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• Open the Color card and reduce the Opacity using the slider. For data sets with very many cells, it may be helpful to decrease the dot opacity to better visualize the plot density.
• Open the Scale card and change the Y-axis scale to Logarithmic. This can be helpful to view the range of values better, although it is usually better to keep the Ribosomal counts plot in linear scale.
• Open the Summary card and switch on Box & Whiskers. Inspecting the median, Q1, Q3, upper 90%, and lower 10% quantiles of the distributions can be helpful in deciding appropriate thresholds.

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High-quality cells can be selected using the Selection card on the right, which is pre-loaded with three selection rules, one for each quality metric (Figure 5).

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To filter the high-quality cells, click the  icon in the Filtering card in the top right, and click Apply observation filter... (Figure 9).

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