html"><a href="using-the-label-designer.html#adjust-formatting-save-and-download"><i class="fa fa-check"></i><b>15.0.4</b> Adjust Formatting, Save, and Download</a></li>
 238 </ul></li>
 239 <li class="chapter" data-level="16" data-path="managing-downloads.html"><a href="managing-downloads.html"><i class="fa fa-check"></i><b>16</b> Managing Downloads</a></li>
 240 <li class="chapter" data-level="17" data-path="managing-odk-data-collection.html"><a href="managing-odk-data-collection.html"><i class="fa fa-check"></i><b>17</b> Managing ODK Data Collection</a>
 241 <ul>
 242 <li class="chapter" data-level="17.1" data-path="managing-odk-data-collection.html"><a href="managing-odk-data-collection.html#ona-crossing-information"><i class="fa fa-check"></i><b>17.1</b> ONA Crossing Information</a>
 243 <ul>
 244 <li class="chapter" data-level="17.1.1" data-path="managing-odk-data-collection.html"><a href="managing-odk-data-collection.html#managing-ona-crossing-information"><i class="fa fa-check"></i><b>17.1.1</b> Managing ONA Crossing Information</a></li>
 245 <li class="chapter" data-level="17.1.2" data-path="managing-odk-data-collection.html"><a href="managing-odk-data-collection.html#reviewing-plant-status"><i class="fa fa-check"></i><b>17.1.2</b> Reviewing Plant Status</a></li>
 246 <li class="chapter" data-level="17.1.3" data-path="managing-odk-data-collection.html"><a href="managing-odk-data-collection.html#graphical-summary-for-performed-crosses"><i class="fa fa-check"></i><b>17.1.3</b> Graphical Summary For Performed Crosses</a></li>
 247 <li class="chapter" data-level="17.1.4" data-path="managing-odk-data-collection.html"><a href="managing-odk-data-collection.html#summary-information-for-performed-crosses"><i class="fa fa-check"></i><b>17.1.4</b> Summary Information For Performed Crosses</a></li>
 248 </ul></li>
 249 </ul></li>
 250 <li class="chapter" data-level="18" data-path="managing-tissue-samples.html"><a href="managing-tissue-samples.html"><i class="fa fa-check"></i><b>18</b> Managing Tissue Samples</a>
 251 <ul>
 252 <li class="chapter" data-level="18.1" data-path="managing-tissue-samples.html"><a href="managing-tissue-samples.html#tissue-samples-from-field-trials"><i class="fa fa-check"></i><b>18.1</b> Tissue samples from field trials</a></li>
 253 <li class="chapter" data-level="18.2" data-path="managing-tissue-samples.html"><a href="managing-tissue-samples.html#genotyping-plate-tissue-samples-96-or-384-well-plates"><i class="fa fa-check"></i><b>18.2</b> Genotyping Plate Tissue Samples (96 or 384 well plates)</a></li>
 254 </ul></li>
 255 <li class="chapter" data-level="19" data-path="managing-observation-variables.html"><a href="managing-observation-variables.html"><i class="fa fa-check"></i><b>19</b> Managing Observation Variables</a>
 256 <ul>
 257 <li class="chapter" data-level="19.1" data-path="managing-observation-variables.html"><a href="managing-observation-variables.html#managing-observation-variables-with-traits-methods-and-scales"><i class="fa fa-check"></i><b>19.1</b> Managing Observation Variables with Traits, Methods, and Scales</a></li>
 258 </ul></li>
 259 <li class="chapter" data-level="20" data-path="managing-image-data.html"><a href="managing-image-data.html"><i class="fa fa-check"></i><b>20</b> Managing Image Data</a>
 260 <ul>
 261 <li class="chapter" data-level="20.1" data-path="managing-image-data.html"><a href="managing-image-data.html#image-phenotyping-dashboard"><i class="fa fa-check"></i><b>20.1</b> Image-Phenotyping Dashboard</a></li>
 262 <li class="chapter" data-level="20.2" data-path="managing-image-data.html"><a href="managing-image-data.html#image-input"><i class="fa fa-check"></i><b>20.2</b> Image Input</a></li>
 263 <li class="chapter" data-level="20.3" data-path="managing-image-data.html"><a href="managing-image-data.html#standard-process"><i class="fa fa-check"></i><b>20.3</b> Standard Process</a></li>
 264 <li class="chapter" data-level="20.4" data-path="managing-image-data.html"><a href="managing-image-data.html#ground-control-points"><i class="fa fa-check"></i><b>20.4</b> Ground Control Points</a></li>
 265 </ul></li>
