Fig. 5
The “mixed” design. Precision estimates for the mixed design (no dominance estimate) consisting of two contact groups per replicate with homogeneous seeder SNP genotypes and heterogeneous contact SNP genotypes illustrated in Fig. 2c. 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 composition of SNP genotypes in the contact population in group 1 is changed by varying χcont,1 while using the opposite value \({\chi }_{\mathrm{cont},2}=-{\chi }_{\mathrm{cont},1}\) in group 2 and \({N}_{\mathrm{seed}}=3\). b The fraction of seeders is varied (fixing \({\chi }_{\mathrm{cont},2}=-{\chi }_{\mathrm{cont},1}=1/\sqrt{2}\)). Dashed lines represent analytical results and crosses come from posterior estimates from simulated data (see Additional file 1). \({N}_{\mathrm{total}}\) refers to the total number of individuals.