Fig. 9: Simulation studies to evaluate the stability and reproducibility of different knockoff procedures.
From: Identification of putative causal loci in whole-genome sequencing data via knockoff statistics
Different colors indicate different knockoff procedures: KnockoffScreen, single knockoff and MK – Maximum (the multiple knockoff method based on the maximum statistic proposed by Gimenez and Zou30). All three methods are based on the same knockoff generator proposed in this paper for a fair comparison. The stability (a, c) is quantified as the variation of \({\tau }_{{\Phi }_{{kl}}}\) across 100 replicates due to randomly sampling knockoffs for a given data (left and right panels). The reproducibility (b) is quantified as the frequency of a causal window being selected across 100 replicates. Source data are provided as a Source Data file.