 266 <li class="chapter" data-level="21" data-path="managing-vcf-data.html"><a href="managing-vcf-data.html"><i class="fa fa-check"></i><b>21</b> Managing VCF Data</a>
 267 <ul>
 268 <li class="chapter" data-level="21.1" data-path="managing-vcf-data.html"><a href="managing-vcf-data.html#uploading-vcf-data"><i class="fa fa-check"></i><b>21.1</b> Uploading VCF Data</a></li>
 269 <li class="chapter" data-level="21.2" data-path="managing-vcf-data.html"><a href="managing-vcf-data.html#searching-and-downloading-vcf-data"><i class="fa fa-check"></i><b>21.2</b> Searching and Downloading VCF Data</a></li>
 270 <li class="chapter" data-level="21.3" data-path="managing-vcf-data.html"><a href="managing-vcf-data.html#searching-protocols"><i class="fa fa-check"></i><b>21.3</b> Searching Protocols</a></li>
 271 <li class="chapter" data-level="21.4" data-path="managing-vcf-data.html"><a href="managing-vcf-data.html#detail-pages-and-deletion"><i class="fa fa-check"></i><b>21.4</b> Detail Pages and Deletion</a></li>
 272 </ul></li>
 273 <li class="chapter" data-level="22" data-path="managing-spectral-data.html"><a href="managing-spectral-data.html"><i class="fa fa-check"></i><b>22</b> Managing Spectral Data</a>
 274 <ul>
 275 <li class="chapter" data-level="22.1" data-path="managing-spectral-data.html"><a href="managing-spectral-data.html#upload-spectral-data"><i class="fa fa-check"></i><b>22.1</b> Upload Spectral Data</a></li>
 276 <li class="chapter" data-level="22.2" data-path="managing-spectral-data.html"><a href="managing-spectral-data.html#evaluate-and-remove-outliers"><i class="fa fa-check"></i><b>22.2</b> Evaluate and Remove Outliers</a></li>
 277 <li class="chapter" data-level="22.3" data-path="managing-spectral-data.html"><a href="managing-spectral-data.html#plot-spectra"><i class="fa fa-check"></i><b>22.3</b> Plot Spectra</a></li>
 278 <li class="chapter" data-level="22.4" data-path="managing-spectral-data.html"><a href="managing-spectral-data.html#aggregate-spectra"><i class="fa fa-check"></i><b>22.4</b> Aggregate Spectra</a></li>
 279 <li class="chapter" data-level="22.5" data-path="managing-spectral-data.html"><a href="managing-spectral-data.html#references"><i class="fa fa-check"></i><b>22.5</b> References</a></li>
 280 </ul></li>
 281 <li class="chapter" data-level="23" data-path="managing-sequence-metadata.html"><a href="managing-sequence-metadata.html"><i class="fa fa-check"></i><b>23</b> Managing Sequence Metadata</a>
 282 <ul>
 283 <li class="chapter" data-level="23.1" data-path="managing-sequence-metadata.html"><a href="managing-sequence-metadata.html#what-is-sequence-metadata"><i class="fa fa-check"></i><b>23.1</b> What is Sequence Metadata?</a></li>
 284 <li class="chapter" data-level="23.2" data-path="managing-sequence-metadata.html"><a href="managing-sequence-metadata.html#loading-sequence-metadata"><i class="fa fa-check"></i><b>23.2</b> Loading Sequence Metadata</a></li>
 285 <li class="chapter" data-level="23.3" data-path="managing-sequence-metadata.html"><a href="managing-sequence-metadata.html#searching-sequence-metadata"><i class="fa fa-check"></i><b>23.3</b> Searching Sequence Metadata</a>
 286 <ul>
 287 <li class="chapter" data-level="23.3.1" data-path="managing-sequence-metadata.html"><a href="managing-sequence-metadata.html#basic-search"><i class="fa fa-check"></i><b>23.3.1</b> Basic Search</a></li>
 288 <li class="chapter" data-level="23.3.2" data-path="managing-sequence-metadata.html"><a href="managing-sequence-metadata.html#advanced-search"><i class="fa fa-check"></i><b>23.3.2</b> Advanced Search</a></li>
 289 </ul></li>
 290 <li class="chapter" data-level="23.4" data-path="managing-sequence-metadata.html"><a href="managing-sequence-metadata.html#marker-integration"><i class="fa fa-check"></i><b>23.4</b> Marker Integration</a></li>
 291 <li class="chapter" data-level="23.5" data-path="managing-sequence-metadata.html"><a href="managing-sequence-metadata.html#sequence-metadata-api"><i class="fa fa-check"></i><b>23.5</b> Sequence Metadata API</a></li>
 292 </ul></li>
 293 <li class="chapter" data-level="24" data-path="managing-outliers-in-dataset.html"><a href="managing-outliers-in-dataset.html"><i class="fa fa-check"></i><b>24</b> Managing Outliers in Dataset</a>
