Prepare QCI Interpret Upload

The Prepare QCI Interpret Upload tool prepares a sample from several types of tracks and reports that can be uploaded to QCI Interpret or QCI Interpret Translational at a later time with Upload Prepared QCI Interpret Report.

This tool can be used in workflows to select all relevant tracks and reports. It sets name based on input or other metadata and outputs a single report that is ready to be uploaded to QCI Interpret. This is convenient because users won't have to choose multiple track inputs for every workflow output they want to upload to QCI Interpret.

To run Prepare QCI Interpret Upload, go to:

        Toolbox | Biomedical Genomics Analysis (Image biomedical_folder_closed_16_n_p) | QCI Interpret Integration (Image qcii_integration_folder_closed_16_h_p) | Prepare QCI Interpret Upload (Image prepare_qci_16_h_p)

In the tool wizard, choose which elements to upload.

The first step defines inputs. Supported input elements are:

The next step is to define how the QCI Interpret sample will look in QCI:

The next step defines a reference and extra values that can be added to the sample:

The next step defines how the uploaded VCF will be created. The Prefill VCF settings changes the VCF settings to suggested defaults depending on the data. The somatic and germline/hereditary workflows of QCI Interpret focus on different needs, with somatic being primarily focused on therapeutic, prognostic, and diagnostic actionability, while germline/hereditary is better suited for disease diagnosis/risk. Read more about VCF export settings in


The output is a report that shows a summary of the data in the sample.