Check this box to perform
principal component
regression where principal components (PCs) are calculated from all
SNPs
with the same value of the
Annotation Analysis Group Variable
. The PCs with the largest
eigenvalues
are included in a
regression
model similar to the
Multiple-Locus Regression Model
(with SNP
genotypes
replaced by the PCs) (Gauderman et al. 2007, Wang and Abbot 2008).
The number of PCs to include in the
model
is determined by values specified using the
Maximum Number of Principal Components
and
Cumulative Proportion of Variation to Explain with Principal Components
parameters. Statistics for the joint test of all PCs included in the model are reported.
