Table 2 Power of different methods in a disease model in which only rare variants (MAF ≤ 1%) are causal with relative risk of 5 (ci = 0.2)
Error rateCoverage per personC-alphaFreq-weightVTRWASLRT_GVSTLRT
040.7310.7860.8790.4250.60.4730.867
100.7780.8010.8980.430.6230.4810.872
200.7820.8060.8960.4330.6310.4890.866
0.0140.50.680.8020.3760.5240.2570.838
100.7590.8090.8980.4460.6280.4790.896
200.7840.8150.9080.4380.6210.4750.887
  • Tested methods were C-alpha (Neale et al. 2011), Freq-weight similar to the Madsen–Browning method (Madsen and Browning 2009), variable threshold (VT) (Price et al. 2010), RWAS (Sul et al. 2011b), LRT_G (Sul et al. 2011a), and our proposed methods (VST and LRT).