Interpretation of the Overall Significance Level by Q

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The precise meaning the Overall significance level is determined by other Statistical Assumptions settings as follows:

  • Where Multiple comparisons method is set to False Discovery Rate (FDR), False Discovery Rate (pooled t-test) or Non-parametric False Discovery Rate, the Overall significance level is interpreted as the False Discovery Rate (often referred to as q), and it is an estimate of the proportion of the cells shown as being significant which will in fact be “false positives” (i.e., not reflective of differences in the population). Additionally, the way that the false discovery rate is computed is also determined by the selection of the Within row and span options (when selected, the false discovery rate is recomputed within each set of tests conducted in within a span in a row; otherwise, the computation is done using the entire table).
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