posterior_complex_buckets: Posterior function for the simple SEIR model with bucketed...
In jameshay218/zikaProj: zikaInfer

Given the time vector, initial conditions ODE parameters and a matrix of microcephaly data, calculates the posterior value for a given data set.

posterior_complex_buckets(ts, values, names, local, startDays, endDays, buckets,
  microCeph, births, data_locals, inc_startDays = NULL, inc_endDays = NULL,
  inc_locals = NULL, inc_buckets = NULL, inc_ZIKV = NULL, inc_NH = NULL,
  peak_startDays = NULL, peak_endDays = NULL, peak_locals = NULL,
  unique_locations, microceph_valid_days = NULL,
  microceph_valid_local = NULL, inc_valid_days = NULL,
  inc_valid_local = NULL, solver = "rlsoda")

`ts`	time vector over which to solve the ODE model
`values`	ODE parameters
`names`	names for the ODE parameters
`local`	names of all the locations that are being considered in microcephaly data corresponding to parTab (ie. gets indices for each location from the parameter table)
`startDays`	vector of the start day for each bucket of microcephaly data
`endDays`	vector of the end day for each bucket of microcephaly data
`buckets`	bucket sizes for microcephaly sampling periods
`microCeph`	vector of microcephaly incidence for each bucket
`births`	vector of total briths for each bucket
`data_locals`	corresponding vector of location names for the microcephaly data
`inc_startDays`	start day vector for incidence data
`inc_endDays`	end day vector for incidence data
`inc_locals`	vector of location names for incidence data
`inc_buckets`	sampling window vector for incidence data
`inc_ZIKV`	vector of ZIKV incidence for each time point
`inc_NH`	vector of population size over time
`peak_startDays`	vector of initial allowable day of incidence peak time
`peak_endDays`	vector of end allowable day of incidence peak time
`peak_locals`	vector of corresponding location names
`unique_locations`	vector of all unique locations
`microceph_valid_days`	vector of all days included in the microcephaly data
`microceph_valid_local`	vector of locations corresponding to the days in microceph_valid_days
`inc_valid_days`	vector of all days included in the incidence data
`inc_valid_local`	vector of locations corresponding to the days in inc_valid_days
`solver`	specify which ODE solver to use, between "rlsoda" and "lsoda"