map_draws_2_lna: Map N(0,1) stochastic perturbations to an LNA path.
In fintzij/stemr: Stochastic Epidemic Model Simulation and Estimation

map_draws_2_lna

R Documentation

Map N(0,1) stochastic perturbations to an LNA path.

Description

Map N(0,1) stochastic perturbations to an LNA path.

Usage

map_draws_2_lna(
  pathmat,
  draws,
  lna_times,
  lna_pars,
  lna_param_vec,
  lna_param_inds,
  lna_tcovar_inds,
  init_start,
  param_update_inds,
  stoich_matrix,
  forcing_inds,
  forcing_tcov_inds,
  forcings_out,
  forcing_transfers,
  svd_d,
  svd_U,
  svd_V,
  step_size,
  lna_pointer,
  set_pars_pointer
)

Arguments

`pathmat`	matrix where the LNA path should be stored
`draws`	matrix of N(0,1) draws to be mapped to an LNA path
`lna_times`	vector of interval endpoint times
`lna_pars`	numeric matrix of parameters, constants, and time-varying covariates at each of the lna_times
`init_start`	index in the parameter vector where the initial compartment volumes start
`param_update_inds`	logical vector indicating at which of the times the LNA parameters need to be updated.
`stoich_matrix`	stoichiometry matrix giving the changes to compartments from each reaction
`forcing_inds`	logical vector of indicating at which times in the time-varying covariance matrix a forcing is applied.
`svd_d`	vector in which to store SVD singular values
`svd_U`	matrix in which to store the U matrix of the SVD
`svd_V`	matrix in which to store the V matrix of the SVD
`step_size`	initial step size for the ODE solver (adapted internally, but too large of an initial step can lead to failure in stiff systems).
`lna_pointer`	external pointer to LNA integration function.
`set_pars_pointer`	external pointer to the function for setting the LNA parameters.
`forcing_matrix`	matrix containing the forcings.