 294 <ul>
 295 <li class="chapter" data-level="24.1" data-path="managing-outliers-in-dataset.html"><a href="managing-outliers-in-dataset.html#what-is-outliers-functionality-in-dataset"><i class="fa fa-check"></i><b>24.1</b> What is Outliers Functionality in Dataset ?</a></li>
 296 <li class="chapter" data-level="24.2" data-path="managing-outliers-in-dataset.html"><a href="managing-outliers-in-dataset.html#accessing-trait-visualization"><i class="fa fa-check"></i><b>24.2</b> Accessing Trait Visualization</a></li>
 297 <li class="chapter" data-level="24.3" data-path="managing-outliers-in-dataset.html"><a href="managing-outliers-in-dataset.html#interpreting-visual-elements"><i class="fa fa-check"></i><b>24.3</b> Interpreting Visual Elements</a></li>
 298 <li class="chapter" data-level="24.4" data-path="managing-outliers-in-dataset.html"><a href="managing-outliers-in-dataset.html#choosing-cut-off-values"><i class="fa fa-check"></i><b>24.4</b> Choosing Cut-Off Values</a></li>
 299 <li class="chapter" data-level="24.5" data-path="managing-outliers-in-dataset.html"><a href="managing-outliers-in-dataset.html#setting-deviation-multiplier"><i class="fa fa-check"></i><b>24.5</b> Setting Deviation Multiplier</a></li>
 300 <li class="chapter" data-level="24.6" data-path="managing-outliers-in-dataset.html"><a href="managing-outliers-in-dataset.html#utilizing-graph-controls"><i class="fa fa-check"></i><b>24.6</b> Utilizing Graph Controls</a></li>
 301 </ul></li>
 302 <li class="chapter" data-level="25" data-path="data-analysis-tools.html"><a href="data-analysis-tools.html"><i class="fa fa-check"></i><b>25</b> Data Analysis Tools</a>
 303 <ul>
 304 <li class="chapter" data-level="25.1" data-path="data-analysis-tools.html"><a href="data-analysis-tools.html#selection-index"><i class="fa fa-check"></i><b>25.1</b> Selection Index</a></li>
 305 <li class="chapter" data-level="25.2" data-path="data-analysis-tools.html"><a href="data-analysis-tools.html#genomic-selection"><i class="fa fa-check"></i><b>25.2</b> Genomic Selection</a>
 306 <ul>
 307 <li class="chapter" data-level="25.2.1" data-path="data-analysis-tools.html"><a href="data-analysis-tools.html#method-1"><i class="fa fa-check"></i><b>25.2.1</b> Building a Model - Method 1:</a></li>
 308 <li class="chapter" data-level="25.2.2" data-path="data-analysis-tools.html"><a href="data-analysis-tools.html#method-2"><i class="fa fa-check"></i><b>25.2.2</b> Building a Model - Method 2</a></li>
 309 <li class="chapter" data-level="25.2.3" data-path="data-analysis-tools.html"><a href="data-analysis-tools.html#building-a-model---method-3"><i class="fa fa-check"></i><b>25.2.3</b> Building a Model - Method 3</a></li>
 310 </ul></li>
 311 <li class="chapter" data-level="25.3" data-path="data-analysis-tools.html"><a href="data-analysis-tools.html#genome-browsing"><i class="fa fa-check"></i><b>25.3</b> Genome Browsing</a>
 312 <ul>
 313 <li class="chapter" data-level="25.3.1" data-path="data-analysis-tools.html"><a href="data-analysis-tools.html#browsing-genotype-data-by-accession"><i class="fa fa-check"></i><b>25.3.1</b> Browsing Genotype data by Accession</a></li>
 314 <li class="chapter" data-level="25.3.2" data-path="data-analysis-tools.html"><a href="data-analysis-tools.html#browsing-genotype-data-by-trial"><i class="fa fa-check"></i><b>25.3.2</b> Browsing Genotype data by Trial</a></li>
 315 </ul></li>
 316 <li class="chapter" data-level="25.4" data-path="data-analysis-tools.html"><a href="data-analysis-tools.html#principal-component-analysis-pca"><i class="fa fa-check"></i><b>25.4</b> Principal Component Analysis (PCA)</a></li>
 317 <li class="chapter" data-level="25.5" data-path="data-analysis-tools.html"><a href="data-analysis-tools.html#anova"><i class="fa fa-check"></i><b>25.5</b> ANOVA</a></li>
 318 <li class="chapter" data-level="25.6" data-path="data-analysis-tools.html"><a href="data-analysis-tools.html#clustering-k-means-hierarchical"><i class="fa fa-check"></i><b>25.6</b> Clustering (K-Means, Hierarchical)</a></li>
 319 <li class="chapter" data-level="25.7" data-path="data-analysis-tools.html"><a href="data-analysis-tools.html#genetic-gain"><i class="fa fa-check"></i><b>25.7</b> Genetic Gain</a></li>
