Our example experiment is the simplest case where we have only one Sample: the single DNA source used to prepare the 11 Amplicon libraries covering the five exons from the EGFR gene in which we are looking for sequence Variants (see section 2.1). (For more complicated situations, see section 2.6.1). To set up our single Sample in our Project, we click on the ‘Sample’ sub-tab (Sample Definition Table) and then click on the ‘Add’ button at the left of the tree view. This adds a Sample called ‘Sample_1’ to the Sample Definition Table. We will keep this Default Sample Name, and leave the ‘Annotation’ field empty. The AVA application window is now in the state shown in Figure 2‑12.

We will next use the Tree sub-tabs to create the associations between the Sample and all 11 Amplicons defined in the Project. To do this, we select the Samples Tree sub-tab on the left panel (showing our single Sample hanging off the main project node), and the Amplicons Definition Table on the right panel. We then multi-select the full set of Amplicons from the Table (using the shift key) and drag them to Sample_1 in the Tree (Figure 2‑13). This will associate all our Amplicons with our Sample (Figure 2‑14).