Sample a new LNA path via elliptical slice sampling.

Sample a new LNA path via elliptical slice sampling.

tparam_update(
  path,
  dat,
  iter,
  parmat,
  tparam,
  tparam_ess_control,
  pathmat_prop,
  censusmat,
  draws_prop,
  ess_draws_prop,
  emitmat,
  flow_matrix,
  stoich_matrix,
  census_times,
  forcing_inds,
  forcing_tcov_inds,
  forcings_out,
  forcing_transfers,
  param_vec,
  param_inds,
  const_inds,
  tcovar_inds,
  initdist_inds,
  param_update_inds,
  census_indices,
  event_inds,
  measproc_indmat,
  svd_d = NULL,
  svd_U = NULL,
  svd_V = NULL,
  proc_pointer,
  set_pars_pointer,
  d_meas_pointer,
  do_prevalence,
  step_size
)

Arguments

path

path list

dat

data matrix

iter

MCMC iteration

tparam

list of time-varying parameters

pathmat_prop

matrix for proposed paths

censusmat

census matrix

emitmat

emission matrix

flow_matrix

flow matrix

stoich_matrix

stoichiometry matrix

forcing_inds

forcing indices

forcing_tcov_inds

time varying covariate forcings

forcings_out

matrix with outflow from forcings

forcing_transfers

transfer matrix

param_vec

parameter vector for use in emission distribution

initdist_inds

indices of initial compartment counts

census_indices

indices where the path should be censused

event_inds

event indices

measproc_indmat

measurement process indices

svd_d

SVD objects for LNA, NULL if using the ODE approx

svd_U

SVD objects for LNA, NULL if using the ODE approx

svd_V

SVD objects for LNA, NULL if using the ODE approx

proc_pointer

C++ pointer for latent process

d_meas_pointer

C++ pointer for emission distribution

do_prevalence

should prevalence be computed

step_size

initial step size for ODE solvers

Value

updates the initial conditions