TABLE 2

Mean of the squared differences (MSD) between observed and expected P-values for various mixed-model association- mapping methods as well as Spearman's rank correlation coefficient ρ between the P-values of one- and two-stage association-mapping approaches

MSD
Two stageSpearman's ρ
MethodR1 matrixR2 matrixOne stageR1 matrixR2 matrix
QK0.0100.0130.0880.740.79
PK0.0110.0240.0910.730.75
K0.0160.0220.0610.670.69
G0.0770.0900.0900.630.64
Kunrel0.0130.0160.0420.630.76
QK0.700.0030.0030.0020.840.93
PK0.700.0020.0050.0030.870.93
K0.700.0150.0200.0090.760.88
K0.350.0100.0110.0040.630.80