Comparison of parametric and machine methods for variable selection in simulated Genetic Analysis Workshop 19 data

Table 1 Counts for the number of variants selected at different thresholds for linear regression (p value) and r2VIM (min.RIS)

Method	Threshold	All (~350 k)	Func. vars. (1047)	Func. genes (4328)
Linear Regression	p <0.05	7739	35	136
Linear Regression	p <5 × 10⁻⁷	59	6	9
r2VIM	min.RIS >0	340	6	9
	min.RIS >0.5	37	5	8
	min.RIS >1	25	5	8

The total number selected, the number of variants simulated directly to be functional, and the number of variants in the functional genes are shown

ISSN: 1753-6561