Table 1 Empirical type I error rate of eScore, eLRT, and eRLRT based on 106 simulation replicates
ScenarioLength (kb)nαeScoreeLRTeRLRT
Common + Rare
 (1)5500Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
51000Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
52000Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
 (2)10500Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
101000Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
102000Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
Rare Only
 (3)5500Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
51000Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
52000Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
 (4)10500Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
101000Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
102000Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
Embedded ImageEmbedded ImageEmbedded ImageEmbedded Image
  • Top panel shows the cases when simulation region include both common and rare, while bottom panel shows the cases when only rare variants are included.