To run multiple projects in a series using the Project Wizard
Because the Project Wizard “remembers” the settings from its last session, every time you open the wizard, you can leave the settings as-is or modify them as needed. This means that you can use this approach to swap out sample files and configure multiple projects as needed with the same settings.
 | You can also run multiple projects in a series using the Project Log function. See Batch Processing of Project Files Using the Project Log. |
1. Click Create More Projects (New Project).
A new Project Wizard session opens for configuring a project.
2. Leave the settings from the last session as-is, or optionally, modify the settings as needed.
3. After you configure your last project in the series, select Run NextGENe.
The projects are run individually in the order in which you created them.