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<li class="chapter" data-level="1" data-path="index.html"><a href="index.html"><i class="fa fa-check"></i><b>1</b> <strong>About</strong></a></li>
<li class="chapter" data-level="2" data-path="running-a-workflow-in-terra.html"><a href="running-a-workflow-in-terra.html"><i class="fa fa-check"></i><b>2</b> Running a Workflow in Terra</a>
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<li class="chapter" data-level="2.1" data-path="running-a-workflow-in-terra.html"><a href="running-a-workflow-in-terra.html#prerequisites"><i class="fa fa-check"></i><b>2.1</b> Prerequisites</a></li>
<li class="chapter" data-level="2.2" data-path="running-a-workflow-in-terra.html"><a href="running-a-workflow-in-terra.html#workspace"><i class="fa fa-check"></i><b>2.2</b> Workspace</a></li>
<li class="chapter" data-level="2.3" data-path="running-a-workflow-in-terra.html"><a href="running-a-workflow-in-terra.html#adding-data"><i class="fa fa-check"></i><b>2.3</b> Adding Data</a>
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<li class="chapter" data-level="2.3.1" data-path="running-a-workflow-in-terra.html"><a href="running-a-workflow-in-terra.html#uploading-via-terra-ui"><i class="fa fa-check"></i><b>2.3.1</b> Uploading via Terra UI</a></li>
<li class="chapter" data-level="2.3.2" data-path="running-a-workflow-in-terra.html"><a href="running-a-workflow-in-terra.html#uploading-via-command-line"><i class="fa fa-check"></i><b>2.3.2</b> Uploading via Command Line</a></li>
<li class="chapter" data-level="2.3.3" data-path="running-a-workflow-in-terra.html"><a href="running-a-workflow-in-terra.html#a-note-about-sharing-data-across-workspaces."><i class="fa fa-check"></i><b>2.3.3</b> A note about sharing data across workspaces.</a></li>
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<li class="chapter" data-level="2.4" data-path="running-a-workflow-in-terra.html"><a href="running-a-workflow-in-terra.html#populating-terra-tables"><i class="fa fa-check"></i><b>2.4</b> Populating Terra Tables</a>
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<li class="chapter" data-level="2.4.1" data-path="running-a-workflow-in-terra.html"><a href="running-a-workflow-in-terra.html#adding-the-sequence-table."><i class="fa fa-check"></i><b>2.4.1</b> Adding the “sequence” table.</a></li>
<li class="chapter" data-level="2.4.2" data-path="running-a-workflow-in-terra.html"><a href="running-a-workflow-in-terra.html#adding-the-sample-table."><i class="fa fa-check"></i><b>2.4.2</b> Adding the Sample table.</a></li>
<li class="chapter" data-level="2.4.3" data-path="running-a-workflow-in-terra.html"><a href="running-a-workflow-in-terra.html#adding-the-analysis-table."><i class="fa fa-check"></i><b>2.4.3</b> Adding the Analysis table.</a></li>
<li class="chapter" data-level="2.4.4" data-path="running-a-workflow-in-terra.html"><a href="running-a-workflow-in-terra.html#linking-to-sequences-in-the-analysis-table."><i class="fa fa-check"></i><b>2.4.4</b> Linking to sequences in the analysis table.</a></li>
<li class="chapter" data-level="2.4.5" data-path="running-a-workflow-in-terra.html"><a href="running-a-workflow-in-terra.html#formatting-a-sequence-entry-in-the-sequence-table."><i class="fa fa-check"></i><b>2.4.5</b> Formatting a sequence entry in the sequence table.</a></li>
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<li class="chapter" data-level="2.5" data-path="running-a-workflow-in-terra.html"><a href="running-a-workflow-in-terra.html#setting-up-the-immuno.wdl-workflow."><i class="fa fa-check"></i><b>2.5</b> Setting up the <code>immuno.wdl</code> workflow.</a>
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<li class="chapter" data-level="2.5.1" data-path="running-a-workflow-in-terra.html"><a href="running-a-workflow-in-terra.html#pulling-the-immuno.wdl-workflow-from-dockstore"><i class="fa fa-check"></i><b>2.5.1</b> Pulling the <code>immuno.wdl</code> workflow from Dockstore</a></li>
<li class="chapter" data-level="2.5.2" data-path="running-a-workflow-in-terra.html"><a href="running-a-workflow-in-terra.html#selecting-the-workflow-data.-1"><i class="fa fa-check"></i><b>2.5.2</b> Selecting the workflow data.</a></li>
<li class="chapter" data-level="2.5.3" data-path="running-a-workflow-in-terra.html"><a href="running-a-workflow-in-terra.html#setting-the-workflow-options.-1"><i class="fa fa-check"></i><b>2.5.3</b> Setting the workflow options.</a></li>
<li class="chapter" data-level="2.5.4" data-path="running-a-workflow-in-terra.html"><a href="running-a-workflow-in-terra.html#setting-the-workflow-inputs.-1"><i class="fa fa-check"></i><b>2.5.4</b> Setting the workflow inputs.</a></li>
<li class="chapter" data-level="2.5.5" data-path="running-a-workflow-in-terra.html"><a href="running-a-workflow-in-terra.html#setting-the-workflow-outputs.-1"><i class="fa fa-check"></i><b>2.5.5</b> Setting the workflow outputs.</a></li>
<li class="chapter" data-level="2.5.6" data-path="running-a-workflow-in-terra.html"><a href="running-a-workflow-in-terra.html#launching-the-workflow"><i class="fa fa-check"></i><b>2.5.6</b> Launching the workflow</a></li>
<li class="chapter" data-level="2.5.7" data-path="running-a-workflow-in-terra.html"><a href="running-a-workflow-in-terra.html#viewing-the-results"><i class="fa fa-check"></i><b>2.5.7</b> Viewing the results</a></li>
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<li class="chapter" data-level="2.6" data-path="running-a-workflow-in-terra.html"><a href="running-a-workflow-in-terra.html#further-information"><i class="fa fa-check"></i><b>2.6</b> Further information</a></li>
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<p style="text-align:center;"> <a href="https://github.com/jhudsl/OTTR_Template" target="blank" > This content was published with</a> <a href="https://bookdown.org/" target="blank"> bookdown by: </a> </p>
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