COVID-19 Workflow Guide

Ovation offers two main types of PCR workflows for Covid-19 testing of individual samples. Use the table below to determine the workflow type your lab uses.

Some steps of the guide below display a table like the one above. The tables show the differences between the two workflow types. Sections common to both workflow types will not display tables.

Sections contained in this guide are shown below. Read the whole workflow guide or skip to the section you need.

Creating a New Workflow

1. Add a new Workflow

       a. From any screen, click “Workflows” on the top bar

       b. Click directly on the blue bar of the workflow type you want to create 

You can also add a new workflow by scrolling below the bar graph and clicking the green “Add workflow” button.

2. In the New Workflow modal, select your workflow type and click the green “Create” button

Create Batch

1. Click the “Create Batch” activity on the Workflow Activity Chain

Tip: Ovation configures the number and type of activities in your workflow during OvDx implementation. If you need to modify the steps in your workflow, contact success@ovation.io.

2. Confirm that positive and negative controls are selected with a green check

Tip: If you do not see your controls, contact success@ovation.io.

3. Choose a method for adding samples to your batch from the tables below

       a. Manual selection

       b. Upload sample list

To unselect/select all samples displayed on the page, click the square below “sample identifier”. You can select to view more rows of samples on the page and may need to click on the page arrow to view all of your samples.

Tip: Click the green “Download example file” shown in the previous image if you are unsure or get an error in your upload

4. Verify your selected samples are shown

5. Scroll up and click the green “Submit” button

6. Click the orange “Return to Workflow” button

7. Choose which Section to continue based on steps in your workflow

  • For a 3-step workflow skip to Data Import Section
  • For a 6-step workflow, continue to Batch Plating Section below

Batch Plating

1. Back In the activity chain, click “Batch plating”

2. Under Destination Container:

      a. Click the circle next to “Create a new container”

      b. Select a container type (pictured 96-well) from the drop down menu

      c. Click the green “Add” button

Tip: You cannot have more samples than wells. Choose the appropriate container type. 

3. Click the circle next to the preferred sample assignment option: automatically assign, manually assign, or upload plating configuration. Leave the “Automatically assign” circle selected and the samples will be automatically assigned to the plate. If you select the “Manually assign” circle, you can assign individual samples to the desired wells on the plate map. If you select the “Upload plating configuration” circle, you can assign all samples to specific wells at once by uploading a CSV file of your plate map on the same page. 

4. Scroll up and click the green “Submit” button

5. Click the orange “Return to Workflow” button

DNA-RNA extraction

1. Back In the activity chain, click “DNA-RNA extraction”

2. Copy and paste the input candidate container identifier into the search bar, then click the green “Search” button

Tip: The plate map from the previous step will load after finding the input container

3. Scroll down to “RESULTS”

      a. Select the circle for “Create a new container”

      b. Select a container type (pictured 96-well) from the drop down menu 

      c. Click the green “Add” button

4. Click the circle next to the preferred sample assignment option: automatically assign, manually assign, or upload plating configuration

5. Scroll up and click the green “Submit” button

6. Click the orange “Return to Workflow” button

Create qPCR Plate

1. Back in the activity chain, click “Create qPCR Plate”

2. Copy and paste the container identifier into the search bar, then click the green “Search” button

Tip: The plate map from the previous step will load after finding the input container

3. Select the appropriate container type (pictured 384-well) under Plating Configuration

Tip: If you need to enable more plate size options, contact success@ovation.io.

4. Scroll up and click the green “Submit” button

Tip: The new destination container plate map will display on the page after clicking submit 

5. Click the orange “Return to Workflow” button

Data Import

1. Back in the activity chain, click “Data Import”

2. Copy and paste the container identifier into the search bar, then click the green “Search” button

3. Click “ browse files on your computer,” drag and drop or select your CSV datafile to upload 

      a. Import for COVID-19 or COVID-19 IDT datafile

      b. Import for COVID-19 IVD datafile

Tip: Accepted interpretive results for COVID IVD are displayed below. The interpretive results must be included in your datafile under the appropriate column header to complete the workflow.
Tip: "Undetermined" is not the same as "Inconclusive." If you see “Undetermined” on a report, the “Interpretive Result” in the data file is not recognized by Ovation and should be corrected (see table above). 

4. Check for the green “Validated successfully” box

Tip: If you try to upload a file without the displayed column headers OR with a different column format, then you may get a red error box. If you get a red error box, click the orange trash can to remove the file, amend the errors in your file, and upload the corrected datafile. Yellow or blue boxes indicate discrepancies, but do not prevent upload. 

5. Scroll up and click the green “Submit” button

6. Click the orange “Return to workflow” button

QC

1. Back in the activity chain, click “QC”

2.  Review the QC status of all samples

   

Tip: QC statuses are generated by OvDx based on your specific lab QC requirements, and can be confirmed or manually overwritten. QC status options differ depending on which workflow type you are using. See the tables below step 3 for meanings and manual override outcomes of each QC status.

3. Choose to override sample QC status or proceed to step 4 

Tip: “Reject” does not mean a sample is negative. “Reject” means that the sample will not be repeated and is only displayed automatically if a test is in the datafile but missing from the requisition. Samples may be rejected by the user at any QC step. Here is more information about Rejecting a Sample.

4. Confirm the sample status

    a. Select the square above all samples 

    b. In the modal, click the green “Yes” box to confirm 

5. Scroll up and click the green “Submit” button

6. Click the orange “Return to workflow” button

Signing Reports

1. Click “Samples” in the top bar with the test tube next to it

2. Click on your individual green sample name 

Tip: Use the filter fields above the sample list to search for samples by sample ID, type, requisition processing status, workflow, or sample status.

3. Under your sample, click the “Reports” tab

4. On the Reports page, click the green “Sign now”

5. Scroll down and provide your password in the “Provide password” box in the new window with PDF report preview

6. Click the green “Approve” button 

7. Repeat steps 1 through 6 of the Signing Reports section for all other samples  or navigate to the home screen for batch signing

Tip: To sign all available reports at once, go to our article on batch report signing.
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