Apply configuration settings to specific barcodes

You can save and retrieve custom configurations, for the variantCaller plugin and apply these custom configurations to specific barcodes when you run the variantCaller plugin manually from a completed Torrent Suite™ Software run Report. By applying specific custom configurations to individual barcodes, you can refine your analysis results.

You can use configurations for barcoded runs to:

  • Save a variantCaller plugin configuration that applies to all barcodes.

  • Apply one or more saved configurations to individual barcodes.

    When you apply saved configurations to specific individual barcodes, you must run the plugin immediately after you apply the configurations. You can apply a saved configuration to an individual sample on a chip for each barcode. Configurations applied to individual barcodes cannot be saved.

  1. In the Data tab, click Completed Runs & Reports, then click the Report Name for the completed sequencing run of interest.
  2. Click Plugins > Select Plugins to Run, then in the Select a Plugin to Run dialog box, click variantCaller.
  3. In the Configure Plugin dialog box, click Manage Configurations/Barcodes, then click OK.
  4. In the Torrent Variant Caller dialog box, in the Setup tab, apply configurations to all barcodes or specific configurations to individual barcodes.

    To

    Action

    Apply the same configuration to all barcodes in a sequencing run.

    In Set All, select the configuration to apply to all barcodes., then click Submit.

    Apply a specific configuration to an individual barcode.

    In the Configuration column, select the configuration from the list of available configurations for each individual barcode.

  5. (Optional) In the Torrent Variant Caller dialog box, in the Configuration tab, create a new configuration or edit an existing one.

    Action

    Description

    Edit a configuration.

    1. Click Edit. The Configure Plugin dialog box becomes specific to the configuration selected.

    2. Change the existing selections as desired.

      To add a new panel, target regions, or hotspots file, you are redirected to the appropriate Settings () screen. Close the Configure Plugin dialog box, then reopen the dialog box to access the new file.

    3. Click Show Advanced Settings, then edit the parameters if needed.

    4. Click Save.

    Delete a configuration.

    1. Click Delete.

    2. Click OK to confirm.

    Create a new configuration.

    1. Click Add.

    2. Enter a configuration name.

    3. Make selections from the available lists.

    4. Click Save.

Related Topics
Parent topic: Variant calls in Torrent Suite™ Software