To create a new BED file for a panel by adding or deleting regions
Sometimes, you might need to use a panel that is a combination of two or more BED files. After you load a BED file for a panel, you can add regions from an existing BED file to it and then save the combined regions as either a new BED file or a panel. You can also delete regions from the loaded BED file and save the modified regions as a new BED file or panel.
 | When you add regions from an existing BED file to another BED file, all the regions are added from the existing BED file. You cannot select specific regions to add; however, after all the regions are added, you can delete one or more regions. |
1. If you have just imported a new panel, then the Manage Panels dialog box is already open and the panel regions are displayed; otherwise, do the following:
a. On the Geneticist Assistant main menu, click Panels > Manage Panels to open the Manage Panels dialog box.
b. On the Select Panel dropdown list, select the appropriate panel.
c. Click Download and Edit Panel Regions to display the panel regions on the Manage Panels dialog box.
2. Do one or both of the following as needed:
Action | Steps |
|---|---|
To add regions from an existing BED file | 1. Click Add Regions from File. The Select a file to add to the panel dialog box opens. 2. Browse to and select the appropriate BED file, and then click Open to close the dialog box and return to the Manage Panels dialog box. |
To delete regions from the loaded BED file | 1. Click the region that you are deleting. (CTRL-click to select multiple regions.) 2. Right-click the selected regions, and on the context menu that opens, click Remove Selected Regions. Note: Deleting regions from a panel does not delete the panel. To delete the panel itself, see Deleting a Panel. |
3. On the Manage Panels dialog box, click Save Panel Regions to file.
The Save File dialog box opens. By default, the new BED file is named the same as the loaded BED file, and it is saved in the same directory as the loaded BED file. You can change one or both of these values.
4. Optionally, change the name for the new BED file, and/or the directory in which to save the file, and then click Save.
The Save File dialog box closes. The Manage Panels dialog box remains open.
5. If you are done with the configuration of the newly added or edited panel, then click OK to close the Manage Panels dialog box and return to the Geneticist Assistant main window. Otherwise, continue to any of the following as needed: