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Table 4 Simulation scenarios

From: Influence of batch effect correction methods on drug induced differential gene expression profiles

Scenario name

Batch effect size parameter

FDR threshold

Batch allocation difference

No batch effect

0

0.1

0

Medium batch effect, balanced design

2

0.1

0

Large batch effect, balanced design

4

0.1

0

Medium batch effect, unbalanced design

2

0.1

0.3

Medium batch effect, balanced design, larger FDR threshold

2

0.2

0