Table 2.

Summary of model diagnostics and differential expression for each method when applied to the real RNA-Seq data from the case study

	lmerSeq	DREAM	rmRNAseq
Singular fits	200 (1.5%)	96 (0.7%)*	Not available
Levene’s test for heteroskedsticity
p vaule $<0.05$	206 (1.6%)	149 (1.1%)	Not available
BH adjusted p value $<0.05$	0	0	Not available
Kolmogorov–Smirnov test for normality
p value $<0.05$	24 (0.2%)	17 (0.1%)	Not available
BH adjusted p value $<0.05$	0	0	Not available
Number of DEGs
48 h versus baseline	1	0	0
1 week versus baseline	1452	1828	142
1 week versus 48 h	362	476	182

BH Benjamini–Hochberg, DEGs differentially expressed genes

*Models had to be refit with lmerSeq using weights since DREAM does not report or exclude singular fits