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 |