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GP: lengthscale: Use inverse-gamma prior if ls_sd = 0 #257

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Merged
merged 6 commits into from
Oct 8, 2021
Merged

GP: lengthscale: Use inverse-gamma prior if ls_sd = 0 #257

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0a3dc8c
GP: lengthscale: Use inverse-gamma prior if ls_sd = 0
hsbadr Jun 4, 2021
4ae3ea0
Merge remote-tracking branch 'epiforecasts/master' into gp_lengthscal…
hsbadr Jun 4, 2021
c8b06fa
GP: lengthscale: ls_min defaults to 0
hsbadr Jun 4, 2021
e20f341
GP: alpha_sd defaults to 0.05 for stability
hsbadr Jun 4, 2021
34ed92c
stan: Update upper and lower bounds for Rt
hsbadr Jun 4, 2021
97656ef
man: roxygen2::roxygenize()
hsbadr Jun 4, 2021
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stan: Update upper and lower bounds for Rt
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@hsbadr
hsbadr committed Jun 4, 2021
commit 34ed92ce5bf6d45c0a36ab5ef1ab078c08954146
2 changes: 1 addition & 1 deletion inst/stan/estimate_infections.stan
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Expand Up @@ -56,7 +56,7 @@ parameters{

transformed parameters {
vector[fixed ? 0 : noise_terms] noise; // noise generated by the gaussian process
vector<upper = 10 * r_mean>[estimate_r > 0 ? ot_h : 0] R; // reproduction number
vector<lower = 0, upper = 10 * r_mean>[estimate_r > 0 ? ot_h : 0] R; // reproduction number
vector[t] infections; // latent infections
vector[ot_h] reports; // estimated reported cases
vector[ot] obs_reports; // observed estimated reported cases
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