 320 <li class="chapter" data-level="25.8" data-path="data-analysis-tools.html"><a href="data-analysis-tools.html#kinship-and-inbreeding-coefficients"><i class="fa fa-check"></i><b>25.8</b> Kinship and Inbreeding Coefficients</a></li>
 321 <li class="chapter" data-level="25.9" data-path="data-analysis-tools.html"><a href="data-analysis-tools.html#creating-crossing-groups"><i class="fa fa-check"></i><b>25.9</b> Creating Crossing Groups</a></li>
 322 <li class="chapter" data-level="25.10" data-path="data-analysis-tools.html"><a href="data-analysis-tools.html#search-wizard-genomic-relationship-matrix-grm-download"><i class="fa fa-check"></i><b>25.10</b> Search Wizard Genomic Relationship Matrix (GRM) Download</a></li>
 323 <li class="chapter" data-level="25.11" data-path="data-analysis-tools.html"><a href="data-analysis-tools.html#search-wizard-genome-wide-association-study-gwas"><i class="fa fa-check"></i><b>25.11</b> Search Wizard Genome Wide Association Study (GWAS)</a></li>
 324 <li class="chapter" data-level="25.12" data-path="data-analysis-tools.html"><a href="data-analysis-tools.html#spectral-analysis"><i class="fa fa-check"></i><b>25.12</b> Spectral Analysis</a>
 325 <ul>
 326 <li class="chapter" data-level="25.12.1" data-path="data-analysis-tools.html"><a href="data-analysis-tools.html#dataset-selection"><i class="fa fa-check"></i><b>25.12.1</b> Dataset selection</a></li>
 327 <li class="chapter" data-level="25.12.2" data-path="data-analysis-tools.html"><a href="data-analysis-tools.html#cross-validation"><i class="fa fa-check"></i><b>25.12.2</b> Cross-validation</a></li>
 328 <li class="chapter" data-level="25.12.3" data-path="data-analysis-tools.html"><a href="data-analysis-tools.html#preprocessing"><i class="fa fa-check"></i><b>25.12.3</b> Preprocessing</a></li>
 329 <li class="chapter" data-level="25.12.4" data-path="data-analysis-tools.html"><a href="data-analysis-tools.html#algorithms"><i class="fa fa-check"></i><b>25.12.4</b> Algorithms</a></li>
 330 <li class="chapter" data-level="25.12.5" data-path="data-analysis-tools.html"><a href="data-analysis-tools.html#output-common-model-summary-statistics"><i class="fa fa-check"></i><b>25.12.5</b> Output: common model summary statistics</a></li>
 331 <li class="chapter" data-level="25.12.6" data-path="data-analysis-tools.html"><a href="data-analysis-tools.html#export-model-for-later-use"><i class="fa fa-check"></i><b>25.12.6</b> Export model for later use</a></li>
 332 <li class="chapter" data-level="25.12.7" data-path="data-analysis-tools.html"><a href="data-analysis-tools.html#predict-phenotypes-from-an-exported-model-routine-use"><i class="fa fa-check"></i><b>25.12.7</b> Predict phenotypes from an exported model (routine use)</a></li>
 333 <li class="chapter" data-level="25.12.8" data-path="data-analysis-tools.html"><a href="data-analysis-tools.html#faq"><i class="fa fa-check"></i><b>25.12.8</b> FAQ</a></li>
 334 </ul></li>
 335 <li class="chapter" data-level="25.13" data-path="data-analysis-tools.html"><a href="data-analysis-tools.html#general-mixed-model-tool"><i class="fa fa-check"></i><b>25.13</b> General Mixed Model Tool</a></li>
 336 <li class="chapter" data-level="25.14" data-path="data-analysis-tools.html"><a href="data-analysis-tools.html#genomic-prediction-of-cross-performance-gcpc"><i class="fa fa-check"></i><b>25.14</b> Genomic Prediction of Cross Performance (GCPC)</a></li>
 337 </ul></li>
 338 <li class="divider"></li>
 339 <li><a href="https://bookdown.org/" target="blank">Published with bookdown</a></li>
 340 </ul>
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 349             <i class="fa fa-circle-o-notch fa-spin"></i><a href="./">User Manual of Breedbase</a>
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 357 <div id="managing-odk-data-collection" class="section level1 hasAnchor" number="17">
 358 <h1><span class="header-section-number">Chapter 17</span> Managing ODK Data Collection<a href="managing-odk-data-collection.html#managing-odk-data-collection" class="anchor-section" aria-label="Anchor link to header"></a></h1>
 359 <p>To access this page go to Manage and then ODK Data Collection.
