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- Select the Gene counts data node
- Select Normalization and scaling from the task menu
- Select Normalize counts from the Normalization and scaling section of the task menu (Figure 1)
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The Read count normalization menu will open (Figure 2).
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Normalization can be performed by sample or by feature. By sample is selected by default; this is appropriate for the tutorial data set.
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This adds Total count and Add 0.0001 to the Normalization order panel (Figure 3). Normalization steps are performed in descending order
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Total Count normalizes read counts for each gene by the total count of the sample. This accounts for differences in total read counts between samples.
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A Normalize counts task node and a Normalized counts data node are added to the pipeline (Figure 4)
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