Material to support course on nowcasting and forecasting of infectious disease dynamics

Documentation for package ‘nfidd’ version 1.3.1

add_delays	Simulate symptom onset and hospitalization times from infection times
censored_delay_pmf	Discretise a Continuous Delay Distribution
condition_onsets_by_report	Reduces the number of symptom onsets by a delay distribution.
convolve_with_delay	Convolve a Time Series with a Delay Distribution
geometric_diff_ar	Geometric Differenced Autoregressive Process
geometric_random_walk	Geometric Random Walk
infection_times	Infection times
make_daily_infections	Convert infection times to a daily time series
make_gen_time_pmf	Generate a probability mass function for the generation time
make_ip_pmf	Generate a probability mass function for the incubation period
mech_forecasts	Forecasts from a mechanistic model
nfidd_cmdstan_model	Create a CmdStanModel with NFIDD Stan functions
nfidd_load_stan_functions	Load Stan functions as a string
nfidd_sample	Sample from a CmdStanModel with NFIDD course defaults
nfidd_stan_functions	Get Stan function names from Stan files
nfidd_stan_function_files	Get Stan files containing specified functions
nfidd_stan_models	List Available Stan Models in NFIDD
nfidd_stan_path	Get the path to Stan code
renewal	Simulate Infections using the Renewal Equation
rw_forecasts	Forecasts from a semi-mechanistic model
simulate_onsets	Simulate symptom onsets from daily infection counts
stat_forecasts	Forecasts from a semi-mechanistic model with additional statistical complexity
summarise_lognormal	Summarise lognormal distribution parameters