The parameter table below summarises the current best estimates incorporated in squire as of v0.5. These will be updated when new information becomes available.

Parameter Value Reference
Basic reproductive number, R0 3.0 Estimate from Europe, Flaxman et al
Mean Incubation Period 4.6 days Estimated to be 5.1 days (Linton et al.; Li et al. The last 0.5 days are included in the I_MILD and I_CASE states to capture pre-symptomatic infectivity
Generation Time 6.75 days Bi et al
Mean Duration in I_MILD 2.1 days Incorporates 0.5 days of infectiousness prior to symptoms; with parameters below ~95% of all infections are mild. In combination with mean duration in I_CASE this gives a mean generation time as above
Mean Duration in I_CASE 4.5 days Mean onset-to-admission of 4 days. Values in the literature range from 1.2 to 12 days. Includes 0.5 days of infectiousness prior to symptom onset
Mean Duration of Hospitalisation for non-critical Cases (I_HOSP) if survive 9 days Median value from five studies (Sreevalsan-Nair et al., Haw et al., Hawryluk et al., Oliveira et al., South African COVID-19 Modelling Consortium). Range from 8-15 days.
Mean Duration of Hospitalisation for non-critical Cases (I_HOSP) if die 9 days As above
Mean duration of Critical Care (I_ICU) if survive 14.8 days Mean duration in ICU of 13.3 days Pritchard et al.. Ratio of duration in critical care if die: duration in critical care if survive of 0.75 and 60.1% probability of survival in ICU (ICNARC report, from UK data, 16 October 2020)
Mean duration of Critical Care (I_ICU) if die 11.1 days Mean duration in ICU of 13.3 days Pritchard et al.. Ratio of duration in critical care if die: duration in critical care if survive of 0.75 and 60.1% probability of survival in ICU (ICNARC report, from UK data, 16 October 2020)
Mean duration of Stepdown post ICU (I_Rec) 3 days Working assumption based on unpublished UK data
Mean duration of hospitalisation if require ICU but do not receive it and die 1 day Working assumption
Mean duration of hospitalisation if require ICU but do not receive it and survive 7.4 days Working assumption (Half duration of ICU and survive)
Mean duration of hospitalisation if require Oxygen but do not receive it and die 4.5 days Working assumption (Half duration of Oxygen and die)
Mean duration of hospitalisation if require Oxygen but do not receive it and survive 4.5 days Working assumption (Half duration of ICU and survive)
Probability of death if require critical care but do not receive it 95% Working assumption based on expert clinical opinion
Probability of death if require hospitalisation but do not receive it 60% Working assumption based on expert clinical opinion

Age-Specific Parameters

Age-Group Proportion of Infections Hospitalised Proportion of hospitalised cases requiring critical care Proportion of hospital deaths occurring in ICU Proportion of non-critical care cases dying Proportion of critical care cases dying
0 to 4 0.001 0.181 0.8 0.013 0.227
5 to 9 0.001 0.181 0.8 0.014 0.252
10 to 14 0.002 0.181 0.8 0.016 0.281
15 to 19 0.002 0.137 0.8 0.016 0.413
20 to 24 0.003 0.122 0.8 0.018 0.518
25 to 29 0.005 0.123 0.8 0.020 0.573
30 to 34 0.007 0.136 0.8 0.023 0.576
35 to 39 0.009 0.161 0.8 0.026 0.543
40 to 44 0.013 0.197 0.8 0.030 0.494
45 to 49 0.018 0.242 0.8 0.036 0.447
50 to 54 0.025 0.289 0.8 0.042 0.417
55 to 59 0.036 0.327 0.8 0.050 0.411
60 to 64 0.050 0.337 0.8 0.056 0.443
65 to 69 0.071 0.309 0.8 0.060 0.539
70 to 74 0.100 0.244 0.8 0.123 0.570
75 to 79 0.140 0.160 0.8 0.184 0.643
80+ 0.233 0.057 0.8 0.341 0.993
Source Salje et al. Salje et al. Assumed Calculated from IFR in Report 34 Calculated from IFR in Report 34