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Question about spot filtering in create.RCTD step #223

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Yijia-Jiang opened this issue Nov 26, 2024 · 0 comments
Open

Question about spot filtering in create.RCTD step #223

Yijia-Jiang opened this issue Nov 26, 2024 · 0 comments

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@Yijia-Jiang
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In create.RCTD step, we can set the threshold for counts_MIN and UMI_min, what is the difference between counts and UMI here? It seems in the restrict_counts function, both refer to the column sum, which is sum of counts for each spot. Then why are we having two different thresholds here?
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@Yijia-Jiang