rt.stan File Reference

Functions in this File
vector	hold_forward (vector x, int t)
	Extend a vector to length t by repeating its last value.
vector	gp_log_path (vector noise, int t, int stationary)
	Uncentred Gaussian process contribution to log Rt.
vector	bp_log_levels (vector bp_effects)
	Uncentred log Rt level of each breakpoint segment.
real	centred_log_intercept (real R0, vector gp, vector bp, array[] int bps, int stationary, int n_centre)
	Log Rt intercept that centres the paths over the centring window.
vector	update_Rt (int t, real R0, vector noise, array[] int bps, vector bp_effects, int stationary, int n_centre)
	Update a vector of effective reproduction numbers (Rt) based on an intercept, breakpoints (i.e. a random walk), and a Gaussian process.
void	rt_lp (array[] real initial_infections_scale, vector bp_effects, array[] real bp_sd, int bp_n, array[] int cases, real initial_infections_guess)
real	R_to_r (real R, vector gt_rev_pmf, data real abs_tol)