Fig. 3
From: Estimation of a significance threshold for genome-wide association studies
Manhattan plots of -Log10 (P) vs. chromosomal position of SNP markers associated with seeds per panicle (SD) and plant height (PH), and quantile-quantile (QQ) plots in soybean from the Fixed and random model Circulating Probability Unification (FarmCPU). Marker-based heritability was 42.8% for SD and 68.8% for PH. A red line represents the significant threshold (−Log10 (P) values: 3.28 for SD and 3.75 for PH), which was determined using our formula based on the marker-based heritability, a blue line represents the threshold from the FDR, and a green line represents the threshold from the Bonferroni correction method