Extended Data Fig. 2: Comparison of SuSiEx, PAINTOR and MsCAVIAR in simulations. | Nature Genetics

Extended Data Fig. 2: Comparison of SuSiEx, PAINTOR and MsCAVIAR in simulations.

From: Fine-mapping across diverse ancestries drives the discovery of putative causal variants underlying human complex traits and diseases

Extended Data Fig. 2

a, The job completion summary for the three Bayesian fine-mapping methods using different parameters and input datasets. Red represents jobs taking longer than 24 hours. Yellow represents jobs returning unreasonable results, defined as the sum of PIPs across variants in the genomic locus >5 or <0.1 (1 is expected). Green represents jobs that were completed within 24 hours and returned reasonable results. The lower panel represents different sample size combinations of the discovery GWAS. P-values are from linear regression with no multiple testing correction applied. b, Number of identified true causal SNPs with PIP > 0.5 (x-axis) versus the coverage of the credible sets (y-axis) for different input datasets and fine-mapping methods. Color represents the combination of discovery populations, the size of the symbols represents the total discovery sample size, and the shape of the symbols represents different methods and parameters. Only simulation runs that were completed within 24 hours and returned reasonable results were included.

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