Additional file 8: Figure S4. of Evaluation of logistic regression models and effect of covariates for case–control study in RNA-Seq analysis

Type-I error rates from DESeq2 analysis with the DA method using the permuted HD data. Figure S4 contains Type-I error rates from DESeq2 (negative binomial model) analysis with DA method of the permuted HD data at alpha levels of 0.05 and 0.01. Each black empty dot represents Type-I error rate of a gene. The red dots denote average values of Type-I error rates in each category of dispersion groups. The black dotted horizontal lines are our alpha levels. Figure S4 (A) summarizes Type-I error rates of all genes with DA method at alpha level of 0.05. Figure S4 (B) displays Type-I error rates of all genes with DA method at alpha level of 0.01. (PNG 223 kb