Fig. 3

Single contact group design. Precision estimates for the single contact group design (no dominance estimate) in Fig. 2a. The left, middle and right columns show graphs for standard deviations (SDs) in the posterior distributions for SNP effects for susceptibility \({a}_{g}\), infectivity \({a}_{f},\) and recoverability \({a}_{r}\) under different scenarios. a The fraction of seeder individuals is varied (arbitrarily fixing \({\chi }_{\mathrm{seed}}=-1\), \({\chi }_{\mathrm{cont}}=0.4\)). b The composition of SNP genotypes in the seeder population is changed by varying \({\chi }_{\mathrm{seed}}\) (fixing \({N}_{\mathrm{seed}}/{G}_{\mathrm{size}}=0.15\) and \({\chi }_{\mathrm{cont}}=0.4\)). Here the left-hand edge of the graph corresponds to the case when all seeders are BB and the right edge is when they are all AA (points in between represent a mixture of the two). c The composition of SNP genotypes in the contact population is changed by varying \({\chi }_{\mathrm{cont}}\) (fixing \({N}_{\mathrm{seed}}/{G}_{\mathrm{size}}=0.15\) and \({\chi }_{\mathrm{seed}}=-1\)). Note that a low SD implies high precision. Dashed lines represent analytical results and crosses refer to posterior estimates from simulated data (see Additional file 1). \({N}_{\mathrm{total}}\) refers to the total number of individuals