Table 1 Parameters used in OSR tuning (Fig. 2) and phenotype model comparison experiments (Figs. 3, 4)
Parameter | OSR tuning | Phenotype model comparison |
|---|---|---|
Population size | 1000 | 1000 |
Infected individuals at start | 10 | 10 |
Final time (days) | 1095 | 1095 |
τ3 | 7.5 | 7.5 |
R | 1.1 | 1.1 |
Diagnosis rate | 0.1 | 0.1 |
IH virus emergence rate (kv) | 0 | 0 |
Nucleotide substitution rate (e) | [10−6, 3 × 10−4] | 0.00008759 |
Phenotype model | immune_waning | baseline, immune_waning |
Sequencing rate | 0.05 | 0.05 |
Seeded simulations number | 100 | 300 |
