How to apply sample and QC filters in Sample Overview

Overview

Reviewing cytometry sample data across a clinical trial can be overwhelming when you have to scroll through hundreds of rows. On the other hand, a simple pass/fail report doesn’t tell you enough about why a sample passed or failed.

The Sample QC dashboard simplifies this process by letting you filter directly on fields such as Live Singlets Acquired, Non-granulocytes Acquired, QC Status (Pass, Partial Pass, Fail), and additional study metadata. You can also expand results to see gating plots for deeper context.

Use it to:

• Find the QC status of samples 
• Focus on subsets of data using study metadata such as subjects, timepoints, or treatment groups.
• Compare gating plots for specific samples.
• Export filtered results

Quick Start: How to Filter Samples QC

Step 1 – Navigate to Sample QC
In the left-hand sidebar, click Sample Overview, then scroll to Sample QC to see sample-level quality data.

Step 2 – Open Filters
Click the filter menu in the top-right corner of the panel.

Step 3 – Apply QC Filters
Choose a filter to narrow results:

With Show Study Metadata toggled off, you can filter by:

• Sample Name
• Sample Type (PBMC vs. Whole Blood)
• Live Singlets Acquired (≥50,000 events)
• Non-Granulocytes Acquired (≥25,000 cells)
• QC Status

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With Show Study Metadata toggled on, you unlock additional filters relevant to your study. These fields vary depending on how the study was set up, but may include:

• Idealized Study Timepoint
• Condition
• Treatment Line
• Treatment Response
• Timepoint 
• …etc.

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Step 4 – Export Data (Optional)
Click Export to download the filtered dataset and share it with others.

Step 5 – Combine Filters (Optional)
Layer multiple filters together for precise results.

Example: Filter by Fail (QC Status) + On-treatment (Idealized Timepoint) 

What you can compare

• Pass, Partial Pass, and Fail rates across study metadata (timepoint, treatment line, or response).
• QC status alongside the number of live singlets and non-granulocytes.
• Processing notes linked to flagged samples

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Tips for refining your analysis

• Use Show Study Metadata to unlock deeper filtering across subjects, conditions, or treatment lines.
• Export filtered results to share with your team.
• View Gating Plots for individual samples

Sample of filtered results in Samples QC

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Finding: This example shows the All Samples tab filtered for QC Status = Fail. Four samples out of 145 are flagged for insufficient live singlets.

Next Step

Once you’ve filtered to the samples you care about, expand them to review their Gating Schemes. In this view you can:

• See stepwise plots showing how major subsets (T cells, B cells, NK cells, monocytes, granulocytes) or functional markers were defined
• Use Download All to export the full gating scheme for offline review