 360 ODK is used for remotely collecting data on Android and IOS devices. We currently are working to support two ODK service providers, namely ONA and SMAP. We are using ONA to collect crossing information, including all lab activities following seed production. We are using SMAP for phenotypic data collection.</p>
 361 <div id="ona-crossing-information" class="section level2 hasAnchor" number="17.1">
 362 <h2><span class="header-section-number">17.1</span> ONA Crossing Information<a href="managing-odk-data-collection.html#ona-crossing-information" class="anchor-section" aria-label="Anchor link to header"></a></h2>
 363 <div id="managing-ona-crossing-information" class="section level3 hasAnchor" number="17.1.1">
 364 <h3><span class="header-section-number">17.1.1</span> Managing ONA Crossing Information<a href="managing-odk-data-collection.html#managing-ona-crossing-information" class="anchor-section" aria-label="Anchor link to header"></a></h3>
 365 <p><img src="assets/images/odk_ona_management.png" width="95%" style="display: block; margin: auto;" /></p>
 366 <p>To begin collecting data using the ONA ODK form you must first have a crossing plan in the form of a Cross Wishlist. To do this from this page, click the “Export Cross Wishlist to ONA” button. Please refer to the “Create Cross Wihlist” help section for more information.
 367 It is possible to view the current available cross wishlists by clicking the “Export Cross Wishlist to ONA” button and then clicking “Available Cross Wishlists”.</p>
 368 <p>Once your cross wishlist is available, you can use your mobile ODK application to record crosses being done realtime. You can also record all laboratory activities following seed extraction up to greenhouse plantlet hardening.</p>
 369 <p>As you collect data using your mobile ODK application, your responses will be synchronized with our database. The “Schedule Import for Selected Form” section gives you options to perform the import daily or more frequently. It is also possible to initiate a data import from ONA at anytime by clicking “Import Crossing Data from Selected Form on ONA”.</p>
 370 </div>
 371 <div id="reviewing-plant-status" class="section level3 hasAnchor" number="17.1.2">
 372 <h3><span class="header-section-number">17.1.2</span> Reviewing Plant Status<a href="managing-odk-data-collection.html#reviewing-plant-status" class="anchor-section" aria-label="Anchor link to header"></a></h3>
 373 <p>The mobile ODK application has options to collect information about the status of plants in the field, such as if they are flowering. Images for each plant can also be recorded.
 374 The database will report this information here in a summary table that looks like the following. Notice that images are also transferred to the database.</p>
 375 <p><img src="assets/images/odk_ona_cross_status.png" width="95%" style="display: block; margin: auto;" /></p>
 376 </div>
 377 <div id="graphical-summary-for-performed-crosses" class="section level3 hasAnchor" number="17.1.3">
 378 <h3><span class="header-section-number">17.1.3</span> Graphical Summary For Performed Crosses<a href="managing-odk-data-collection.html#graphical-summary-for-performed-crosses" class="anchor-section" aria-label="Anchor link to header"></a></h3>
 379 <p>There is a section to summarize activities done for each cross. In this table each row represents a single cross performed. All the activities that have been performed will be shown here, such as “first pollination” and “embryo rescue”. The scatter plot shown tracks seed numbers generated on the Y axis and date of activity on the X axis.</p>
 380 <p><img src="assets/images/odk_ona_cross_progress_graph.png" width="95%" style="display: block; margin: auto;" /></p>
 381 </div>
 382 <div id="summary-information-for-performed-crosses" class="section level3 hasAnchor" number="17.1.4">
 383 <h3><span class="header-section-number">17.1.4</span> Summary Information For Performed Crosses<a href="managing-odk-data-collection.html#summary-information-for-performed-crosses" class="anchor-section" aria-label="Anchor link to header"></a></h3>
 384 <p>There is a secondary section to summarize what has been done across the entire Cross Wishlist. This tree structure shows all activities performed for a cross and shows how these crosses relate to the Cross Wishlist.</p>
 385 <p><img src="assets/images/odk_ona_cross_progress_tree.png" width="95%" style="display: block; margin: auto;" /></p>
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