How to review the gating plots for each sample in Sample QC

Overview

The Sample QC dashboard lets you open Gating Plots for each sample, showing how cell populations and markers were defined. This provides transparency into the underlying data so you can validate results and troubleshoot issues.

Use it to:

• Review stepwise plots for major immune subsets
• Explore functional marker gating across subsets
• Export full gating schemes 

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Quick Start: How to view gating plots in Sample QC

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

Step 2 – Open a Sample
Click the sample name to open its gating plots.

Step 3 – Review Gating Plots
Two types of plots are available:

• Cell Population Gating – stepwise plots showing how major subsets (T cells, B cells, NK cells, granulocytes) were identified
• Functional Marker Gating – plots showing expression of markers across subsets (e.g., CD4, CD8, PD-1, CTLA-4)

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Step 4 – Download All Gating Plots
Use the Download All option to export the full gating scheme for offline review.

Tips for refining your review

• Use filters to focus on samples of interest, then open their gating plots.
• Export plots to include in QC documentation.

Example of reviewing gating scheme plots

‍This example shows how to open and review gating plots for a sample in Sample QC.

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‍Example of downloading all gating schemes

This example shows how to use the Download All option to export gating plots for offline review.

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