Overlaying color on populations
For right now, you will not be able to create overlays for results with over 60,000 objects

Selecting a color to overlay the population

For every population you created, you can overlay them with a specific color. Hover over three dots (...) on the right side of the population and click on Overlay and select the color.
After you select a specific color, the gated population appears colored in the graph.

Viewing color overlaid population on Image Viewer

Once you created a population with gating tools (refer to creating populations with filters), and overlay them with a specific color, the image viewer will also reflect this color overlay.
In the image below, the image viewer shows the red outlines for the GFP+ population created in the gating tool.
The red outlines are the same GFP + population from the population tree.
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Selecting a color to overlay the population
Viewing color overlaid population on Image Viewer