generateInits: generateInits

In SOLV-Code/RapidRicker: Rapid spawner-recruit data quality checks and sensitivity tests of standard biological benchmarks.

generateInits

Description

This function generates initial values ("inits") for the MCMC sampling forms. Defaults settings are under development. Follow the discussion at this thread.

Usage

generateInits(priors, model_type = "Basic", n.chains = 2, filename = NULL)

Arguments

priors	output from generatePriors
model_type	one of "Basic", "Kalman", or "AR1". For details, see this wiki.
n.chains	number of MCMC chains to initiate
filename	either NULL, or a file/path for an output file to save the generated priors (e.g. "OUTPUT/Inits.txt")
sr.scale	an integer value used to rescale the Spn and Rec variables in sr_obj, prior to the MCMC fit, default = 10^6 (i.e. convert to millions). NOTE: If sr.scale is different from 1, then the benchmark estimates are scaled back, but the MCMC estimates of alpha and beta will be in different units then the alpha and beta estimates from the deterministic fit.

SOLV-Code/RapidRicker documentation built on Jan. 14, 2025, 9:36 a.m.