Launch an analysis

An analysis is launched when samples are combined with an analysis workflow in Ion Reporter™ Software. Analysis results are generated when the analysis completes successfully.

You can select which samples to analyze and select the analysis workflow to apply, then launch the analysis to generate analysis results, or reanalyze a set of samples.

  1. In the Analyses tab, click Launch Analysis, then select Manual.

    This step is the fastest way to get to the Launch Analysis screen. However, the screen can also be accessed from the Analysis Results screen and the Workflows tab.

  2. In Launch Analysis screen, in the Workflow step, click the row of the analysis workflow to select it, then click Next.
  3. (Optional) You can search, sort or filter the list of samples in the Samples step to find samples of interest. For more information, see Search for samples, Filter samples and Sort the Samples table.
  4. In the Samples step, select the samples.



    Select single or multiple samples (for use with single-sample analysis workflows).

    Click the row or rows of samples to select them.

    If you select multiple samples, a separate analysis is launched for each sample for single-sample analysis workflows.

    Select tumor-normal samples (for use with tumor-normal analysis workflows).

    1. Select a Normal and Tumor sample pair.

    2. Click Add Samples.

    3. Enter a Relationship Name for the sample pair.

    4. Click Add to Analysis.

    Select a control sample for CNV analysis workflows. (for use with both tumor-normal and paired analysis workflows, which detect CNVs).

    CNVs are reported based on their copy number relative to the control sample used. For best results, select a control sample with no known CNVs in any region that is covered by the Ion AmpliSeq™ panel used. If most or all test samples report the presence of a CNV in the same region, one possible cause for the unexpected result is that the control sample actually has a CNV in that region.

    1. Select a Sample and Control pair.

    2. Click Add Samples.

    3. Enter a Relationship Name for the sample pair.

    4. Click Add to Analysis.

    Select trio samples (for use with trio analysis workflows).

    1. Select the three samples for the trio (Mother, Father, Child).

    2. Click Add Samples.

    3. Enter a name for the sample trio.

    4. Click Add to Analysis.

  5. Click Next.
  6. (Optional) In the Plugins step, select a plugin, then click Next.
  7. In the Confirm & Launch step, enter a name, and an optional description, then click Launch Analysis.

The analysis is launched. You receive an email notification when the analysis completes.